Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013811.1 Kokia drynarioides strain JFW-HI SEQ_128839, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 211003
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 64 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3901 original size:47 final size:48
Alignment explanation
Indices: 3847--3944 Score: 171
Period size: 47 Copynumber: 2.0 Consensus size: 48
3837 AAAATGGGCA
*
3847 ATCACATTTTTAAATTTGTTACGAAAATCCTACTTC-TATATAGTTAT
1 ATCACATTTTTAAATTTGTCACGAAAATCCTACTTCATATATAGTTAT
3894 ATCACATTTTTAAATTTGTCACGAAAATCCTACTTCTATATATAGTTAT
1 ATCACATTTTTAAATTTGTCACGAAAATCCTACTTC-ATATATAGTTAT
3943 AT
1 AT
3945 AGTTGTTATA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 35 0.73
49 13 0.27
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (48 bp):
ATCACATTTTTAAATTTGTCACGAAAATCCTACTTCATATATAGTTAT
Found at i:5332 original size:16 final size:18
Alignment explanation
Indices: 5311--5349 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
5301 TTTCACTTTA
*
5311 TTTATTTTA-TTT-TCGT
1 TTTATTTTAGTTTAACGT
5327 TTTATTTTAGTTTAACGT
1 TTTATTTTAGTTTAACGT
5345 TTTAT
1 TTTAT
5350 CTCTAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTATTTTAGTTTAACGT
Found at i:6103 original size:16 final size:16
Alignment explanation
Indices: 6060--6104 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
6050 TAAACATTGC
*
6060 TATTCTGGAC-ATAGT
1 TATTCTGAACAATAGT
6075 TATTCTTTGAACAATAGT
1 TATTC--TGAACAATAGT
6093 TATTCTGAACAA
1 TATTCTGAACAA
6105 CAACGATTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.19
16 7 0.27
17 4 0.15
18 10 0.38
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (16 bp):
TATTCTGAACAATAGT
Found at i:10100 original size:24 final size:26
Alignment explanation
Indices: 10073--10120 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
10063 AGAGAAATGT
10073 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
10097 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
10121 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:10246 original size:22 final size:22
Alignment explanation
Indices: 10183--10285 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 22
10173 ATGCTAGCAC
10183 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
*
10205 GCTTCTATTATCTAGCACTGTGTGT
1 GCTTCT-GT-TC-AGCACTGTGTGT
10230 GCTTCTGTTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
*
10252 GCTTCTGTTACCCAACACTGTGTGT
1 GCTTCTGTT---CAGCACTGTGTGT
10277 GCTTCTGTT
1 GCTTCTGTT
10286 TCTCCAACAC
Statistics
Matches: 72, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
22 27 0.38
23 3 0.04
24 3 0.04
25 39 0.54
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (22 bp):
GCTTCTGTTCAGCACTGTGTGT
Found at i:10252 original size:47 final size:47
Alignment explanation
Indices: 10183--10285 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
10173 ATGCTAGCAC
* * *
10183 GCTTCTGTTCAGCACTGTGTGTGCTTCTATTATCTAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGTGCTTCTATTACCCAACACTGTGTGT
*
10230 GCTTCTGTTCAGCACTGTGTGTGCTTCTGTTACCCAACACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGTGCTTCTATTACCCAACACTGTGTGT
10277 GCTTCTGTT
1 GCTTCTGTT
10286 TCTCCAACAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (47 bp):
GCTTCTGTTCAGCACTGTGTGTGCTTCTATTACCCAACACTGTGTGT
Found at i:10283 original size:25 final size:25
Alignment explanation
Indices: 10195--10296 Score: 120
Period size: 25 Copynumber: 4.2 Consensus size: 25
10185 TTCTGTTCAG
* * * *
10195 CACTGTGTGTGCTTCTATTATCTAG
1 CACTGTGTGTGCTTCTGTTACCCAA
*
10220 CACTGTGTGTGCTTCTGTT---CAG
1 CACTGTGTGTGCTTCTGTTACCCAA
10242 CACTGTGTGTGCTTCTGTTACCCAA
1 CACTGTGTGTGCTTCTGTTACCCAA
*
10267 CACTGTGTGTGCTTCTGTTTCTCCAA
1 CACTGTGTGTGCTTCTGTTAC-CCAA
10293 CACT
1 CACT
10297 TATGTACCTC
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
22 21 0.30
25 40 0.58
26 8 0.12
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.40
Consensus pattern (25 bp):
CACTGTGTGTGCTTCTGTTACCCAA
Found at i:22362 original size:15 final size:16
Alignment explanation
Indices: 22342--22371 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22332 TACTGGCTCA
22342 TTTGAGCA-TATTGGG
1 TTTGAGCACTATTGGG
22357 TTTGAGCACTATTGG
1 TTTGAGCACTATTGG
22372 CTCATAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (16 bp):
TTTGAGCACTATTGGG
Found at i:24951 original size:13 final size:13
Alignment explanation
Indices: 24932--24965 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24922 AAGTGTGGTG
24932 GAAAAGTTCTTTT
1 GAAAAGTTCTTTT
* *
24945 GAGAAGTACTTTT
1 GAAAAGTTCTTTT
24958 GAAAAGTT
1 GAAAAGTT
24966 TGGTTAAAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (13 bp):
GAAAAGTTCTTTT
Found at i:27208 original size:29 final size:30
Alignment explanation
Indices: 27171--27229 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
27161 TATGGTTTAA
*
27171 TGTGTAATTGTATACAT-AAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
27200 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
27230 AATCAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.51
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:29709 original size:35 final size:36
Alignment explanation
Indices: 29664--29738 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
29654 ACTAATAAAG
* * * *
29664 ATAAAGTTATAAATTA-AATTTATATTTTTCAAAATT
1 ATAAAGTTATAAAATATAA-TTAAATTTATAAAAATT
29700 ATAAA-TTATAAAATATAATTAAATTTATAAAAATT
1 ATAAAGTTATAAAATATAATTAAATTTATAAAAATT
29735 ATAA
1 ATAA
29739 TTTTAATGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 27 0.79
36 7 0.21
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (36 bp):
ATAAAGTTATAAAATATAATTAAATTTATAAAAATT
Found at i:30067 original size:6 final size:6
Alignment explanation
Indices: 30056--30084 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
30046 AATTCGTTCT
30056 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
30085 GGGATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:32700 original size:12 final size:12
Alignment explanation
Indices: 32669--32760 Score: 75
Period size: 12 Copynumber: 7.9 Consensus size: 12
32659 AATTAAACTC
* *
32669 ATTTTATTTTAG
1 ATTTAATTTTAA
32681 ATTT-ATTTTAA
1 ATTTAATTTTAA
* *
32692 GTTTAATTTT-T
1 ATTTAATTTTAA
* *
32703 TTTTAAGTTTAA
1 ATTTAATTTTAA
32715 ATTT-ATTTTAA
1 ATTTAATTTTAA
*
32726 ATTTAAGTTTAA
1 ATTTAATTTTAA
32738 ATTT-ATTCTTAA
1 ATTTAATT-TTAA
*
32750 ATTTAAATTTA
1 ATTTAATTTTA
32761 TAATGTCCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
11 29 0.45
12 33 0.52
13 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (12 bp):
ATTTAATTTTAA
Found at i:32706 original size:17 final size:17
Alignment explanation
Indices: 32676--32736 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 17
32666 CTCATTTTAT
*
32676 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAG
* *
32693 TTTAATTTTTTTTTAAG
1 TTTAAATTTATTTTAAG
*
32710 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAG
*
32727 TTTAAGTTTA
1 TTTAAATTTA
32737 AATTTATTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:32713 original size:6 final size:6
Alignment explanation
Indices: 32704--32760 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
32694 TTAATTTTTT
* * * *
32704 TTTAAG TTTAAA TTT-AT TTTAAA TTTAAG TTTAAA TTT-AT TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
32751 TTTAAA TTTA
1 TTTAAA TTTA
32761 TAATGTCCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 6 0.15
6 33 0.80
7 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:32713 original size:23 final size:24
Alignment explanation
Indices: 32669--32760 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 24
32659 AATTAAACTC
* * *
32669 ATTTTATTTTAGATTT-ATTTTAA
1 ATTTAATTTTAAATTTAAGTTTAA
* **
32692 GTTTAATTTT-TTTTTAAGTTTAA
1 ATTTAATTTTAAATTTAAGTTTAA
32715 ATTT-ATTTTAAATTTAAGTTTAA
1 ATTTAATTTTAAATTTAAGTTTAA
*
32738 ATTT-ATTCTTAAATTTAAATTTA
1 ATTTAATT-TTAAATTTAAGTTTA
32761 TAATGTCCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
22 8 0.14
23 35 0.61
24 14 0.25
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTTAATTTTAAATTTAAGTTTAA
Found at i:33536 original size:30 final size:31
Alignment explanation
Indices: 33465--33538 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
33455 GTAATAAATA
* * *
33465 TATATGTATTAAATGATTTTAATAACATTAAT
1 TATATATATT-AATGATATTAATAACACTAAT
*
33497 AATA-ATATTAATGATATTAATAAC-CTAAT
1 TATATATATTAATGATATTAATAACACTAAT
*
33526 TATATTTATTAAT
1 TATATATATTAAT
33539 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 7 0.20
30 21 0.60
31 4 0.11
32 3 0.09
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (31 bp):
TATATATATTAATGATATTAATAACACTAAT
Found at i:34720 original size:29 final size:29
Alignment explanation
Indices: 34680--35144 Score: 371
Period size: 29 Copynumber: 15.9 Consensus size: 29
34670 AAGGTCCCTG
* * * *
34680 AACTTTCCAAAATTTCATTTTTAACCTTG
1 AACTTTCTAAAATTACATTTTTACCCTTA
* *
34709 AACTTTCTAAAAATGACATTTTTACCCTCA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
* *
34739 AACTTTCCAAAATTTCATTTTTGACACC--A
1 AACTTTCTAAAATTACATTTTT-AC-CCTTA
34768 AACTTTCTAAAAATTACATTTTTACCCTTA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
* *
34798 AACTTTCCAAAATTCCATTTTTAATCCC--A
1 AACTTTCTAAAATTACATTTTT-A-CCCTTA
*
34827 AACTTTCTAAAAATTATATTTTTACCCTTA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
* * * **
34857 AACTTTCAAAAATTCCATTTTTAACCTCG
1 AACTTTCTAAAATTACATTTTTACCCTTA
34886 AACTTTCTAAAAATTACATTTTTACCCTTA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
* *
34916 AACTTTCCAAAATTCCATTTTTGACCC-TA
1 AACTTTCTAAAATTACATTTTT-ACCCTTA
*
34945 AACTTTCTAAAAATTACATTTTTACCCATA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
* ** *
34975 AACTTTCTAAAATTCCATTTTGGCCC-TG
1 AACTTTCTAAAATTACATTTTTACCCTTA
*
35003 AACTTTCTAAAAATTACATTTTTACCCTCA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
* *
35033 AACTTTCCAAAATT-CTATTTTTGACCC-CA
1 AACTTTCTAAAATTAC-ATTTTT-ACCCTTA
* * **
35062 AACTTTC--CAATTACCA-TTTTACTCTCG
1 AACTTTCTAAAATTA-CATTTTTACCCTTA
* * *
35089 AA-TGTCTAAAAATTCCATTTTTAACCTTA
1 AACTTTCT-AAAATTACATTTTTACCCTTA
**
35118 AACATCCCTAAAATTACCA-TTTTACCC
1 AAC-TTTCTAAAATTA-CATTTTTACCC
35145 CGAATGTCTA
Statistics
Matches: 352, Mismatches: 55, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
26 6 0.02
27 11 0.03
28 18 0.05
29 165 0.47
30 142 0.40
31 10 0.03
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.40
Consensus pattern (29 bp):
AACTTTCTAAAATTACATTTTTACCCTTA
Found at i:34751 original size:59 final size:58
Alignment explanation
Indices: 34680--35068 Score: 528
Period size: 59 Copynumber: 6.6 Consensus size: 58
34670 AAGGTCCCTG
* * * *
34680 AACTTTCCAAAATTTCATTTTTAACCTTGAACTTTCTAAAAATGACATTTTTACCCTCA
1 AACTTTCCAAAATTCCATTTTTAACC-TAAACTTTCTAAAAATTACATTTTTACCCTTA
*
34739 AACTTTCCAAAATTTCATTTTTGACACC-AAACTTTCTAAAAATTACATTTTTACCCTTA
1 AACTTTCCAAAATTCCATTTTT-A-ACCTAAACTTTCTAAAAATTACATTTTTACCCTTA
* *
