Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 92 of 129
Found at i:16444170 original size:111 final size:112
Alignment explanation
Indices: 16444048--16444258 Score: 261
Period size: 111 Copynumber: 1.9 Consensus size: 112
16444038 AAAAATATAA
*
16444048 TTTTTAAAATTCAATAAAAA-GACATTTTTAA-AGTAAAAA-CATAATCTTTATTGAAAAA-ACA
1 TTTTTAAAATTCAATAAAAATGACATTTCTAAGA-TAAAAATC-TAATCTTTATT-AAAAATACA
*
16444109 ATTTTTTTAAGAT-AAAAACGTAATTTTTGTTGAAAACATATAAAAACATT
63 A-TTTTTTAAGATAAAAAACATAATTTTTGTTGAAAACATATAAAAACATT
* * * * * *
16444159 TTTTTAGAATTCAATAAAAATGATATTTCTATGATAAAAATCTAATTTTTGTTAAAAATATAATT
1 TTTTTAAAATTCAATAAAAATGACATTTCTAAGATAAAAATCTAATCTTTATTAAAAATACAATT
16444224 TTTTAAGATAAAAAAAACATAATTTTTGTTGAAAA
66 TTTTAAGAT--AAAAAACATAATTTTTGTTGAAAA
16444259 TATGAAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
111 35 0.41
112 26 0.31
113 2 0.02
114 22 0.26
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (112 bp):
TTTTTAAAATTCAATAAAAATGACATTTCTAAGATAAAAATCTAATCTTTATTAAAAATACAATT
TTTTAAGATAAAAAACATAATTTTTGTTGAAAACATATAAAAACATT
Found at i:16444206 original size:20 final size:18
Alignment explanation
Indices: 16444172--16444226 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
16444162 TTAGAATTCA
16444172 ATAAAAATGAT-ATTTCTATG
1 ATAAAAAT-ATAATTT-T-TG
*
16444192 ATAAAAATCTAATTTTTG
1 ATAAAAATATAATTTTTG
*
16444210 TTAAAAATATAATTTTT
1 ATAAAAATATAATTTTT
16444227 TAAGATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 17 0.55
19 2 0.06
20 12 0.39
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (18 bp):
ATAAAAATATAATTTTTG
Found at i:16444641 original size:17 final size:17
Alignment explanation
Indices: 16444605--16444638 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16444595 CACATTCTTC
16444605 CTTGATATCACTTTATT
1 CTTGATATCACTTTATT
16444622 CTTGA-ATCACTTT-TT
1 CTTGATATCACTTTATT
16444637 CT
1 CT
16444639 CTTAGATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 8 0.47
17 5 0.29
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (17 bp):
CTTGATATCACTTTATT
Found at i:16445225 original size:29 final size:29
Alignment explanation
Indices: 16445192--16445268 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
16445182 AGGAAATTTT
16445192 AAAAATATAAAAAATTAAAAATTATCTAAA
1 AAAAATATAAAAAATTAAAAA-TATCTAAA
*** * *
16445222 AAAAACCCAACAAATTCAAAATATCTAAAA
1 AAAAATATAAAAAATTAAAAATATCT-AAA
16445252 AAAAATTATAAAAAATT
1 AAAAA-TATAAAAAATT
16445269 TCAAAAAAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
29 5 0.14
30 24 0.67
31 7 0.19
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (29 bp):
AAAAATATAAAAAATTAAAAATATCTAAA
Found at i:16445652 original size:16 final size:16
Alignment explanation
Indices: 16445631--16445665 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16445621 TTGTTTCAAA
*
16445631 AAAATTAGATATTTTT
1 AAAATTACATATTTTT
*
16445647 AAAATTTCATATTTTT
1 AAAATTACATATTTTT
16445663 AAA
1 AAA
16445666 TTTTTGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
AAAATTACATATTTTT
Found at i:16445746 original size:20 final size:21
Alignment explanation
Indices: 16445715--16445759 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
16445705 TTTTTTAAGG
16445715 TTTTGAATTTTTGCATAAATT
1 TTTTGAATTTTTGCATAAATT
*
16445736 TTTTGAATTTTT-TATAAATT
1 TTTTGAATTTTTGCATAAATT
16445756 TTTT
1 TTTT
16445760 AAAATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTGAATTTTTGCATAAATT
Found at i:16446919 original size:27 final size:27
Alignment explanation
Indices: 16446881--16446936 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
16446871 TTGAATACAC
16446881 GAATTCTTTATGACTGTATATGTGCTT
1 GAATTCTTTATGACTGTATATGTGCTT
*
16446908 GAATTCTTTATGGCTGTATATGTGCTT
1 GAATTCTTTATGACTGTATATGTGCTT
16446935 GA
1 GA
16446937 TAGGATCGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.46
Consensus pattern (27 bp):
GAATTCTTTATGACTGTATATGTGCTT
Found at i:16448656 original size:24 final size:26
Alignment explanation
Indices: 16448619--16448682 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
16448609 CATTTATTTA
*
16448619 CAAATAATGTCATACAAAAATA-CTAT-
1 CAAA-AATATCATACAAAAATATC-ATG
*
16448645 C-AAAATATCATAGAAAAATATCATG
1 CAAAAATATCATACAAAAATATCATG
16448670 CAAAAATATCATA
1 CAAAAATATCATA
16448683 ATTAAAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 17 0.52
25 4 0.12
26 12 0.36
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (26 bp):
CAAAAATATCATACAAAAATATCATG
Found at i:16448664 original size:13 final size:14
Alignment explanation
Indices: 16448646--16448682 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
16448636 AAATACTATC
16448646 AAAATATCATAG-A
1 AAAATATCATAGCA
16448659 AAAATATCAT-GCA
1 AAAATATCATAGCA
16448672 AAAATATCATA
1 AAAATATCATA
16448683 ATTAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 21 0.95
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.24
Consensus pattern (14 bp):
AAAATATCATAGCA
Found at i:16448751 original size:20 final size:19
Alignment explanation
Indices: 16448726--16448819 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 19
16448716 AAGCAAAAAA
*
16448726 AAATCATGTAAATATATGAT
1 AAATCATGCAAATATAT-AT
16448746 AAATCATGCAAATATATCAT
1 AAATCATGCAAATATAT-AT
16448766 AAATCATGCAAATATATACT
1 AAATCATGCAAATATATA-T
*
16448786 AAATCTTGCAAATATATAAT
1 AAATCATGCAAATATAT-AT
*
16448806 AAATCATACAAATA
1 AAATCATGCAAATA
16448820 AATTAGATCT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 65 0.97
21 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (19 bp):
AAATCATGCAAATATATAT
Found at i:16448866 original size:14 final size:15
Alignment explanation
Indices: 16448839--16448872 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16448829 TATGCAAAGT
16448839 ATCATGCAAATAAAA
1 ATCATGCAAATAAAA
*
16448854 ATCATGC-AATAAAT
1 ATCATGCAAATAAAA
16448868 ATCAT
1 ATCAT
16448873 CATGTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (15 bp):
ATCATGCAAATAAAA
Found at i:16448876 original size:17 final size:17
Alignment explanation
Indices: 16448854--16448889 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
16448844 GCAAATAAAA
16448854 ATCATGCAATAAATATC
1 ATCATGCAATAAATATC
*
16448871 ATCATGTAATAAATATC
1 ATCATGCAATAAATATC
16448888 AT
1 AT
16448890 AAAAGCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (17 bp):
ATCATGCAATAAATATC
Found at i:16448972 original size:18 final size:17
Alignment explanation
Indices: 16448949--16449012 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 17
16448939 AATAAATAAT
16448949 AAAATAAAAACAAAAACA
1 AAAATAAAAACAAAAA-A
16448967 AAAAT-AAAACAAATAAA
1 AAAATAAAAACAAA-AAA
16448984 ATAAATAAAATA-AAAATAA
1 A-AAATAAAA-ACAAAA-AA
16449003 AAAATAAAAA
1 AAAATAAAAA
16449013 GGAAACCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.27
18 20 0.49
19 9 0.22
20 1 0.02
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAATAAAAACAAAAAA
Found at i:16448986 original size:14 final size:14
Alignment explanation
Indices: 16448933--16449012 Score: 78
Period size: 14 Copynumber: 5.8 Consensus size: 14
16448923 AATCATAATT
16448933 AAAAATAATAAATAA
1 AAAAATAA-AAATAA
* *
16448948 TAAAAT-AAAA-AC
1 AAAAATAAAAATAA
*
16448960 AAAAACAAAAATAA
1 AAAAATAAAAATAA
16448974 AACAAAT-AAAATAA
1 AA-AAATAAAAATAA
16448988 ATAAAATAAAAAT-A
1 A-AAAATAAAAATAA
16449002 AAAAATAAAAA
1 AAAAATAAAAA
16449013 GGAAACCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
12 5 0.09
13 17 0.31
14 18 0.33
15 14 0.26
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:16449001 original size:6 final size:6
Alignment explanation
Indices: 16448932--16449012 Score: 60
Period size: 6 Copynumber: 13.0 Consensus size: 6
16448922 CAATCATAAT
* *
16448932 TAAAAA TAATAAA TAATAAAA TAAAAA CAAAAA CAAAAA TAAAACA -AATAAA
1 TAAAAA TAA-AAA T-A-AAAA TAAAAA TAAAAA TAAAAA TAAAA-A TAA-AAA
*
16448984 -ATAAA T-AAAA TAAAAA TAAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA
16449013 GGAAACCTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 7 0.11
6 36 0.57
7 14 0.22
8 5 0.08
9 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
TAAAAA
Found at i:16449670 original size:11 final size:11
Alignment explanation
Indices: 16449654--16449702 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
16449644 TTGTTTGCTA
16449654 ATTGCTTCTTG
1 ATTGCTTCTTG
*
16449665 ATTGCTT-GTG
1 ATTGCTTCTTG
*
16449675 TTTGCTTCTTG
1 ATTGCTTCTTG
16449686 ATTGCTGTCTTTG
1 ATTGCT-TC-TTG
16449699 ATTG
1 ATTG
16449703 TAGATTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 8 0.26
11 14 0.45
12 2 0.06
13 7 0.23
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.55
Consensus pattern (11 bp):
ATTGCTTCTTG
Found at i:16449677 original size:28 final size:30
Alignment explanation
Indices: 16449622--16449680 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
16449612 GGCTACTGCA
*
16449622 TAATTGCTTGCTCTAATTGATTTTGTTTGC
1 TAATTGCTTGCTCTAATTGATTGTGTTTGC
* *
16449652 TAATTGCTT-CT-TGATTGCTTGTGTTTGC
1 TAATTGCTTGCTCTAATTGATTGTGTTTGC
16449680 T
1 T
16449681 TCTTGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 15 0.58
29 2 0.08
30 9 0.35
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.54
Consensus pattern (30 bp):
TAATTGCTTGCTCTAATTGATTGTGTTTGC
Found at i:16450001 original size:19 final size:19
Alignment explanation
Indices: 16449985--16450060 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 19
16449975 GCAAAAAATG
16449985 AAAATAACAAA-AAAAAACT
1 AAAATAA-AAATAAAAAACT
16450004 AAAATAAAAAT-AAAAACT
