Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 366 of 425
Found at i:112758362 original size:22 final size:22
Alignment explanation
Indices: 112758337--112758379 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
112758327 TTCAAAAATA
112758337 AATTTTTACAAT-TTTATCATTC
1 AATTTTTACAATATTT-TCATTC
*
112758359 AATTTTTAGAATATTTTCATT
1 AATTTTTACAATATTTTCATT
112758380 TTAATCACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTTTACAATATTTTCATTC
Found at i:112770024 original size:67 final size:67
Alignment explanation
Indices: 112769889--112770020 Score: 201
Period size: 67 Copynumber: 1.9 Consensus size: 67
112769879 AACATCCTCC
*
112769889 GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATTTAAAAAGGAAAAGAG
1 GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATATAAAAAGGAAAAGAG
112769954 GG
66 GG
* * * *
112769956 GAACCACAAATATTTAGTTCTTGTATTAATATAAAATTGATATGTGTATATATATAAAGGAAAAG
1 GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATA--TATATATATAAAAAGGAAAAG
112770021 GGGATGTTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 40 0.69
69 18 0.31
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (67 bp):
GAACCACAAATATTTAGCTCTTGTATTAAAATAAAATTGATATATATATATAAAAAGGAAAAGAG
GG
Found at i:112776988 original size:4 final size:4
Alignment explanation
Indices: 112776979--112777269 Score: 119
Period size: 4 Copynumber: 67.2 Consensus size: 4
112776969 CTTTACTGTT
* * ** *
112776979 TATG TATG TATG TATG TATG TTATG TTTT TAAA T-TG TTATG TATAT TATG
1 TATG TATG TATG TATG TATG -TATG TATG TATG TATG -TATG TAT-G TATG
* * * * *
112777029 TATG TAATG TACTG TTATG CATG TATG TTATA TTTG TATA TTTG TATG
1 TATG T-ATG TA-TG -TATG TATG TATG -TATG TATG TATG TATG TATG
* *
112777077 TATG TTATG TTATG TTATG TATTG TTATG TATAT TATG TATG TTTG TTATG
1 TATG -TATG -TATG -TATG TA-TG -TATG TAT-G TATG TATG TATG -TATG
* * *
112777128 TGT- TATAT TACTG TTATG TTTG TAAAT- TATG TATG TCATG T-T- TAATG
1 TATG TAT-G TA-TG -TATG TATG T--ATG TATG TATG T-ATG TATG T-ATG
* *
112777175 TATG TA-- TACTA TATGG TATAT TACTG TTATGCG TATG TATG TATG TATG
1 TATG TATG TA-TG TAT-G TAT-G TA-TG -TAT--G TATG TATG TATG TATG
112777224 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TTATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG -TATG T
112777270 GTAGCACTGT
Statistics
Matches: 222, Mismatches: 32, Indels: 66
0.69 0.10 0.21
Matches are distributed among these distances:
2 3 0.01
3 5 0.02
4 133 0.60
5 66 0.30
6 14 0.06
7 1 0.00
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:112777029 original size:9 final size:9
Alignment explanation
Indices: 112777013--112777269 Score: 127
Period size: 9 Copynumber: 28.9 Consensus size: 9
112777003 GTTTTTAAAT
112777013 TGTTATGTA
1 TGTTATGTA
*
112777022 TATTATGTA
1 TGTTATGTA
*
112777031 TGTAATGTA
1 TGTTATGTA
*
112777040 CTGTTATGCA
1 -TGTTATGTA
112777050 TG-TATGTTA
1 TGTTATG-TA
*
112777059 TATT-TGTATA
1 TGTTATG--TA
*
112777069 TTTGTATGTA
1 TGT-TATGTA
112777079 TGTTATGTTA
1 TGTTATG-TA
112777089 TGTTATGTA
1 TGTTATGTA
112777098 TTGTTATGTA
1 -TGTTATGTA
*
112777108 TATTATGTA
1 TGTTATGTA
112777117 TGTT-TGTTA
1 TGTTATG-TA
*
112777126 TG-TGT-TA
1 TGTTATGTA
*
112777133 TATTACTGTTA
1 TGTTA-TG-TA
112777144 TGTT-TGTA
1 TGTTATGTA
**
112777152 AATTATGTA
1 TGTTATGTA
*
112777161 TGTCATGT-
1 TGTTATGTA
*
112777169 T-TAATGTA
1 TGTTATGTA
*
112777177 TGTATACTATA
1 TGT-TA-TGTA
112777188 TGGTATAT-TA
1 T-GT-TATGTA
112777198 CTGTTATG--
1 -TGTTATGTA
*
112777206 CG-TATGTA
1 TGTTATGTA
112777214 TG-TATGTA
1 TGTTATGTA
112777222 TG-TATGTA
1 TGTTATGTA
112777230 TG-TATGTA
1 TGTTATGTA
112777238 TG-TATGTA
1 TGTTATGTA
112777246 TG-TATGTA
1 TGTTATGTA
112777254 TG-TATGTA
1 TGTTATGTA
112777262 TGTTATGT
1 TGTTATGT
112777270 GTAGCACTGT
Statistics
Matches: 198, Mismatches: 25, Indels: 50
0.73 0.09 0.18
Matches are distributed among these distances:
6 4 0.02
7 9 0.05
8 63 0.32
9 64 0.32
10 39 0.20
11 12 0.06
12 7 0.04
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.53
Consensus pattern (9 bp):
TGTTATGTA
Found at i:112777077 original size:57 final size:57
Alignment explanation
Indices: 112776980--112777105 Score: 150
Period size: 57 Copynumber: 2.2 Consensus size: 57
112776970 TTTACTGTTT
* * *
112776980 ATGTATG-TATGTATGTATGTTATGTTTTTAAATTGTTATGTATATTATG-TATGTA
1 ATGTATGTTATGCATGTATGTTATATTTGTAAATTGTTATGTATATTATGTTATGTA
* * *
112777035 ATGTACTGTTATGCATGTATGTTATATTTGTATATT-TGTATGTATGTTATGTTATGTT
1 ATGTA-TGTTATGCATGTATGTTATATTTGTAAATTGT-TATGTATATTATGTTATGTA
112777093 ATGTATTGTTATG
1 ATGTA-TGTTATG
112777106 TATATTATGT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
55 5 0.08
56 3 0.05
57 35 0.58
58 17 0.28
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.55
Consensus pattern (57 bp):
ATGTATGTTATGCATGTATGTTATATTTGTAAATTGTTATGTATATTATGTTATGTA
Found at i:112777133 original size:44 final size:42
Alignment explanation
Indices: 112776983--112777269 Score: 168
Period size: 44 Copynumber: 6.9 Consensus size: 42
112776973 ACTGTTTATG
*
112776983 TATGTATGTATG-TATGTTATGTT-TTTAAATTGTTATGTATAT
1 TATGTATGTATGTTATGTTATGTTATGT--ATTGTTATGTATAT
*
112777025 TATGTATGTAATG-TACTGTTATG-CATGTA-TGTTATATTTGTATAT
1 TATGTATGT-ATGTTA-TGTTATGTTATGTATTG-T-TA--TGTATAT
112777070 T-TGTATGTATGTTATGTTATGTTATGTATTGTTATGTATAT
1 TATGTATGTATGTTATGTTATGTTATGTATTGTTATGTATAT
* * *
112777111 TATGTATGTTTGTTATGTGTTATATTACTGT-TATGTT-TGTAAAT
1 TATGTATGTATGTTA--TGTTATGTTA-TGTAT-TGTTATGTATAT
* **
112777155 TATGTATGTCATG-T-T-TAATG-TATGTATACTATATGGTATAT
1 TATGTATGT-ATGTTATGTTATGTTATGTATTGT-TAT-GTATAT
*
112777196 TACTGTTATGCGTATG-TATG-TATG-TATGTA-TG-TATGTAT-G
1 TA-TG-TAT--GTATGTTATGTTATGTTATGTATTGTTATGTATAT
112777236 TATGTATGTATG-TATG-TATG-TATGTA-TGTTATGT
1 TATGTATGTATGTTATGTTATGTTATGTATTGTTATGT
112777270 GTAGCACTGT
Statistics
Matches: 202, Mismatches: 16, Indels: 59
0.73 0.06 0.21
Matches are distributed among these distances:
36 21 0.10
37 5 0.02
38 7 0.03
39 6 0.03
40 6 0.03
41 22 0.11
42 28 0.14
43 22 0.11
44 54 0.27
45 31 0.15
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (42 bp):
TATGTATGTATGTTATGTTATGTTATGTATTGTTATGTATAT
Found at i:112777161 original size:86 final size:86
Alignment explanation
Indices: 112776983--112777169 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 86
112776973 ACTGTTTATG
*
112776983 TATGTATGTATG-TATGTTATGTTTTTAAATTGTTATGTATATTATGTATGTAATGTACTGTTAT
1 TATGTATGTATGTTATGTTATGTTTGT-AATTGTTATGTATATTATGTATGTAATGTACTGTTAT
*
112777047 GCATGTATGTTATATTTGTATAT
65 -CATGTATGTTATATTTGTAAAT
* *
112777070 T-TGTATGTATGTTATGTTATGTTATGT-ATTGTTATGTATATTATGTATGT-TTGTTATGTGTT
1 TATGTATGTATGTTATGTTATGTT-TGTAATTGTTATGTATATTATGTATGTAATG-TA-CTGTT
*
112777132 AT-AT-TACTGTTATGTTTGTAAAT
63 ATCATGTA-TGTTATATTTGTAAAT
112777155 TATGTATGTCATGTT
1 TATGTATGT-ATGTT
112777170 TAATGTATGT
Statistics
Matches: 88, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
84 2 0.02
85 19 0.22
86 42 0.48
87 23 0.26
88 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.56
Consensus pattern (86 bp):
TATGTATGTATGTTATGTTATGTTTGTAATTGTTATGTATATTATGTATGTAATGTACTGTTATC
ATGTATGTTATATTTGTAAAT
Found at i:112777647 original size:25 final size:27
Alignment explanation
Indices: 112777613--112777673 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 27
112777603 GGCGCGACTC
*
112777613 TTTT-TTTTTTATATTAAAATA-T-TTT
1 TTTTATTTTTTA-AATAAAATATTATTT
112777638 TTTTATTTTTTAAATAAAATATTATTT
1 TTTTATTTTTTAAATAAAATATTATTT
112777665 TTTTATTTT
1 TTTTATTTT
112777674 CAGATTAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 12 0.38
26 8 0.25
27 12 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTATTTTTTAAATAAAATATTATTT
Found at i:112781035 original size:16 final size:18
Alignment explanation
Indices: 112781014--112781048 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
112781004 AGTTGACTAT
112781014 TTAAATTGA-AAA-AAAA
1 TTAAATTGATAAATAAAA
112781030 TTAAATTGATAAATAAAA
1 TTAAATTGATAAATAAAA
112781048 T
1 T
112781049 GCCAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TTAAATTGATAAATAAAA
Found at i:112781342 original size:33 final size:31
Alignment explanation
Indices: 112781268--112781380 Score: 109
Period size: 33 Copynumber: 3.5 Consensus size: 31
112781258 CTTGAGTCAA
* *
112781268 GAGGAGTGGAGTACGGCGATTGATACGGGTCAG
1 GAGGAGTGGAGTACGGCG-TGGATACGGG-CCG
* * *
112781301 GAGAAGTGGAGTACGGCAGTGGAGACGGACCGG
1 GAGGAGTGGAGTACGGC-GTGGATACGGGCC-G
*
112781334 GAGGAGTGGAGTATGGCGGTGGATACGGGCCG
1 GAGGAGTGGAGTACGGC-GTGGATACGGGCCG
*