34798 AACTTTCCAAAATTCCATTTTTAATCCCAAACTTTCTAAAAATTATATTTTTACCCTTA
1 AACTTTCCAAAATTCCATTTTTAA-CCTAAACTTTCTAAAAATTACATTTTTACCCTTA
* *
34857 AACTTTCAAAAATTCCATTTTTAACCTCGAACTTTCTAAAAATTACATTTTTACCCTTA
1 AACTTTCCAAAATTCCATTTTTAACCT-AAACTTTCTAAAAATTACATTTTTACCCTTA
* *
34916 AACTTTCCAAAATTCCATTTTTGACCCTAAACTTTCTAAAAATTACATTTTTACCCATA
1 AACTTTCCAAAATTCCATTTTT-AACCTAAACTTTCTAAAAATTACATTTTTACCCTTA
* *** * *
34975 AACTTTCTAAAATTCCATTTTGGCCCTGAACTTTCTAAAAATTACATTTTTACCCTCA
1 AACTTTCCAAAATTCCATTTTTAACCTAAACTTTCTAAAAATTACATTTTTACCCTTA
* * *
35033 AACTTTCCAAAATTCTATTTTTGACCCCAAACTTTC
1 AACTTTCCAAAATTCCATTTTT-AACCTAAACTTTC
35069 CAATTACCAT
Statistics
Matches: 298, Mismatches: 25, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
57 1 0.00
58 56 0.19
59 233 0.78
60 5 0.02
61 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (58 bp):
AACTTTCCAAAATTCCATTTTTAACCTAAACTTTCTAAAAATTACATTTTTACCCTTA
Found at i:35193 original size:58 final size:59
Alignment explanation
Indices: 34680--35192 Score: 461
Period size: 59 Copynumber: 8.8 Consensus size: 59
34670 AAGGTCCCTG
* * * * *
34680 AACTTTC-CAAAATTTCATTTTTAACCTTGAACTTTCTAAAAATGACATTTTTACCCTCA
1 AACTTTCTAAAAATTCCATTTTTGACC-TCAACTTTCTAAAAATTACATTTTTACCCTCA
* * *
34739 AACTTTC-CAAAATTTCATTTTTGACAC-CAAACTTTCTAAAAATTACATTTTTACCCTTA
1 AACTTTCTAAAAATTCCATTTTTGAC-CTC-AACTTTCTAAAAATTACATTTTTACCCTCA
* * * *
34798 AACTTTC-CAAAATTCCATTTTTAATCC-CAAACTTTCTAAAAATTATATTTTTACCCTTA
1 AACTTTCTAAAAATTCCATTTTTGA-CCTC-AACTTTCTAAAAATTACATTTTTACCCTCA
* *
34857 AACTTTC-AAAAATTCCATTTTTAACCTCGAACTTTCTAAAAATTACATTTTTACCCTTA
1 AACTTTCTAAAAATTCCATTTTTGACCTC-AACTTTCTAAAAATTACATTTTTACCCTCA
* *
34916 AACTTTC-CAAAATTCCATTTTTGACCCTAAACTTTCTAAAAATTACATTTTTACCCAT-A
1 AACTTTCTAAAAATTCCATTTTTGA-CCTCAACTTTCTAAAAATTACATTTTTACCC-TCA
* * *
34975 AACTTTCT-AAAATTCCATTTTGGCCCTGAACTTTCTAAAAATTACATTTTTACCCTCA
1 AACTTTCTAAAAATTCCATTTTTGACCTCAACTTTCTAAAAATTACATTTTTACCCTCA
* * * * * *
35033 AACTTTC-CAAAATTCTATTTTTGACCCCAAACTTTC---CAATTACCA-TTTTACTCTCG
1 AACTTTCTAAAAATTCCATTTTTGACCTC-AACTTTCTAAAAATTA-CATTTTTACCCTCA
* * * ** *
35089 AA-TGTCTAAAAATTCCATTTTTAACCTTAAACATCCCT-AAAATTACCA-TTTTACCC-CG
1 AACTTTCTAAAAATTCCATTTTTGACC-TCAAC-TTTCTAAAAATTA-CATTTTTACCCTCA
* * *
35147 AA-TGTCTAAAAATTCTATTTTTGACCTCAACCCTTCTAAAAATTAC
1 AACTTTCTAAAAATTCCATTTTTGACCTCAA-CTTTCTAAAAATTAC
35193 CGCTTTACCC
Statistics
Matches: 396, Mismatches: 40, Indels: 38
0.84 0.08 0.08
Matches are distributed among these distances:
55 3 0.01
56 35 0.09
57 11 0.03
58 89 0.22
59 252 0.64
60 6 0.02
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (59 bp):
AACTTTCTAAAAATTCCATTTTTGACCTCAACTTTCTAAAAATTACATTTTTACCCTCA
Found at i:35200 original size:58 final size:58
Alignment explanation
Indices: 35070--35203 Score: 153
Period size: 58 Copynumber: 2.3 Consensus size: 58
35060 CAAACTTTCC
* * *
35070 AATTACCATTTTACTCTCGAATGTCTAAAAATTCCATTTTTAACCTTAAACATCCCTAA
1 AATTACCACTTTAC-CCCGAATGTCTAAAAATTCCATTTTTAACCTCAAACATCCCTAA
* * * * * *
35129 AATTACCATTTTACCCCGAATGTCTAAAAATTCTATTTTTGACCTCAACCCT-TCTAAA
1 AATTACCACTTTACCCCGAATGTCTAAAAATTCCATTTTTAACCTCAAACATCCCT-AA
*
35187 AATTACCGCTTTACCCC
1 AATTACCACTTTACCCC
35204 CGGGCATCCA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.03
58 49 0.75
59 14 0.22
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (58 bp):
AATTACCACTTTACCCCGAATGTCTAAAAATTCCATTTTTAACCTCAAACATCCCTAA
Found at i:46393 original size:9 final size:10
Alignment explanation
Indices: 46374--46398 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46364 TACTTCGCTT
46374 AAAAATAAAA
1 AAAAATAAAA
46384 AAAAATAAAA
1 AAAAATAAAA
46394 AAAAA
1 AAAAA
46399 ATAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:46394 original size:11 final size:11
Alignment explanation
Indices: 46374--46402 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
46364 TACTTCGCTT
46374 AAAAAT-AAAA
1 AAAAATAAAAA
46384 AAAAATAAAAA
1 AAAAATAAAAA
46395 AAAAATAA
1 AAAAATAA
46403 TAATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:47776 original size:209 final size:209
Alignment explanation
Indices: 47332--47952 Score: 725
Period size: 209 Copynumber: 3.0 Consensus size: 209
47322 TACCAACTCA
* *
47332 AGGCTCAAAGTGAGTGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
1 AGGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
** * * *
47397 CAATAAAATGGTTAGCTTCCTGATGAGATACT-GAGAAGTGGACCAAATTTGTCTTCCTGATGGG
66 CAATAAAGCGGTTACCTTCCTGATGAGATA-TAGAGAAGTGAACCAAATTTGTCTTCCTGATGAG
* * ** *
47461 ATACAGAGAAGCGGAT-TGAG-ACAGTGA-GCTGGTCATCTTCTTGATGAGATA-TAGAGAAGTA
130 ATACAGAGAAGTGAATCAAAGCA-AGTGATG-TGGTCATCTTCCTGATGAGATACT-GAGAAGTA
* * *
47522 GACCAACTCGATGAAATC
192 GACCAAATCAATAAAATC
* * * * * * *
47540 AAGCTCCAAGTGCGCAAATCTTTCGAACCCCAGCCTCCTAATGAGATACTGAGAAGCAGGTTGAA
1 AGGCTCAAAGTGAGCGAATC-TTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* * * ** *
47605 GAAATAAAGCGGTTACCTTCCTGATAAGATATAGAGAAGTGAACCAGATTCATCTTCCTGATGAA
65 GCAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAAATTTGTCTTCCTGATGAG
* * *
47670 ACACAGAGAAGTGAATCAAAGCAAGTGATGTGGTCATCTTCCTAATGAGATACTGAGAAGTAGAT
130 ATACAGAGAAGTGAATCAAAGCAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGAC
47735 CAAATCAATAAAA-C
195 CAAATCAATAAAATC
* * * *
47749 TAGGCTAAAAGTGAGCGAATCTTCGAACCCCAGCTTTCGGATGAGATACTGAGAAGTAGGTCGAA
1 -AGGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
* * *
47814 GCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAAGTGAATCAAATTTGTCTTCCTGATGAG
65 GCAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAAATTTGTCTTCCTGATGAG
* * * * * * *
47879 ATAAAGAGAAGT-AGATCAAAACAAATGATGAGGTCGTCTTCCCGATGAGATACTGAGAAGTAGG
130 ATACAGAGAAGTGA-ATCAAAGCAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGA
47943 CCAAATCAAT
194 CCAAATCAAT
47953 GACACCAGAC
Statistics
Matches: 344, Mismatches: 61, Indels: 15
0.82 0.15 0.04
Matches are distributed among these distances:
208 17 0.05
209 262 0.76
210 62 0.18
211 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (209 bp):
AGGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG
CAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAAATTTGTCTTCCTGATGAGA
TACAGAGAAGTGAATCAAAGCAAGTGATGTGGTCATCTTCCTGATGAGATACTGAGAAGTAGACC
AAATCAATAAAATC
Found at i:48734 original size:15 final size:16
Alignment explanation
Indices: 48714--48743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48704 TACACATATA
48714 GTATTTATC-TTTCAT
1 GTATTTATCATTTCAT
48729 GTATTTATCATTTCA
1 GTATTTATCATTTCA
48744 CTTACCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (16 bp):
GTATTTATCATTTCAT
Found at i:48936 original size:23 final size:23
Alignment explanation
Indices: 48884--49027 Score: 115
Period size: 23 Copynumber: 6.5 Consensus size: 23
48874 TAAACGGAAC
*
48884 AAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
48906 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
48932 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
* *
48952 --AC--TGAGCACGCAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
48971 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
48994 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
49017 AATCAGAGAGC
1 AAACAGAGAGC
49028 GCACTAGTGT
Statistics
Matches: 98, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
16 9 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
23 62 0.63
25 13 0.13
26 7 0.07
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:48959 original size:39 final size:39
Alignment explanation
Indices: 48916--48990 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
48906 GGGCAACAGA
*
48916 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* * *
48955 GAGCACGCAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
48991 GCTAATCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:49003 original size:25 final size:22
Alignment explanation
Indices: 48955--49036 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 22
48945 ACAAAGTACT
*
48955 GAGCACGCAAAGTGCTAATCAGA
1 GAGCACAC-AAGTGCTAATCAGA
48978 GAGCACACGAAGTGCTAATCAGA
1 GAGCACAC-AAGTGCTAATCAGA
49001 GAGCACACACAGTGCTAATCAGA
1 GAGCACACA-AGTGCTAATCAGA
* *
49024 GAGCGCACTAGTG
1 GAGCACACAAGTG
49037 TTCCTTAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
22 5 0.09
23 49 0.91
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.13
Consensus pattern (22 bp):
GAGCACACAAGTGCTAATCAGA
Found at i:50098 original size:17 final size:17
Alignment explanation
Indices: 50078--50116 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
50068 TACTCCTTGC
50078 TCTTCTCTTTTCCTTTG
1 TCTTCTCTTTTCCTTTG
50095 TCTTCTCTTTTCCTTTG
1 TCTTCTCTTTTCCTTTG
50112 TCTTC
1 TCTTC
50117 AATTTGGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.31, G:0.05, T:0.64
Consensus pattern (17 bp):
TCTTCTCTTTTCCTTTG
Found at i:51173 original size:17 final size:17
Alignment explanation
Indices: 51148--51283 Score: 119
Period size: 17 Copynumber: 7.5 Consensus size: 17
51138 CCCATTTTGT
* *
51148 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
51165 TTTAAATTTGTTTTTAAA
1 TTTAAATTT-ATTTTAAA
*
51183 TTCAAATTTATTTTAAGTTTAA
1 TTTAAATTTATTTT-A----AA
51205 GTTTAAATTTATTTTAAA
1 -TTTAAATTTATTTTAAA
* *
51223 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
51240 TTTAAATTTATTCTTAAA
1 TTTAAATTTATT-TTAAA
**
51258 TTTAAATTTTATCCTAAA
1 TTTAAA-TTTATTTTAAA
51276 TTTAAATT
1 TTTAAATT
51284 AATAATGTTC
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
17 40 0.41
18 37 0.38
19 5 0.05
22 3 0.03
23 13 0.13
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:51199 original size:35 final size:35
Alignment explanation
Indices: 51148--51266 Score: 139
Period size: 35 Copynumber: 3.3 Consensus size: 35
51138 CCCATTTTGT
* *
51148 TTTAGATTTATTTTAAGTTTAAATTTGTTTTTAAA
1 TTTAAATTTATTTTAAGTTTAAATTTATTTTTAAA
* *
51183 TTCAAATTTATTTTAAGTTTAAGTTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAGTTTAAATTT--A--T-TTTTAAA
* *
51223 TTTAAATTTAATTTAAGTTTAAATTTATTCTTAAA
1 TTTAAATTTATTTTAAGTTTAAATTTATTTTTAAA
51258 TTTAAATTT
1 TTTAAATTT
51267 TATCCTAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
35 38 0.54
36 1 0.01
38 1 0.01
39 1 0.01
40 30 0.42
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGTTTAAATTTATTTTTAAA
Found at i:51203 original size:23 final size:23
Alignment explanation
Indices: 51177--51249 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
51167 TAAATTTGTT
*
51177 TTTAAATTCAAATTTATTTTAAG
1 TTTAAATTCAAATTTATTTTAAA
* *
51200 TTTAAGTTTAAATTTATTTTAAA
1 TTTAAATTCAAATTTATTTTAAA
* *
51223 TTTAAATT-TAATTTAAGTTTAAA
1 TTTAAATTCAAATTT-ATTTTAAA
51246 TTTA
1 TTTA
51250 TTCTTAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.12
23 38 0.88
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTAAATTCAAATTTATTTTAAA
Found at i:51275 original size:18 final size:18
Alignment explanation
Indices: 51201--51283 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
51191 TATTTTAAGT
* *
51201 TTAAGTTTAAA-TTTATT
1 TTAAATTTAAATTTTATC