1 AAAATAAAAATAAAAAACT
* *
16450022 AAAAAGTTAAAATAAAAATACA
1 -AAAA-TAAAAATAAAAA-ACT
16450044 AAATATAAAAATAAAAA
1 AAA-ATAAAAATAAAAA
16450061 TGGATTGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 10 0.21
19 11 0.23
20 6 0.12
21 18 0.38
22 3 0.06
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.16
Consensus pattern (19 bp):
AAAATAAAAATAAAAAACT
Found at i:16450012 original size:13 final size:12
Alignment explanation
Indices: 16449985--16450059 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
16449975 GCAAAAAATG
*
16449985 AAAATAACAAAAA
1 AAAATAA-AATAA
16449998 AAAACTAAAAT-A
1 AAAA-TAAAATAA
16450010 AAAATAAAAACTAA
1 AAAAT-AAAA-TAA
*
16450024 AAAGTTAAAATAA
1 AAA-ATAAAATAA
*
16450037 AAATACAAAATATA
1 AAA-ATAAAATA-A
16450051 AAAATAAAA
1 AAAATAAAA
16450060 ATGGATTGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
11 1 0.02
12 9 0.18
13 24 0.48
14 15 0.30
15 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:16450025 original size:26 final size:24
Alignment explanation
Indices: 16449979--16450059 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
16449969 CATATGGCAA
*
16449979 AAAATGAAAATAACAAA-AAAAAACT
1 AAAATAAAAATAA-AAATAAAAAA-T
*
16450004 AAAATAAAAATAAAAACTAAAAAGTT
1 AAAATAAAAATAAAAA-TAAAAA-AT
16450030 AAAATAAAAATACAAAATATAAAAAT
1 AAAATAAAAATA-AAAATA-AAAAAT
16450056 AAAA
1 AAAA
16450060 ATGGATTGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.06
25 12 0.25
26 25 0.52
27 8 0.17
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAATAAAAATAAAAATAAAAAAT
Found at i:16450039 original size:6 final size:6
Alignment explanation
Indices: 16449978--16450061 Score: 71
Period size: 6 Copynumber: 13.0 Consensus size: 6
16449968 TCATATGGCA
* *
16449978 AAAAAT GAAAAT AACAAAA AAAAACT -AAAAT AAAAAT AAAAACT AAAAAGT
1 AAAAAT AAAAAT AA-AAAT AAAAA-T AAAAAT AAAAAT AAAAA-T AAAAA-T
*
16450029 TAAAAT AAAAAT ACAAAATAT AAAAAT AAAAAT
1 AAAAAT AAAAAT --AAAA-AT AAAAAT AAAAAT
16450062 GGATTGGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
5 1 0.02
6 37 0.58
7 20 0.31
8 4 0.06
9 2 0.03
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:16450051 original size:15 final size:14
Alignment explanation
Indices: 16450007--16450061 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
16449997 AAAAACTAAA
16450007 ATAAAAATAAAAACT
1 ATAAAAATAAAAA-T
* *
16450022 A-AAAAGT-TAAA-
1 ATAAAAATAAAAAT
16450033 ATAAAAATACAAAAT
1 ATAAAAATA-AAAAT
16450048 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
16450062 GGATTGGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
11 1 0.03
12 5 0.16
13 3 0.09
14 13 0.41
15 10 0.31
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:16450061 original size:21 final size:21
Alignment explanation
Indices: 16450007--16450061 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
16449997 AAAAACTAAA
16450007 ATAAAAATAAAAACTAAAAAGT
1 ATAAAAATAAAAA-TAAAAAGT
16450029 -T-AAAATAAAAATACAAAA-T
1 ATAAAAATAAAAATA-AAAAGT
16450048 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
16450062 GGATTGGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 15 0.50
21 12 0.40
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAAAATAAAAAGT
Found at i:16451003 original size:2 final size:2
Alignment explanation
Indices: 16450996--16451061 Score: 59
Period size: 2 Copynumber: 34.0 Consensus size: 2
16450986 TGAGTGCTTA
* *
16450996 AT AT AT AT AT GT AT AT AT AT AT AT AT -T GAT GCT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT -AT AT AT AT AT AT
*
16451037 AT AT AT GT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16451062 TGATAGCGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
1 4 0.07
2 47 0.87
3 3 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16451051 original size:13 final size:13
Alignment explanation
Indices: 16450994--16451060 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
16450984 ATTGAGTGCT
*
16450994 TAATATATATATG
1 TAATATATATATA
16451007 T-ATATATATATA
1 TAATATATATATA
* *
16451019 TATTGATGCT-TA-A
1 TAAT-AT-ATATATA
*
16451032 TATATATATATGTA
1 TA-ATATATATATA
16451046 TAATATATATATA
1 TAATATATATATA
16451059 TA
1 TA
16451061 TTGATAGCGC
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
12 12 0.29
13 20 0.49
14 8 0.20
15 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (13 bp):
TAATATATATATA
Found at i:16455756 original size:26 final size:26
Alignment explanation
Indices: 16455707--16455761 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
16455697 TTGGAATGTC
* * *
16455707 TTAAAATTATGTCTTTTTTTTTAACAT
1 TTAAAACTATGTCTTTTATATTAA-AT
16455734 TTAAAACTAT-TCTTTTATATTAAAT
1 TTAAAACTATGTCTTTTATATTAAAT
16455759 TTA
1 TTA
16455762 TTTTTATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 11 0.44
27 9 0.36
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (26 bp):
TTAAAACTATGTCTTTTATATTAAAT
Found at i:16456448 original size:28 final size:28
Alignment explanation
Indices: 16456392--16456457 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
16456382 AAAAAATATG
*
16456392 AAAAAA-A-ATATGATTTAATATTATAAT
1 AAAAAATATATATGATTTAATA-TAAAAT
*
16456419 AAAAATTATATATGAATTTAATA-AAAAT
1 AAAAAATATATATG-ATTTAATATAAAAT
16456447 AAAAAATATAT
1 AAAAAATATAT
16456458 TTTATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 5 0.15
28 15 0.45
29 5 0.15
30 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAAAATATATATGATTTAATATAAAAT
Found at i:16456866 original size:29 final size:29
Alignment explanation
Indices: 16456809--16456884 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
16456799 AAGTTCTAGG
*
16456809 ACTTATTTGAATACAAATTAGAGATTAAAA
1 ACTTATTTGAATA-AAATTAGAAATTAAAA
*
16456839 GCTTATTTGAATAAAATTA-AAATATAAAA
1 ACTTATTTGAATAAAATTAGAAAT-TAAAA
* *
16456868 ATTTATTTAAATAAAAT
1 ACTTATTTGAATAAAAT
16456885 GATAAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 3 0.08
29 25 0.62
30 12 0.30
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (29 bp):
ACTTATTTGAATAAAATTAGAAATTAAAA
Found at i:16457580 original size:20 final size:20
Alignment explanation
Indices: 16457555--16457597 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16457545 ATTTTATAAC
*
16457555 AAATGTACATTGAACGTCAT
1 AAATGTACATTGAACATCAT
*
16457575 AAATGTACATTGGACATCAT
1 AAATGTACATTGAACATCAT
16457595 AAA
1 AAA
16457598 AAGAGATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (20 bp):
AAATGTACATTGAACATCAT
Found at i:16457696 original size:59 final size:61
Alignment explanation
Indices: 16457631--16457755 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 61
16457621 AATAAAATTT
* * *
16457631 ATATATTTATATCGGAATTAAT-AAAATGAAATTCAAATCATTTTTTAA-TTTTCATATAA
1 ATATATTTATATCGGAATTAATAAAAATGAAATTAAAATCACTTTTTAATTTTTCATAAAA
* * *
16457690 ATATATTTATGTGGGAGTTAATAAAAATGAAATTAAAATCACTTTTTAATTTTTCATAAAA
1 ATATATTTATATCGGAATTAATAAAAATGAAATTAAAATCACTTTTTAATTTTTCATAAAA
16457751 ATATA
1 ATATA
16457756 GACATATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 19 0.33
60 24 0.41
61 15 0.26
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (61 bp):
ATATATTTATATCGGAATTAATAAAAATGAAATTAAAATCACTTTTTAATTTTTCATAAAA
Found at i:16458856 original size:14 final size:14
Alignment explanation
Indices: 16458837--16458864 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16458827 AAAAATCAAC
16458837 ATAATTATGAGATA
1 ATAATTATGAGATA
16458851 ATAATTATGAGATA
1 ATAATTATGAGATA
16458865 CTGTGTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
ATAATTATGAGATA
Found at i:16460793 original size:20 final size:20
Alignment explanation
Indices: 16460750--16460791 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
16460740 TTTCAAAAAT
*
16460750 AAATTTATTAATCTATTCAA
1 AAATTTATTAATCTATCCAA
*
16460770 AAATTTATT-TTCTATCCAA
1 AAATTTATTAATCTATCCAA
16460789 AAA
1 AAA
16460792 ATCTAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTATTAATCTATCCAA
Found at i:16460889 original size:13 final size:14
Alignment explanation
Indices: 16460873--16460902 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
16460863 TATTTTTCAT
16460873 TTTTATAAAA-ATA
1 TTTTATAAAATATA
16460886 TTTTATAAAATATA
1 TTTTATAAAATATA
16460900 TTT
1 TTT
16460903 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:16469075 original size:24 final size:25
Alignment explanation
Indices: 16469030--16469080 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
16469020 TTTATAAATA
* *
16469030 ATAATCTATTTATATTTAAATAGTT
1 ATAATCTATTTATATATAAATAATT
16469055 ATAAT-TATTTATCATAT-AATAATT
1 ATAATCTATTTAT-ATATAAATAATT
16469079 AT
1 AT
16469081 TGATTCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (25 bp):
ATAATCTATTTATATATAAATAATT
Found at i:16469076 original size:18 final size:17
Alignment explanation
Indices: 16469055--16469102 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
16469045 TTAAATAGTT
16469055 ATAATTATTTATCATATA-
1 ATAATTATTTATCA-A-AC
*
16469073 ATAATTATTGATTCAAAC
1 ATAATTATTTA-TCAAAC
16469091 ATAATTATTTAT
1 ATAATTATTTAT
16469103 AAATAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.08
18 21 0.81
19 3 0.12
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (17 bp):
ATAATTATTTATCAAAC
Found at i:16469320 original size:30 final size:30
Alignment explanation
Indices: 16469284--16469344 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
16469274 GACAATTTCT
16469284 TACACGCATCGGCAAACCTTCTCCTTTGGC
1 TACACGCATCGGCAAACCTTCTCCTTTGGC
16469314 TACACGCATCGGCAAACCTTCTCCTTTGGC
1 TACACGCATCGGCAAACCTTCTCCTTTGGC
16469344 T
1 T