112781366 GATGGAGTGAAGTAC
1 GA-GGAGTGGAGTAC
112781381 TGAGATAGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
32 4 0.06
33 60 0.92
34 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.48, T:0.15
Consensus pattern (31 bp):
GAGGAGTGGAGTACGGCGTGGATACGGGCCG
Found at i:112783763 original size:60 final size:60
Alignment explanation
Indices: 112783679--112783797 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
112783669 ATACTAAACT
* * * *
112783679 AAACATAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
112783739 AAACACAAAAATTTTTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
112783798 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:112784007 original size:25 final size:24
Alignment explanation
Indices: 112783962--112784022 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
112783952 TTACCTTTTT
*
112783962 TCTTTCTTTCTT-C-TTCTTCTTC
1 TCTTTCTCTCTTCCTTTCTTCTTC
* * *
112783984 TCTTTTTCTTTTCCTTTCTCTCTTT
1 TCTTTCTCTCTTCCTTTCT-TCTTC
112784009 TCTTTCTCTCTTCC
1 TCTTTCTCTCTTCC
112784023 GGTGGTTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 9 0.30
23 1 0.03
24 4 0.13
25 16 0.53
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTCTCTCTTCCTTTCTTCTTC
Found at i:112784015 original size:13 final size:12
Alignment explanation
Indices: 112783959--112784020 Score: 58
Period size: 11 Copynumber: 5.2 Consensus size: 12
112783949 ACATTACCTT
112783959 TTTTCTTTCTT-
1 TTTTCTTTCTTC
*
112783970 TCTTC-TTCTTC
1 TTTTCTTTCTTC
*
112783981 TTCTCTTT-TTC
1 TTTTCTTTCTTC
112783992 TTTTCCTTTCTCTC
1 TTTT-CTTTCT-TC
112784006 TTTTCTTTCTCTC
1 TTTTCTTTCT-TC
112784019 TT
1 TT
112784021 CCGGTGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
10 5 0.12
11 13 0.31
12 6 0.14
13 12 0.29
14 6 0.14
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTCTTTCTTC
Found at i:112790050 original size:27 final size:27
Alignment explanation
Indices: 112790012--112790170 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
112790002 GCGAGACTGC
* *
112790012 CAGATATTGTGGCAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
112790039 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
112790065 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
112790092 CAGATAATCGTGGCATAACCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
112790119 CAGATATATGTAGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
112790146 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
112790171 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
26 10 0.09
27 98 0.88
28 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:112790105 original size:54 final size:54
Alignment explanation
Indices: 112790012--112790170 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
112790002 GCGAGACTGC
* * *
112790012 CAGATAT-TGTGGCAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
112790065 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAACCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
* *
112790119 CAGATATATGTAGCAGAGCCATCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
112790171 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.13
54 83 0.87
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:112791811 original size:26 final size:26
Alignment explanation
Indices: 112791780--112791861 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
112791770 TGAAATGCCC
*
112791780 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
112791806 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
112791832 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
112791858 ATCA
1 ATCA
112791862 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:112792462 original size:15 final size:15
Alignment explanation
Indices: 112792442--112792471 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
112792432 CATTTTATTT
*
112792442 ATATTAGGATAATTA
1 ATATTAAGATAATTA
112792457 ATATTAAGATAATTA
1 ATATTAAGATAATTA
112792472 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:112802294 original size:30 final size:30
Alignment explanation
Indices: 112802237--112802294 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
112802227 CACGGCCATG
* *
112802237 ACACATGGGAGTGTGGTCTACCTGTGTGTC
1 ACACACGGGAGTGTGGTCTACCCGTGTGTC
*
112802267 ACACACGGGTGTGTGGATC-ACCCGTGTG
1 ACACACGGGAGTGTGG-TCTACCCGTGTG
112802295 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.26
Consensus pattern (30 bp):
ACACACGGGAGTGTGGTCTACCCGTGTGTC
Found at i:112806126 original size:13 final size:13
Alignment explanation
Indices: 112806108--112806133 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112806098 ATTTTACGCC
112806108 AAATTTACCACCA
1 AAATTTACCACCA
112806121 AAATTTACCACCA
1 AAATTTACCACCA
112806134 CCCATATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATTTACCACCA
Found at i:112807059 original size:20 final size:19
Alignment explanation
Indices: 112807030--112807068 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
112807020 ATATTCTTTG
112807030 AAAATTTCAATTATGTAAT
1 AAAATTTCAATTATGTAAT
112807049 AAAAGTTTCAATTATGTAAT
1 AAAA-TTTCAATTATGTAAT
112807069 GATGTAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
AAAATTTCAATTATGTAAT
Found at i:112807214 original size:18 final size:18
Alignment explanation
Indices: 112807191--112807230 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
112807181 ATCAAAACTT
112807191 GTTTCTCCAAATTCTTAA
1 GTTTCTCCAAATTCTTAA
*
112807209 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTCTTAA
112807227 GTTT
1 GTTT
112807231 TTAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.50
Consensus pattern (18 bp):
GTTTCTCCAAATTCTTAA
Found at i:112816213 original size:18 final size:18
Alignment explanation
Indices: 112816179--112816214 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
112816169 ATTTTTAATA
* *
112816179 ATTTTATAGAGTTTATAT
1 ATTTTATAGACTGTATAT
112816197 ATTTTATAGACTGTATAT
1 ATTTTATAGACTGTATAT
112816215 TTTCAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTTATAGACTGTATAT
Found at i:112816328 original size:29 final size:26
Alignment explanation
Indices: 112816289--112816342 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
112816279 TATTTCTATA
112816289 ATTTTAAATTTTTTAATATATATTTTTAG
1 ATTTTAAATTTTTT--TATA-ATTTTTAG
*
112816318 ATTTTAGATTTTTTTATAATTTTTA
1 ATTTTAAATTTTTTTATAATTTTTA
112816343 AAATTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 4 0.17
29 13 0.54
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
ATTTTAAATTTTTTTATAATTTTTAG
Found at i:112817326 original size:27 final size:27
Alignment explanation
Indices: 112817288--112817362 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
112817278 GAGTATGGTG
*
112817288 CCTATCTGATAGGTGGCACCAATGACC
1 CCTATCTGATAGGCGGCACCAATGACC
* * ***
112817315 CCTATCTAATAGGCAGCACTGGTGACC
1 CCTATCTGATAGGCGGCACCAATGACC
112817342 CCTATCTGATAGGCGGCACCA
1 CCTATCTGATAGGCGGCACCA
112817363 GTATCATTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACCAATGACC
Found at i:112818659 original size:97 final size:97
Alignment explanation
Indices: 112818493--112818687 Score: 390
Period size: 97 Copynumber: 2.0 Consensus size: 97
112818483 GGTGTTAATT
112818493 AGAAAGAGATTTCAGTTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGATAGATAATAATAT
1 AGAAAGAGATTTCAGTTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGATAGATAATAATAT
112818558 AACTTAAAGATTTCTACGGATCAAGTCAAATG
66 AACTTAAAGATTTCTACGGATCAAGTCAAATG
112818590 AGAAAGAGATTTCAGTTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGATAGATAATAATAT
1 AGAAAGAGATTTCAGTTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGATAGATAATAATAT
112818655 AACTTAAAGATTTCTACGGATCAAGTCAAATG
66 AACTTAAAGATTTCTACGGATCAAGTCAAATG
112818687 A
1 A
112818688 ATAAATCGTC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (97 bp):
AGAAAGAGATTTCAGTTATTCAACCTAGGGTTAGACGTTATTAGTCTCGAGATAGATAATAATAT
AACTTAAAGATTTCTACGGATCAAGTCAAATG
Found at i:112822116 original size:3 final size:3
Alignment explanation
Indices: 112822108--112822133 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
112822098 AGATATTTAC
112822108 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
112822134 TACAAATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:112829663 original size:3 final size:3
Alignment explanation
Indices: 112829655--112829722 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
112829645 AGATATTTAC
*
112829655 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112829703 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