*
51218 TTAAATTTAAATTTAAT-
1 TTAAATTTAAATTTTATC
*
51235 TTAAGTTTAAA-TTTATTC
1 TTAAATTTAAATTTTA-TC
51253 TTAAATTTAAATTTTATC
1 TTAAATTTAAATTTTATC
*
51271 CTAAATTTAAATT
1 TTAAATTTAAATT
51284 AATAATGTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 3 0.05
17 21 0.38
18 28 0.50
19 4 0.07
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAAATTTAAATTTTATC
Found at i:51283 original size:6 final size:6
Alignment explanation
Indices: 51177--51266 Score: 80
Period size: 6 Copynumber: 15.5 Consensus size: 6
51167 TAAATTTGTT
* * * * *
51177 TTTAAA TTCAAA TTT-AT TTTAAG TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
51223 TTTAAA TTT-AA TTTAAG TTTAAA TTT-AT TCTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTT
51267 TATCCTAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
5 15 0.22
6 51 0.75
7 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:52015 original size:30 final size:30
Alignment explanation
Indices: 51965--52042 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
51955 AAATGTAATA
* * *
51965 AATATATATGTATTAAATGATTTTAATAACATT
1 AATA-ATATATATT-AATGATATTAATAAC-CT
51998 AATAATA-ATATTAATGATATTAATAACCT
1 AATAATATATATTAATGATATTAATAACCT
*
52027 AATAATATTTATTAAT
1 AATAATATATATTAAT
52043 AAAAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.20
30 21 0.52
31 4 0.10
32 3 0.08
33 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (30 bp):
AATAATATATATTAATGATATTAATAACCT
Found at i:53216 original size:29 final size:28
Alignment explanation
Indices: 53172--53504 Score: 133
Period size: 29 Copynumber: 11.9 Consensus size: 28
53162 CTAAGAGGTC
*
53172 CCCGAACTTTCCAAAATTCCATTTTTGA
1 CCCGAACTTTCTAAAATTCCATTTTTGA
* *
53200 CCTCGAACTTTCTAAAAAT-GACTTTTT-A
1 CC-CGAACTTTCTAAAATTCCA-TTTTTGA
*
53228 CACCAAAACTTTCTAAAATTCCATTTTTGA
1 C-CC-GAACTTTCTAAAATTCCATTTTTGA
* * *
53258 CCCTAAATTTCTAAAA----A---CT-A
1 CCCGAACTTTCTAAAATTCCATTTTTGA
** * *
53278 -CTAAACTTTCCAAAATTCCATTTTTAA
1 CCCGAACTTTCTAAAATTCCATTTTTGA
* *
53305 CCCCAAACTTTCTAAAAATTACATTTTT-A
1 -CCCGAACTTTCT-AAAATTCCATTTTTGA
* * **
53334 CCCTCGAACTTTCCAAAATTCTA-TTTCAA
1 -CC-CGAACTTTCTAAAATTCCATTTTTGA
* *
53363 CCCCAAACTTTCCAAAATTCCA-TTTTGA
1 -CCCGAACTTTCTAAAATTCCATTTTTGA
* * * *
53391 CCCTCAAACTTTCCAAAATTCAAATTTTGA
1 -CC-CGAACTTTCTAAAATTCCATTTTTGA
* *
53421 CCCTAAACTTTCTAAAAATTACATTTTT-A
1 CCC-GAACTTTCT-AAAATTCCATTTTTGA
* * *
53450 CCCCCGAACTTTCCAAAATTCAATTTTTAA
1 --CCCGAACTTTCTAAAATTCCATTTTTGA
*
53480 CCCAAAACTTT-T-AAATTACCATTTT
1 CCC-GAACTTTCTAAAATT-CCATTTT
53505 ACCCTCGAAT
Statistics
Matches: 239, Mismatches: 38, Indels: 56
0.72 0.11 0.17
Matches are distributed among these distances:
19 11 0.05
20 1 0.00
21 1 0.00
23 1 0.00
24 1 0.00
26 1 0.00
27 6 0.03
28 54 0.23
29 111 0.46
30 49 0.21
31 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (28 bp):
CCCGAACTTTCTAAAATTCCATTTTTGA
Found at i:53378 original size:87 final size:87
Alignment explanation
Indices: 53280--53531 Score: 286
Period size: 87 Copynumber: 2.9 Consensus size: 87
53270 AAAAACTACT
53280 AAACTTTCCAAAATTCCATTTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCTCGAACTT
1 AAACTTTCCAAAATTCCATTTTTAACCCCAAACTTTCT-AAAATTACATTTTTACCCTCGAACTT
*
53345 TC-CAAAATTCTATTTCAACCCC
65 TCTAAAAATTCTATTTCAACCCC
* * * * *
53367 AAACTTTCCAAAATTCCA-TTTTGACCCTCAAACTTTCCAAAATTCAAATTTTGACCCT-AAACT
1 AAACTTTCCAAAATTCCATTTTTAACCC-CAAACTTTCTAAAATT-ACATTTTTACCCTCGAACT
* *
53430 TTCTAAAAATTAC-ATTTTTACCCCC
64 TTCTAAAAATT-CTA-TTTCAACCCC
* * * *
53455 GAACTTTCCAAAATTCAATTTTTAACCCAAAACTTT-T-AAATTACCA-TTTTACCCTCGAA-TG
1 AAACTTTCCAAAATTCCATTTTTAACCCCAAACTTTCTAAAATTA-CATTTTTACCCTCGAACTT
53516 TCTAAAAATTCTATTT
65 TCTAAAAATTCTATTT
53532 TTAACCCCGA
Statistics
Matches: 139, Mismatches: 17, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
84 4 0.03
85 21 0.15
86 29 0.21
87 45 0.32
88 32 0.23
89 8 0.06
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (87 bp):
AAACTTTCCAAAATTCCATTTTTAACCCCAAACTTTCTAAAATTACATTTTTACCCTCGAACTTT
CTAAAAATTCTATTTCAACCCC
Found at i:53434 original size:116 final size:115
Alignment explanation
Indices: 53280--53510 Score: 340
Period size: 116 Copynumber: 2.0 Consensus size: 115
53270 AAAAACTACT
* * *
53280 AAACTTTCCAAAATTCCATTTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCTCGAACTT
1 AAACTTTCCAAAATTCAAATTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
* *
53345 TCCAAAATTCTA-TTTCAACCCCAAACTTTCCAAAATT-CCATTTTGACCCTC
66 TCCAAAATTCAATTTTCAACCCAAAACTTT--AAAATTACCATTTT-ACCCTC
* *
53396 AAACTTTCCAAAATTCAAATTTTGACCCTAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
1 AAACTTTCCAAAATTCAAATTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
* *
53461 TCCAAAATTCAATTTTTAACCCAAAACTTTTAAATTACCATTTTACCCTC
66 TCCAAAATTCAATTTTCAACCCAAAACTTTAAAATTACCATTTTACCCTC
53511 GAATGTCTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
115 11 0.11
116 78 0.75
117 15 0.14
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (115 bp):
AAACTTTCCAAAATTCAAATTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
TCCAAAATTCAATTTTCAACCCAAAACTTTAAAATTACCATTTTACCCTC
Found at i:53563 original size:116 final size:115
Alignment explanation
Indices: 53280--53539 Score: 328
Period size: 116 Copynumber: 2.3 Consensus size: 115
53270 AAAAACTACT
* * * *
53280 AAACTTTCCAAAATTCCATTTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCTCGAACTT
1 AAACTGTCAAAAATTCAATTTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
* *
53345 TCCAAAATTCTATTTCAACCCCAAACTTTCCAAAATTCCATTTTGACCCTC
66 TCCAAAATTCAATTTCAACCCAAAACTTT-CAAAATTCCATTTTGACCCTC
* * * * *
53396 AAACTTTCCAAAATTCAAATTTTGACCCTAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
1 AAACTGTCAAAAATTCAATTTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
* *
53461 TCCAAAATTCAATTTTTAACCCAAAACTTT-TAAATTACCATTTT-ACCCTC
66 TCCAAAATTCAA-TTTCAACCCAAAACTTTCAAAATT-CCATTTTGACCCTC
* *
53511 GAA-TGTCTAAAAATTCTATTTTTAACCCC
1 AAACTGTC-AAAAATTCAATTTTTAACCCC
53540 GAATCTCCCT
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
114 3 0.02
115 29 0.23
116 78 0.62
117 15 0.12
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (115 bp):
AAACTGTCAAAAATTCAATTTTTAACCCCAAACTTTCTAAAAATTACATTTTTACCCCCGAACTT
TCCAAAATTCAATTTCAACCCAAAACTTTCAAAATTCCATTTTGACCCTC
Found at i:53567 original size:29 final size:28
Alignment explanation
Indices: 53492--53616 Score: 80
Period size: 29 Copynumber: 4.3 Consensus size: 28
53482 CAAAACTTTT
*
53492 AAATTACCATTTTACCCTCGAATGTCTAA
1 AAATTACCATTTTACCC-CGAATCTCTAA
*
53521 AAATT-CTATTTTTAACCCCGAATCTCCCT-A
1 AAATTACCA-TTTT-ACCCCGAATCT--CTAA
*
53551 AAATTACCATTTTACCCC-AGATGTCTAA
1 AAATTACCATTTTACCCCGA-ATCTCTAA
**
53579 AAAGTT--CATTTTTGACCCCGACCCTTCTAA
1 AAA-TTACCA-TTTT-ACCCCGAATC-TCTAA
53609 AAATTACC
1 AAATTACC
53617 GCTTTACCTC
Statistics
Matches: 75, Mismatches: 7, Indels: 26
0.69 0.06 0.24
Matches are distributed among these distances:
27 4 0.05
28 11 0.15
29 32 0.43
30 23 0.31
31 5 0.07
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (28 bp):
AAATTACCATTTTACCCCGAATCTCTAA
Found at i:53612 original size:58 final size:59
Alignment explanation
Indices: 53492--53616 Score: 159
Period size: 58 Copynumber: 2.1 Consensus size: 59
53482 CAAAACTTTT
*
53492 AAATTACCATTTTACCCTCGAATGTCTAAAAATTCTATTTTTAACCCCGAATCTCCCTA
1 AAATTACCATTTTACCCTCGAATGTCTAAAAATTCTATTTTTAACCCCGAACCTCCCTA
* * *
53551 AAATTACCATTTTACCC-C-AGATGTCTAAAAAGTTC-ATTTTTGACCCCGACCCT-TCTAA
1 AAATTACCATTTTACCCTCGA-ATGTCTAAAAA-TTCTATTTTTAACCCCGAACCTCCCT-A
53609 AAATTACC
1 AAATTACC
53617 GCTTTACCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
57 3 0.05
58 36 0.61
59 20 0.34
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (59 bp):
AAATTACCATTTTACCCTCGAATGTCTAAAAATTCTATTTTTAACCCCGAACCTCCCTA
Found at i:56170 original size:11 final size:10
Alignment explanation
Indices: 56156--56197 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
56146 TTCAAAAAAA
56156 TTTAGTAATTT
1 TTTA-TAATTT
56167 TTTAATAATTT
1 TTT-ATAATTT
*
56178 TTTA-AATTA
1 TTTATAATTT
56187 TTTATAATTT
1 TTTATAATTT
56197 T
1 T
56198 ACAATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 8 0.30
10 6 0.22
11 12 0.44
12 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Found at i:58858 original size:19 final size:17
Alignment explanation
Indices: 58826--58874 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
58816 TACTTTAAAA
58826 AAATATTTAA-AAATTCATG
1 AAATA-TTAATAAATT-A-G
58845 AAATATTAATAAATTAG
1 AAATATTAATAAATTAG
*
58862 AAAAATTAATAAA
1 AAATATTAATAAA
58875 AAAATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 5 0.18
19 10 0.36
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AAATATTAATAAATTAG
Found at i:59001 original size:13 final size:14
Alignment explanation
Indices: 58983--59011 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58973 TTTATTATAT
58983 TAAAAAATAA-AAA
1 TAAAAAATAATAAA
58996 TAAAAAATAATAAA
1 TAAAAAATAATAAA
59010 TA
1 TA
59012 TTTTATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAAATAATAAA
Found at i:60146 original size:2 final size:2
Alignment explanation
Indices: 60139--60169 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60129 CAGCGCTTAA
60139 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
60170 GTCTATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:63763 original size:14 final size:11
Alignment explanation
Indices: 63731--63762 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
63721 TGACATAGAA
63731 TATGATGATGG
1 TATGATGATGG
63742 TATGATGATGG
1 TATGATGATGG
63753 TATGATGATG
1 TATGATGATG
63763 AAATGGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (11 bp):
TATGATGATGG
Found at i:69581 original size:23 final size:23
Alignment explanation
Indices: 69555--69626 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
69545 TGTCTTGAGA
69555 TAAAGATAATTTGTTTCTAGACC
1 TAAAGATAATTTGTTTCTAGACC
*
69578 TAAA-TTAAGTTTGTTT-TGAGA--
1 TAAAGATAA-TTTGTTTCT-AGACC
*
69599 TAAAGATCACTTTGTTTCTAGACC
1 TAAAGAT-AATTTGTTTCTAGACC
69623 TAAA
1 TAAA
69627 TTAAATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
21 4 0.10
22 15 0.38
23 16 0.41
24 4 0.10
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (23 bp):
TAAAGATAATTTGTTTCTAGACC
Found at i:69621 original size:45 final size:44
Alignment explanation
Indices: 69544--69630 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
69534 TGATGTGCCA
69544 TTGTCTTGAGATAAAGATAATTTGTTTCTAGACCTAAATTAAGT
1 TTGTCTTGAGATAAAGATAATTTGTTTCTAGACCTAAATTAAGT
* *
69588 TTGTTTTGAGATAAAGATCACTTTGTTTCTAGACCTAAATTAA
1 TTGTCTTGAGATAAAGAT-AATTTGTTTCTAGACCTAAATTAA
69631 ATTTTCTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 17 0.43
45 23 0.57
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (44 bp):
TTGTCTTGAGATAAAGATAATTTGTTTCTAGACCTAAATTAAGT
Found at i:71750 original size:39 final size:39
Alignment explanation
Indices: 71682--71887 Score: 227
Period size: 39 Copynumber: 5.3 Consensus size: 39
71672 TGCAGTGATC
* * * *