16469345 TCAACTCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.36, G:0.16, T:0.28
Consensus pattern (30 bp):
TACACGCATCGGCAAACCTTCTCCTTTGGC
Found at i:16480627 original size:144 final size:144
Alignment explanation
Indices: 16480381--16480640 Score: 316
Period size: 144 Copynumber: 1.8 Consensus size: 144
16480371 TTGATTGCAT
* *
16480381 CTCGAGAGGTGTGAAATTATCAAAATACTCATTAAGGGTAAATTTGTAATTTGATCTTTTCAAGG
1 CTCGAGAGGGGTGAAATTATCAAAATACTCATTAAGGGTAAATTTGTAATTTGACCTTTTCAAGG
*** * * *
16480446 TTTTTTTTTCACGAAACTTTTTAGATTATGATCTTATAAT-ATTTGATGATTTTTTATGCACTCA
66 TTGGATTTTCACGAAAATTTTCAGATTATAATCTTATAATAATTT-ATGATTTTTTATGCACTCA
16480510 AAATTATAGCAGTAC
130 AAATTATAGCAGTAC
*
16480525 CTCGATAGGGGTGAAATTATCAAAATAC-CAATT-AGGG-ATAATTTCGTAATTTGACCTTTT-A
1 CTCGAGAGGGGTGAAATTATCAAAATACTC-ATTAAGGGTA-AATTT-GTAATTTGACCTTTTCA
* * *
16480586 GATGTTGGATTTTCATGAAAATTTTCAGATCT-TAATTTTATAATAATTTATGATT
63 -AGGTTGGATTTTCACGAAAATTTTCAGAT-TATAATCTTATAATAATTTATGATT
16480641 GTTGATGCTT
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
142 1 0.01
143 11 0.11
144 81 0.83
145 5 0.05
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (144 bp):
CTCGAGAGGGGTGAAATTATCAAAATACTCATTAAGGGTAAATTTGTAATTTGACCTTTTCAAGG
TTGGATTTTCACGAAAATTTTCAGATTATAATCTTATAATAATTTATGATTTTTTATGCACTCAA
AATTATAGCAGTAC
Found at i:16489700 original size:24 final size:24
Alignment explanation
Indices: 16489668--16489713 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16489658 CCTAAATCTC
* *
16489668 CCATCAAACCTTAAATCTCAAATT
1 CCATAAAACCATAAATCTCAAATT
*
16489692 CCATAAAACCATAATTCTCAAA
1 CCATAAAACCATAAATCTCAAA
16489714 CCCTAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (24 bp):
CCATAAAACCATAAATCTCAAATT
Found at i:16489737 original size:7 final size:7
Alignment explanation
Indices: 16489711--16489876 Score: 70
Period size: 7 Copynumber: 24.6 Consensus size: 7
16489701 CATAATTCTC
*
16489711 AAACCCT
1 AAACCTT
*
16489718 AAAACTT
1 AAACCTT
16489725 -AACCTT
1 AAACCTT
16489731 AAACCTT
1 AAACCTT
16489738 AAA-CTT
1 AAACCTT
16489744 CAAACC-T
1 -AAACCTT
*
16489751 GAA-CTCT
1 AAACCT-T
16489758 AAATCC-T
1 AAA-CCTT
16489765 AAACC-T
1 AAACCTT
*
16489771 AAACCCT
1 AAACCTT
*
16489778 -AGCCTT
1 AAACCTT
16489784 AAAACCTT
1 -AAACCTT
16489792 AAA-CTCT
1 AAACCT-T
*
16489799 AAATC-T
1 AAACCTT
*
16489805 AAATCTT
1 AAACCTT
16489812 -AACCTT
1 AAACCTT
*
16489818 AAACCCT
1 AAACCTT
16489825 -AACCTT
1 AAACCTT
*
16489831 ACACCTT
1 AAACCTT
16489838 AAAACCTT
1 -AAACCTT
*
16489846 AAATGC-T
1 AAA-CCTT
*
16489853 -AAGCTT
1 AAACCTT
*
16489859 AAACCCT
1 AAACCTT
16489866 AAACCTT
1 AAACCTT
16489873 AAAC
1 AAAC
16489877 TAATCATGCA
Statistics
Matches: 123, Mismatches: 17, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
5 3 0.02
6 43 0.35
7 62 0.50
8 14 0.11
9 1 0.01
ACGTcount: A:0.42, C:0.30, G:0.02, T:0.26
Consensus pattern (7 bp):
AAACCTT
Found at i:16489750 original size:14 final size:13
Alignment explanation
Indices: 16489717--16489848 Score: 58
Period size: 13 Copynumber: 9.8 Consensus size: 13
16489707 TCTCAAACCC
* *
16489717 TAAAACTTAACCT
1 TAAACCTTAAACT
16489730 TAAACCTTAAACT
1 TAAACCTTAAACT
*
16489743 TCAAACC-TGAACT
1 T-AAACCTTAAACT
*
16489756 CTAAATCC-TAAACC
1 -TAAA-CCTTAAACT
* **
16489770 TAAACCCTAGCCT
1 TAAACCTTAAACT
16489783 TAAAACCTTAAACT
1 T-AAACCTTAAACT
*
16489797 CTAAATC-TAAATCT
1 -TAAACCTTAAA-CT
*
16489811 T-AACCTTAAACCC
1 TAAACCTTAAA-CT
*
16489824 T-AACCTTACACCT
1 TAAACCTTA-AACT
16489837 TAAAACCTTAAA
1 T-AAACCTTAAA
16489849 TGCTAAGCTT
Statistics
Matches: 90, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
12 5 0.06
13 48 0.53
14 29 0.32
15 8 0.09
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (13 bp):
TAAACCTTAAACT
Found at i:16489826 original size:20 final size:20
Alignment explanation
Indices: 16489711--16489874 Score: 70
Period size: 20 Copynumber: 7.8 Consensus size: 20
16489701 CATAATTCTC
*
16489711 AAACCCTAAAACTTAACCTT
1 AAACCCTAAACCTTAACCTT
*
16489731 AAACCTTAAA-CTTCAAACC-T
1 AAACCCTAAACCTT--AACCTT
* * *
16489751 GAACTCTAAATCCTAAACC-T
1 AAACCCTAAA-CCTTAACCTT
*
16489771 AAACCCT-AGCCTTAAAACCTT
1 AAACCCTAAACCTT--AACCTT
*
16489792 AAACTCTAAATCTAAATCTTAACCTT
1 AAAC-C-----CTAAACCTTAACCTT
16489818 AAACCCT-AACCTTACACCTT
1 AAACCCTAAACCTTA-ACCTT
* * *
16489838 AAAACCTTAAATGC-TAAGCTT
1 -AAACCCTAAA-CCTTAACCTT
16489859 AAACCCTAAACCTTAA
1 AAACCCTAAACCTTAA
16489875 ACTAATCATG
Statistics
Matches: 108, Mismatches: 17, Indels: 38
0.66 0.10 0.23
Matches are distributed among these distances:
18 3 0.03
19 11 0.10
20 50 0.46
21 19 0.18
22 7 0.06
23 1 0.01
25 1 0.01
26 10 0.09
27 2 0.02
28 4 0.04
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.26
Consensus pattern (20 bp):
AAACCCTAAACCTTAACCTT
Found at i:16489849 original size:47 final size:45
Alignment explanation
Indices: 16489732--16489854 Score: 115
Period size: 47 Copynumber: 2.6 Consensus size: 45
16489722 CTTAACCTTA
* * *
16489732 AACCTTAAACTTCAAACCTGAACTCTAAATCCTAAACCTAAACCCT
1 AACCTTAACCTT-AAACCTTAAATCTAAATCCTAAACCTAAACCCT
* *
16489778 AGCCTTAAAACCTTAAA-CTCTAAATCTAAAT-CTTAACCTTAAACCCT
1 AACCTT--AACCTTAAACCT-TAAATCTAAATCCTAAACC-TAAACCCT
16489825 AACCTTACACCTTAAAACCTTAAATGCTAA
1 AACCTTA-ACCTT-AAACCTTAAAT-CTAA
16489855 GCTTAAACCC
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
45 1 0.02
46 18 0.29
47 33 0.52
48 11 0.17
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.27
Consensus pattern (45 bp):
AACCTTAACCTTAAACCTTAAATCTAAATCCTAAACCTAAACCCT
Found at i:16491010 original size:25 final size:25
Alignment explanation
Indices: 16490948--16491002 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
16490938 TATTCCATGC
16490948 ATATTTTAATTATGTCATTTCATAT
1 ATATTTTAATTATGTCATTTCATAT
**
16490973 ATATTTTAATTATGTCATTTGTTAT
1 ATATTTTAATTATGTCATTTCATAT
16490998 ATATT
1 ATATT
16491003 GTTGTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (25 bp):
ATATTTTAATTATGTCATTTCATAT
Found at i:16491532 original size:9 final size:9
Alignment explanation
Indices: 16491518--16491555 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16491508 GGAAATCACT
16491518 AAAAATTAA
1 AAAAATTAA
*
16491527 AAAAATTTA
1 AAAAATTAA
*
16491536 AAAATTTAA
1 AAAAATTAA
16491545 AAAAA-TAA
1 AAAAATTAA
16491553 AAA
1 AAA
16491556 TCAGTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
8 6 0.24
9 19 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:16491544 original size:18 final size:17
Alignment explanation
Indices: 16491517--16491550 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
16491507 AGGAAATCAC
16491517 TAAAAATTAAAAAAATT
1 TAAAAATTAAAAAAATT
16491534 TAAAAATTTAAAAAAAT
1 TAAAAA-TTAAAAAAAT
16491551 AAAAATCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTAAAAAAATT
Found at i:16496798 original size:128 final size:127
Alignment explanation
Indices: 16496562--16496810 Score: 302
Period size: 128 Copynumber: 2.0 Consensus size: 127
16496552 TATACTCATG
* *
16496562 AGGCACTAGAGCAAGCAAGAAGAGAAAAAAGAAAAGAGGTGAAGAAAATAAAAGTGAAGAAAGAA
1 AGGCACGAGAGCAAGCAAGAAGAGAAAAAAGAAAAGAGATGAAGAAAATAAAAGTGAAGAAAGAA
* * * *
16496627 TCCTTATTGTAATGAACCCGATAATACAATACAAGAAATTAGTGATAGAAAAAGAACTCTTA
66 TCCCTATTGCAATGAACCCAATAATACAATACAAGAAACTAGTGATAGAAAAAGAACTCTTA
* * * * *
16496689 AGGCACGAGAGTAAGCGAA-AAGAGAAAAAAGAAATGAGATGGAAGGAAATAGAAGTGAAGAGAG
1 AGGCACGAGAGCAAGC-AAGAAGAGAAAAAAGAAAAGAGAT-GAAGAAAATAAAAGTGAAGAAAG
* * * * * * * *
16496753 AATCCCTGTTGCAATGAACTCAATAGTATAGTATAATAAGCTAGTGATAGAAAAAGAA
64 AATCCCTATTGCAATGAACCCAATAATACAATACAAGAAACTAGTGATAGAAAAAGAA
16496811 GCCTATGAAT
Statistics
Matches: 101, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
127 33 0.33
128 68 0.67
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.16
Consensus pattern (127 bp):
AGGCACGAGAGCAAGCAAGAAGAGAAAAAAGAAAAGAGATGAAGAAAATAAAAGTGAAGAAAGAA
TCCCTATTGCAATGAACCCAATAATACAATACAAGAAACTAGTGATAGAAAAAGAACTCTTA
Found at i:16498198 original size:22 final size:24
Alignment explanation
Indices: 16498173--16498216 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
16498163 TTTTAGCATC
*
16498173 CTTTTATT-TTTGCC-AAATATGT
1 CTTTGATTCTTTGCCGAAATATGT
16498195 CTTTGATTCTTTGCCGAAATAT
1 CTTTGATTCTTTGCCGAAATAT
16498217 CCATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (24 bp):
CTTTGATTCTTTGCCGAAATATGT
Found at i:16501716 original size:20 final size:20
Alignment explanation
Indices: 16501671--16501709 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
16501661 AAAGAAAAAA
16501671 ACAAAAAAGAGGATCTAGGT
1 ACAAAAAAGAGGATCTAGGT
16501691 ACAAAAAAGAGGATCTAGG
1 ACAAAAAAGAGGATCTAGG
16501710 CTGAAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.26, T:0.13
Consensus pattern (20 bp):
ACAAAAAAGAGGATCTAGGT
Found at i:16502431 original size:55 final size:55
Alignment explanation
Indices: 16502372--16502493 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
16502362 CTAAACAAAG
*** * * *
16502372 GATAATGATGATGGGGAAACAGAAATGATGATTGATGAATGAAGAAAA-TAGAAAA
1 GATAATGATGATAAAGAAACAAAAATGATGATTGATGAATG-AGAAAAGCAAAAAA
* * *
16502427 GATAATAATGTTAAAGAAATAAAAATGATGATTGATGAATGAGAAAAGCAAAAAA
1 GATAATGATGATAAAGAAACAAAAATGATGATTGATGAATGAGAAAAGCAAAAAA
16502482 GATGAATGATGA
1 GAT-AATGATGA
16502494 GATAAGGGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
54 6 0.11
55 42 0.78
56 6 0.11
ACGTcount: A:0.53, C:0.02, G:0.24, T:0.21
Consensus pattern (55 bp):
GATAATGATGATAAAGAAACAAAAATGATGATTGATGAATGAGAAAAGCAAAAAA
Found at i:16503030 original size:47 final size:47