112829723 TACAAATGGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:112829871 original size:16 final size:16
Alignment explanation
Indices: 112829847--112829877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112829837 TAAGTAAATA
*
112829847 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
112829863 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
112829878 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:112831936 original size:20 final size:20
Alignment explanation
Indices: 112831895--112831943 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
112831885 ACGAACAGGA
**
112831895 CACACGGGCATGTTCCCGGC
1 CACACGGGCATGTTCCAAGC
112831915 CACACGGGCATG-TCTCAAGC
1 CACACGGGCATGTTC-CAAGC
*
112831935 CATACGGGC
1 CACACGGGC
112831944 GTGTGCCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.20, C:0.37, G:0.29, T:0.14
Consensus pattern (20 bp):
CACACGGGCATGTTCCAAGC
Found at i:112836589 original size:13 final size:13
Alignment explanation
Indices: 112836571--112836597 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112836561 TCAGTAATCG
112836571 CACACGGGCGTGT
1 CACACGGGCGTGT
112836584 CACACGGGCGTGT
1 CACACGGGCGTGT
112836597 C
1 C
112836598 CCTGCCGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:112841262 original size:65 final size:62
Alignment explanation
Indices: 112841101--112841265 Score: 183
Period size: 62 Copynumber: 2.6 Consensus size: 62
112841091 CAATGTTACT
** *
112841101 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATTTAATTTATATAACAA
1 AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAATTTATATAACAA
** * *
112841163 AATTTATATTACAAAGTATGTTCCAAGTTTTAATGTTGTAATGT-TGTAATGTTGCA-ATTAATC
1 AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAAT-TT--ATA-TAA-C
*
112841226 -T
61 AA
112841227 AATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTG
1 AATTTAT-ACCACAAAGTTTGTTCCAAGTTTTAATGTTG
112841266 CAATTAATCT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
61 5 0.06
62 44 0.49
63 1 0.01
64 11 0.12
65 29 0.32
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (62 bp):
AATTTATACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAATATATGTAATTTATATAACAA
Found at i:112841749 original size:6 final size:6
Alignment explanation
Indices: 112841735--112841788 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
112841725 GTATGCGACC
* * * * *
112841735 GCTCGG GCTCAG GCTCGG GCTCGG GCTCAG GCTCGA GCTCTG GCTCTG
1 GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG GCTCGG
112841783 GCTCGG
1 GCTCGG
112841789 CCTCTATCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.06, C:0.33, G:0.41, T:0.20
Consensus pattern (6 bp):
GCTCGG
Found at i:112841758 original size:18 final size:18
Alignment explanation
Indices: 112841735--112841788 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
112841725 GTATGCGACC
112841735 GCTCGGGCTCAGGCTCGG
1 GCTCGGGCTCAGGCTCGG
*
112841753 GCTCGGGCTCAGGCTCGA
1 GCTCGGGCTCAGGCTCGG
* *
112841771 GCTCTGGCTCTGGCTCGG
1 GCTCGGGCTCAGGCTCGG
112841789 CCTCTATCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.06, C:0.33, G:0.41, T:0.20
Consensus pattern (18 bp):
GCTCGGGCTCAGGCTCGG
Found at i:112843659 original size:46 final size:46
Alignment explanation
Indices: 112843606--112843780 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
112843596 TATTTGGGCA
112843606 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
112843652 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
112843699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
112843745 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112843781 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 4 0.04
45 17 0.15
46 51 0.46
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:112843761 original size:93 final size:92
Alignment explanation
Indices: 112843602--112843772 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
112843592 GGGATATTTG
* *
112843602 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
112843667 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGT-CGAGTTCGTGAGATGTAACTA
*
112843695 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
112843760 TTGAGTCGAGTTC
66 TTGAGTCGAGTTC
112843773 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 7 0.09
93 68 0.91
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCGAGTTCGTGAGATGTAACTA
Found at i:112845221 original size:14 final size:14
Alignment explanation
Indices: 112845202--112845238 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
112845192 TAAATTACAT
*
112845202 GTTAGAGTAGTATC
1 GTTAGAATAGTATC
112845216 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
112845230 ATTAGAATA
1 GTTAGAATA
112845239 AAATGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:112847201 original size:18 final size:18
Alignment explanation
Indices: 112847178--112847215 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
112847168 TATGATTTTT
*
112847178 TTAAACACCAAATCT-TCC
1 TTAAACAAC-AATCTCTCC
112847196 TTAAACAACAATCTCTCC
1 TTAAACAACAATCTCTCC
112847214 TT
1 TT
112847216 TCCTTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAACAACAATCTCTCC
Found at i:112847273 original size:19 final size:18
Alignment explanation
Indices: 112847240--112847278 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
112847230 TTTTTTTTCC
112847240 TTCTCTTTCTCCTTCCCT
1 TTCTCTTTCTCCTTCCCT
* *
112847258 TTCTCTATTCTGCTTCTCT
1 TTCTCT-TTCTCCTTCCCT
112847277 TT
1 TT
112847279 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.36, G:0.03, T:0.59
Consensus pattern (18 bp):
TTCTCTTTCTCCTTCCCT
Found at i:112850278 original size:93 final size:93
Alignment explanation
Indices: 112850166--112850337 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
112850156 CGCCCATAAG
* *
112850166 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
112850231 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
112850259 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
112850324 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
112850338 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:112850334 original size:46 final size:46
Alignment explanation
Indices: 112850159--112850334 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
112850149 TGTAACCCGC
* * *
112850159 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
112850205 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
112850255 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
112850298 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
112850335 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:112852218 original size:2 final size:2
Alignment explanation
Indices: 112852211--112852247 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
112852201 TATGTTATGG
112852211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112852248 CTAATCTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112854008 original size:24 final size:25
Alignment explanation
Indices: 112853980--112854028 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
112853970 CTTTTTTTAT
*
112853980 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
112854004 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
112854029 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:112854021 original size:25 final size:23
Alignment explanation
Indices: 112853992--112854056 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
112853982 AATAAAAAAC
*
112853992 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
112854017 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
112854038 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
112854057 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:112854055 original size:19 final size:20
Alignment explanation
Indices: 112854018--112854056 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
112854008 TCAAATACAT
112854018 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
112854038 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
112854057 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:112854316 original size:15 final size:16
Alignment explanation
Indices: 112854296--112854327 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
112854286 ATATTAAAAT
112854296 CGGGCCGAG-CCGGGC
1 CGGGCCGAGCCCGGGC
112854311 CGGGCCGAGCCCGGGC
1 CGGGCCGAGCCCGGGC
112854327 C
1 C
112854328 AGAAAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.44, G:0.50, T:0.00