71682 ACAGTATCACTGCCAGTTCAGTGTAGTATCCAAGTGTTT
1 ACAGTGTCACTGCCAGTTTAGTATGGTATCCAAGTGTTT
* * * **
71721 ACAATGTCACTGCCAATTTAGTTTGGTATCGTAGTGTTT
1 ACAGTGTCACTGCCAGTTTAGTATGGTATCCAAGTGTTT
* * *
71760 ATAGTGTCACTACCAGTTTAGTATGGTA-GCACAGTGTTT
1 ACAGTGTCACTGCCAGTTTAGTATGGTATCCA-AGTGTTT
* * **
71799 ACAGTGTCACTGCCAGTTCAGTATAGTATCGTAGTGTTT
1 ACAGTGTCACTGCCAGTTTAGTATGGTATCCAAGTGTTT
*
71838 ACAGTGTCACTGCCAGTTTAGTATGGTATCACAA-TATTT
1 ACAGTGTCACTGCCAGTTTAGTATGGTATC-CAAGTGTTT
71877 ACAGTGTCACT
1 ACAGTGTCACT
71888 TCTAATTCAA
Statistics
Matches: 136, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 135 0.99
40 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (39 bp):
ACAGTGTCACTGCCAGTTTAGTATGGTATCCAAGTGTTT
Found at i:71796 original size:78 final size:78
Alignment explanation
Indices: 71714--71906 Score: 260
Period size: 78 Copynumber: 2.5 Consensus size: 78
71704 GTAGTATCCA
* * * * *
71714 AGTGTTTACAATGTCACTGCCAATTTAGTTTGGTATCGTAGTGTTTATAGTGTCACTACCAGTTT
1 AGTGTTTACAGTGTCACTGCCAATTCAGTATAGTATCGTAGTGTTTACAGTGTCACTACCAGTTT
71779 AGTATGGTAGCAC
66 AGTATGGTAGCAC
* *
71792 AGTGTTTACAGTGTCACTGCCAGTTCAGTATAGTATCGTAGTGTTTACAGTGTCACTGCCAGTTT
1 AGTGTTTACAGTGTCACTGCCAATTCAGTATAGTATCGTAGTGTTTACAGTGTCACTACCAGTTT
*
71857 AGTATGGTATCAC
66 AGTATGGTAGCAC
* * * * * *
71870 AATATTTACAGTGTCACTTCTAATTCAATATAATATC
1 AGTGTTTACAGTGTCACTGCCAATTCAGTATAGTATC
71907 ACAACGTTTA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 100 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (78 bp):
AGTGTTTACAGTGTCACTGCCAATTCAGTATAGTATCGTAGTGTTTACAGTGTCACTACCAGTTT
AGTATGGTAGCAC
Found at i:71916 original size:78 final size:78
Alignment explanation
Indices: 71756--71927 Score: 209
Period size: 78 Copynumber: 2.2 Consensus size: 78
71746 GTATCGTAGT
* * * * * *
71756 GTTTATAGTGTCACTACCAGTTTAGTATGGTAGCACAGTGTTTACAGTGTCACTGCCAGTTCAGT
1 GTTTACAGTGTCACTGCCAGTTTAGTATGGTAGCACAATATTTACAGTGTCACTGCCAATTCAAT
* ** **
71821 ATAGTATCGTAGT
66 ATAATATCACAAC
* * *
71834 GTTTACAGTGTCACTGCCAGTTTAGTATGGTATCACAATATTTACAGTGTCACTTCTAATTCAAT
1 GTTTACAGTGTCACTGCCAGTTTAGTATGGTAGCACAATATTTACAGTGTCACTGCCAATTCAAT
71899 ATAATATCACAAC
66 ATAATATCACAAC
*
71912 GTTTACGGTGTCACTG
1 GTTTACAGTGTCACTG
71928 GCCGTGGTTC
Statistics
Matches: 79, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (78 bp):
GTTTACAGTGTCACTGCCAGTTTAGTATGGTAGCACAATATTTACAGTGTCACTGCCAATTCAAT
ATAATATCACAAC
Found at i:71916 original size:117 final size:117
Alignment explanation
Indices: 71682--71927 Score: 285
Period size: 117 Copynumber: 2.1 Consensus size: 117
71672 TGCAGTGATC
* * *
71682 ACAGTATCACTGCCAGTTCAGTGTAGTATCCAAGTGTTTACAATGTCACTGCCAATTTAGTTTGG
1 ACAGTGTCACTGCCAGTTCAGTATAGTATCCAAGTGTTTACAATGTCACTGCCAATTTAGTATGG
** * * * * * * ** **
71747 TATCGTAGTGTTTATAGTGTCACTACCAGTTTAGTATGGTAGCACAGTGTTT
66 TATCACAATATTTACAGTGTCACTACCAATTCAATATAATAGCACAACGTTT
** * *
71799 ACAGTGTCACTGCCAGTTCAGTATAGTATCGTAGTGTTTACAGTGTCACTGCCAGTTTAGTATGG
1 ACAGTGTCACTGCCAGTTCAGTATAGTATCCAAGTGTTTACAATGTCACTGCCAATTTAGTATGG
* * *
71864 TATCACAATATTTACAGTGTCACTTCTAATTCAATATAATATCACAACGTTT
66 TATCACAATATTTACAGTGTCACTACCAATTCAATATAATAGCACAACGTTT
*
71916 ACGGTGTCACTG
1 ACAGTGTCACTG
71928 GCCGTGGTTC
Statistics
Matches: 106, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (117 bp):
ACAGTGTCACTGCCAGTTCAGTATAGTATCCAAGTGTTTACAATGTCACTGCCAATTTAGTATGG
TATCACAATATTTACAGTGTCACTACCAATTCAATATAATAGCACAACGTTT
Found at i:73294 original size:58 final size:59
Alignment explanation
Indices: 73224--73344 Score: 158
Period size: 58 Copynumber: 2.1 Consensus size: 59
73214 GTTCGGAGGT
*
73224 AAGTTCGAGGGGT-AAAATGGTAATT-TTGGAAAAATCGAGATAAAAAATAGAATTTTTAG
1 AAGTTCGAGGGGTAAAAAT-GTAATTATTGG-AAAATCGAGATAAAAAATAGAATTTTAAG
* * * *
73283 AAGTTCG-GGGGTAAAAATGTAATTATTGGAAAATCGGGGTCAAAAATGGAATTTTAAG
1 AAGTTCGAGGGGTAAAAATGTAATTATTGGAAAATCGAGATAAAAAATAGAATTTTAAG
73341 AAGT
1 AAGT
73345 AGTGAGGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
58 39 0.71
59 16 0.29
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.28
Consensus pattern (59 bp):
AAGTTCGAGGGGTAAAAATGTAATTATTGGAAAATCGAGATAAAAAATAGAATTTTAAG
Found at i:73322 original size:28 final size:27
Alignment explanation
Indices: 73232--73452 Score: 101
Period size: 29 Copynumber: 7.7 Consensus size: 27
73222 GTAAGTTCGA
73232 GGGGT-AAAATGGTAATTTTGGAAAAATC
1 GGGGTAAAAAT-GTAATTTTGG-AAAATC
* * * **
73260 GAGATAAAAAATAG-AATTTTTAGAAGTTC
1 GGGGT-AAAAAT-GTAA-TTTTGGAAAATC
73289 GGGGGTAAAAATGTAATTATTGGAAAATC
1 -GGGGTAAAAATGTAATT-TTGGAAAATC
* *
73318 GGGGTCAAAAATGGAATTTT--AAGAAGTA
1 GGGGT-AAAAATGTAATTTTGGAA-AA-TC
* * * *
73346 GTGAGGTAAAAACGTAGTTTTTGGAAATTT
1 G-G-GGTAAAAATGTA-ATTTTGGAAAATC
*
73376 GAGGTAAAAATGTAATTTTTGGAAAAAT-
1 GGGGTAAAAATGTAA-TTTTGG-AAAATC
* * * *
73404 TGGGTAAAAAATGGAATTTTAGAAAGTTC
1 GGGGT-AAAAATGTAATTTTGGAAA-ATC
73433 GAGGGTAAAAATGTAATTTT
1 G-GGGTAAAAATGTAATTTT
73453 AAAAAAGTTT
Statistics
Matches: 144, Mismatches: 29, Indels: 39
0.68 0.14 0.18
Matches are distributed among these distances:
26 2 0.01
27 5 0.03
28 41 0.28
29 66 0.46
30 27 0.19
31 1 0.01
32 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (27 bp):
GGGGTAAAAATGTAATTTTGGAAAATC
Found at i:73354 original size:58 final size:56
Alignment explanation
Indices: 73237--73394 Score: 147
Period size: 58 Copynumber: 2.7 Consensus size: 56
73227 TTCGAGGGGT
* * * * *
73237 AAAATGGTAATTTTGGAAAAATCGAGATAAAAAATAGAATTTTTAGAAGTTCGGGGGTA
1 AAAAT-GTAATTTTGG-AAAATCGAGGT-AAAAATGGAATTTTAAGAAGTTAGGAGGTA
*
73296 AAAATGTAATTATTGGAAAATCGGGGTCAAAAATGGAATTTTAAGAAG-TAGTGAGGTA
1 AAAATGTAATT-TTGGAAAATCGAGGT-AAAAATGGAATTTTAAGAAGTTAG-GAGGTA
* * * * *
73354 AAAACGTAGTTTTTGGAAATTTGAGGTAAAAATGTAATTTT
1 AAAATGTA-ATTTTGGAAAATCGAGGTAAAAATGGAATTTT
73395 TGGAAAAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
57 15 0.18
58 57 0.69
59 11 0.13
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.31
Consensus pattern (56 bp):
AAAATGTAATTTTGGAAAATCGAGGTAAAAATGGAATTTTAAGAAGTTAGGAGGTA
Found at i:73385 original size:29 final size:29
Alignment explanation
Indices: 73347--73413 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
73337 TAAGAAGTAG
* *
73347 TGAGGTAAAAACGTAGTTTTTGG-AAATT
1 TGAGGTAAAAACGTAATTTTTGGAAAAAT
*
73375 TGAGGTAAAAATGTAATTTTTGGAAAAAT
1 TGAGGTAAAAACGTAATTTTTGGAAAAAT
73404 TG-GGTAAAAA
1 TGAGGTAAAAA
73414 ATGGAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.33
Consensus pattern (29 bp):
TGAGGTAAAAACGTAATTTTTGGAAAAAT
Found at i:73414 original size:29 final size:27
Alignment explanation
Indices: 73291--73452 Score: 110
Period size: 29 Copynumber: 5.7 Consensus size: 27
73281 AGAAGTTCGG
* *
73291 GGGTAAAAATGTAATTATTGGAAAATCG
1 GGGTAAAAATGTAATTTTTGGAAAAT-T
* ** * *
73319 GGGTCAAAAATGGAATTTTAAGAAGTAGT
1 GGGT-AAAAATGTAATTTTTGGAA-AATT
* * *
73348 GAGGTAAAAACGTAGTTTTTGGAAATTT
1 G-GGTAAAAATGTAATTTTTGGAAAATT
73376 GAGGTAAAAATGTAATTTTTGGAAAAATT
1 G-GGTAAAAATGTAATTTTTGG-AAAATT
* * *
73405 GGGTAAAAAATGGAA-TTTTAGAAAGTT
1 GGGT-AAAAATGTAATTTTTGGAAAATT
73432 CGAGGGTAAAAATGTAATTTT
1 ---GGGTAAAAATGTAATTTT
73453 AAAAAAGTTT
Statistics
Matches: 103, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.05
28 33 0.32
29 54 0.52
30 11 0.11
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.31
Consensus pattern (27 bp):
GGGTAAAAATGTAATTTTTGGAAAATT
Found at i:73440 original size:86 final size:85
Alignment explanation
Indices: 73292--73452 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
73282 GAAGTTCGGG
*
73292 GGTAAAAATGTAATTATTGGAAAATCGGGGTCAAAAATGGAATTTTAAGAAGTAGTGAGGTAAAA
1 GGTAAAAATGTAATTATTGGAAAATCGGGGTAAAAAATGGAATTTTAAGAAGTA-TGAGGTAAAA
*
73357 ACGTAGTTTTTGGAAATTTGA
65 ACGTAATTTTTGGAAATTTGA
* *
73378 GGTAAAAATGTAATTTTTGGAAAAAT-TGGGTAAAAAATGGAATTTT-AGAAAGT-TCGAGGGTA
1 GGTAAAAATGTAATTATTGG-AAAATCGGGGTAAAAAATGGAATTTTAAG-AAGTAT-GA-GGTA
*
73440 AAAATGTAATTTT
62 AAAACGTAATTTT
73453 AAAAAAGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
84 1 0.02
85 4 0.06
86 56 0.85
87 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.32
Consensus pattern (85 bp):
GGTAAAAATGTAATTATTGGAAAATCGGGGTAAAAAATGGAATTTTAAGAAGTATGAGGTAAAAA
CGTAATTTTTGGAAATTTGA
Found at i:73453 original size:29 final size:29
Alignment explanation
Indices: 73224--73521 Score: 122
Period size: 30 Copynumber: 10.2 Consensus size: 29
73214 GTTCGGAGGT
73224 AAGTTCGAGGGGT-AAAATGGTAATTTTGGA
1 AAGTTCGA-GGGTAAAAAT-GTAATTTTGGA
** * *
73254 AAAATCGA-GATAAAAAATAG-AATTTT-TA
1 AAGTTCGAGGGT-AAAAAT-GTAATTTTGGA
*
73282 GAAGTTCGGGGGTAAAAATGTAATTATTGGA
1 -AAGTTCGAGGGTAAAAATGTAATT-TTGGA
* * *
73313 AA-ATCG-GGGTCAAAAATGGAATTTT-AA
1 AAGTTCGAGGGT-AAAAATGTAATTTTGGA
* *
73340 GAAGTAGT-GA-GGTAAAAACGTAGTTTTTGGA
1 -AAGT--TCGAGGGTAAAAATGTA-ATTTTGGA
*
73371 AA-TTTGA-GGTAAAAATGTAATTTTTGGAA
1 AAGTTCGAGGGTAAAAATGTAA-TTTTGG-A
* * *
73400 AAATT---GGGTAAAAAATGGAATTTTAGA
1 AAGTTCGAGGGT-AAAAATGTAATTTTGGA
**
73427 AAGTTCGAGGGTAAAAATGTAATTTTAAAA
1 AAGTTCGAGGGTAAAAATGTAATTTT-GGA
* * *
73457 AAGTTTG-GGCTCAAAAATATAATTTTGGA
1 AAGTTCGAGGGT-AAAAATGTAATTTTGGA
* * *
73486 GAAGTTTGAGGGTCAAAATATAATTTTTGGA
1 -AAGTTCGAGGGTAAAAATGTAA-TTTTGGA
*
73517 CAGTT
1 AAGTT
73522 TAAGGACCTC
Statistics
Matches: 206, Mismatches: 33, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
27 7 0.03
28 39 0.19
29 72 0.35
30 75 0.36
31 13 0.06
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (29 bp):
AAGTTCGAGGGTAAAAATGTAATTTTGGA
Found at i:74591 original size:24 final size:23
Alignment explanation
Indices: 74568--74609 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
74558 ATTACTGTTA
*
74568 TTATTAATAATAT-TT-ATTAGG
1 TTATAAATAATATATTAATTAGG
74589 TTATAAATAATATATTAATTA
1 TTATAAATAATATATTAATTA
74610 CTATTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 2 0.11
23 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
TTATAAATAATATATTAATTAGG
Found at i:78026 original size:48 final size:48
Alignment explanation
Indices: 77738--78318 Score: 314
Period size: 49 Copynumber: 12.0 Consensus size: 48
77728 CTACAGGTCT
* * * *
77738 CAGTACCACGAA-ACATGAAGGGAAAGATTTAAG-CGGTAACGACGAATC
1 CAGTACCTCGAAGACA-CAAGGGAAAGATTTAAGTC-GCAACGGCGAATC
* ** * *
77786 CAGTACCAT-GAAGATAGGGAGGGAAAGGTTTAAGTCGCAACGGTGAA-C
1 CAGTACC-TCGAAGACA-CAAGGGAAAGATTTAAGTCGCAACGGCGAATC
* * * *
77834 CGTGTACCTCAGAA-ACATGAAGGGAAAGATTTAAGCCACAACGGCGAATC
1 C-AGTACCTC-GAAGACA-CAAGGGAAAGATTTAAGTCGCAACGGCGAATC
* * * * * **
77884 CAGTACCGCGAAGATATGAGAGGG-AAGGTTTAAGTCACAACAACGAA-C
1 CAGTACCTCGAAGACA-CA-AGGGAAAGATTTAAGTCGCAACGGCGAATC
** *
77932 CTAGTACCTC-AGAGACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATC
1 C-AGTACCTCGA-AGACA-CAAGGGAAAGATTTAAGTCGCAACGGCGAATC
* * * * *
77982 CAGTACCACGAAGACACATGGGAAAGGTTTAAGTTGCAATGGCGAA-C
1 CAGTACCTCGAAGACACAAGGGAAAGATTTAAGTCGCAACGGCGAATC
* *
78029 CTAGTACCTC-AAGGACA-AAGGGGAAAGATTTAAGCCGTAACGGCGAATC
1 C-AGTACCTCGAA-GACACAA-GGGAAAGATTTAAGTCGCAACGGCGAATC
* * * * * * * **
78078 TAGTAACGCGAAGATATGAGAGGG-AAGGTTTAAGTCACAACAACGAA-C