Alignment explanation
Indices: 16502951--16503042 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
16502941 GATTAACCTT
* * *
16502951 TTTCAAAGAGATTTTAAAGTTTATTATCTATTTTT-ATAGGAGCCCG
1 TTTCAAAGAAATTTTAAAGTTTATTAGCTATTTTTCATAAGAGCCCG
*
16502997 TTTCTAAAGAAATTTTAAAGTTTGTT-GCATATTTTTCATAAGAGCC
1 TTTC-AAAGAAATTTTAAAGTTTATTAGC-TATTTTTCATAAGAGCC
16503043 TTTTCCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 5 0.13
47 26 0.67
48 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (47 bp):
TTTCAAAGAAATTTTAAAGTTTATTAGCTATTTTTCATAAGAGCCCG
Found at i:16503179 original size:49 final size:50
Alignment explanation
Indices: 16503055--16503455 Score: 249
Period size: 49 Copynumber: 7.8 Consensus size: 50
16503045 TTCCAAAAGA
* ** *
16503055 TTTTTAAAAGTCACATATCTATGTTTAT-GGAGCTCTTTTCTAGATAGAGTTT
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTT-TAGATAGA--TT
** *
16503107 TTTTTTAAAGTCATTTGCCTATGTTTATAAGAGCCCTTTTTAGATAGATT
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTTTAGATAGATT
* * * ** *
16503157 TTTTTT-AAGTCACATGCTTATGTTTATAAGAGCTCTTTCCAGATAAGGTTTTTTTT
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTTTAGAT-A-G-----ATT
* * * ** ** * **
16503213 TTTTTTGAAGTCACTTGTCTATACTTATAGGAGTGCTTTTTAGACA-AAG
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTTTAGATAGATT
* * * *
16503262 ATTTTTAAAGTCACATGCCTATGTTTATAGGAG-CCTTTTCTAAAAAGA-G
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTT-TAGATAGATT
** * ** *
16503311 TTTTTTAAAGTCAGTTGCCTATATTTATAGGAGCCCTTTCCAAATAGAGATTTT
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTTTAGAT--AGA--TT
* * *
16503365 TTTTTTAAAGTCACAT-CCTTATGTTTATAAGAG-CCTTTTCCAGATAAAATT
1 TTTTTTAAAGTCACATGCC-TATGTTTATAGGAGCCCTTTT-TAGAT-AGATT
* *
16503416 TTTTTTAAAGTCACATGCCTATGTTTATATGAGCCATTTT
1 TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTT
16503456 CAAAATCATT
Statistics
Matches: 273, Mismatches: 55, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
48 5 0.02
49 96 0.35
50 15 0.05
51 35 0.13
52 38 0.14
53 18 0.07
54 30 0.11
56 9 0.03
57 27 0.10
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (50 bp):
TTTTTTAAAGTCACATGCCTATGTTTATAGGAGCCCTTTTTAGATAGATT
Found at i:16503314 original size:106 final size:106
Alignment explanation
Indices: 16503050--16503316 Score: 253
Period size: 106 Copynumber: 2.6 Consensus size: 106
16503040 GCCTTTTCCA
** * *
16503050 AAAGATTTTTAAAAGTCACATATCTATGTTTAT-GGAGCTCTTTTCTAGATAGAG-----TTTTT
1 AAAGATTTTT-AAAGTCACATGCCTATGTTTATAGGAGC-CTTTTCTAAAAAGAGTTTTTTTTTT
* ** *
16503109 TTTTAAAGTCATTTGCCTATGTTTATAAGAGCCCTTTTTAGAT
64 TTTTAAAGTCACTTGCCTATACTTATAAGAGCCCTTTTTAGAC
* ** * * * * *
16503152 AGATTTTTTTTAAGTCACATGCTTATGTTTATAAGAG-CTCTTTCCAGATAAG-GTTTTTTTTTT
1 AAAGATTTTTAAAGTCACATGCCTATGTTTATAGGAGCCT-TTTCTA-AAAAGAGTTTTTTTTTT
* * * **
16503215 TTTTGAAGTCACTTGTCTATACTTATAGGAGTGCTTTTTAGAC
64 TTTTAAAGTCACTTGCCTATACTTATAAGAGCCCTTTTTAGAC
16503258 AAAGATTTTTAAAGTCACATGCCTATGTTTATAGGAGCCTTTTCTAAAAAGAGTTTTTT
1 AAAGATTTTTAAAGTCACATGCCTATGTTTATAGGAGCCTTTTCTAAAAAGAGTTTTTT
16503317 AAAGTCAGTT
Statistics
Matches: 126, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
100 2 0.02
101 24 0.19
102 12 0.10
105 4 0.03
106 82 0.65
107 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.45
Consensus pattern (106 bp):
AAAGATTTTTAAAGTCACATGCCTATGTTTATAGGAGCCTTTTCTAAAAAGAGTTTTTTTTTTTT
TTAAAGTCACTTGCCTATACTTATAAGAGCCCTTTTTAGAC
Found at i:16503467 original size:103 final size:103
Alignment explanation
Indices: 16503263--16503459 Score: 254
Period size: 105 Copynumber: 1.9 Consensus size: 103
16503253 TAGACAAAGA
* * **
16503263 TTTTTAAAGTCACATGCCTATGTTTATAGGAGCCTTTTCTAAAAAGAGTTTTTTAAAGTCAGTTG
1 TTTTTAAAGTCACATGCCTATGTTTATAAGAGCCTTTTCCAAAAAGAGTTTTTTAAAGTCACATG
* *
16503328 CCTATATTTATAGGAGCCCTTTCCAAATAGAGATTTTT
66 CCTATATTTATAGGAGCCATTTCCAAATAGACATTTTT
*
16503366 TTTTTAAAGTCACAT-CCTTATGTTTATAAGAGCCTTTTCCAGATAAA-ATTTTTTTTAAAGTCA
1 TTTTTAAAGTCACATGCC-TATGTTTATAAGAGCCTTTTCCA-A-AAAGA-GTTTTTTAAAGTCA
* * *
16503429 CATGCCTATGTTTATATGAGCCATTTTCAAA
62 CATGCCTATATTTATAGGAGCCATTTCCAAA
16503460 ATCATTTTCT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
102 2 0.02
103 36 0.44
104 2 0.02
105 41 0.51
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (103 bp):
TTTTTAAAGTCACATGCCTATGTTTATAAGAGCCTTTTCCAAAAAGAGTTTTTTAAAGTCACATG
CCTATATTTATAGGAGCCATTTCCAAATAGACATTTTT
Found at i:16504424 original size:61 final size:61
Alignment explanation
Indices: 16504359--16504495 Score: 215
Period size: 61 Copynumber: 2.2 Consensus size: 61
16504349 TTGGCACGAG
*
16504359 AAATGCCTTAAATAATCCCGTTTAATTCTTTTT-AGGATTATTTAAGGTTTTTTTTAGCTA-A
1 AAATGCCTTAAATAATCCCGTTTAATT-TTTTTAAGGATTATTTAAGG-TATTTTTAGCTAGA
* *
16504420 AAATGCCTTAAATAATCCTGTTTAATTTTTTTAAGGATTATTTAAGGTATTTTTGGCTAGA
1 AAATGCCTTAAATAATCCCGTTTAATTTTTTTAAGGATTATTTAAGGTATTTTTAGCTAGA
16504481 AAATGCCTTAAATAA
1 AAATGCCTTAAATAA
16504496 CCTTATACAA
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
60 15 0.21
61 56 0.79
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (61 bp):
AAATGCCTTAAATAATCCCGTTTAATTTTTTTAAGGATTATTTAAGGTATTTTTAGCTAGA
Found at i:16505398 original size:63 final size:63
Alignment explanation
Indices: 16505265--16505399 Score: 175
Period size: 63 Copynumber: 2.1 Consensus size: 63
16505255 AATTTTAAGG
* * *
16505265 GATTATTTAAGGTGTTTTTGGACCAAAAATGCCTTAAACAATCCCTTGATACATTTTAAAGGA
1 GATTATTTAAGGTGTTTTTAGACCAAAAATACCTTAAACAATCCCTTGATACATTTTAAAAGA
* * **
16505328 GACTATTTAAGGTGTTTTTAGACCAAAAATACCTTAAATAATCCTCTT-ATATTTTTTAAAA-A
1 GATTATTTAAGGTGTTTTTAGACCAAAAATACCTTAAACAATCC-CTTGATACATTTTAAAAGA
16505390 GAATTATTTA
1 G-ATTATTTA
16505400 CTGTATTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
62 2 0.03
63 57 0.92
64 3 0.05
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (63 bp):
GATTATTTAAGGTGTTTTTAGACCAAAAATACCTTAAACAATCCCTTGATACATTTTAAAAGA
Found at i:16506753 original size:10 final size:11
Alignment explanation
Indices: 16506726--16506750 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16506716 CCCATCACAT
16506726 TTTTCATTGTG
1 TTTTCATTGTG
16506737 TTTTCATTGTG
1 TTTTCATTGTG
16506748 TTT
1 TTT
16506751 CATCCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTTCATTGTG
Found at i:16508019 original size:7 final size:7
Alignment explanation
Indices: 16508007--16508121 Score: 64
Period size: 7 Copynumber: 17.3 Consensus size: 7
16507997 CTAAATTTCC
16508007 AAACCCT
1 AAACCCT
16508014 AAACCCT
1 AAACCCT
*
16508021 AAACTAC-
1 AAAC-CCT
*
16508028 AAATCCT
1 AAACCCT
*
16508035 -AACCTT
1 AAACCCT
*
16508041 AAACCTT
1 AAACCCT
**
16508048 AAACTTT
1 AAACCCT
16508055 AAA-CCT
1 AAACCCT
*
16508061 AAACTCT
1 AAACCCT
16508068 -AA-CCT
1 AAACCCT
* *
16508073 GAACTCT
1 AAACCCT
16508080 AAA-CCT
1 AAACCCT
*
16508086 TAACCCT
1 AAACCCT
*
16508093 AAACCTT
1 AAACCCT
*
16508100 AAGCCCT
1 AAACCCT
16508107 -AACCCT
1 AAACCCT
16508113 AAACCCT
1 AAACCCT
16508120 AA
1 AA
16508122 TCCTAAGTCC
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
5 2 0.02
6 22 0.27
7 56 0.69
8 1 0.01
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.23
Consensus pattern (7 bp):
AAACCCT
Found at i:16508030 original size:21 final size:20
Alignment explanation
Indices: 16508006--16508044 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16507996 TCTAAATTTC
16508006 CAAACCCTAAACCCTAAACTA
1 CAAACCCT-AACCCTAAACTA
* *
16508027 CAAATCCTAACCTTAAAC
1 CAAACCCTAACCCTAAAC
16508045 CTTAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (20 bp):
CAAACCCTAACCCTAAACTA
Found at i:16508045 original size:27 final size:27
Alignment explanation
Indices: 16507986--16508052 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
16507976 AATCTCTGTC
*
16507986 AAACCCTAAATCTAAATTTCCAAACCCT
1 AAACCCTAAA-CTAAATATCCAAACCCT
* *
16508014 AAACCCTAAACTACAA-ATCCTAACCTT
1 AAACCCTAAACTA-AATATCCAAACCCT
*
16508041 AAACCTTAAACT
1 AAACCCTAAACT
16508053 TTAAACCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (27 bp):
AAACCCTAAACTAAATATCCAAACCCT
Found at i:16508147 original size:6 final size:6
Alignment explanation
Indices: 16508035--16508147 Score: 57
Period size: 7 Copynumber: 17.3 Consensus size: 6
16508025 TACAAATCCT
* *
16508035 AACCTTA AACCTTA AACTTTA AACCTA AACTCT- AACCTG AACTCTA AACCTTA
1 AACC-TA AACC-TA AAC-CTA AACCTA AAC-CTA AACCTA AAC-CTA AACC-TA
* * * * * *
16508088 ACCCTA AACCTTA AGCCCTA ACCCTA AACCCTA ATCCTA AGTCCTA ATCCTA
1 AACCTA AACC-TA A-ACCTA AACCTA AA-CCTA AACCTA A-ACCTA AACCTA
16508140 AACCTA AA
1 AACCTA AA
16508148 TCCCAAAACC
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
5 2 0.02
6 40 0.45
7 44 0.50
8 2 0.02
ACGTcount: A:0.40, C:0.33, G:0.03, T:0.25
Consensus pattern (6 bp):
AACCTA
Found at i:16508150 original size:13 final size:13
Alignment explanation
Indices: 16508007--16508147 Score: 83
Period size: 13 Copynumber: 10.8 Consensus size: 13
16507997 CTAAATTTCC
16508007 AAACCCTAAACCCT
1 AAACCCTAAA-CCT
*
16508021 AAACTAC-AAATCCT
1 AAAC-CCTAAA-CCT
*
16508035 -AACCTTAAACCTT
1 AAACCCTAAACC-T
**
16508048 AAACTTTAAACCT
1 AAACCCTAAACCT
*
16508061 AAACTCT-AACCT
1 AAACCCTAAACCT
* *
16508073 GAACTCTAAACCT
1 AAACCCTAAACCT
*
16508086 TAACCCTAAACCTT
1 AAACCCTAAACC-T
* *
16508100 AAGCCCTAACCCT
1 AAACCCTAAACCT
*
16508113 AAACCCTAATCCT
1 AAACCCTAAACCT
** *
16508126 AAGTCCTAATCCT
1 AAACCCTAAACCT
16508139 AAA-CCTAAA
1 AAACCCTAAA
16508148 TCCCAAAACC
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
12 18 0.17
13 54 0.52
14 30 0.29
15 1 0.01