Consensus pattern (16 bp):
CGGGCCGAGCCCGGGC
Found at i:112856337 original size:5 final size:5
Alignment explanation
Indices: 112856329--112856369 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
112856319 AAAAAAATAG
112856329 AAAGA AAAGA AAAGA AAAGA AAAG- AAAGA AAAGA GAAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA A
112856370 GAACGCACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:112858785 original size:2 final size:2
Alignment explanation
Indices: 112858778--112858807 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
112858768 CTGAAATTGA
112858778 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
112858808 GTATTTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112865344 original size:25 final size:25
Alignment explanation
Indices: 112865243--112865387 Score: 92
Period size: 25 Copynumber: 5.9 Consensus size: 25
112865233 AGATCTTTGT
*
112865243 GAGCTTCCTGATTAATTGGCTCTCCA
1 GAGCTTCCTGATTAA-TGGCTCTTCA
*
112865269 GAGCTTCCCGA-T-ATGGCTCACTT--
1 GAGCTTCCTGATTAATGGCT--CTTCA
* * *
112865292 GAACTTTCTGA-TATATGGCT-ATCTA
1 GAGCTTCCTGATTA-ATGGCTCTTC-A
*
112865317 GAGCTTCCCGATTAATGGCTCTTCA
1 GAGCTTCCTGATTAATGGCTCTTCA
* * *
112865342 GAGCTACCTG-TTATTGGCTC-GCA
1 GAGCTTCCTGATTAATGGCTCTTCA
112865365 TGAGCTTCCTGATT-ATGGCTCTT
1 -GAGCTTCCTGATTAATGGCTCTT
112865388 ATGAGTTTCC
Statistics
Matches: 90, Mismatches: 17, Indels: 25
0.68 0.13 0.19
Matches are distributed among these distances:
22 1 0.01
23 16 0.18
24 25 0.28
25 34 0.38
26 14 0.16
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTTCA
Found at i:112865360 original size:74 final size:73
Alignment explanation
Indices: 112865243--112865384 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 73
112865233 AGATCTTTGT
* * * *
112865243 GAGCTTCCTGATTAATTGGCTCTCCAGAGCTTCCCGATATGGCTCACTTGAACTTTCTGATATAT
1 GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGAT-TAT
112865308 GGCTATCTA
65 GGCTATCTA
* * * * *
112865317 GAGCTTCCCGATTAA-TGGCTCTTCAGAGCTACCTGTTATTGGCTCGCATGAGCTTCCTGATTAT
1 GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATA-TGGCTCACATGAACTTCCTGATTAT
112865381 GGCT
65 GGCT
112865385 CTTATGAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 26 0.45
74 32 0.55
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGATTATG
GCTATCTA
Found at i:112865361 original size:24 final size:25
Alignment explanation
Indices: 112865317--112865392 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 25
112865307 TGGCTATCTA
* *
112865317 GAGCTTCCCGATTAATGGCTCTTCA-
1 GAGCTACCTGATT-ATGGCTCTTCAT
*
112865342 GAGCTACCTG-TTATTGGCTC-GCAT
1 GAGCTACCTGATTA-TGGCTCTTCAT
*
112865366 GAGCTTCCTGATTATGGCTCTT-AT
1 GAGCTACCTGATTATGGCTCTTCAT
112865390 GAG
1 GAG
112865393 TTTCCCGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
23 3 0.07
24 28 0.67
25 11 0.26
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (25 bp):
GAGCTACCTGATTATGGCTCTTCAT
Found at i:112865398 original size:73 final size:75
Alignment explanation
Indices: 112865242--112865399 Score: 180
Period size: 73 Copynumber: 2.1 Consensus size: 75
112865232 AAGATCTTTG
* * * *
112865242 TGAGCTTCCTGATTAATTGGCTCTCCAGAGCTTCCCGATATGGCTCACTTGAACTTTCTGATATA
1 TGAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGATATA
112865307 TGGCTATCTA
66 TGGCTATCTA
* * * * *
112865317 -GAGCTTCCCGATTAA-TGGCTCTTCAGAGCTACCTGTTATTGGCTCGCATGAGCTTCCTGAT-T
1 TGAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATA-TGGCTCACATGAACTTCCTGATAT
*
112865379 ATGGCTCT-TA
65 ATGGCTATCTA
*
112865389 TGAGTTTCCCG
1 TGAGCTTCCCG
112865400 TTATACAGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
72 2 0.03
73 36 0.51
74 32 0.46
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (75 bp):
TGAGCTTCCCGATTAATTGGCTCTCCAGAGCTACCCGATATGGCTCACATGAACTTCCTGATATA
TGGCTATCTA
Found at i:112865457 original size:25 final size:25
Alignment explanation
Indices: 112865269--112865460 Score: 103
Period size: 25 Copynumber: 7.8 Consensus size: 25
112865259 TGGCTCTCCA
*
112865269 GAGCTTCCCG--ATATGGCTCACTT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * *
112865292 GAACTTTCTGATATATGGCT-ATC-T
1 GAGCTTCCCGTTATATGGCTCA-CAT
*
112865316 AGAGCTTCCCGATTA-ATGGCTCTTCA-
1 -GAGCTTCCCG-TTATATGGCTC-ACAT
* * *
112865342 GAGCTACCTGTTAT-TGGCTCGCAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * **
112865366 GAGCTTCCTGAT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* ** *
112865390 GAGTTTCCCGTTATACAGCTCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * *
112865415 AAGCTTCCTGTTACATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
112865440 GAGCTTCCCATTATATGGCTC
1 GAGCTTCCCGTTATATGGCTC
112865461 GAGAGAGAGC
Statistics
Matches: 124, Mismatches: 33, Indels: 22
0.69 0.18 0.12
Matches are distributed among these distances:
23 10 0.08
24 38 0.31
25 73 0.59
26 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:112865488 original size:52 final size:50
Alignment explanation
Indices: 112865366--112865493 Score: 141
Period size: 50 Copynumber: 2.5 Consensus size: 50
112865356 TGGCTCGCAT
* * * * *
112865366 GAGCTTCCTGATTATGGCTCTTATGAGTTTCCCGTTATACAGCTCAGATA
1 GAGCTTCCTGTTTATGGCTCATATGAGCTTCCCATTATACAGCTCAGAGA
* * **
112865416 -AGCTTCCTGTTACATGGCTCACATGAGCTTCCCATTATATGGCTCGAGAGA
1 GAGCTTCCTGTT-TATGGCTCATATGAGCTTCCCATTATACAGCTC-AGAGA
112865467 GAGCTTCCTGTTTATGTGCTCATATGA
1 GAGCTTCCTGTTTATG-GCTCATATGA
112865494 ACATTACTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
49 10 0.16
50 26 0.41
51 7 0.11
52 20 0.32
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (50 bp):
GAGCTTCCTGTTTATGGCTCATATGAGCTTCCCATTATACAGCTCAGAGA
Found at i:112867881 original size:27 final size:27
Alignment explanation
Indices: 112867820--112867881 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
112867810 CCAACGTCAG
**
112867820 TCTCCACATCAATCACCACAAAGTTCG
1 TCTCCACATCAATCACCACAAAGTTAA
* *
112867847 TCTCCACATCAATCACCATAGAGTTAA
1 TCTCCACATCAATCACCACAAAGTTAA
*
112867874 TCTTCACA
1 TCTCCACA
112867882 AATTCAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.26
Consensus pattern (27 bp):
TCTCCACATCAATCACCACAAAGTTAA
Found at i:112872378 original size:30 final size:30
Alignment explanation
Indices: 112872342--112872426 Score: 136
Period size: 29 Copynumber: 2.8 Consensus size: 30
112872332 TTTTTATTTT
*
112872342 CCCCTAAAATTTTTGCTCCCTCCCACTTTC
1 CCCCTAAAATTTTTACTCCCTCCCACTTTC
112872372 CCCCTAAAA-TTTTACTCCCTCCCACTTTC
1 CCCCTAAAATTTTTACTCCCTCCCACTTTC
*
112872401 CCCCTAAAATTTTTACTTCCTTCCCA
1 CCCCTAAAATTTTTAC-TCCCTCCCA
112872427 TCCCACCTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
29 28 0.55
30 15 0.29
31 8 0.16
ACGTcount: A:0.20, C:0.42, G:0.01, T:0.36
Consensus pattern (30 bp):
CCCCTAAAATTTTTACTCCCTCCCACTTTC
Found at i:112876090 original size:2 final size:2
Alignment explanation
Indices: 112876083--112876115 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
112876073 AGGTAAACAT
*
112876083 AC AC AC AC AC AC AC AG AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
112876116 TATATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.45, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:112879885 original size:27 final size:27
Alignment explanation
Indices: 112879855--112879939 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
112879845 CCTGATTATT
*
112879855 TGAATTATGTTAGAATCCATGATTGAG
1 TGAATTATGTTAGAATCCATGATTGAA
* *
112879882 TGAATTA--TTAG-GTCCTTGATT-ATA
1 TGAATTATGTTAGAATCCATGATTGA-A
*
112879906 TGAATTATGTTAGAATCCATGATTGAC
1 TGAATTATGTTAGAATCCATGATTGAA
112879933 TGAATTA
1 TGAATTA
112879940 ATTCGGTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
23 1 0.02
24 15 0.32
25 4 0.09
26 4 0.09
27 22 0.47
28 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
TGAATTATGTTAGAATCCATGATTGAA
Found at i:112879893 original size:51 final size:51
Alignment explanation
Indices: 112879837--112879939 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
112879827 AAATTATACA
* *
112879837 ATTAGGTCCCTGATTATTTGAATTATGTTAGAATCCATGATTGAGTGAATT
1 ATTAGGTCCCTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
*
112879888 ATTAGGTCCTTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
1 ATTAGGTCCCTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
112879939 A
1 A
112879940 ATTCGGTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (51 bp):
ATTAGGTCCCTGATTATATGAATTATGTTAGAATCCATGATTGACTGAATT
Found at i:112879909 original size:24 final size:24