1 CAGTACCTCGAAGACA-CA-AGGGAAAGATTTAAGTCGCAACGGCGAATC
* * * * * *
78126 CTACTACCTCAAAGACAAGAAGGGAAAGATTTAAGTAGCAATGGTGAATC
1 C-AGTACCTCGAAGAC-ACAAGGGAAAGATTTAAGTCGCAACGGCGAATC
* * *
78176 CAGTACCACGAAGACACATGGGAAA-AGTTTAAGTCGCAATGGCGAA-C
1 CAGTACCTCGAAGACACAAGGGAAAGA-TTTAAGTCGCAACGGCGAATC
* * ** *
78223 CTAGTACCTC-AAGGACA-AAGGAGAAATATTTAAGCCATAACAGCGAATC
1 C-AGTACCTCGAA-GACACAAGG-GAAAGATTTAAGTCGCAACGGCGAATC
* * * *
78272 CAGTACCGCGAAAACACGAAGGGAAAGGTTTAAGTCGCAATGGCGAA
1 CAGTACCTCGAAGACAC-AAGGGAAAGATTTAAGTCGCAACGGCGAA
78319 CCTTACACCT
Statistics
Matches: 406, Mismatches: 92, Indels: 69
0.72 0.16 0.12
Matches are distributed among these distances:
47 13 0.03
48 157 0.39
49 211 0.52
50 24 0.06
51 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (48 bp):
CAGTACCTCGAAGACACAAGGGAAAGATTTAAGTCGCAACGGCGAATC
Found at i:78090 original size:194 final size:194
Alignment explanation
Indices: 77750--78354 Score: 760
Period size: 194 Copynumber: 3.1 Consensus size: 194
77740 GTACCACGAA
* * * * * *
77750 ACATGAAGGGAAAGATTTAAGCGGTAACGACGAATCCAGTACCATGAAGATAGGGA-GGGAAAGG
1 ACATGAAGGGAAAGATTTAAGCAGCAACGGCGAATCCAGTACCACGAAGACA--CATGGGAAAGG
* * * *
77814 TTTAAGTCGCAACGGTGAACCGT-GTACCTC-AGAAACATGAA-GGGAAAGATTTAAGCCACAAC
64 TTTAAGTCGCAATGGCGAACC-TAGTACCTCAAG-GACA--AAGGGGAAAGATTTAAGCCATAAC
*
77876 GGCGAATCCAGTACCGCGAAGATATGAGAGGGAAGGTTTAAGTCACAACAACGAACCTAGTACCT
125 GGCGAATCCAGTACCGCGAAGATATGAGAGGGAAGGTTTAAGTCACAACAACGAACCTACTACCT
*
77941 CAGAG
190 CAAAG
* *
77946 ACATGGAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACATGGGAAAGGTT
1 ACATGAAGGGAAAGATTTAAGCAGCAACGGCGAATCCAGTACCACGAAGACACATGGGAAAGGTT
* *
78011 TAAGTTGCAATGGCGAACCTAGTACCTCAAGGACAAAGGGGAAAGATTTAAGCCGTAACGGCGAA
66 TAAGTCGCAATGGCGAACCTAGTACCTCAAGGACAAAGGGGAAAGATTTAAGCCATAACGGCGAA
* *
78076 TCTAGTAACGCGAAGATATGAGAGGGAAGGTTTAAGTCACAACAACGAACCTACTACCTCAAAG
131 TCCAGTACCGCGAAGATATGAGAGGGAAGGTTTAAGTCACAACAACGAACCTACTACCTCAAAG
* * * * *
78140 ACAAGAAGGGAAAGATTTAAGTAGCAATGGTGAATCCAGTACCACGAAGACACATGGGAAAAGTT
1 ACATGAAGGGAAAGATTTAAGCAGCAACGGCGAATCCAGTACCACGAAGACACATGGGAAAGGTT
* * *
78205 TAAGTCGCAATGGCGAACCTAGTACCTCAAGGACAAAGGAGAAATATTTAAGCCATAACAGCGAA
66 TAAGTCGCAATGGCGAACCTAGTACCTCAAGGACAAAGGGGAAAGATTTAAGCCATAACGGCGAA
* * * * ***
78270 TCCAGTACCGCGAAAACACGA-AGGGAAAGGTTTAAGTCGCAATGGCGAACCTTAC-ACCTCAGA
131 TCCAGTACCGCGAAGATATGAGAGGG-AAGGTTTAAGTCACAACAACGAACC-TACTACCTCA-A
78333 AG
193 AG
*
78335 -CATGAAAGG-AA-ATTTAAGCA
1 ACATGAAGGGAAAGATTTAAGCA
78355 ATGGCGGATT
Statistics
Matches: 361, Mismatches: 41, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
192 8 0.02
193 8 0.02
194 255 0.71
195 42 0.12
196 48 0.13
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.17
Consensus pattern (194 bp):
ACATGAAGGGAAAGATTTAAGCAGCAACGGCGAATCCAGTACCACGAAGACACATGGGAAAGGTT
TAAGTCGCAATGGCGAACCTAGTACCTCAAGGACAAAGGGGAAAGATTTAAGCCATAACGGCGAA
TCCAGTACCGCGAAGATATGAGAGGGAAGGTTTAAGTCACAACAACGAACCTACTACCTCAAAG
Found at i:78330 original size:97 final size:96
Alignment explanation
Indices: 77755--78321 Score: 547
Period size: 98 Copynumber: 5.8 Consensus size: 96
77745 ACGAAACATG
*** * ** * * *
77755 AAGGGAAAGATTTAAGCGGTAACGACGAATCCAGTACCATGAAGATAGGGAGGGAAAGGTTTAAG
1 AAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGACACGAAGGGAAAGGTTTAAG
* *
77820 TCGCAACGGTGAACCGT-GTACCTC-AGAAACA
66 TCGCAACGGCGAACC-TAGTACCTCAAG-GACA
* *
77851 TGAAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGATATGAGAGGG-AAGGTTT
1 --AAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGACACGA-AGGGAAAGGTTT
* **
77915 AAGTCACAACAACGAACCTAGTACCTC-AGAGACA
63 AAGTCGCAACGGCGAACCTAGTACCTCAAG-GACA
* * * *
77949 TGGAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACAC-ATGGGAAAGGTTTA
1 --AAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGACACGAAGGGAAAGGTTTA
* *
78013 AGTTGCAATGGCGAACCTAGTACCTCAAGGACA
64 AGTCGCAACGGCGAACCTAGTACCTCAAGGACA
** * * * *
78046 AAGGGGAAAGATTTAAGCCGTAACGGCGAATCTAGTAACGCGAAGATATGAGAGGG-AAGGTTTA
1 AA-GGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGACACGA-AGGGAAAGGTTTA
* ** * *
78110 AGTCACAACAACGAACCTACTACCTCAAAGACAA
64 AGTCGCAACGGCGAACCTAGTACCTCAAGGAC-A
* * * * * *
78144 GAAGGGAAAGATTTAAG-TAGCAATGGTGAATCCAGTACCACGAAGACAC-ATGGGAAAAGTTTA
1 -AAGGGAAAGATTTAAGCCA-CAACGGCGAATCCAGTACCGCGAAGACACGAAGGGAAAGGTTTA
*
78207 AGTCGCAATGGCGAACCTAGTACCTCAAGGACA
64 AGTCGCAACGGCGAACCTAGTACCTCAAGGACA
* * * *
78240 AAGGAGAAATATTTAAGCCATAACAGCGAATCCAGTACCGCGAAAACACGAAGGGAAAGGTTTAA
1 AAGG-GAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGACACGAAGGGAAAGGTTTAA
*
78305 GTCGCAATGGCGAACCT
65 GTCGCAACGGCGAACCT
78322 TACACCTCAG
Statistics
Matches: 388, Mismatches: 67, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
95 5 0.01
96 81 0.21
97 134 0.35
98 162 0.42
99 6 0.02
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.16
Consensus pattern (96 bp):
AAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCGCGAAGACACGAAGGGAAAGGTTTAAG
TCGCAACGGCGAACCTAGTACCTCAAGGACA
Found at i:78803 original size:6 final size:6
Alignment explanation
Indices: 78765--78873 Score: 82
Period size: 6 Copynumber: 18.7 Consensus size: 6
78755 CTAAACCCAT
* * * * * *
78765 TTTAAA TTTTAT TTTAAA ATT-AT TTTGAA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * * *
78811 TTTAAA TTT-GT TTTAAAA TTTAAA TTT-AA TTTAAG TTTAGA TTTATA
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
78858 TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTA
78874 TTATAAATAT
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
5 15 0.19
6 60 0.77
7 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:78820 original size:29 final size:28
Alignment explanation
Indices: 78765--78868 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 28
78755 CTAAACCCAT
* *
78765 TTTAAATTTTATTTTAAAATTATTTTGAA
1 TTTAAA-TTTATTTTAAATTTAATTTGAA
*
78794 TTTAAATTTATTTTAAATTTAAATTTG-T
1 TTTAAATTTATTTTAAATTT-AATTTGAA
78822 TTTAAA---A-TTTAAATTTAATTT-AA
1 TTTAAATTTATTTTAAATTTAATTTGAA
*
78845 GTTTAGATTTATATTTAAATTTAA
1 -TTTAAATTTAT-TTTAAATTTAA
78869 ATTTATTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
23 5 0.08
24 14 0.23
25 1 0.02
27 1 0.02
28 19 0.31
29 22 0.35
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTAAATTTATTTTAAATTTAATTTGAA
Found at i:78831 original size:18 final size:17
Alignment explanation
Indices: 78777--78881 Score: 129
Period size: 17 Copynumber: 6.1 Consensus size: 17
78767 TAAATTTTAT
* *
78777 TTTAAAATTATTTTGAA
1 TTTAAATTTATTTTAAA
78794 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
78811 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
78829 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
78846 TTTAGATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
*
78864 TTTAAATTTATTATAAA
1 TTTAAATTTATTTTAAA
78881 T
1 T
78882 ATTGAAAGTC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
17 45 0.60
18 30 0.40
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:78837 original size:35 final size:35
Alignment explanation
Indices: 78777--78881 Score: 124
Period size: 35 Copynumber: 3.0 Consensus size: 35
78767 TAAATTTTAT
* *
78777 TTTAAAATTAT-TTTGAATTTAAATTTATTTTAAA
1 TTTAAATTTATATTTAAATTTAAATTTATTTTAAA
* * *
78811 TTTAAATTTGT-TTTAAAATTTAAATTTAATTTAAG
1 TTTAAATTTATATTT-AAATTTAAATTTATTTTAAA
* *
78846 TTTAGATTTATATTTAAATTTAAATTTATTATAAA
1 TTTAAATTTATATTTAAATTTAAATTTATTTTAAA
78881 T
1 T
78882 ATTGAAAGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 12 0.20
35 44 0.75
36 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTAAATTTATATTTAAATTTAAATTTATTTTAAA
Found at i:80773 original size:30 final size:30
Alignment explanation
Indices: 80731--80797 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
80721 CTAAATTGTC
80731 CAAAAATCATATTTCGACC-CTTAAACTCTT
1 CAAAAATCATATTTCGACCAC-TAAACTCTT
*
80761 CAAAAA-CTATATTTCGACCACTAAACTTTT
1 CAAAAATC-ATATTTCGACCACTAAACTCTT
80791 CAAAAAT
1 CAAAAAT
80798 TACATTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 1 0.03
30 31 0.94
31 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.31
Consensus pattern (30 bp):
CAAAAATCATATTTCGACCACTAAACTCTT
Found at i:89774 original size:97 final size:97
Alignment explanation
Indices: 89604--89792 Score: 267
Period size: 97 Copynumber: 1.9 Consensus size: 97
89594 TGGAAAATGA
* * *
89604 TATTCGATTATCTTGATTTGAAGAAAAGTCGCACCTAGTAAGTTAAGGCACAAATTTTTAGAATC
1 TATTCGATTATCTTGATTTGAAGAAAACTCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATC
*
89669 AGAGAT-AAAGAAACATTGCCTCGATTTAAGGG
66 AGAAATAAAAG-AACATTGCCTCGATTTAAGGG
*
89701 TATTCGATTAT-TCTGATTTGAAGAAAACTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAAC
1 TATTCGATTATCT-TGATTTGAAGAAAACTCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAA-
* *
89765 TC-GAAATAAAAGAATATTGCCTTGATTT
64 TCAGAAATAAAAGAACATTGCCTCGATTT
89793 TAAAGTTTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
96 1 0.01
97 75 0.91
98 6 0.07
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (97 bp):
TATTCGATTATCTTGATTTGAAGAAAACTCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATC
AGAAATAAAAGAACATTGCCTCGATTTAAGGG
Found at i:89819 original size:97 final size:97
Alignment explanation
Indices: 89619--89815 Score: 213
Period size: 97 Copynumber: 2.0 Consensus size: 97
89609 GATTATCTTG
* * * *
89619 ATTTGAAGAAAAGTCGCACCTAGTAAGTTAAGGCACAAATTTTTAGAATCAGAGATAAAGAAACA
1 ATTTGAAGAAAACTCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAAATAAAGAAACA
* * *** *
89684 TTGCCTCGATTTAAGGGTATTCGATTATTCTG
66 TTGCCTCGATTTAAGAGTATTCGATGAAAATA
*
89716 ATTTGAAGAAAACTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACTC-GAAATAAA-AGAA
1 ATTTGAAGAAAACTCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAA-TCAGAAATAAAGA-AA
* * *
89779 TATTGCCTTGATTTTAA-AGTTTTC-ATGAAAATA
64 CATTGCCTCGA-TTTAAGAGTATTCGATGAAAATA
89812 ATTT
1 ATTT
89816 TGAAAACAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
96 9 0.11
97 67 0.81
98 7 0.08
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (97 bp):
ATTTGAAGAAAACTCGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCAGAAATAAAGAAACA
TTGCCTCGATTTAAGAGTATTCGATGAAAATA
Found at i:90116 original size:29 final size:30
Alignment explanation
Indices: 90084--90241 Score: 139
Period size: 29 Copynumber: 5.4 Consensus size: 30
90074 TCAAAAATAG
*
90084 AATTTTTAGATA-TTTGGGGGTAAAATGGT
1 AATTTTTAGAAAGTTTGGGGGTAAAATGGT
* * * *
90113 AATTGTTGGAAAGTTTAGGGTTAAATATGG-
1 AATTTTTAGAAAGTTTGGGGGTAAA-ATGGT
* *
90143 AATTTTT-TAAAGTTCGGGGGTAAAATGGT
1 AATTTTTAGAAAGTTTGGGGGTAAAATGGT
* * * *
90172 AATTTTTGGAAA-ATTAGGGCTAAAAATGG-
1 AATTTTTAGAAAGTTTGGGGGT-AAAATGGT
*
90201 AATTTTTA-AAAGTTTGGTGGTAAAATGGT
1 AATTTTTAGAAAGTTTGGGGGTAAAATGGT
*
90230 AATTTTTGGAAA
1 AATTTTTAGAAA
90242 AATTAAGGTC
Statistics
Matches: 100, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
28 14 0.14
29 53 0.53
30 29 0.29
31 4 0.04
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
AATTTTTAGAAAGTTTGGGGGTAAAATGGT
Found at i:90124 original size:59 final size:57