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.23
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:16515002 original size:58 final size:57
Alignment explanation
Indices: 16514940--16515215 Score: 206
Period size: 63 Copynumber: 4.7 Consensus size: 57
16514930 TGAATTTTTT
*
16514940 TTTTTACTTTAAGGAAAATTGATACTTCAACTTTTTCTTAAACATTTTTTTGAAATAA
1 TTTTTACTTTAAGGAAAATTGATACTTCAACTTTTTCTTAAA-ATTTTTTTAAAATAA
* * * *
16514998 TTTTTATTTTTAGGAAAATTGATACCTT-AACTTTTTCTTAAAACATTTTTTAAAAATTTTTAT
1 TTTTTACTTTAAGGAAAATTGATA-CTTCAACTTTTTCTT-AAA-ATTTTTTTAAAA----TAA
** * *
16515061 TTTTTTTTTTAAGAAAAATTGATACTTCAACTTTTTCTTTAAAATATTTTTTAAAATAT
1 TTTTTACTTTAAGGAAAATTGATACTTCAACTTTTTC-TTAAAAT-TTTTTTAAAATAA
* * * * * *
16515120 TTTTTAC-TT-AGGAAAAAATTGATATTTCAAAATTTTCCTCAAAA---TTTTGAAATTA
1 TTTTTACTTTAAGG--AAAATTGATACTTC-AACTTTTTCTTAAAATTTTTTTAAAATAA
* * *
16515175 TTTTTA-TTTAAAGAAAAATCGATACTTCAATTTTTTTCTTA
1 TTTTTACTTT-AAGGAAAATTGATACTTCAA-CTTTTTCTTA
16515216 TTTTTTAAAA
Statistics
Matches: 177, Mismatches: 25, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
54 2 0.01
55 35 0.20
57 4 0.02
58 35 0.20
59 43 0.24
60 7 0.04
62 5 0.03
63 44 0.25
64 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (57 bp):
TTTTTACTTTAAGGAAAATTGATACTTCAACTTTTTCTTAAAATTTTTTTAAAATAA
Found at i:16515066 original size:64 final size:65
Alignment explanation
Indices: 16514933--16515123 Score: 217
Period size: 58 Copynumber: 3.1 Consensus size: 65
16514923 AATCTTTTGA
** * *
16514933 ATTTTT-TTTTTTACTTTAAGGAAAATTGATACTTCAACTTTTTC-TT-AAACATTTTTTTGAAA
1 ATTTTTATTTTTTTTTTTAAGAAAAATTGATACTTCAACTTTTTCTTTAAAACA-TTTTTTAAAA
16514995 T
65 T
* *
16514996 A-----ATTTTTATTTTT-AGGAAAATTGATACCTT-AACTTTTTC-TTAAAACATTTTTTAAAA
1 ATTTTTATTTTTTTTTTTAAGAAAAATTGATA-CTTCAACTTTTTCTTTAAAACATTTTTTAAAA
16515053 -
65 T
*
16515053 ATTTTTATTTTTTTTTTTAAGAAAAATTGATACTTCAACTTTTTCTTTAAAATATTTTTTAAAAT
1 ATTTTTATTTTTTTTTTTAAGAAAAATTGATACTTCAACTTTTTCTTTAAAACATTTTTTAAAAT
16515118 ATTTTT
1 ATTTTT
16515124 TACTTAGGAA
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
57 1 0.01
58 33 0.30
59 16 0.15
62 14 0.13
63 22 0.20
64 17 0.16
65 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (65 bp):
ATTTTTATTTTTTTTTTTAAGAAAAATTGATACTTCAACTTTTTCTTTAAAACATTTTTTAAAAT
Found at i:16515115 original size:12 final size:12
Alignment explanation
Indices: 16515098--16515125 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16515088 CAACTTTTTC
16515098 TTTAAAATATTT
1 TTTAAAATATTT
16515110 TTTAAAATATTT
1 TTTAAAATATTT
16515122 TTTA
1 TTTA
16515126 CTTAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAAAATATTT
Found at i:16515178 original size:121 final size:121
Alignment explanation
Indices: 16514932--16515183 Score: 284
Period size: 121 Copynumber: 2.1 Consensus size: 121
16514922 AAATCTTTTG
* *
16514932 AATTTTT-TTTTTTACTTTAAGGAAAATTGATACTTCAACTTTTTCTTAAACATTTTTTTGAAAT
1 AATTTTTATTTTTTACTTTAAGAAAAATTGATACTTCAACTTTTTCTTAAACATTTTTTTAAAAT
** ** * *
16514996 AATTTTTATTTTTAGGAAAATTGATACCTTAACTTTTTCTTAAAACATTTTTTAAA
66 AATTTTTATACTTAGGAAAATTGATACCTTAAAATTTTCCTAAAACATTTTTGAAA
**
16515052 AATTTTTATTTTTTTTTTTAAGAAAAATTGATACTTCAACTTTTTCTTTAAA-ATATTTTTTAAA
1 AATTTTTATTTTTTACTTTAAGAAAAATTGATACTTCAACTTTTTC-TTAAACAT-TTTTTTAAA
* *
16515116 AT-ATTTTT-TACTTAGGAAAAAATTGATA-TTTCAAAATTTTCCTCAAA-A-TTTTGAAA
64 ATAATTTTTATACTTAGG--AAAATTGATACCTT-AAAATTTTCCTAAAACATTTTTGAAA
*
16515172 TTATTTTTATTT
1 -AATTTTTATTT
16515184 AAAGAAAAAT
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
120 20 0.18
121 56 0.50
122 36 0.32
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (121 bp):
AATTTTTATTTTTTACTTTAAGAAAAATTGATACTTCAACTTTTTCTTAAACATTTTTTTAAAAT
AATTTTTATACTTAGGAAAATTGATACCTTAAAATTTTCCTAAAACATTTTTGAAA
Found at i:16516575 original size:12 final size:13
Alignment explanation
Indices: 16516555--16516583 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16516545 ATAAAGGCAA
16516555 AAATAAATAAATC
1 AAATAAATAAATC
16516568 AAAT-AATAAATC
1 AAATAAATAAATC
16516580 AAAT
1 AAAT
16516584 GGGTTAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:16519079 original size:5 final size:5
Alignment explanation
Indices: 16519065--16519115 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
16519055 GAGCAAATTC
* *
16519065 AAAAG AAAAG GAAAG AAAAG AAAAG AAGAAAG AAGAG AAAAG AAAA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG -A-AAAG AAAAG AAAAG AAAAG AAAAG
16519116 TAAATGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 29 0.74
6 2 0.05
7 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:16519097 original size:17 final size:17
Alignment explanation
Indices: 16519065--16519108 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
16519055 GAGCAAATTC
16519065 AAAAGAAAAG--GAAAG
1 AAAAGAAAAGAAGAAAG
16519080 AAAAGAAAAGAAGAAAG
1 AAAAGAAAAGAAGAAAG
*
16519097 AAGAGAAAAGAA
1 AAAAGAAAAGAA
16519109 AAAAAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 10 0.38
17 16 0.62
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAGAAAG
Found at i:16519130 original size:3 final size:3
Alignment explanation
Indices: 16519124--16519183 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
16519114 AGTAAATGTA
* * *
16519124 AAT AAT AAT AAT AAT AAT AAT AAC CAT AGT ATAT AAT -AT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A-AT
16519170 AAT ATAT AAT AAT A
1 AAT A-AT AAT AAT A
16519184 CTATAGTATG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 37 0.79
4 8 0.17
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:16519805 original size:197 final size:197
Alignment explanation
Indices: 16519506--16519981 Score: 569
Period size: 197 Copynumber: 2.4 Consensus size: 197
16519496 ACCATGACTG
* * * ** * * *
16519506 AATCAAGGTCATAGATAAATGATCGGACTGATGTCGTGAGTCTAAAGATGATCTAACCTGAGTTG
1 AATCATGGTCGTAAATAAATGATTAGACTGATGTAGCGAGTCTAAAGATGATCTGACCTGAGTTG
* * *
16519571 AAATTAGATGACTAGGATGATGCAAAGAGTTTGAAGGCGACCAAGATTGAGTCGAGGTCATAAAG
66 AGATTAGATGACTAAGATGATGCAAAGAGTCTGAAGGCGACCAAGATTGAGTCGAGGTCATAAAG
** * *
16519636 ATAATCTGACTTGAGTTGAGATCAAATGACTGGAACAATGTCGCTAGTCTAAAGGCGACCAAGAT
131 ATAATCTGACTTGAGTCAAGATCAAATGACTGGAACAATGTCACGAGTCTAAAGGCGACCAAGAT
*
16519701 CG
196 CC
* * *
16519703 AGTCATGGTCGTAAATAAATGATTAGACTGATGTAGCGAGTCTGAAGATGTTCTGACCTGAGTTG
1 AATCATGGTCGTAAATAAATGATTAGACTGATGTAGCGAGTCTAAAGATGATCTGACCTGAGTTG
* *
16519768 AGATTAGATGACTAAGATGATGTC-ACGAGTCTGAAGGCGACCAAGATTGAGTCGAGGTTATAAA
66 AGATTAGATGACTAAGATGATG-CAAAGAGTCTGAAGGCGACCAAGATTGAGTCGAGGTCATAAA
* * * * * * *
16519832 GATAATCTGACTTGAGTCAAGATCAAATGATTGGGATAATGTCACGAGTCTGAAGGTGACTAGGA
130 GATAATCTGACTTGAGTCAAGATCAAATGACTGGAACAATGTCACGAGTCTAAAGGCGACCAAGA
16519897 TCC
195 TCC
** * * * * * * * *
16519900 AATTGTGGTTGTAAATAAATGACTAGACTAATGTCA-CAAGTTTAAAGATGATCTGACTTAAGTC
1 AATCATGGTCGTAAATAAATGATTAGACTGATGT-AGCGAGTCTAAAGATGATCTGACCTGAGTT
*
16519964 GAGATCAGATGACTAAGA
65 GAGATTAGATGACTAAGA
16519982 CAATGCCGTG
Statistics
Matches: 235, Mismatches: 42, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
197 233 0.99
198 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (197 bp):
AATCATGGTCGTAAATAAATGATTAGACTGATGTAGCGAGTCTAAAGATGATCTGACCTGAGTTG
AGATTAGATGACTAAGATGATGCAAAGAGTCTGAAGGCGACCAAGATTGAGTCGAGGTCATAAAG
ATAATCTGACTTGAGTCAAGATCAAATGACTGGAACAATGTCACGAGTCTAAAGGCGACCAAGAT
CC
Found at i:16536689 original size:11 final size:11
Alignment explanation
Indices: 16536673--16536699 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16536663 TACTATACTT
16536673 AAAAAAAGAAA
1 AAAAAAAGAAA
16536684 AAAAAAAGAAA
1 AAAAAAAGAAA
16536695 AAAAA
1 AAAAA
16536700 GGACAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:16538099 original size:45 final size:43
Alignment explanation
Indices: 16537781--16538267 Score: 399
Period size: 43 Copynumber: 11.5 Consensus size: 43
16537771 CAAAGAATTA
* * * **
16537781 TATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAGTTT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
** * * *
16537824 TATTTATTTTTCAAAGTCATTGAACCTCTATTCAGAGGAGCCT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
* * * * *
16537867 TATTTGTTTTTCAAAGTTGTTAAGCCTTTGTTTGGA-AGAGCCT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGA-AGCCT
* * *
16537910 TATTTA-TTTT-AAAGTTGTTGGGCCTCTGTTTAGAGAAGCTT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
** * * *
16537951 TATTTATTTTTCAAAGTCATTGA---AC-ATCTAGAGGAGCCT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
** * *
16537990 TATTTATTTTTTTAAGTTGTTGAGTCTCTATTTAGAAAAG---
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
* * *
16538030 -ATTT-TTTTTTAAAGTCGTTGAGCCTCTATTTGGAGAAGCCT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
** *
16538071 TATTTAGTTTTTCAAATGTTGTAAAGCCTCTATTTAGAGAAGCTT
1 TATTTA-TTTTTCAAA-GTTGTTGAGCCTCTATTTAGAGAAGCCT
* ** *
16538116 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCTT
1 TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
* * *
16538159 TATTTAGTTTTTCAAAAGTTGTTGAGCCTTTATTTAAAGTAGCCT
1 TATTTA-TTTTTC-AAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
** * *
16538204 TATTTA-TTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCCCT
1 TATTTATTTTTC-AAAGTTGTTGAGCCTCTATTTAGAGAAG-CCT
*
16538248 T-TTTATTTCTCCAAAGTTGT
1 TATTTATTT-TTCAAAGTTGT
16538268 AAAGCCTTTG
Statistics
Matches: 351, Mismatches: 73, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
38 29 0.08
39 33 0.09
40 1 0.00
41 30 0.09
42 14 0.04
43 149 0.42
44 33 0.09
45 62 0.18