Alignment explanation
Indices: 112879837--112879913 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
112879827 AAATTATACA
* *
112879837 ATTAGGTCCCTGATTATTTGAATT
1 ATTAGGTCCATGATTATATGAATT
* *
112879861 ATGTTAGAATCCATGATTGA-GTGAATT
1 A--TTAG-GTCCATGATT-ATATGAATT
*
112879888 ATTAGGTCCTTGATTATATGAATT
1 ATTAGGTCCATGATTATATGAATT
112879912 AT
1 AT
112879914 GTTAGAATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 1 0.02
24 17 0.40
25 4 0.10
26 4 0.10
27 15 0.36
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (24 bp):
ATTAGGTCCATGATTATATGAATT
Found at i:112882090 original size:2 final size:2
Alignment explanation
Indices: 112882085--112882110 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112882075 GATATATATA
112882085 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
112882111 AAATTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:112891956 original size:29 final size:25
Alignment explanation
Indices: 112891895--112891959 Score: 67
Period size: 29 Copynumber: 2.4 Consensus size: 25
112891885 ACTCTCTTTA
*
112891895 TTTTATTTTAATTTATAATTTAATC
1 TTTTATTTTTATTTATAATTTAATC
*
112891920 TCTATATTTTTATTTATACAAATTTAATTC
1 T-TTTATTTTTATTTAT---AATTTAA-TC
112891950 TTTTATTTTT
1 TTTTATTTTT
112891960 TTTTTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 1 0.03
26 13 0.41
29 15 0.47
30 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTATTTTTATTTATAATTTAATC
Found at i:112892834 original size:20 final size:21
Alignment explanation
Indices: 112892800--112892846 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
112892790 TAAGAAATAC
112892800 CATAAAATTCTTAAAAATTTT
1 CATAAAATTCTTAAAAATTTT
* *
112892821 CATAATATTC-TAAAATTTTT
1 CATAAAATTCTTAAAAATTTT
112892841 C-TAAAA
1 CATAAAA
112892847 ACAATACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 4 0.17
20 10 0.43
21 9 0.39
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (21 bp):
CATAAAATTCTTAAAAATTTT
Found at i:112899827 original size:40 final size:38
Alignment explanation
Indices: 112899740--112899837 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 38
112899730 GTTTTCCTTA
*
112899740 TTGAAATACCATACCTACATTT-TTCAACTCGGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
* *
112899777 --GAAATGCCATACCTATATTTCTT-AACTCAGTATGG
1 TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
112899812 ATTTGATAATACCATACCTACATTTC
1 --TTGA-AATACCATACCTACATTTC
112899838 ACACTTTACC
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
35 29 0.58
36 2 0.04
39 2 0.04
40 17 0.34
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (38 bp):
TTGAAATACCATACCTACATTTCTTCAACTCAGTATGG
Found at i:112903407 original size:371 final size:371
Alignment explanation
Indices: 112902724--112903466 Score: 1450
Period size: 371 Copynumber: 2.0 Consensus size: 371
112902714 TTTTTCTATT
112902724 TTGATCGACTATTTAATGTTTTAACTTTTAAGTCTTTCCAATGTTTACATAGGCTGATAGTAAAA
1 TTGATCGACTATTTAATGTTTTAACTTTTAAGTCTTTCCAATGTTTACATAGGCTGATAGTAAAA
112902789 CTCAACGTTTCATTAATAGGAAACCTTAAACTTTACATTTTTTTTCTTTACATCATCTTCTTACT
66 CTCAACGTTTCATTAATAGGAAACCTTAAACTTTACATTTTTTTTCTTTACATCATCTTCTTACT
*
112902854 GTTGTTGACTCTTCATCTGCTACTTTTGAAAGCCAAAATTTTAGCCGCCTTCCGTCAGCCACTGT
131 GTCGTTGACTCTTCATCTGCTACTTTTGAAAGCCAAAATTTTAGCCGCCTTCCGTCAGCCACTGT
*
112902919 CTACTATTCCTGCATCTGTTATAAATTCATTTTTAAACACTCGTGTCGAGACCATGTCTAACCTC
196 CTACTATTCCTGCATCTATTATAAATTCATTTTTAAACACTCGTGTCGAGACCATGTCTAACCTC
112902984 TTCTTTCTTTATGACGTATTCCTGCGTGTCTCCTACGTATCCAAGAGTGTCCAACAAGTGTCTGT
261 TTCTTTCTTTATGACGTATTCCTGCGTGTCTCCTACGTATCCAAGAGTGTCCAACAAGTGTCTGT
112903049 GTCGGGCACACGTACGACACTAATATGAGGAGGGATGAGTCGTGTC
326 GTCGGGCACACGTACGACACTAATATGAGGAGGGATGAGTCGTGTC
112903095 TTGATCGACTATTTAATGTTTTAACTTTTAAGTCTTTCCAATGTTTACATAGGCTGATAGTAAAA
1 TTGATCGACTATTTAATGTTTTAACTTTTAAGTCTTTCCAATGTTTACATAGGCTGATAGTAAAA
112903160 CTCAACGTTTCATTAATAGGAAACCTTAAACTTTACATTTTTTTTCTTTACATCATCTTCTTACT
66 CTCAACGTTTCATTAATAGGAAACCTTAAACTTTACATTTTTTTTCTTTACATCATCTTCTTACT
*
112903225 GTCGTTGACTCTTCATCTGCTACTTTTGAAAGCCAAAATTTTAGCCGTCTTCCGTCAGCCACTGT
131 GTCGTTGACTCTTCATCTGCTACTTTTGAAAGCCAAAATTTTAGCCGCCTTCCGTCAGCCACTGT
*
112903290 CTACTATTCCTGCATCTATTATAAATTCATTTTTAAACACTCGTGTCGAGACCATGTTTAACCTC
196 CTACTATTCCTGCATCTATTATAAATTCATTTTTAAACACTCGTGTCGAGACCATGTCTAACCTC
112903355 TTCTTTCTTTATGACGTATTCCTGCGTGTCTCCTACGTATCCAAGAGTGTCCAACAAGTGTCTGT
261 TTCTTTCTTTATGACGTATTCCTGCGTGTCTCCTACGTATCCAAGAGTGTCCAACAAGTGTCTGT
112903420 GTCGGGCACACGTACGACACTAATATGAGGAGGGATGAGTCGTGTC
326 GTCGGGCACACGTACGACACTAATATGAGGAGGGATGAGTCGTGTC
112903466 T
1 T
112903467 GTGCTTCGTA
Statistics
Matches: 368, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
371 368 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (371 bp):
TTGATCGACTATTTAATGTTTTAACTTTTAAGTCTTTCCAATGTTTACATAGGCTGATAGTAAAA
CTCAACGTTTCATTAATAGGAAACCTTAAACTTTACATTTTTTTTCTTTACATCATCTTCTTACT
GTCGTTGACTCTTCATCTGCTACTTTTGAAAGCCAAAATTTTAGCCGCCTTCCGTCAGCCACTGT
CTACTATTCCTGCATCTATTATAAATTCATTTTTAAACACTCGTGTCGAGACCATGTCTAACCTC
TTCTTTCTTTATGACGTATTCCTGCGTGTCTCCTACGTATCCAAGAGTGTCCAACAAGTGTCTGT
GTCGGGCACACGTACGACACTAATATGAGGAGGGATGAGTCGTGTC
Found at i:112905793 original size:46 final size:47
Alignment explanation
Indices: 112905732--112905853 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
112905722 CTTCACATAA
** * * *
112905732 TGATGCCATGGCCCAGCTATGGT-TT-TACACGAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTATACA-GAAGCACATATCACAC
* *
112905778 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
* *
112905825 CGGTGCCATATCCCAGATATGGTCTTATA
1 TGATGCCATATCCCAGATATGGTCTTATA
112905854 TGGAAATCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 20 0.31
47 41 0.63
48 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
Found at i:112906059 original size:31 final size:31
Alignment explanation
Indices: 112905880--112906039 Score: 230
Period size: 31 Copynumber: 5.2 Consensus size: 31
112905870 CTTGTCACTT
* ** *
112905880 GTAGCCGAAGCTACCACTACTCACTGGTCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
112905911 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
112905942 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
112905973 GTAGCCGGAACTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
112906004 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
112906035 GTAGC
1 GTAGC
112906040 TTCAGCTGTC
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 115 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:112906059 original size:62 final size:62
Alignment explanation
Indices: 112905880--112906039 Score: 257
Period size: 62 Copynumber: 2.6 Consensus size: 62
112905870 CTTGTCACTT
** *
112905880 GTAGCCGAAGCTACCACTACTCACTGGTCAGGTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAG
* * *
112905942 GTAGCCGGAGCTACCACTTTTCACTGATCAAGTAGCCGGAACTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAG
*
112906004 GTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGC
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGC
112906040 TTCAGCTGTC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 89 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAG
Found at i:112907275 original size:35 final size:35
Alignment explanation
Indices: 112907231--112907397 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
112907221 TCCTCATTGA
** *
112907231 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
112907266 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
112907306 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
112907341 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
112907376 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
112907398 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:112907314 original size:75 final size:73
Alignment explanation
Indices: 112907226--112907397 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
112907216 GGTTTTCCTC
** * * **
112907226 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
112907290 TCAGTATGG
65 TCAGTATGG
*
112907299 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
112907364 CTCAGTATGG
64 CTCAGTATGG
112907374 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
112907398 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:112915152 original size:45 final size:46
Alignment explanation
Indices: 112915098--112915200 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 46
112915088 TATTTCTAAT
112915098 AATTATTTGAAATATT-TCACATATAAAAATAATA-ATATTTGAAAC