Alignment explanation
Indices: 90053--90330 Score: 233
Period size: 58 Copynumber: 4.8 Consensus size: 57
90043 GACAAAACGA
* * *
90053 TAATTTTGGGAAAGTTCGGGGTCAAAAATAGAATTTTTAGATA-TTTGGGGGTAAAATGG
1 TAATTTTTGGAAAGTTAGGGGT-AAAAATGGAATTTTTA-A-AGTTTGGGGGTAAAATGG
* * * *
90112 TAATTGTTGGAAAGTTTAGGGTTAAATATGGAATTTTTTAAAGTTCGGGGGTAAAATGG
1 TAATTTTTGGAAAG-TTAGGGGTAAAAATGGAA-TTTTTAAAGTTTGGGGGTAAAATGG
* * *
90171 TAATTTTTGGAAAATTAGGGCTAAAAATGGAATTTTTAAAAGTTTGGTGGTAAAATGG
1 TAATTTTTGGAAAGTTAGGGGTAAAAATGGAATTTTT-AAAGTTTGGGGGTAAAATGG
* * ** ** *
90229 TAATTTTTGGAAAAATTA-AGGTCAAAAATGGAATTTTGGAA-TGTTCAGAGTAAAAAT-G
1 TAATTTTTGG-AAAGTTAGGGGT-AAAAATGGAATTTTTAAAGT-TTGGGGGT-AAAATGG
* * *
90287 TAATTTTTGAAAAAATT-GGGGTTAAAATGGAATTTTTGAAAGTT
1 TAATTTTTG-GAAAGTTAGGGGTAAAAATGGAATTTTT-AAAGTT
90331 CAAGGTTAAA
Statistics
Matches: 181, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
57 19 0.10
58 75 0.41
59 75 0.41
60 12 0.07
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (57 bp):
TAATTTTTGGAAAGTTAGGGGTAAAAATGGAATTTTTAAAGTTTGGGGGTAAAATGG
Found at i:90223 original size:58 final size:58
Alignment explanation
Indices: 90053--90440 Score: 265
Period size: 59 Copynumber: 6.6 Consensus size: 58
90043 GACAAAACGA
* * * * * * *
90053 TAATTTTGGGAAAGTTCGGGGTCAAAAATAGAATTTTTAGATA-TTTGGGGGTAAAATGG
1 TAATTTTTGGAAAATTAGGGCT-AAAAATGGAATTTTTA-AAAGTTCGGGGGTAAAATGG
* * * * *
90112 TAATTGTTGGAAAGTTTAGGGTTAAATATGGAATTTTTTAAAGTTCGGGGGTAAAATGG
1 TAATTTTTGGAAA-ATTAGGGCTAAAAATGGAATTTTTAAAAGTTCGGGGGTAAAATGG
* *
90171 TAATTTTTGGAAAATTAGGGCTAAAAATGGAATTTTTAAAAGTTTGGTGGTAAAATGG
1 TAATTTTTGGAAAATTAGGGCTAAAAATGGAATTTTTAAAAGTTCGGGGGTAAAATGG
* ** * * *
90229 TAATTTTTGGAAAAATTAAGG-TCAAAAATGGAATTTTGGAATGTTC-AGAGTAAAAAT-G
1 TAATTTTTGG-AAAATTAGGGCT-AAAAATGGAATTTTTAAAAGTTCGGGGGT-AAAATGG
* * * * ** *
90287 TAATTTTTGAAAAAATT-GGGGTTAAAATGGAATTTTTGAAAGTTCAAGGTTAAAAAT-G
1 TAATTTTTG-GAAAATTAGGGCTAAAAATGGAATTTTTAAAAGTTCGGGGGT-AAAATGG
* * ** **
90345 TAATTTTTAGAAAAATTGAGGTC-AAAAATGGAATTTTGCAAAGTTCAAGGGTAAAAAT-G
1 TAATTTTT-GGAAAATT-AGGGCTAAAAATGGAATTTTTAAAAGTTCGGGGGT-AAAATGG
* *
90404 TAA-TTTT-GAAAAGTTCAAGGTCAAAAAATGGAATTTT
1 TAATTTTTGGAAAA-TT--AGGGCTAAAAATGGAATTTT
90441 GGAAAGGTTC
Statistics
Matches: 275, Mismatches: 40, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
56 4 0.01
57 24 0.09
58 105 0.38
59 134 0.49
60 8 0.03
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (58 bp):
TAATTTTTGGAAAATTAGGGCTAAAAATGGAATTTTTAAAAGTTCGGGGGTAAAATGG
Found at i:90268 original size:29 final size:28
Alignment explanation
Indices: 90164--90454 Score: 164
Period size: 29 Copynumber: 9.9 Consensus size: 28
90154 GTTCGGGGGT
*
90164 AAAATGGTAATTTTTGGAAAA-TTAGGGCTA
1 AAAATGG-AA-TTTTGGAAAAGTTAAGG-TA
* * *
90194 AAAATGGAATTTT-TAAAAGTT-TGGTGGT
1 AAAATGGAATTTTGGAAAAGTTAAGGT--A
*
90222 AAAATGGTAATTTTTGGAAAAATTAAGGTCA
1 AAAATGG-AA-TTTTGGAAAAGTTAAGGT-A
* *
90253 AAAATGGAATTTTGG-AATGTTCAGAGTA
1 AAAATGGAATTTTGGAAAAGTTAAG-GTA
* * * ** *
90281 AAAATGTAATTTTTGAAAAAATTGGGGTT
1 AAAATGGAA-TTTTGGAAAAGTTAAGGTA
*
90310 AAAATGGAATTTTTG-AAAGTTCAAGGTTA
1 AAAATGGAATTTTGGAAAAGTT-AAGG-TA
* * * *
90339 AAAATGTAATTTTTAGAAAAATTGAGGTCA
1 AAAATGGAA-TTTTGGAAAAGTTAAGGT-A
*
90369 AAAATGGAATTTT-GCAAAGTTCAAGGGTA
1 AAAATGGAATTTTGGAAAAGTT-AA-GGTA
*
90398 AAAATGTAATTTT-GAAAAGTTCAAGGTCAA
1 AAAATGGAATTTTGGAAAAGTT-AAGGT--A
*
90428 AAAATGGAATTTTGGAAAGGTTCAAGG
1 AAAATGGAATTTTGGAAAAGTT-AAGG
90455 GTCAAAATAT
Statistics
Matches: 204, Mismatches: 37, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
26 1 0.00
27 11 0.05
28 43 0.21
29 65 0.32
30 51 0.25
31 30 0.15
32 3 0.01
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAAGTTAAGGTA
Found at i:90388 original size:59 final size:58
Alignment explanation
Indices: 90139--90472 Score: 331
Period size: 58 Copynumber: 5.7 Consensus size: 58
90129 AGGGTTAAAT
** ** * *
90139 ATGGAATTTTTTAAAGTTCGGGGGT-AAAATGGTAATTTTTGGAAAATT-AGGGCTAAAA
1 ATGGAATTTTGGAAAGTTCAAGGGTAAAAAT-GTAATTTTTGAAAAATTAAGGTC-AAAA
** **
90197 ATGGAATTTTTAAAAGTT-TGGTGGT-AAAATGGTAATTTTTGGAAAAATTAAGGTCAAAA
1 ATGGAATTTTGGAAAGTTCAAG-GGTAAAAAT-GTAATTTTT-GAAAAATTAAGGTCAAAA
* * ** *
90256 ATGGAATTTTGGAATGTTC-AGAGTAAAAATGTAATTTTTGAAAAAATTGGGGT-TAAA
1 ATGGAATTTTGGAAAGTTCAAGGGTAAAAATGTAATTTTTG-AAAAATTAAGGTCAAAA
* * *
90313 ATGGAATTTTTGAAAGTTCAAGGTTAAAAATGTAATTTTTAGAAAAATTGAGGTCAAAA
1 ATGGAATTTTGGAAAGTTCAAGGGTAAAAATGTAATTTTT-GAAAAATTAAGGTCAAAA
* *
90372 ATGGAATTTTGCAAAGTTCAAGGGTAAAAATGTAA-TTTTGAAAAGTTCAAGGTCAAAAA
1 ATGGAATTTTGGAAAGTTCAAGGGTAAAAATGTAATTTTTGAAAAATT-AAGGTC-AAAA
* *
90431 ATGGAATTTTGGAAAGGTTCAAGGGTCAAAATATAATTTTTG
1 ATGGAATTTTGGAAA-GTTCAAGGGTAAAAATGTAATTTTTG
90473 GATAGGTTAG
Statistics
Matches: 237, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
57 30 0.13
58 94 0.40
59 86 0.36
60 22 0.09
61 5 0.02
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (58 bp):
ATGGAATTTTGGAAAGTTCAAGGGTAAAAATGTAATTTTTGAAAAATTAAGGTCAAAA
Found at i:90433 original size:30 final size:29
Alignment explanation
Indices: 90222--90461 Score: 172
Period size: 29 Copynumber: 8.1 Consensus size: 29
90212 GTTTGGTGGT
*
90222 AAAATGGTAATTTTTGGAAAAATT-AAGGTCA
1 AAAATGG-AA-TTTT-GAAAAGTTCAAGGTCA
* *
90253 AAAATGGAATTTTGGAATGTTC-AGAGT-A
1 AAAATGGAATTTTGAAAAGTTCAAG-GTCA
* * ** *
90281 AAAATGTAATTTTTGAAAAAATT-GGGGT-T
1 AAAATGGAA-TTTTG-AAAAGTTCAAGGTCA
*
90310 AAAATGGAATTTTTG-AAAGTTCAAGGTTA
1 AAAATGGAA-TTTTGAAAAGTTCAAGGTCA
* * *
90339 AAAATGTAATTTTTAGAAAAATT-GAGGTCA
1 AAAATGGAA-TTTT-GAAAAGTTCAAGGTCA
*
90369 AAAATGGAATTTTGCAAAGTTCAAGGGT-A
1 AAAATGGAATTTTGAAAAGTTCAA-GGTCA
*
90398 AAAATGTAATTTTGAAAAGTTCAAGGTCAA
1 AAAATGGAATTTTGAAAAGTTCAAGGTC-A
*
90428 AAAATGGAATTTTGGAAAGGTTCAAGGGTCA
1 AAAATGGAATTTT-GAAAAGTTCAA-GGTCA
90459 AAA
1 AAA
90462 TATAATTTTT
Statistics
Matches: 168, Mismatches: 26, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
27 5 0.03
28 28 0.17
29 68 0.40
30 37 0.22
31 26 0.15
32 4 0.02
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.31
Consensus pattern (29 bp):
AAAATGGAATTTTGAAAAGTTCAAGGTCA
Found at i:90462 original size:30 final size:29
Alignment explanation
Indices: 90101--90462 Score: 160
Period size: 29 Copynumber: 12.3 Consensus size: 29
90091 AGATATTTGG
*
90101 GGGT-AAAATGGTAATTGTTGGAAAGTT-TA
1 GGGTCAAAATGG-AATT-TTGGAAAGTTCAA
* ** **
90130 GGGTTAAATATGGAATTTTTTAAAGTTCGG
1 GGGTCAAA-ATGGAATTTTGGAAAGTTCAA
*
90160 GGGT-AAAATGGTAATTTTTGGAAAATT--A
1 GGGTCAAAATGG-AA-TTTTGGAAAGTTCAA
* ** **
90188 GGGCTAAAAATGGAATTTTTAAAAGTT-TG
1 GGG-TCAAAATGGAATTTTGGAAAGTTCAA
*
90217 GTGGT-AAAATGGTAATTTTTGGAAAAATT-AA
1 G-GGTCAAAATGG-AA-TTTTGG-AAAGTTCAA
*
90248 -GGTCAAAAATGGAATTTTGGAATGTTC-A
1 GGGTC-AAAATGGAATTTTGGAAAGTTCAA
* * * * * *
90276 GAGTAAAAATGTAATTTTTGAAAAAATT--G
1 GGGTCAAAATGGAA-TTTTG-GAAAGTTCAA
* *
90305 GGGTTAAAATGGAATTTTTGAAAGTTCAA
1 GGGTCAAAATGGAATTTTGGAAAGTTCAA
* * * * * *
90334 GGTTAAAAATGTAATTTTTAGAAAAATT-GA
1 GGGTCAAAATGGAA-TTTT-GGAAAGTTCAA
*
90364 -GGTCAAAAATGGAATTTTGCAAAGTTCAA
1 GGGTC-AAAATGGAATTTTGGAAAGTTCAA
* * *
90393 GGGTAAAAATGTAATTTTGAAAAGTTCAA
1 GGGTCAAAATGGAATTTTGGAAAGTTCAA
90422 -GGTCAAAAAATGGAATTTTGGAAAGGTTCAA
1 GGGTC--AAAATGGAATTTTGGAAA-GTTCAA
90453 GGGTCAAAAT
1 GGGTCAAAAT
90463 ATAATTTTTG
Statistics
Matches: 252, Mismatches: 52, Indels: 57
0.70 0.14 0.16
Matches are distributed among these distances:
27 5 0.02
28 49 0.19
29 91 0.36
30 76 0.30
31 27 0.11
32 4 0.02
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATGGAATTTTGGAAAGTTCAA
Found at i:90472 original size:31 final size:30
Alignment explanation
Indices: 90376--90480 Score: 108
Period size: 31 Copynumber: 3.5 Consensus size: 30
90366 TCAAAAATGG
* * *
90376 AATTTTGCAAA-GTTCAAGGGTAAAAATGT
1 AATTTTGGAAAGGTTCAAGGGTCAAAATAT
* *
90405 AATTTT-GAAAAGTTCAA-GGTCAAAAAAT
1 AATTTTGGAAAGGTTCAAGGGTCAAAATAT
90433 GGAATTTTGGAAAGGTTCAAGGGTCAAAATAT
1 --AATTTTGGAAAGGTTCAAGGGTCAAAATAT
*
90465 AATTTTTGGATAGGTT
1 AA-TTTTGGAAAGGTT
90481 AGGGACCTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
28 11 0.17
29 12 0.19
30 8 0.13
31 22 0.35
32 10 0.16
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (30 bp):
AATTTTGGAAAGGTTCAAGGGTCAAAATAT
Found at i:91559 original size:3 final size:3
Alignment explanation
Indices: 91545--91636 Score: 51
Period size: 3 Copynumber: 29.7 Consensus size: 3
91535 TTGTATTTAA
* * * * * *
91545 TAT TAA TAT TAT TAT TAT TTT TAT TAA CACT TAT TAA TGT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT
* * * *
91592 TACT T-C TATT TAT TAT TAA CAT TAT TAT TAA TAT TAT TAT TAT TA
1 TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
91637 CTAATAAAAT
Statistics
Matches: 64, Mismatches: 20, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
2 1 0.02
3 55 0.86
4 8 0.12
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:91648 original size:18 final size:18
Alignment explanation
Indices: 91612--91650 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
91602 TATTATTAAC
* **
91612 ATTATTATTAATATTATT
1 ATTATTACTAATAAAATT
91630 ATTATTACTAATAAAATT
1 ATTATTACTAATAAAATT
91648 ATT
1 ATT
91651 TAATATACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATTACTAATAAAATT
Found at i:92447 original size:6 final size:6
Alignment explanation
Indices: 92421--92485 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
92411 GTTTATAATC
* * *
92421 ATTTCAA ATTTAA A-CTAA ATTTAA ATTTAA A-GTAA ATTCAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
92468 ATTTAA A-ATAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
92486 GTCAATCTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
5 12 0.26
6 31 0.66
7 4 0.09
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (6 bp):
ATTTAA
Found at i:92461 original size:34 final size:34
Alignment explanation
Indices: 92423--92487 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
92413 TTATAATCAT
*
92423 TTCAAATTTAAA-CTAAATTTAAATTTAAAGTAAA
1 TTCAAATTTAAATCTAAA-ATAAATTTAAAGTAAA
*
92457 TTCAAATTTAAATTTAAAATAAATTTAAAGT
1 TTCAAATTTAAATCTAAAATAAATTTAAAGT
92488 CAATCTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (34 bp):
TTCAAATTTAAATCTAAAATAAATTTAAAGTAAA
Found at i:92463 original size:23 final size:23
Alignment explanation
Indices: 92437--92481 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
92427 AATTTAAACT
*
92437 AAATTTAAATTTAAAGTAAATTC
1 AAATTTAAATTTAAAATAAATTC
92460 AAATTTAAATTTAAAATAAATT
1 AAATTTAAATTTAAAATAAATT
92482 TAAAGTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAATTTAAATTTAAAATAAATTC
Found at i:92480 original size:17 final size:17
Alignment explanation
Indices: 92421--92502 Score: 76
Period size: 17 Copynumber: 4.8 Consensus size: 17
92411 GTTTATAATC
*
92421 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAGTAA
92439 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAAGTAA
* *
92456 ATTCAAATTTAAATTTAA
1 ATTTAAATTTAAA-GTAA
* *
92474 A-ATAAATTTAAAGTCA
1 ATTTAAATTTAAAGTAA
* *
92490 ATCTAAACTTAAA
1 ATTTAAATTTAAA