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (43 bp):
TATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAGAGAAGCCT
Found at i:16538144 original size:88 final size:86
Alignment explanation
Indices: 16537781--16538267 Score: 406
Period size: 88 Copynumber: 5.7 Consensus size: 86
16537771 CAAAGAATTA
* ** * * * ** **
16537781 TATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGGAGTTTTATTTATTTTTCAAAGTCATTG
1 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTATTTTTCAAAGTTGTTG
* * *
16537846 AACCTCTATTCAGAGGAGCCT
66 AGCCTCTATTTAGAGAAGCCT
* * ** * * * *
16537867 TATTTGTTTTTCAAAGTTGTTAAGCCTTTGTTTGGA-AGAGCCTTATTTA-TTTT-AAAGTTGTT
1 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGA-AGCCTTATTTATTTTTCAAAGTTGTT
* * *
16537929 GGGCCTCTGTTTAGAGAAGCTT
65 GAGCCTCTATTTAGAGAAGCCT
* * * * **
16537951 TATTTATTTTTCAAAGTCATTGA---AC-ATCTAGAGGAGCCTTATTTATTTTTTTAAGTTGTTG
1 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTATTTTTCAAAGTTGTTG
* * *
16538012 AGTCTCTATTTAGAAAAG-AT
66 AGCCTCTATTTAGAGAAGCCT
* *
16538032 T-TTT-TTTT--AAAGTCGTTGAGCCTCTATTTGGAGAAGCCTTATTTAGTTTTTCAAATGTTGT
1 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTA-TTTTTCAAA-GTTGT
** *
16538093 AAAGCCTCTATTTAGAGAAGCTT
64 TGAGCCTCTATTTAGAGAAGCCT
*
16538116 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCTTTATTTAGTTTTTCAAAAGTTGT
1 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTA-TTTTTC-AAAGTTGT
* * *
16538181 TGAGCCTTTATTTAAAGTAGCCT
64 TGAGCCTCTATTTAGAGAAGCCT
* * * *
16538204 TATTTATTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCCCTT-TTTATTTCTCCAAAGTTGT
1 TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAG-CCTTATTTATTT-TTCAAAGTTGT
16538268 AAAGCCTTTG
Statistics
Matches: 327, Mismatches: 56, Indels: 35
0.78 0.13 0.08
Matches are distributed among these distances:
77 10 0.03
79 4 0.01
80 19 0.06
81 23 0.07
82 30 0.09
83 21 0.06
84 44 0.13
85 7 0.02
86 46 0.14
87 11 0.03
88 106 0.32
89 6 0.02
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (86 bp):
TATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGAAGCCTTATTTATTTTTCAAAGTTGTTG
AGCCTCTATTTAGAGAAGCCT
Found at i:16538492 original size:15 final size:14
Alignment explanation
Indices: 16538469--16538511 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
16538459 TTTTGTTAAT
16538469 AAAAATGAAAAATA
1 AAAAATGAAAAATA
16538483 AAAAAGTGAAAGAA-A
1 AAAAA-TGAAA-AATA
16538498 ACAAAATGAAAAAT
1 A-AAAATGAAAAAT
16538512 TAACGGTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.28
15 12 0.48
16 6 0.24
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAATGAAAAATA
Found at i:16538828 original size:31 final size:31
Alignment explanation
Indices: 16538793--16538865 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
16538783 ATTTTCTAGA
* *
16538793 AAATTTTTAGTTTTTTGTTGAATTTTTCAAT-
1 AAATTTTTAGTTTTTTGGTG-ACTTTTCAATG
* * *
16538824 AAATTTTGAATTTTTTTGGTGACTTTTCGATG
1 AAATTTT-TAGTTTTTTGGTGACTTTTCAATG
16538856 AAATTTTTAG
1 AAATTTTTAG
16538866 ATTCTAGTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (31 bp):
AAATTTTTAGTTTTTTGGTGACTTTTCAATG
Found at i:16539466 original size:25 final size:25
Alignment explanation
Indices: 16539438--16539488 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
16539428 ATAATTATCC
16539438 AATGATGAAATTT-T-TAGAAATTTCT
1 AATGAT-AAATTTCTATA-AAATTTCT
*
16539463 AATGGTAAATTTCTATAAAATTTCT
1 AATGATAAATTTCTATAAAATTTCT
16539488 A
1 A
16539489 GGTGAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 6 0.26
25 15 0.65
26 2 0.09
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (25 bp):
AATGATAAATTTCTATAAAATTTCT
Found at i:16539676 original size:26 final size:28
Alignment explanation
Indices: 16539647--16539700 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
16539637 AGATTCTTAG
*
16539647 AAATTTCAA-ATGGTAAATTTCT-TAAA
1 AAATTTCAAGATGGGAAATTTCTCTAAA
*
16539673 AAATTTCAAGGTGGGAAATTTCTCTAAA
1 AAATTTCAAGATGGGAAATTTCTCTAAA
16539701 TTTGTCTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 11 0.46
28 4 0.17
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (28 bp):
AAATTTCAAGATGGGAAATTTCTCTAAA
Found at i:16540004 original size:50 final size:49
Alignment explanation
Indices: 16539949--16540043 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
16539939 CCAAAAATTT
* *
16539949 AAAAAAGAGAATTTCTAAATAGACCTAAATGGT-GAAAAATTTAGAAATCA
1 AAAAAAGA-AAATTCTAAATAGACCCAAATGGTAG-AAAATTTAGAAATCA
*
16539999 AAAAAAGAAAATTCTAAATTGACCCAAATGGTAGAAAATTTAGAA
1 AAAAAAGAAAATTCTAAATAGACCCAAATGGTAGAAAATTTAGAA
16540044 GTAAAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
49 32 0.78
50 9 0.22
ACGTcount: A:0.55, C:0.08, G:0.14, T:0.23
Consensus pattern (49 bp):
AAAAAAGAAAATTCTAAATAGACCCAAATGGTAGAAAATTTAGAAATCA
Found at i:16542400 original size:23 final size:23
Alignment explanation
Indices: 16542370--16542447 Score: 129
Period size: 23 Copynumber: 3.3 Consensus size: 23
16542360 ATTTGCATGA
*
16542370 TTATATATTACTATTTGCATGGT
1 TTATATATTACTATTTCCATGGT
*
16542393 TTATATATTACTATTTCCATGAT
1 TTATATATTACTATTTCCATGGT
16542416 TATATATATTACTATTTCCATGGT
1 T-TATATATTACTATTTCCATGGT
16542440 TTATATAT
1 TTATATAT
16542448 CGAAATACAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
23 29 0.57
24 22 0.43
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (23 bp):
TTATATATTACTATTTCCATGGT
Found at i:16542408 original size:45 final size:47
Alignment explanation
Indices: 16542359--16542447 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
16542349 ATTGCATGTT
* *
16542359 TATTTGCATGA-T-TATATATTACTATTTGCATGGTTTATATATTAC
1 TATTTCCATGATTATATATATTACTATTTCCATGGTTTATATATTAC
16542404 TATTTCCATGATTATATATATTACTATTTCCATGGTTTATATAT
1 TATTTCCATGATTATATATATTACTATTTCCATGGTTTATATAT
16542448 CGAAATACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 10 0.25
46 1 0.03
47 29 0.73
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (47 bp):
TATTTCCATGATTATATATATTACTATTTCCATGGTTTATATATTAC
Found at i:16542501 original size:22 final size:23
Alignment explanation
Indices: 16542459--16542503 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16542449 GAAATACATA
*
16542459 TTTATTTGCATAGTTTATATATT
1 TTTATTTGCATAGATTATATATT
16542482 TTTATTTGCAT-GATTATATATT
1 TTTATTTGCATAGATTATATATT
16542504 CAGATGCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.27, C:0.04, G:0.09, T:0.60
Consensus pattern (23 bp):
TTTATTTGCATAGATTATATATT
Found at i:16542537 original size:22 final size:22
Alignment explanation
Indices: 16542519--16542570 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
16542509 GCATGTTTAT
16542519 TTGCATGATT-TATATTGTTAA
1 TTGCATGATTATATATTGTTAA
16542540 TTGCATGATTATATA-T-TTAA
1 TTGCATGATTATATATTGTTAA
*
16542560 CTGCATGATTA
1 TTGCATGATTA
16542571 CTAATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.48
21 11 0.38
22 4 0.14
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (22 bp):
TTGCATGATTATATATTGTTAA
Found at i:16542674 original size:22 final size:20
Alignment explanation
Indices: 16542625--16542674 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
16542615 TTGCATATTT
*
16542625 ATTTATTTA-TTACTGTATG
1 ATTTATTTATTTACTGCATG
16542644 ATTT-TTTATTTACTGCATG
1 ATTTATTTATTTACTGCATG
16542663 ATATTATATTAT
1 AT-TTAT-TTAT
16542675 ATGTTATTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 2 0.08
21 1 0.04
22 4 0.15
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTATTTATTTACTGCATG
Found at i:16545800 original size:21 final size:20
Alignment explanation
Indices: 16545775--16545814 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16545765 GGCTATTTAC
16545775 AAAGTTAAAAACATGGTAGAA
1 AAAGTTAAAAA-ATGGTAGAA
* *
16545796 AAAGTTGAAGAATGGTAGA
1 AAAGTTAAAAAATGGTAGA
16545815 CAAGGGTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.25, T:0.20
Consensus pattern (20 bp):
AAAGTTAAAAAATGGTAGAA
Found at i:16548159 original size:100 final size:100
Alignment explanation
Indices: 16547986--16548190 Score: 383
Period size: 100 Copynumber: 2.0 Consensus size: 100
16547976 AGACTCTTAA
*
16547986 TTTGTTGAAATGATTAAAGTAAAAGAAGACAGGTTTCATGAAATGAAACTAGTATAAGATTTCAC
1 TTTGTTGAAATGATTAAAGTAAAAGAAGACAGGTTTCATGAAATGAAACTAGCATAAGATTTCAC
16548051 TCATTCATAAATGAAAATGATGTAGTGTGTGGTTT
66 TCATTCATAAATGAAAATGATGTAGTGTGTGGTTT
* *
16548086 TTTGTTGAAATGATTGAAGTAAAAGAGGACAGGTTTCATGAAATGAAACTAGCATAAGATTTCAC
1 TTTGTTGAAATGATTAAAGTAAAAGAAGACAGGTTTCATGAAATGAAACTAGCATAAGATTTCAC
16548151 TCATTCATAAATGAAAATGATGTAGTGTGTGGTTT
66 TCATTCATAAATGAAAATGATGTAGTGTGTGGTTT
16548186 TTTGT
1 TTTGT
16548191 GATGGTTCAC
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (100 bp):
TTTGTTGAAATGATTAAAGTAAAAGAAGACAGGTTTCATGAAATGAAACTAGCATAAGATTTCAC
TCATTCATAAATGAAAATGATGTAGTGTGTGGTTT
Found at i:16550408 original size:43 final size:43
Alignment explanation
Indices: 16550359--16550465 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
16550349 AGAATGATCT
*
16550359 CATTTTATTTTTCAAAAGTTCCAAAGCCTAAATTATAAGGGAG
1 CATTTTATTTTTCAAAAGTTCCAAAGCCTAAATTATAAGGGAA
* * * * * * **
16550402 TATTTTATTTTTC-AAAGTTTCTAAGCCTTAGTTGTTGGGGAA
1 CATTTTATTTTTCAAAAGTTCCAAAGCCTAAATTATAAGGGAA
16550444 CATTTTA-TTTTCAAAAGTTCCA
1 CATTTTATTTTTCAAAAGTTCCA
16550466 GAGCTCCAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 5 0.10
42 34 0.67
43 12 0.24
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTCCAAAGCCTAAATTATAAGGGAA
Found at i:16550540 original size:23 final size:23
Alignment explanation