1 AATTATTTGAAATATTAT-ACATATAAAAATAATAGATATTTGAAAC
* * * *
112915143 AATTTTTTGAAATATTATATATATATAAATAATAGTGATATTTGAAAT
1 AATTATTTGAAATATTATACATATAAAAATAATA--GATATTTGAAAC
112915191 AATTATTTGA
1 AATTATTTGA
112915201 TTTTATAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
45 29 0.59
46 1 0.02
48 19 0.39
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (46 bp):
AATTATTTGAAATATTATACATATAAAAATAATAGATATTTGAAAC
Found at i:112929970 original size:12 final size:12
Alignment explanation
Indices: 112929948--112929978 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
112929938 TAGGGTAGGA
112929948 AAAAGAAGAAAAT
1 AAAA-AAGAAAAT
112929961 AAAAAAGAAAAT
1 AAAAAAGAAAAT
112929973 AAAAAA
1 AAAAAA
112929979 ATGGAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:112933632 original size:16 final size:17
Alignment explanation
Indices: 112933607--112933638 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
112933597 GATTTTTTAA
112933607 AAAAATTATAATTTTTT
1 AAAAATTATAATTTTTT
112933624 AAAAA-TATAATTTTT
1 AAAAATTATAATTTTT
112933639 ATAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAATTATAATTTTTT
Found at i:112933931 original size:3 final size:3
Alignment explanation
Indices: 112933916--112933949 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
112933906 CTAACTTTAC
*
112933916 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
112933950 GATACTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:112937994 original size:30 final size:32
Alignment explanation
Indices: 112937944--112938017 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
112937934 TAATAATTTT
* *
112937944 TATTTTTATGATTTTAAAAAAATTAAAT-TAA
1 TATTATTATTATTTTAAAAAAATTAAATATAA
* *
112937975 -ATTATTATTATTTTTAAAAATTTAAATATAA
1 TATTATTATTATTTTAAAAAAATTAAATATAA
*
112938006 TTTTATTATTAT
1 TATTATTATTAT
112938018 CAATTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 23 0.64
31 3 0.08
32 10 0.28
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (32 bp):
TATTATTATTATTTTAAAAAAATTAAATATAA
Found at i:112940580 original size:15 final size:15
Alignment explanation
Indices: 112940560--112940590 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
112940550 TGTATGGCAA
112940560 TGTTTCCAAATTTTC
1 TGTTTCCAAATTTTC
112940575 TGTTTCCAAATTTTC
1 TGTTTCCAAATTTTC
112940590 T
1 T
112940591 TTCTTTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TGTTTCCAAATTTTC
Found at i:112945307 original size:24 final size:25
Alignment explanation
Indices: 112945280--112945337 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
112945270 CCAACATTGC
*
112945280 TATATCTAATTTTTCTATT-CTGAG
1 TATATCTAATTTTTCCATTGCTGAG
*
112945304 TATAGTGCTAATTTTTCCATTGCTTAG
1 TATA-T-CTAATTTTTCCATTGCTGAG
112945331 TAT-TCTA
1 TATATCTA
112945338 CTGTCCTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 7 0.24
25 2 0.07
26 13 0.45
27 7 0.24
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (25 bp):
TATATCTAATTTTTCCATTGCTGAG
Found at i:112945455 original size:97 final size:98
Alignment explanation
Indices: 112945270--112945467 Score: 231
Period size: 97 Copynumber: 2.0 Consensus size: 98
112945260 TTTTTCTCTA
* * * *
112945270 CCAACATTGCTATATCTAATTTTTCTATTCTGAGTATAGTGCTAATTTTTCCATTGCTTAGTATT
1 CCAACATTGCTATATCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
**
112945335 CTACTGTCCTGAACTCCCTTTGTGTCATTA-TG
66 CTACTGTCAAGAACTCCCTTTGTGTCATTATTG
** * * *
112945367 CCAACATTTTTATCTCTGATTTTTCTATTCAGAGTACAATACTGATTTTTCCATTGCTTA-TATT
1 CCAACATTGCTATATCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
* * *
112945431 CTATTAGT-AAGAACTCCTTGTTGTGTCTTTATTG
66 CTACT-GTCAAGAACTCCCT-TTGTGTCATTATTG
112945465 CCA
1 CCA
112945468 TATATACTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
96 16 0.19
97 63 0.75
98 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.46
Consensus pattern (98 bp):
CCAACATTGCTATATCTAATTTTTCTATTCAGAGTACAATACTAATTTTTCCATTGCTTAGTATT
CTACTGTCAAGAACTCCCTTTGTGTCATTATTG
Found at i:112946745 original size:40 final size:38
Alignment explanation
Indices: 112946696--112946774 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 38
112946686 AAACTCGAAC
112946696 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAACACCAGCACGAAGCCTACGGGA-TTT-AACTCAGAT
* * * *
112946736 ATAATACCAGCACTAGGCCTGCGGGATTTAACTCAGAT
1 ATAACACCAGCACGAAGCCTACGGGATTTAACTCAGAT
112946774 A
1 A
112946775 CACATCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 10 0.29
39 3 0.09
40 22 0.63
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (38 bp):
ATAACACCAGCACGAAGCCTACGGGATTTAACTCAGAT
Found at i:112951332 original size:18 final size:17
Alignment explanation
Indices: 112951292--112951335 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
112951282 AACCATTAAT
112951292 ATTT-TAAAAAAATAAA
1 ATTTATAAAAAAATAAA
112951308 A-TTATAAAAATAATAAA
1 ATTTATAAAAA-AATAAA
112951325 ATTTATAAAAA
1 ATTTATAAAAA
112951336 GAGATAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 7 0.28
18 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTATAAAAAAATAAA
Found at i:112952828 original size:9 final size:9
Alignment explanation
Indices: 112952816--112952854 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
112952806 ATTTTCCTTT
112952816 TTTTTATAA
1 TTTTTATAA
*
112952825 TTTTTCTAA
1 TTTTTATAA
* *
112952834 ATTTTATTA
1 TTTTTATAA
112952843 TTTTTATAA
1 TTTTTATAA
112952852 TTT
1 TTT
112952855 CAGAATGAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:112956233 original size:7 final size:7
Alignment explanation
Indices: 112956221--112956246 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
112956211 TTATCTGATC
112956221 AGTGACA
1 AGTGACA
112956228 AGTGACA
1 AGTGACA
112956235 AGTGACA
1 AGTGACA
112956242 AGTGA
1 AGTGA
112956247 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:112962444 original size:27 final size:25
Alignment explanation
Indices: 112962408--112962464 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
112962398 ATTTATAAAA
112962408 TTTTAAAAAT-A-TAAAATATTTAATAT
1 TTTTAAAAATGAGT-AAAT-TTTAAT-T
112962434 TTTTAACAAATGAGTAAATTTTAATT
1 TTTTAA-AAATGAGTAAATTTTAATT
112962460 TTTTA
1 TTTTA
112962465 TTATAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 12 0.43
27 10 0.36
28 5 0.18
29 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTTAAAAATGAGTAAATTTTAATT
Found at i:112962493 original size:37 final size:36
Alignment explanation
Indices: 112962452--112962538 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 36
112962442 AATGAGTAAA
* *
112962452 TTTTAATTTTTTATTATAATTTTAT-TAATTTTTC-TAT
1 TTTTAATTTTTTAATA-AATTTTGTAT-ATTTTTCAT-T
*
112962489 TTTTAATATTTGTAATAAATTTTGTATATTTTTCATT
1 TTTTAAT-TTTTTAATAAATTTTGTATATTTTTCATT
112962526 TTTTAAGTTTTTT
1 TTTTAA-TTTTTT
112962539 TAAAAGAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 32 0.76
38 10 0.24
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.68
Consensus pattern (36 bp):
TTTTAATTTTTTAATAAATTTTGTATATTTTTCATT
Found at i:112963067 original size:23 final size:22
Alignment explanation
Indices: 112963051--112963097 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
112963041 ATTTTTCAAT
112963051 AAAAATACATAAAATTTTATAA
1 AAAAATACATAAAATTTTATAA
* *
112963073 ATAAATACATACAATTTTATAA
1 AAAAATACATAAAATTTTATAA
112963095 AAA
1 AAA
112963098 TATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATACATAAAATTTTATAA
Found at i:112964418 original size:3 final size:3
Alignment explanation
Indices: 112964412--112964440 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
112964402 GTTGTTGCTG
112964412 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
112964441 GCTGCTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:112972691 original size:39 final size:39
Alignment explanation
Indices: 112972647--112972733 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
112972637 ATGCAAAATG
*
112972647 CATCAAATAAGTTTGGCTAATAGCCTAAACACCCAACTT
1 CATCAAACAAGTTTGGCTAATAGCCTAAACACCCAACTT
112972686 CATCAAACAAGTTTGGCTAATAGCCTAAACACCCAACTT
1 CATCAAACAAGTTTGGCTAATAGCCTAAACACCCAACTT
112972725 CATCAAACA
1 CATCAAACA
112972734 TGTTAGTCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (39 bp):
CATCAAACAAGTTTGGCTAATAGCCTAAACACCCAACTT
Found at i:112974730 original size:29 final size:29
Alignment explanation
Indices: 112974674--112974776 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
112974664 TTTTAAAAAA
*
112974674 TATTTTTAAAAC--TATTTTTTAT--TTT
1 TATTTTAAAAACTTTATTTTTTATAATTT
*