92503 ATCAAAAGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
16 3 0.06
17 42 0.79
18 8 0.15
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTTAAATTTAAAGTAA
Found at i:95551 original size:38 final size:37
Alignment explanation
Indices: 95501--95584 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 37
95491 AGTTGTTTAT
*
95501 TGCCTATATATGTTATATTCAATGGTTAGCAAAACTA
1 TGCCTCTATATGTTATATTCAATGGTTAGCAAAACTA
95538 TGCCTCTACTATGTTATATTCAATGGTTAGCAAAACTA
1 TGCCTCTA-TATGTTATATTCAATGGTTAGCAAAACTA
95576 TGCCTCTAT
1 TGCCTCTAT
95585 TTAGTTGCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 8 0.18
38 37 0.82
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (37 bp):
TGCCTCTATATGTTATATTCAATGGTTAGCAAAACTA
Found at i:97915 original size:24 final size:24
Alignment explanation
Indices: 97881--97928 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
97871 AAGGATGTTC
* *
97881 AACCTTTCATCTTCCTTGACCTTT
1 AACCTTCCATCTTCCTTAACCTTT
*
97905 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTTCCTTAACCTTT
97929 CATATTCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.02, T:0.46
Consensus pattern (24 bp):
AACCTTCCATCTTCCTTAACCTTT
Found at i:97921 original size:17 final size:17
Alignment explanation
Indices: 97901--97942 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
97891 CTTCCTTGAC
*
97901 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
97918 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
97935 CTTGTAAC
1 CTT-TAAC
97943 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:105248 original size:47 final size:47
Alignment explanation
Indices: 105194--105305 Score: 215
Period size: 47 Copynumber: 2.4 Consensus size: 47
105184 CCTAGTTTCC
*
105194 TGATGAGATATTGAGAAGCAGGGCAAAGCAATAAAAGGTTAGCTTCT
1 TGATGAGATACTGAGAAGCAGGGCAAAGCAATAAAAGGTTAGCTTCT
105241 TGATGAGATACTGAGAAGCAGGGCAAAGCAATAAAAGGTTAGCTTCT
1 TGATGAGATACTGAGAAGCAGGGCAAAGCAATAAAAGGTTAGCTTCT
105288 TGATGAGATACTGAGAAG
1 TGATGAGATACTGAGAAG
105306 TGAACCAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (47 bp):
TGATGAGATACTGAGAAGCAGGGCAAAGCAATAAAAGGTTAGCTTCT
Found at i:105729 original size:134 final size:133
Alignment explanation
Indices: 105441--105730 Score: 431
Period size: 134 Copynumber: 2.2 Consensus size: 133
105431 CAAACCCCAG
* *
105441 CTTCCTGATGAGATACTGAGAAGCAAGGCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTG
1 CTTCCTGATGAGATACTGAGAAGCAAGGCAAAGCAATAAAAGGTTAGCTTCCTGATGAGATAATG
* *
105506 AGAAGTTGACCAAATTTGTCTTCCTGATGAGGTACAGAGAAGCGGATTGAAACAAGCAAGGCAGT
66 AGAAGTTGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAAGGCAGT
*
105571 CAT
131 CAC
*
105574 CTTCCTGATGAGATACAGAGAAGC-AGGTCAAAGCAATAAAACGGTTAGCTTCCTGATGAGATAA
1 CTTCCTGATGAGATACTGAGAAGCAAGG-CAAAGCAATAAAA-GGTTAGCTTCCTGATGAGATAA
* * * *
105638 TGAGAAG-TGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAGACAAGCGATGC
64 TGAGAAGTTG-ACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAAGGC
*
105702 GGTCAC
128 AGTCAC
*
105708 CTTCCTGATGAGATATTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
105731 AAGACTAAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
132 3 0.02
133 37 0.26
134 101 0.72
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (133 bp):
CTTCCTGATGAGATACTGAGAAGCAAGGCAAAGCAATAAAAGGTTAGCTTCCTGATGAGATAATG
AGAAGTTGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAAGGCAGT
CAC
Found at i:105869 original size:37 final size:37
Alignment explanation
Indices: 105828--105922 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
105818 AAAAGGTTAG
105828 CTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGT
*
105865 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGT
1 CTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGT
*
105902 CTTCC--ATGAGATACAGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
105923 CGGATTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
35 15 0.27
37 41 0.73
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (37 bp):
CTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGT
Found at i:106474 original size:15 final size:16
Alignment explanation
Indices: 106454--106494 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
106444 CCCAACAAAC
*
106454 TTTAAATTTA-TTTTT
1 TTTAAATTTAGTTTAT
*
106469 TTTAAATTAAGTTTAT
1 TTTAAATTTAGTTTAT
106485 TTTAAATTTA
1 TTTAAATTTA
106495 AATTAGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTAAATTTAGTTTAT
Found at i:106506 original size:13 final size:13
Alignment explanation
Indices: 106488--106541 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
106478 AGTTTATTTT
106488 AAATTTAAATTAG
1 AAATTTAAATTAG
*
106501 AAATTTAAATTTATCAT
1 AAATTTAAA--T-T-AG
*
106518 AAATTTCAATTAG
1 AAATTTAAATTAG
106531 AAATTTAAATT
1 AAATTTAAATT
106542 TATCATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 20 0.61
14 1 0.03
15 2 0.06
16 1 0.03
17 9 0.27
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (13 bp):
AAATTTAAATTAG
Found at i:106521 original size:30 final size:30
Alignment explanation
Indices: 106487--106558 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
106477 AAGTTTATTT
*
106487 TAAATTTAAATTAGAAATTTAAATTTATCA
1 TAAATTTCAATTAGAAATTTAAATTTATCA
106517 TAAATTTCAATTAGAAATTTAAATTTATCA
1 TAAATTTCAATTAGAAATTTAAATTTATCA
106547 TAAATTTCAATT
1 TAAATTTCAATT
106559 TAAAATATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (30 bp):
TAAATTTCAATTAGAAATTTAAATTTATCA
Found at i:106523 original size:17 final size:17
Alignment explanation
Indices: 106501--106560 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
106491 TTTAAATTAG
106501 AAATTTAAATTTATCAT
1 AAATTTAAATTTATCAT
* *
106518 AAATTTCAA--T-T-AG
1 AAATTTAAATTTATCAT
106531 AAATTTAAATTTATCAT
1 AAATTTAAATTTATCAT
*
106548 AAATTTCAATTTA
1 AAATTTAAATTTA
106561 AAATATGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
15 2 0.06
16 1 0.03
17 21 0.62
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (17 bp):
AAATTTAAATTTATCAT
Found at i:107227 original size:12 final size:12
Alignment explanation
Indices: 107213--107274 Score: 72
Period size: 12 Copynumber: 5.1 Consensus size: 12
107203 ATAACGTATT
*
107213 TAATAATATTAT
1 TAATAATATTAA
107225 TAATAATATTCAA
1 TAATAATATT-AA
107238 TAATAATAATTAA
1 TAATAAT-ATTAA
*
107251 TAA-AATAATAA
1 TAATAATATTAA
*
107262 TAATAATAGTAA
1 TAATAATATTAA
107274 T
1 T
107275 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
11 7 0.16
12 21 0.48
13 13 0.30
14 3 0.07
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:107231 original size:3 final size:3
Alignment explanation
Indices: 107213--107274 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
107203 ATAACGTATT
* * *
107213 TAA TAA TAT TAT TAA TAA TAT TCAA TAA TAA TAA TTAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA TAA TAA
*
107259 TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA T
107275 TAAAATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.86
4 5 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:108402 original size:29 final size:28
Alignment explanation
Indices: 108334--108557 Score: 175
Period size: 29 Copynumber: 7.7 Consensus size: 28
108324 AAAAGTCCCT
108334 AAACTATCCAAAATTACATTTTTACCCTCG
1 AAACT-TCCAAAATTACATTTTTACCC-CG
*
108364 --ACTTCCAAAATTTCATTTTTGACCCCG
1 AAACTTCCAAAATTACATTTTT-ACCCCG
* * *
108391 AAACTTCCAAAAATTTCATTTTAACCTCG
1 AAACTTCC-AAAATTACATTTTTACCCCG
* * *
108420 AAACCTCTAAAAAATACATTTTTACCCC-
1 AAACTTC-CAAAATTACATTTTTACCCCG
* * *
108448 AAACTTCCAAAAATTTCATTTTAACCTCG
1 AAACTTCC-AAAATTACATTTTTACCCCG
* * * *
108477 AAACCTCTAAAAAATACATTTTTACCCCC
1 AAACTTC-CAAAATTACATTTTTACCCCG
* *
108506 AAACTTCCAAAAATTCCATTTTTGACCCCA
1 AAACTTCC-AAAATTACATTTTT-ACCCCG
*
108536 AAACTTTCAAAAATTACCATTT
1 AAAC-TTCCAAAATTA-CATTT
108558 CATCCTCAAA
Statistics
Matches: 153, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
27 18 0.12
28 28 0.18
29 71 0.46
30 28 0.18
31 8 0.05
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.33
Consensus pattern (28 bp):
AAACTTCCAAAATTACATTTTTACCCCG
Found at i:108489 original size:86 final size:87
Alignment explanation
Indices: 108343--108550 Score: 233
Period size: 86 Copynumber: 2.4 Consensus size: 87
108333 TAAACTATCC
* * * *
108343 AAAATTACATTTTTACCCTC-GACTTCC-AAAATTTCATTTTTGACCCCGAAACTTCCAAAAATT
1 AAAATTACATTTTTACCC-CAAACTTCCAAAAATTTCATTTTTAACCCCGAAACCTCCAAAAAAT
* * * *
108406 TCATTTTAACCTCGAAACCTCTA
65 ACATTTTAACCCCCAAACCTCCA
* * *
108429 AAAAATACATTTTTACCCCAAACTTCCAAAAATTTCA-TTTTAACCTCGAAACCTCTAAAAAATA
1 AAAATTACATTTTTACCCCAAACTTCCAAAAATTTCATTTTTAACCCCGAAACCTCCAAAAAATA
* *
108493 CATTTTTACCCCCAAACTTCCA
66 CATTTTAACCCCCAAACCTCCA
* *
108515 AAAATTCCATTTTTGACCCCAAAACTTTCAAAAATT
1 AAAATTACATTTTT-ACCCC-AAACTTCCAAAAATT
108551 ACCATTTCAT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
85 1 0.01
86 73 0.72
87 14 0.14
88 14 0.14
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (87 bp):
AAAATTACATTTTTACCCCAAACTTCCAAAAATTTCATTTTTAACCCCGAAACCTCCAAAAAATA
CATTTTAACCCCCAAACCTCCA
Found at i:108518 original size:58 final size:58
Alignment explanation
Indices: 108377--108527 Score: 268
Period size: 57 Copynumber: 2.6 Consensus size: 58
108367 TCCAAAATTT
*
108377 CATTTTTGACCCCGAAACTTCCAAAAATTTCATTTTAACCTCGAAACCTCTAAAAAATA
1 CATTTTT-ACCCCCAAACTTCCAAAAATTTCATTTTAACCTCGAAACCTCTAAAAAATA
108436 CATTTTTA-CCCCAAACTTCCAAAAATTTCATTTTAACCTCGAAACCTCTAAAAAATA
1 CATTTTTACCCCCAAACTTCCAAAAATTTCATTTTAACCTCGAAACCTCTAAAAAATA
*
108493 CATTTTTACCCCCAAACTTCCAAAAATTCCATTTT
1 CATTTTTACCCCCAAACTTCCAAAAATTTCATTTT
108528 TGACCCCAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
57 56 0.63
58 26 0.29
59 7 0.08
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (58 bp):
CATTTTTACCCCCAAACTTCCAAAAATTTCATTTTAACCTCGAAACCTCTAAAAAATA
Found at i:108607 original size:59 final size:59
Alignment explanation
Indices: 108483--108658 Score: 162
Period size: 59 Copynumber: 3.0 Consensus size: 59
108473 CTCGAAACCT
* * * * *
108483 CTAAAAAATA-CATTTTTACCCCCAAACT-TCCAAAAATTCCATTTTTGACCCCAAAACTTT-
1 CTAAAAATTACCA-TTTCACCCCCAAA-TGTCCAAAAATTCCATTTTTGATCTC--AATTTTC
* * *
108543 C-AAAAATTACCATTTCATCCTCAAATGTCCAAAAATTCCATTTTTGATCTCGATTTTC
1 CTAAAAATTACCATTTCACCCCCAAATGTCCAAAAATTCCATTTTTGATCTCAATTTTC
* * ** * *
108601 CTAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTCTATTTTTTATCTCAATTTT
1 CTAAAAATTACCATTTCACCCCCAAATGTCCAAAAATTCCATTTTTGATCTCAATTTT
108659 TTAAAAGTTA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
57 4 0.04
58 2 0.02
59 86 0.91
60 3 0.03
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (59 bp):
CTAAAAATTACCATTTCACCCCCAAATGTCCAAAAATTCCATTTTTGATCTCAATTTTC
Found at i:108703 original size:58 final size:58
Alignment explanation
Indices: 108544--108703 Score: 144
Period size: 59 Copynumber: 2.7 Consensus size: 58
108534 CAAAACTTTC
* * * ** * *
108544 AAAAATTACCATTTCATCCTCAAATGTCCAAAAATTCCATTTTTGATCTCGATTTTCCT
1 AAAAATTATCATTTCACCCCCGGATGTCAAAAAATT-CATTTTTGATCTCAATTTTCCT
* * * *