Indices: 16550504--16550549 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
16550494 GTTCTTAATC
*
16550504 CTCAGTTGTAGGGGAGCATTTTA
1 CTCAGTTATAGGGGAGCATTTTA
*
16550527 CTCAGTTATGGGGGAGCATTTTA
1 CTCAGTTATAGGGGAGCATTTTA
16550550 TTTTTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (23 bp):
CTCAGTTATAGGGGAGCATTTTA
Found at i:16551613 original size:19 final size:20
Alignment explanation
Indices: 16551573--16551613 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
16551563 TATTTGCTTA
*
16551573 ATATATTTATTTGCATGATT
1 ATATATTTATTTCCATGATT
*
16551593 ATATATTTA-TTCCATGTTT
1 ATATATTTATTTCCATGATT
16551612 AT
1 AT
16551614 TTGCATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (20 bp):
ATATATTTATTTCCATGATT
Found at i:16551686 original size:55 final size:55
Alignment explanation
Indices: 16551579--16551772 Score: 273
Period size: 55 Copynumber: 3.5 Consensus size: 55
16551569 CTTAATATAT
* **
16551579 TTATTTGCATGATTATATATTT-ATTCCATGTTTATTTGCATCATTTATATATTA
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTA
* * * * *
16551633 TTATTTACATGATTATGTATTTAATTGTATGTTTATTTGTAGGGTTTATATATTA
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTA
* * * *
16551688 TTGTTTGCATGATTATATATTTAATTGCATATTTATTTGCATGGCTTATATATTT
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTA
16551743 TTATTTGCATGATTATATATTTAATTGCAT
1 TTATTTGCATGATTATATATTTAATTGCAT
16551773 TATTATTAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 20 0.17
55 101 0.83
ACGTcount: A:0.27, C:0.06, G:0.11, T:0.55
Consensus pattern (55 bp):
TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTA
Found at i:16551761 original size:22 final size:23
Alignment explanation
Indices: 16551719--16551764 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
16551709 TAATTGCATA
*
16551719 TTTATTTGCATGGCTTATATATT
1 TTTATTTGCATGGATTATATATT
16551742 TTTATTTGCAT-GATTATATATT
1 TTTATTTGCATGGATTATATATT
16551764 T
1 T
16551765 AATTGCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.59
Consensus pattern (23 bp):
TTTATTTGCATGGATTATATATT
Found at i:16551785 original size:20 final size:20
Alignment explanation
Indices: 16551692--16551778 Score: 76
Period size: 20 Copynumber: 4.6 Consensus size: 20
16551682 ATATTATTGT
16551692 TTGCATGATTATATATTTAA
1 TTGCATGATTATATATTTAA
**
16551712 TTGCAT-ATT-TAT-TTGCA
1 TTGCATGATTATATATTTAA
* * * *
16551729 TGGC-TTA-TATATTTTTAT
1 TTGCATGATTATATATTTAA
16551747 TTGCATGATTATATATTTAA
1 TTGCATGATTATATATTTAA
*
16551767 TTGCATTATTAT
1 TTGCATGATTAT
16551779 TAATTTATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
16 2 0.04
17 10 0.20
18 8 0.16
19 5 0.10
20 26 0.51
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (20 bp):
TTGCATGATTATATATTTAA
Found at i:16551822 original size:24 final size:24
Alignment explanation
Indices: 16551757--16551822 Score: 60
Period size: 28 Copynumber: 2.6 Consensus size: 24
16551747 TTGCATGATT
* * *
16551757 ATATATTTAATTGCATTATTATTA
1 ATATATTTATTTGTATGATTATTA
*
16551781 ATTTATTTATGTGATTGTATGATTATTA
1 ATATATTTA--T--TTGTATGATTATTA
16551809 ATATATTTATTTGT
1 ATATATTTATTTGT
16551823 GTATATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 12 0.36
26 1 0.03
28 20 0.61
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (24 bp):
ATATATTTATTTGTATGATTATTA
Found at i:16551833 original size:28 final size:28
Alignment explanation
Indices: 16551771--16551835 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
16551761 ATTTAATTGC
* *
16551771 ATTATTATTAATTTATTTATGTGATTGT
1 ATTATTATTAATATATTTATGTGATTAT
* *
16551799 ATGATTATTAATATATTTATTTG-TGTAT
1 ATTATTATTAATATATTTATGTGAT-TAT
16551827 ATTATTATT
1 ATTATTATT
16551836 GCATGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (28 bp):
ATTATTATTAATATATTTATGTGATTAT
Found at i:16551865 original size:24 final size:25
Alignment explanation
Indices: 16551838--16551884 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
16551828 TTATTATTGC
*
16551838 ATGATTTTATAT-TTATTACATGGT
1 ATGATGTTATATGTTATTACATGGT
*
16551862 ATGATGTTATATGTTATTGCATG
1 ATGATGTTATATGTTATTACATG
16551885 ATTAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (25 bp):
ATGATGTTATATGTTATTACATGGT
Found at i:16552658 original size:26 final size:25
Alignment explanation
Indices: 16552613--16552662 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
16552603 TATAAAAATT
* *
16552613 TATTTTTTTATTTTTTATTTATATA
1 TATTTTTTAATTTTATATTTATATA
16552638 TATTTATTTAATTTTATATTTATAT
1 TATTT-TTTAATTTTATATTTATAT
16552663 TAAAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (25 bp):
TATTTTTTAATTTTATATTTATATA
Found at i:16552706 original size:23 final size:21
Alignment explanation
Indices: 16552652--16552707 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
16552642 TATTTAATTT
*
16552652 TATA-TTTAT-ATTAAAAAAC
1 TATATTTTATAATTAAAAAAA
16552671 TATATTTTATAATTAAAAAAA
1 TATATTTTATAATTAAAAAAA
16552692 TAATATTTTATTAATT
1 T-ATATTTTA-TAATT
16552708 TTGGGTCGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.12
20 5 0.16
21 10 0.31
22 8 0.25
23 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTTTATAATTAAAAAAA
Found at i:16553601 original size:259 final size:258
Alignment explanation
Indices: 16553139--16553633 Score: 674
Period size: 259 Copynumber: 1.9 Consensus size: 258
16553129 TTACTACACC
* * * *
16553139 ATAAAGATAGTTCATCAGCAATCAAAATACATAATCAAAATCCCAAAGCAAAATACACAATAGTT
1 ATAAAGATAGTTCATCAACAATCAAAATACACAACCAAAATCACAAAGCAAAATACACAATAGTT
* * * * * * * **
16553204 TTCCCTTTGCCAAAGTCTTTGCATCTTAATAAGCATAGAACACTTTATAGTTTAATACCATTTGT
66 TACACTTTGCCAAAGTCATTGCATCTTAATAAGCATAAAACACTATATAGTTCAAAACCATTCAT
* * * **
16553269 CCTGTAATGTTTAGTCTTTCAATTACTACACTATCTACTTTATCAACAATCTCAATACACAACCA
131 CCTGCAACGTTTAGTATTTCAATTACTACACTATCTACTTTATCAACAATCAAAATACACAACCA
16553334 ACATCACAAAGCAAAATA-AGCAATA-TTTTCACCTTTCACAAATTTGATCTCATCGTAATATAC
196 ACATCACAAAGC-AAATACA-CAATAGTTTTCACC-TTCACAAATTTGATCTCATCGTAATATAC
16553397 T
258 T
* * *
16553398 ATAAAGATTGTTCATCAACAATCATAATACACAACCAAAATCACAAAGCAAAATACGCAATAGTT
1 ATAAAGATAGTTCATCAACAATCAAAATACACAACCAAAATCACAAAGCAAAATACACAATAGTT
* *
16553463 TACACTTT-CACAATGTCATTGCATCTTAATAAGCATAAAACACTATATAGTTCAAAATCATTCA
66 TACACTTTGC-CAAAGTCATTGCATCTTAATAAGCATAAAACACTATATAGTTCAAAACCATTCA
* * * *
16553527 TCTTGCAACGTTTAGTATTTCAATTACTACATTATCTACTTTATCAATAATCAAAATACATAACC
130 TCCTGCAACGTTTAGTATTTCAATTACTACACTATCTACTTTATCAACAATCAAAATACACAACC
16553592 AGA-ATCACAAAGCAAATACACAATAGTTTTCACCTTCACAAA
195 A-ACATCACAAAGCAAATACACAATAGTTTTCACCTTCACAAA
16553634 AGTCATTGCA
Statistics
Matches: 205, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
258 19 0.09
259 185 0.90
260 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (258 bp):
ATAAAGATAGTTCATCAACAATCAAAATACACAACCAAAATCACAAAGCAAAATACACAATAGTT
TACACTTTGCCAAAGTCATTGCATCTTAATAAGCATAAAACACTATATAGTTCAAAACCATTCAT
CCTGCAACGTTTAGTATTTCAATTACTACACTATCTACTTTATCAACAATCAAAATACACAACCA
ACATCACAAAGCAAATACACAATAGTTTTCACCTTCACAAATTTGATCTCATCGTAATATACT
Found at i:16559656 original size:22 final size:22
Alignment explanation
Indices: 16559631--16559678 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
16559621 GATTTTTAGG
*
16559631 TTTTGAATTTTAGGGTTTGGGA
1 TTTTGAATTTTAAGGTTTGGGA
* *
16559653 TTTTGGATTTTAAGGTTTTGGA
1 TTTTGAATTTTAAGGTTTGGGA
16559675 TTTT
1 TTTT
16559679 AGGGTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (22 bp):
TTTTGAATTTTAAGGTTTGGGA
Found at i:16559671 original size:15 final size:15
Alignment explanation
Indices: 16559653--16559686 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16559643 GGGTTTGGGA
16559653 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
16559668 TTTTGGATTTTAGGG
1 TTTTGGATTTTAAGG
16559683 TTTT
1 TTTT
16559687 TAGGGTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:16559747 original size:15 final size:15
Alignment explanation
Indices: 16559720--16559753 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16559710 AGGTTTCAAG
*
16559720 GTTTAGGGTTTCGAT
1 GTTTAGGGCTTCGAT
16559735 GTTTAGGGCTTCGAT
1 GTTTAGGGCTTCGAT
16559750 GTTT
1 GTTT
16559754 TAAGGCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.32, T:0.47
Consensus pattern (15 bp):
GTTTAGGGCTTCGAT
Found at i:16559934 original size:15 final size:15
Alignment explanation
Indices: 16559868--16559935 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
16559858 CAGGGTTTTA
**
16559868 AGGGTTTAGAAATTT
1 AGGGTTTAGATGTTT
*
16559883 AGGGTTTCA-AGTGGTT
1 AGGGTTT-AGA-TGTTT
* *
16559899 GGGGTTTTGAT-TTT
1 AGGGTTTAGATGTTT
*
16559913 AGAGTTTAGATGTTT
1 AGGGTTTAGATGTTT
16559928 AGGGTTTA
1 AGGGTTTA
16559936 TATTTTTGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
14 10 0.26
15 19 0.49
16 10 0.26
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.44
Consensus pattern (15 bp):
AGGGTTTAGATGTTT
Found at i:16560088 original size:25 final size:25
Alignment explanation
Indices: 16560046--16560109 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 25
16560036 CATATATATA
16560046 TTTTTTATTAAAATTTATTA-TTATTA-
1 TTTTTTATT--AA-TTATTATTTATTAG
16560072 TTGTTATTATTAATTATTATTTATTAG
1 TT-TT-TTATTAATTATTATTTATTAG
16560099 TTTTTTATTAA
1 TTTTTTATTAA
16560110 CTTTTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 13 0.38
26 12 0.35
27 4 0.12
28 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
TTTTTTATTAATTATTATTTATTAG
Found at i:16560106 original size:28 final size:26
Alignment explanation
Indices: 16560044--16560109 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 26