112974699 TATTTTAAAAAGTTTATTTTTTATAATTT
1 TATTTTAAAAACTTTATTTTTTATAATTT
*
112974728 TATTTCTAAAAACTTGT-TTTTTTA-AATGT
1 TATTT-TAAAAACTT-TATTTTTTATAATTT
* *
112974757 TATTTTTAAAATTTTATTTT
1 TATTTTAAAAACTTTATTTT
112974777 ATTTTTACTT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
25 10 0.15
27 11 0.17
28 11 0.17
29 17 0.26
30 15 0.23
31 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (29 bp):
TATTTTAAAAACTTTATTTTTTATAATTT
Found at i:112981127 original size:24 final size:26
Alignment explanation
Indices: 112981066--112981129 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
112981056 TTTTAAAAAA
112981066 TAAAAATTATAAAA-AATAAACTATT
1 TAAAAATTATAAAATAATAAACTATT
** *
112981091 TAAATTTTTTAAAATAA-AAA-TATT
1 TAAAAATTATAAAATAATAAACTATT
*
112981115 TAAAAATTCTAAAAT
1 TAAAAATTATAAAAT
112981130 TTCGACATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 16 0.50
25 14 0.44
26 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAATTATAAAATAATAAACTATT
Found at i:112984862 original size:72 final size:72
Alignment explanation
Indices: 112984775--112984914 Score: 280
Period size: 72 Copynumber: 1.9 Consensus size: 72
112984765 AGAAAGCCAA
112984775 CCAAAATTTGAAAGAAAAAGAAAGAACAAAAAAAAAAAGAAGAAAAAGAAGGAGACCCACGGTTT
1 CCAAAATTTGAAAGAAAAAGAAAGAACAAAAAAAAAAAGAAGAAAAAGAAGGAGACCCACGGTTT
112984840 AAGGGTT
66 AAGGGTT
112984847 CCAAAATTTGAAAGAAAAAGAAAGAACAAAAAAAAAAAGAAGAAAAAGAAGGAGACCCACGGTTT
1 CCAAAATTTGAAAGAAAAAGAAAGAACAAAAAAAAAAAGAAGAAAAAGAAGGAGACCCACGGTTT
112984912 AAG
66 AAG
112984915 AACAATTTAG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.60, C:0.10, G:0.20, T:0.10
Consensus pattern (72 bp):
CCAAAATTTGAAAGAAAAAGAAAGAACAAAAAAAAAAAGAAGAAAAAGAAGGAGACCCACGGTTT
AAGGGTT
Found at i:112988992 original size:21 final size:21
Alignment explanation
Indices: 112988966--112989005 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
112988956 TGGGGTGATT
112988966 TTGGATTGTTGTAAAAAGATG
1 TTGGATTGTTGTAAAAAGATG
112988987 TTGGATTGTTGTAAAAAGA
1 TTGGATTGTTGTAAAAAGA
112989006 AGTTTGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (21 bp):
TTGGATTGTTGTAAAAAGATG
Found at i:113000709 original size:6 final size:6
Alignment explanation
Indices: 113000689--113000722 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
113000679 AAAATAAAAC
*
113000689 AAATAAG AAATAG AAAAAG AAATAG AAATAG AAA
1 AAAT-AG AAATAG AAATAG AAATAG AAATAG AAA
113000723 GCCAAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (6 bp):
AAATAG
Found at i:113000715 original size:18 final size:19
Alignment explanation
Indices: 113000684--113000722 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
113000674 ATTATAAAAT
113000684 AAAACAAATAAGAAATAGA
1 AAAACAAATAAGAAATAGA
*
113000703 AAAAGAAAT-AGAAATAGA
1 AAAACAAATAAGAAATAGA
113000721 AA
1 AA
113000723 GCCAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (19 bp):
AAAACAAATAAGAAATAGA
Found at i:113005893 original size:21 final size:20
Alignment explanation
Indices: 113005843--113005891 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
113005833 CTGCAGCTAA
113005843 AAAAAATTTCTAACTTTTCC
1 AAAAAATTTCTAACTTTTCC
113005863 AAAAAATTTCTAACTTTTCC
1 AAAAAATTTCTAACTTTTCC
*
113005883 TAAAAATTT
1 AAAAAATTT
113005892 TCAAATGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAAATTTCTAACTTTTCC
Found at i:113006500 original size:23 final size:22
Alignment explanation
Indices: 113006452--113006514 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
113006442 CTTCATGCGC
* * *
113006452 GCAAGTGACAATAGCAGTCTCGT
1 GCAAGTGACAGTGGCA-CCTCGT
113006475 GCAAGTGACAGTGGCACCTCGAT
1 GCAAGTGACAGTGGCACCTCG-T
*
113006498 GCAAGTGATAGTGGCAC
1 GCAAGTGACAGTGGCAC
113006515 TTTGGTGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.11
23 31 0.89
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (22 bp):
GCAAGTGACAGTGGCACCTCGT
Found at i:113008551 original size:12 final size:12
Alignment explanation
Indices: 113008530--113008558 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
113008520 AAATGAGGTT
113008530 AAAG-GAATACA
1 AAAGTGAATACA
113008541 AAAGTGAATACA
1 AAAGTGAATACA
113008553 AAAGTG
1 AAAGTG
113008559 CTAAAATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (12 bp):
AAAGTGAATACA
Found at i:113019926 original size:17 final size:17
Alignment explanation
Indices: 113019904--113019940 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
113019894 AATAGGGAGT
113019904 AAGGAATTACTCCAATG
1 AAGGAATTACTCCAATG
*
113019921 AAGGAATTTCTCCAATG
1 AAGGAATTACTCCAATG
113019938 AAG
1 AAG
113019941 CCAATTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (17 bp):
AAGGAATTACTCCAATG
Found at i:113027339 original size:5 final size:5
Alignment explanation
Indices: 113027315--113027349 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
113027305 CTTTTGTTTT
113027315 ATATA TATATA ATAATA ATATA ATATA ATATA ATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATA
113027350 ACATACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:113029372 original size:3 final size:3
Alignment explanation
Indices: 113029364--113029391 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
113029354 ATATGCAAAC
113029364 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
113029392 GAGACTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:113042788 original size:24 final size:24
Alignment explanation
Indices: 113042759--113042809 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
113042749 ATTCAAATTG
* *
113042759 CTACTAACAAGCTAACAACTCCTC
1 CTACTAACAAGCTAACAAATCCCC
113042783 CTACTAACAAGCTAACAAATCCCC
1 CTACTAACAAGCTAACAAATCCCC
113042807 CTA
1 CTA
113042810 AGACTTAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.37, G:0.04, T:0.20
Consensus pattern (24 bp):
CTACTAACAAGCTAACAAATCCCC
Found at i:113042852 original size:26 final size:26
Alignment explanation
Indices: 113042816--113042869 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
113042806 CCTAAGACTT
*
113042816 AGTCTTATTATTTTAAAAATAGTTGC
1 AGTCTTATTATTTTAAAAATAGCTGC
113042842 AGTCTTATTATTTTAAAAATAGCTGC
1 AGTCTTATTATTTTAAAAATAGCTGC
113042868 AG
1 AG
113042870 CCTTGAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (26 bp):
AGTCTTATTATTTTAAAAATAGCTGC
Found at i:113045324 original size:26 final size:26
Alignment explanation
Indices: 113045288--113045341 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
113045278 CCTAAGACTT
113045288 AGTCTTATTATTTTAAAAATAGCCGC
1 AGTCTTATTATTTTAAAAATAGCCGC
*
113045314 AGTCTTATTATTTTAAAAATAGCTGC
1 AGTCTTATTATTTTAAAAATAGCCGC
113045340 AG
1 AG
113045342 CCTTGAGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (26 bp):
AGTCTTATTATTTTAAAAATAGCCGC
Found at i:113045795 original size:6 final size:6
Alignment explanation
Indices: 113045777--113045815 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
113045767 TGCATGAGAT
*
113045777 GGGGCA GGAGCA GGGGCA GGGGCA GGGGCA GGGGCA GGG
1 GGGGCA GGGGCA GGGGCA GGGGCA GGGGCA GGGGCA GGG
113045816 ACTGAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.18, C:0.15, G:0.67, T:0.00
Consensus pattern (6 bp):
GGGGCA
Found at i:113061716 original size:4 final size:4
Alignment explanation
Indices: 113061709--113061733 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
113061699 AATGTTTTAA
113061709 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
113061734 TAATAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:113066298 original size:21 final size:21
Alignment explanation
Indices: 113066264--113066307 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
113066254 AAATCTCTAC
*
113066264 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
113066285 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
113066306 AA
1 AA
113066308 GCTCATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:113066547 original size:19 final size:18
Alignment explanation
Indices: 113066461--113066547 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 18
113066451 ATGATAACGG
113066461 TTTATTTTAA-ATTTTGAA
1 TTTA-TTTAATATTTTGAA
**
113066479 TATTATTTAATATTTTTTCA
1 T-TTATTTAATA-TTTTGAA
*
113066499 TTTATGT-A-ATTTT-AA
1 TTTATTTAATATTTTGAA
*
113066514 TTAATTTTAAT-TTTTGAA
1 TTTA-TTTAATATTTTGAA
113066532 TATTATTTAATATTTT
1 T-TTATTTAATATTTT
113066548 TCATTTATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.08
16 6 0.11
17 6 0.11
18 16 0.30
19 15 0.28
20 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTATTTAATATTTTGAA
Found at i:113066579 original size:52 final size:53