108603 AAAAATTATCATTTTACCCCCGGATGTCCAAAAATTCTATTTTTTATCTCAATTTT-TT
1 AAAAATTATCATTTCACCCCCGGATGTCAAAAAATTC-ATTTTTGATCTCAATTTTCCT
* * *
108661 AAAAGTTATCGTTTCACCCTC-GAGTGTCTAAAAAATTCATTTT
1 AAAAATTATCATTTCACCCCCGGA-TGTC-AAAAAATTCATTTT
108704 AACCCTGAAC
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
57 2 0.02
58 28 0.33
59 54 0.64
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (58 bp):
AAAAATTATCATTTCACCCCCGGATGTCAAAAAATTCATTTTTGATCTCAATTTTCCT
Found at i:111607 original size:21 final size:21
Alignment explanation
Indices: 111570--111611 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
111560 ACAAAACATG
*
111570 TTTATCTAATCACTAACTTCA
1 TTTATCTAATCAATAACTTCA
111591 TTTATCTAA-CAAATAACTTCA
1 TTTATCTAATC-AATAACTTCA
111612 CAAACACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTATCTAATCAATAACTTCA
Found at i:127966 original size:27 final size:27
Alignment explanation
Indices: 127936--128017 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
127926 TGACGTGGTA
127936 ATATTTTGTTTTATATGCCACGTCAGC
1 ATATTTTGTTTTATATGCCACGTCAGC
** * * *
127963 ATATAATTAATTTT-T-TGCTGACAT-GGC
1 ATAT--TTTGTTTTATATGC-CACGTCAGC
*
127990 ATATTTTGTCTTATATGCCACGTCAGC
1 ATATTTTGTTTTATATGCCACGTCAGC
128017 A
1 A
128018 GTTGCATGCG
Statistics
Matches: 38, Mismatches: 11, Indels: 12
0.62 0.18 0.20
Matches are distributed among these distances:
25 5 0.13
26 4 0.11
27 19 0.50
28 4 0.11
29 6 0.16
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (27 bp):
ATATTTTGTTTTATATGCCACGTCAGC
Found at i:128792 original size:15 final size:14
Alignment explanation
Indices: 128766--128796 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
128756 AGAAATCTAT
128766 AATATTAAATATTA
1 AATATTAAATATTA
128780 AATATTAAAATATTA
1 AATATT-AAATATTA
128795 AA
1 AA
128797 AAAACCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATTAAATATTA
Found at i:128797 original size:8 final size:7
Alignment explanation
Indices: 128766--128796 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
128756 AGAAATCTAT
128766 AATATTA
1 AATATTA
128773 AATATTA
1 AATATTA
128780 AATATTAA
1 AATATT-A
128788 AATATTA
1 AATATTA
128795 AA
1 AA
128797 AAAACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATATTA
Found at i:130606 original size:14 final size:13
Alignment explanation
Indices: 130584--130649 Score: 60
Period size: 14 Copynumber: 4.8 Consensus size: 13
130574 GGATTTAGGG
*
130584 TTTAAGGTTTCTAA
1 TTTAGGGTTT-TAA
130598 TTTAGGGTTTTGAA
1 TTTAGGGTTTT-AA
*
130612 TTTAGGGTCTTTGA
1 TTTAGGGT-TTTAA
* *
130626 TTTAAGGTTTTTGA
1 TTT-AGGGTTTTAA
130640 TTTAGGGTTT
1 TTTAGGGTTT
130650 CAAGTTTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
13 7 0.16
14 31 0.69
15 7 0.16
ACGTcount: A:0.20, C:0.03, G:0.24, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTTAA
Found at i:130668 original size:7 final size:7
Alignment explanation
Indices: 130652--130781 Score: 92
Period size: 7 Copynumber: 18.7 Consensus size: 7
130642 TAGGGTTTCA
130652 AGTTTTG
1 AGTTTTG
130659 -GTTTTG
1 AGTTTTG
*
130665 GGTTTTG
1 AGTTTTG
*
130672 GGTTTTG
1 AGTTTTG
130679 AGTTTTG
1 AGTTTTG
130686 AGTTTTG
1 AGTTTTG
*
130693 AG-TTTC
1 AGTTTTG
*
130699 A-TGTTTA
1 AGT-TTTG
130706 AGGTTTTG
1 A-GTTTTG
*
130714 TA-TTTAG
1 -AGTTTTG
*
130721 GGTTTTG
1 AGTTTTG
*
130728 CA--TTTA
1 -AGTTTTG
130734 AGGTTTTG
1 A-GTTTTG
130742 AGTTTTG
1 AGTTTTG
*
130749 AGTTTTT
1 AGTTTTG
130756 AGTTTTG
1 AGTTTTG
*
130763 ATTTTTG
1 AGTTTTG
130770 AGTTTTG
1 AGTTTTG
130777 AGTTT
1 AGTTT
130782 AAAGTTTAAG
Statistics
Matches: 98, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
5 1 0.01
6 13 0.13
7 75 0.77
8 7 0.07
9 2 0.02
ACGTcount: A:0.14, C:0.02, G:0.27, T:0.58
Consensus pattern (7 bp):
AGTTTTG
Found at i:130787 original size:14 final size:14
Alignment explanation
Indices: 130736--130788 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
130726 TGCATTTAAG
*
130736 GTTTTGAGTTTTGA
1 GTTTTAAGTTTTGA
*
130750 GTTTTTAGTTTTGA
1 GTTTTAAGTTTTGA
* *
130764 TTTTTGAGTTTTGA
1 GTTTTAAGTTTTGA
*
130778 GTTTAAAGTTT
1 GTTTTAAGTTT
130789 AAGGTTTCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (14 bp):
GTTTTAAGTTTTGA
Found at i:130961 original size:7 final size:7
Alignment explanation
Indices: 130949--131058 Score: 55
Period size: 7 Copynumber: 14.4 Consensus size: 7
130939 TAAAGTAATG
130949 TAAGGTT
1 TAAGGTT
130956 TAAGGTT
1 TAAGGTT
*
130963 T-AGAGTAA
1 TAAG-GT-T
130971 TATAGAGTT
1 TA-AG-GTT
130980 TAAGGTT
1 TAAGGTT
130987 TAAGGTT
1 TAAGGTT
*
130994 T-AGAGTAA
1 TAAG-GT-T
131002 TATAGAGTT
1 TA-AG-GTT
131011 TAAGGTT
1 TAAGGTT
131018 T-AGTGTT
1 TAAG-GTT
*
131025 TATAGTGATA
1 TA-AG-G-TT
*
131035 TAAGATT
1 TAAGGTT
131042 TAAGGTT
1 TAAGGTT
131049 TAAGGTT
1 TAAGGTT
131056 TAA
1 TAA
131059 AGTATATAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
6 6 0.07
7 48 0.58
8 6 0.07
9 10 0.12
10 13 0.16
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.41
Consensus pattern (7 bp):
TAAGGTT
Found at i:130962 original size:24 final size:24
Alignment explanation
Indices: 130922--130989 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
130912 GTGATAAAAG
* *
130922 ATATAGAGTCTAGGGTTTAAAGTA
1 ATATAGAGTTTAAGGTTTAAAGTA
* *
130946 ATGTA-AGGTTTAAGGTTTAGAGTA
1 ATATAGA-GTTTAAGGTTTAAAGTA
130970 ATATAGAGTTTAAGGTTTAA
1 ATATAGAGTTTAAGGTTTAA
130990 GGTTTAGAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (24 bp):
ATATAGAGTTTAAGGTTTAAAGTA
Found at i:130987 original size:31 final size:31
Alignment explanation
Indices: 130949--131093 Score: 172
Period size: 31 Copynumber: 4.7 Consensus size: 31
130939 TAAAGTAATG
130949 TAAGGTTTAAGGTTTAGAGTAATATAGAGTT
1 TAAGGTTTAAGGTTTAGAGTAATATAGAGTT
130980 TAAGGTTTAAGGTTTAGAGTAATATAGAGTT
1 TAAGGTTTAAGGTTTAGAGTAATATAGAGTT
* *
131011 TAAGGTTT-AGTGTTTATAGTGATATA-AGATT
1 TAAGGTTTAAG-GTTTAGAGTAATATAGAG-TT
* * *
131042 TAAGGTTTAAGGTTTAAAGT-ATATAAAATT
1 TAAGGTTTAAGGTTTAGAGTAATATAGAGTT
* *
131072 T-AGGATTTAAGATTTAGGGTAA
1 TAAGG-TTTAAGGTTTAGAGTAA
131094 CAAAAGATTT
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.03
30 24 0.24
31 72 0.71
32 2 0.02
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (31 bp):
TAAGGTTTAAGGTTTAGAGTAATATAGAGTT
Found at i:131015 original size:62 final size:61
Alignment explanation
Indices: 130949--131111 Score: 179
Period size: 62 Copynumber: 2.7 Consensus size: 61
130939 TAAAGTAATG
* * *
130949 TAAGGTTTAAGGTTTAGAGTAATAT-AGAGTTTAAGGTTTAAGGTTTAGAGTAATATAGAGTT
1 TAAGGTTTAAGGTTTAGAGTAATATAAGA-TTTAAGGTTTAAGGTTTAAAGT-ATATAAAATT
* *
131011 TAAGGTTT-AGTGTTTATAGTGATATAAGATTTAAGGTTTAAGGTTTAAAGTATATAAAATT
1 TAAGGTTTAAG-GTTTAGAGTAATATAAGATTTAAGGTTTAAGGTTTAAAGTATATAAAATT
* * * * *
131072 T-AGGATTTAAGATTTAGGGTAACAAAAGATTTAGGGTTTA
1 TAAGG-TTTAAGGTTTAGAGTAATATAAGATTTAAGGTTTA
131112 GCCATTTTGT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
60 3 0.04
61 36 0.42
62 43 0.51
63 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.23, T:0.39
Consensus pattern (61 bp):
TAAGGTTTAAGGTTTAGAGTAATATAAGATTTAAGGTTTAAGGTTTAAAGTATATAAAATT
Found at i:133371 original size:2 final size:2
Alignment explanation
Indices: 133364--133397 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
133354 TTCAAACTAA
133364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133398 GTAAGTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139158 original size:22 final size:23
Alignment explanation
Indices: 139109--139185 Score: 120
Period size: 23 Copynumber: 3.4 Consensus size: 23
139099 TCCATTTACA
*
139109 CATAAGTCACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
139132 CATAAATCACATTAATA-TTAAG
1 CATAAATCACATTAATATTTAAG
* *
139154 TATAAATTACATTAATATTTAAG
1 CATAAATCACATTAATATTTAAG
139177 CATAAATCA
1 CATAAATCA
139186 TATTTTATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 20 0.42
23 28 0.58
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (23 bp):
CATAAATCACATTAATATTTAAG
Found at i:146770 original size:31 final size:31
Alignment explanation
Indices: 146713--146787 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
146703 TTAATATAAC
* * * * **
146713 ATTTGATACCTGAACTTGATATTTTTTTTTA
1 ATTTGATACCTAAACTTAACAATTTTTCCTA
146744 ATTTGATACCTAAACTTAACAATTTTTCCTA
1 ATTTGATACCTAAACTTAACAATTTTTCCTA
*
146775 ATTTGGTACCTAA
1 ATTTGATACCTAA
146788 GCTTTTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.47
Consensus pattern (31 bp):
ATTTGATACCTAAACTTAACAATTTTTCCTA
Found at i:147109 original size:33 final size:33
Alignment explanation
Indices: 147039--147114 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
147029 ATATCAACTT
*
147039 AAAAAAAGTGTCAAGTTTAGGTATCAAATTTAA
1 AAAAAAAGTGTCAAGTTTAGGTACCAAATTTAA
*
147072 AAAAAAA-TGTCAA-TTTTGAGTACCAAATTTGACA
1 AAAAAAAGTGTCAAGTTTAG-GTACCAAATTT-A-A
147106 AAAAAAAGT
1 AAAAAAAGT
147115 TTAGATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
31 4 0.11
32 16 0.43
33 8 0.22
34 8 0.22
35 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (33 bp):
AAAAAAAGTGTCAAGTTTAGGTACCAAATTTAA
Found at i:150602 original size:24 final size:24
Alignment explanation
Indices: 150576--150660 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
150566 GACTAATAAG
* * *
150576 AGTTTGATTCAAACAAATAAACAG
1 AGTTTAATTGAAACAAATAAACAA
150600 AGTTTAATTGAAACAAATAAACAA
1 AGTTTAATTGAAACAAATAAACAA
*
150624 AGTTTAATTGAAACAATTAAACAA
1 AGTTTAATTGAAACAAATAAACAA
*
150648 AGTTTAACTGAAA
1 AGTTTAATTGAAA
150661 AATTATTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (24 bp):
AGTTTAATTGAAACAAATAAACAA
Found at i:152623 original size:24 final size:24
Alignment explanation
Indices: 152586--152646 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
152576 GACTAATAAG
* * *
152586 AGTTTGACTCAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAA
* * *
152610 AGTTTAATTGAAACAATTAAATAA
1 AGTTTAACTGAAACAAATAAACAA
152634 AGTTTAACTGAAA
1 AGTTTAACTGAAA
152647 GATTATTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAA
Found at i:154510 original size:46 final size:44
Alignment explanation
Indices: 154447--154542 Score: 115
Period size: 44 Copynumber: 2.1 Consensus size: 44
154437 AATAGGACTG
*
154447 TAATAAAATAGGACTGTAATTAGTAATTCAGT-TGTTTGGTTGAATA
1 TAATGAAATAGGACTGTAA-TAGT-ATTC-GTGTGTTTGGTTGAATA
*
154493 TAATGAAATA-GAGCTGTAATAGTATTCTTGTGTTTGGTTGAATA
1 TAATGAAATAGGA-CTGTAATAGTATTCGTGTGTTTGGTTGAATA
*
154537 GAATGA
1 TAATGA
154543 TGCTGTAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 6 0.13
46 15 0.33
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (44 bp):
TAATGAAATAGGACTGTAATAGTATTCGTGTGTTTGGTTGAATA
Found at i:154849 original size:6 final size:6
Alignment explanation
Indices: 154840--154886 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
154830 TTAAATTTGT
* *
154840 TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTT-AT TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
154887 ATTATTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 9 0.26
6 21 0.62
7 4 0.12
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Done.