Alignment explanation
Indices: 113066464--113066572 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 53
113066454 ATAACGGTTT
* *
113066464 ATTTTAAATTTTGAATATTATTTAATATTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
113066517 ATTTTAATTTTTGAATATTATTTAATA-TTTTTCATTTATATAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
113066569 ATTT
1 ATTT
113066573 GTATTTTATA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
52 28 0.52
53 26 0.48
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (53 bp):
ATTTTAATTTTTGAATATTATTTAATATTTTTTCATTTATATAATTTTAATTA
Found at i:113066582 original size:24 final size:24
Alignment explanation
Indices: 113066505--113066587 Score: 62
Period size: 24 Copynumber: 3.3 Consensus size: 24
113066495 TTCATTTATG
113066505 TAATTTTAATTAATTTTAATTTTTGAA
1 TAATTTTAATTAATTTTAA-TTTT--A
* * *
113066532 TATTATTTAA-TATTTTTCATTTATA
1 TAAT-TTTAATTAATTTTAATTT-TA
113066557 TAATTTTAATTAATTTGT-ATTTTA
1 TAATTTTAATTAATTT-TAATTTTA
*
113066581 TATTTTT
1 TAATTTT
113066588 TTATAACAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
24 13 0.28
25 13 0.28
26 4 0.09
27 11 0.24
28 5 0.11
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (24 bp):
TAATTTTAATTAATTTTAATTTTA
Found at i:113068386 original size:21 final size:21
Alignment explanation
Indices: 113068336--113068387 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
113068326 AACACCCAGA
*
113068336 ACCAGAGCAACCACAACCTCC
1 ACCAGAGCAACCACAACCCCC
*
113068357 GCC-GAAGCAACCACAACCCCC
1 ACCAG-AGCAACCACAACCCCC
113068378 ACCAGAGCAA
1 ACCAGAGCAA
113068388 AGAAGGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.38, C:0.46, G:0.13, T:0.02
Consensus pattern (21 bp):
ACCAGAGCAACCACAACCCCC
Found at i:113071898 original size:126 final size:126
Alignment explanation
Indices: 113071567--113072063 Score: 603
Period size: 126 Copynumber: 4.0 Consensus size: 126
113071557 GGTCAATTAT
* * * * * *
113071567 GAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * * *
113071632 CTACTTGAAGCGTCTTTGACACTGTTTGTTCAGAAACATCTTCTCAAAATTA--TTTT-AG
66 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
113071690 GAACTACTATTGAAAAAGAACGTTCACGTAGGAGC-TTTTTCTATAAATTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * *
113071754 CTGCTTAAAGTGTTTTTGACACTATTTTTTCAGAAACATCTTCTCAAAATTATTTTTTCAT
66 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * ** * *
113071815 GAACTACTATCGAAAAAGAGCATCCATGT-GGTAACTTTTTTCCGTAATTTTGCTTACAGTGAAT
1 GAACTACTATAGAAAAAGAGCGTCCACGTAGG-AGCTTTTTTCTATAATTTTGCTGACAGTGCAT
* * * *
113071879 TCTGCTTGAAGTGTTTTTGACACTAATTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTAG
65 CCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * *
113071941 GAACTACTGTAGAAAAAGAGTGCCCACGTAGGAGCTTTTTTCTGTATTTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
* * *
113072006 CTGTTTGAAGTGTTTTT-ATACTATTTGTTCA-AAACGTCTTCTCAAAATTATTTTTTCA
66 CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCA
113072064 AGGTAAAAAT
Statistics
Matches: 317, Mismatches: 51, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
122 71 0.22
123 29 0.09
124 32 0.10
125 39 0.12
126 144 0.45
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCTATAATTTTGCTGACAGTGCATC
CTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:113072200 original size:29 final size:27
Alignment explanation
Indices: 113072121--113072200 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 27
113072111 TAAAAAAAAA
*
113072121 CTAAGCCCTAATTTAATTAAATTTAACC
1 CTAAACCCTAATTTAATT-AATTTAACC
* *
113072149 TTAAACCCTAATTTAATTTATTTAAACC
1 CTAAACCCTAATTTAATTAATTT-AACC
*
113072177 CTAGAACCCTAATTTACTTAATTT
1 CTA-AACCCTAATTTAATTAATTT
113072201 TTTTAAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.09
28 22 0.50
29 18 0.41
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (27 bp):
CTAAACCCTAATTTAATTAATTTAACC
Found at i:113072293 original size:34 final size:34
Alignment explanation
Indices: 113072214--113072298 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
113072204 TAAAAACCAT
*
113072214 AAACCATAAACCCTAA-ACCCTAAATTTATTTAA
1 AAACCATAAACCCTAATACACTAAATTTATTTAA
* * ** *
113072247 AATCCTAAAAACCCTAATTTACTTAATTTATTTAA
1 AAACC-ATAAACCCTAATACACTAAATTTATTTAA
113072282 AAACCATAAACCCTAAT
1 AAACCATAAACCCTAAT
113072299 GTCGAAACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 4 0.10
34 21 0.50
35 17 0.40
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (34 bp):
AAACCATAAACCCTAATACACTAAATTTATTTAA
Found at i:113073460 original size:16 final size:16
Alignment explanation
Indices: 113073441--113073471 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113073431 ATATATATAT
113073441 AAAATGAATAAAATAA
1 AAAATGAATAAAATAA
*
113073457 AAAATGAATAGAATA
1 AAAATGAATAAAATA
113073472 CATAATAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAAATGAATAAAATAA
Found at i:113073598 original size:12 final size:11
Alignment explanation
Indices: 113073583--113073641 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 11
113073573 AAAAAATGAT
113073583 AAAATAAATCAAA
1 AAAATAAAT--AA
113073596 AAAATAACATAA
1 AAAATAA-ATAA
*
113073608 AAAATAAACAA
1 AAAATAAATAA
113073619 ACAAATAAATAA
1 A-AAATAAATAA
113073631 GACAAATAAAT
1 -A-AAATAAAT
113073642 GATTCTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 4 0.10
12 18 0.44
13 17 0.41
14 2 0.05
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:113075012 original size:22 final size:21
Alignment explanation
Indices: 113074959--113075014 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
113074949 GCCTTTTCTG
*
113074959 TATTTGGGTTAAGGTTGGGTT
1 TATTTGGGTCAAGGTTGGGTT
* * *
113074980 AATTTTAGGTCAGGGTTTGGGTT
1 TA-TTTGGGTCAAGG-TTGGGTT
113075003 TATTTGGGTCAA
1 TATTTGGGTCAA
113075015 AGTTTGTTTG
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.45
Consensus pattern (21 bp):
TATTTGGGTCAAGGTTGGGTT
Found at i:113075077 original size:6 final size:6
Alignment explanation
Indices: 113075066--113075100 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
113075056 TATTTAATTA
113075066 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTTG
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTTG
113075101 TTTCCTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (6 bp):
TTTTGG
Found at i:113076033 original size:4 final size:4
Alignment explanation
Indices: 113076026--113076072 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
113076016 TATTTATTGA
* * * *
113076026 AATT AATT AATT GATT ATTT TA-T ATTT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
113076073 TTATTGAGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
3 1 0.03
4 33 0.97
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (4 bp):
AATT
Found at i:113085679 original size:25 final size:25
Alignment explanation
Indices: 113085651--113085706 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
113085641 AATAACATAA
* * *
113085651 ATAATAGTATTTAAATCTCAAACTT
1 ATAAAAGTAATTAAATATCAAACTT
113085676 ATAAAAGTAATTAAATATCAAACTT
1 ATAAAAGTAATTAAATATCAAACTT
*
113085701 AAAAAA
1 ATAAAA
113085707 TATTAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (25 bp):
ATAAAAGTAATTAAATATCAAACTT
Found at i:113085718 original size:25 final size:25
Alignment explanation
Indices: 113085661--113085712 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
113085651 ATAATAGTAT
* *
113085661 TTAAATCTCAAACTTATAAAAGTAA
1 TTAAATATCAAACTTATAAAAATAA
113085686 TTAAATATCAAACTTA-AAAAAT-A
1 TTAAATATCAAACTTATAAAAATAA
113085709 TTAA
1 TTAA
113085713 TTATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 5 0.20
25 15 0.60
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (25 bp):
TTAAATATCAAACTTATAAAAATAA
Found at i:113089115 original size:23 final size:23
Alignment explanation
Indices: 113089081--113089124 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
113089071 ACTAGTAATT
* *
113089081 AAAATTACTCAAATAATTTCATA
1 AAAATTAATCAAATAAATTCATA
113089104 AAAATTAATCAAATAAATTCA
1 AAAATTAATCAAATAAATTCA
113089125 AGTGCATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATTAATCAAATAAATTCATA
Found at i:113090246 original size:20 final size:20
Alignment explanation
Indices: 113090221--113090260 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
113090211 CATTAAAAGG
*
113090221 TCAGTGCTTGTGCTTCCATC
1 TCAGTGCTAGTGCTTCCATC
113090241 TCAGTGCTAGTGCTTCCATC
1 TCAGTGCTAGTGCTTCCATC
113090261 ATTCACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (20 bp):
TCAGTGCTAGTGCTTCCATC
Done.