16560034 TTCATATATA
16560044 TATTTTTTATTAAAATTTATTATTAT
1 TATTTTTTATTAAAATTTATTATTAT
16560070 TATTGTTATTATT--AA-TTATTATTTAT
1 TATT-TT-TTATTAAAATTTATTA-TTAT
16560096 TAGTTTTTTATTAA
1 TA-TTTTTTATTAA
16560110 CTTTTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
25 11 0.32
26 14 0.41
27 4 0.12
28 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (26 bp):
TATTTTTTATTAAAATTTATTATTAT
Found at i:16560801 original size:15 final size:15
Alignment explanation
Indices: 16560781--16560811 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16560771 TGAAATGGTG
16560781 TTATTTTGATTTTTT
1 TTATTTTGATTTTTT
*
16560796 TTATTTTTATTTTTT
1 TTATTTTGATTTTTT
16560811 T
1 T
16560812 ACTATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (15 bp):
TTATTTTGATTTTTT
Found at i:16565950 original size:45 final size:45
Alignment explanation
Indices: 16565867--16565952 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
16565857 TTAGTTTTAC
* * *
16565867 TATTAAAATATTAGATGAAATAAGCAAAATATACACTAATAAGCA
1 TATTAAAACATTAAATGAAATAAGCAAAATACACACTAATAAGCA
*
16565912 TATTAAAACATTATAATGAAAATAAGCCAAAT-CA-ACTAATA
1 TATTAAAACATTA-AATG-AAATAAGCAAAATACACACTAATA
16565953 TATTTAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
45 19 0.54
46 4 0.11
47 12 0.34
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.27
Consensus pattern (45 bp):
TATTAAAACATTAAATGAAATAAGCAAAATACACACTAATAAGCA
Found at i:16569842 original size:22 final size:22
Alignment explanation
Indices: 16569814--16569873 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
16569804 TGGGCTCAAG
16569814 GGCTTAAGGGCCAATAGTCACA
1 GGCTTAAGGGCCAATAGTCACA
* **
16569836 GGCTTAAGAGCTCAA-AGTCATG
1 GGCTTAAGGGC-CAATAGTCACA
*
16569858 GGCCTAAGGGCCAATA
1 GGCTTAAGGGCCAATA
16569874 CAAAGGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.18
Consensus pattern (22 bp):
GGCTTAAGGGCCAATAGTCACA
Found at i:16570730 original size:10 final size:11
Alignment explanation
Indices: 16570696--16570738 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
16570686 AAATATTATT
16570696 AATAATATAAA
1 AATAATATAAA
16570707 AATATATATAAAA
1 AATA-ATAT-AAA
16570720 AATAA-ATAAA
1 AATAATATAAA
16570730 AATAATATA
1 AATAATATA
16570739 TTTTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.28
11 9 0.31
12 5 0.17
13 7 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATATAAA
Found at i:16571569 original size:6 final size:6
Alignment explanation
Indices: 16571558--16571582 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16571548 AGACAATGAT
16571558 GATATG GATATG GATATG GATATG G
1 GATATG GATATG GATATG GATATG G
16571583 GATTGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (6 bp):
GATATG
Found at i:16571595 original size:6 final size:6
Alignment explanation
Indices: 16571586--16571612 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16571576 GATATGGGAT
16571586 TGAAGA TGAAGA TGAAGA TGAAGA TGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGA
16571613 TGATAATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (6 bp):
TGAAGA
Found at i:16575666 original size:59 final size:59
Alignment explanation
Indices: 16575574--16575690 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
16575564 ATGGCATTTA
16575574 CTTAGTTTTGGTAATTGAATGATTATCCCATTCAAAGAATGCAATCTACTAGCTATGGT
1 CTTAGTTTTGGTAATTGAATGATTATCCCATTCAAAGAATGCAATCTACTAGCTATGGT
*
16575633 CTTAGTTTTGGTAATTGAATGATTATCCCATTCAAAGAATGCAATCTACTATCTATGG
1 CTTAGTTTTGGTAATTGAATGATTATCCCATTCAAAGAATGCAATCTACTAGCTATGG
16575691 CATCAGGTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (59 bp):
CTTAGTTTTGGTAATTGAATGATTATCCCATTCAAAGAATGCAATCTACTAGCTATGGT
Found at i:16588354 original size:32 final size:32
Alignment explanation
Indices: 16588318--16588383 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
16588308 CAAGAGGCTG
* * * *
16588318 AACTGCATATGTTGTTCCTAAGCATTAGCCTA
1 AACTGCATATATTGCTCCTAACCATGAGCCTA
*
16588350 AACTGCTTATATTGCTCCTAACCATGAGCCTA
1 AACTGCATATATTGCTCCTAACCATGAGCCTA
16588382 AA
1 AA
16588384 TTGCTCATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (32 bp):
AACTGCATATATTGCTCCTAACCATGAGCCTA
Found at i:16591958 original size:19 final size:19
Alignment explanation
Indices: 16591934--16591985 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
16591924 TTACATGCAT
*
16591934 ATTGACACCTTGCACTTGC
1 ATTGACACCTTGCACTTAC
16591953 ATTGACACCTTGCACTTAC
1 ATTGACACCTTGCACTTAC
*
16591972 ATTGACACTTTGCA
1 ATTGACACCTTGCA
16591986 TCAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (19 bp):
ATTGACACCTTGCACTTAC
Found at i:16592622 original size:198 final size:199
Alignment explanation
Indices: 16592383--16592781 Score: 737
Period size: 199 Copynumber: 2.0 Consensus size: 199
16592373 GTGACATTTT
16592383 TATCTTTGAGACGCCGATAATTTAGTGGCATTTTTATGAGAAAAACACCATTTCTTTGATGGCAT
1 TATCTTTGAGACGCCGATAATTTAGTGGCATTTTTATGAGAAAAACACCATTTCTTTGATGGCAT
*
16592448 TTGTATTAAAAAATGCC-CTTAACTAGCGACATTTGCTGGTAAAAGTGTTGCTACTTTTAGTGAT
66 TTGTATTAAAAAATGCCACTTAACTAGCGACATTTGCTGGTAAAAGTGTCGCTACTTTTAGTGAT
*
16592512 GTTTTATGATATAAACGCCACTAAATTATTCATTTAGTAACATTGTTGAATGCAAATGTTGCCAT
131 GTTTTATGATATAAACGCCACTAAATTATTCATTTAGCAACATTGTTGAATGCAAATGTTGCCAT
16592577 TATG
196 TATG
*
16592581 TATCTTTGAGACGCCGATAATTTAGTGGCATTTTTATGAGAAAAACACCATTTCTTTGATGGCGT
1 TATCTTTGAGACGCCGATAATTTAGTGGCATTTTTATGAGAAAAACACCATTTCTTTGATGGCAT
* *
16592646 TTGTATTAAAAAATGCCACTTAACTAGCGGCATTTGCTGGTAAAAGTGTCGCTACTTTTAGTGGT
66 TTGTATTAAAAAATGCCACTTAACTAGCGACATTTGCTGGTAAAAGTGTCGCTACTTTTAGTGAT
*
16592711 GTTTTATGATATAAACGCCACTAAATTATTCATTTAGCGACATTGTTGAATGCAAATGTTGCCAT
131 GTTTTATGATATAAACGCCACTAAATTATTCATTTAGCAACATTGTTGAATGCAAATGTTGCCAT
16592776 TATG
196 TATG
16592780 TA
1 TA
16592782 AAAATGTATT
Statistics
Matches: 194, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
198 81 0.42
199 113 0.58
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (199 bp):
TATCTTTGAGACGCCGATAATTTAGTGGCATTTTTATGAGAAAAACACCATTTCTTTGATGGCAT
TTGTATTAAAAAATGCCACTTAACTAGCGACATTTGCTGGTAAAAGTGTCGCTACTTTTAGTGAT
GTTTTATGATATAAACGCCACTAAATTATTCATTTAGCAACATTGTTGAATGCAAATGTTGCCAT
TATG
Found at i:16593256 original size:21 final size:20
Alignment explanation
Indices: 16593226--16593273 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
16593216 CAACTGTTGA
16593226 AATTTTGCATGCTCTTACTC
1 AATTTTGCATGCTCTTACTC
* * *
16593246 CATTTTAGCATGTTCTTCCTC
1 AATTTT-GCATGCTCTTACTC
16593267 AATTTTG
1 AATTTTG
16593274 GCACGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (20 bp):
AATTTTGCATGCTCTTACTC
Found at i:16601360 original size:171 final size:172
Alignment explanation
Indices: 16601052--16601362 Score: 398
Period size: 171 Copynumber: 1.8 Consensus size: 172
16601042 TATATTCAAA
* * * * **
16601052 AAAAATGCCTTTAATAATTCCTTTTAAATTTTGTAGATAATTAGTGAAGGCATTTGTAGATAACA
1 AAAAATACCTTTAATAATTCCTTTTAAACTTAGTACATAATTACCGAAGGCATTTGTAGATAACA
* * * *
16601117 ACTGCTTTCAATAATTTATTTAAAAAAATTTTTGAGATTATTAAAGGCGTCTTCTACTAGAAAAC
66 ACTGCCTTCAATAATTTACTTAAAAAAATTTTGGAGATTATTAAAAGCGTCTTCTACTAGAAAAC
*
16601182 GCCTTCAATATACCACACAATTATAAAAGGTATTTATTCTAG
131 ACCTTCAATATACCACACAATTATAAAAGGTATTTATTCTAG
*
16601224 AAAAATACCTTTAATAATTCC-TTTAAACTTAGTACATAATTACCGAAGGCGTTTGTTA-ATAAC
1 AAAAATACCTTTAATAATTCCTTTTAAACTTAGTACATAATTACCGAAGGCATTTG-TAGATAAC
* * * *
16601287 AAAC-GCCTTCAATAATTTCCCTTCAAAAAATTTTGGA-ATTATTAAAAGTGTTTTCTACT-GAA
65 -AACTGCCTTCAATAATTT-ACTTAAAAAAATTTTGGAGATTATTAAAAGCGTCTTCTACTAG-A
*
16601349 AAATACCTTCAATA
127 AAACACCTTCAATA
16601363 ATTCCTTTTA
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
170 1 0.01
171 78 0.66
172 39 0.33
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (172 bp):
AAAAATACCTTTAATAATTCCTTTTAAACTTAGTACATAATTACCGAAGGCATTTGTAGATAACA
ACTGCCTTCAATAATTTACTTAAAAAAATTTTGGAGATTATTAAAAGCGTCTTCTACTAGAAAAC
ACCTTCAATATACCACACAATTATAAAAGGTATTTATTCTAG
Found at i:16601433 original size:123 final size:124
Alignment explanation
Indices: 16601223--16601456 Score: 296
Period size: 124 Copynumber: 1.9 Consensus size: 124
16601213 ATTTATTCTA
* * * * *
16601223 GAAAAATACCTTTAATAATTCCTTTAAACTTAGTACATAATTACCGAAGGCGTTTGTTAATAACA
1 GAAAAATACCTTCAATAATTCCTTTAAACTTACTACATAAATACCAAAGGCGTTTATTAATAACA
*
16601288 AACGCCTTCAATAATTTCCCTTCAAAAAATT-TT-GGAATTATTAAAAGTGTTTTCTACT
66 AACACCTTCAATAATTTCCCTTCAAAAAATTGTTAGG-ATTATTAAAAGTGTTTTCTACT
* ** *
16601346 GAAAAATACCTTCAATAATTCCTTTTAAA-TTATCTTCATAAATATTAAAGGCGTTTATTGATAA
1 GAAAAATACCTTCAATAATTCC-TTTAAACTTA-CTACATAAATACCAAAGGCGTTTATTAATAA
* * *
16601410 TAAACACCTTCAATAATTT-CCTTCTAAAATTTGTTAGGATTATTAAA
64 CAAACACCTTCAATAATTTCCCTTCAAAAAATTGTTAGGATTATTAAA
16601457 GGCATCTTCT
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
123 35 0.37
124 57 0.61
125 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (124 bp):
GAAAAATACCTTCAATAATTCCTTTAAACTTACTACATAAATACCAAAGGCGTTTATTAATAACA
AACACCTTCAATAATTTCCCTTCAAAAAATTGTTAGGATTATTAAAAGTGTTTTCTACT
Found at i:16601454 original size:62 final size:58
Alignment explanation
Indices: 16601269--16601459 Score: 136
Period size: 62 Copynumber: 3.1 Consensus size: 58
16601259 ATAATTACCG
* * *
16601269 AAGGCGTTTGTTAATAACAAACGCCTTCAATAATTTCCCTTCAAAAAATTTT-GGAATTATTA
1 AAGGCGTTT-TT-ATAA-AAACACCTTCAATAATTT-CCTTCTAAAATTTTTAGG-ATTATTA
* * * * ** *
16601331 AAAGTGTTTTCTACTGAAAAATACCTTCAATAA-TTCCTT-TTAAATTATCTTCATAAATATTA
1 AAGGCGTTTT-TA-T-AAAAACACCTTCAATAATTTCCTTCTAAAATT-T-TT-AGGATTATTA
16601393 AAGGCGTTTATTGATAATAAACACCTTCAATAATTTCCTTCTAAAATTTGTTAGGATTATTA
1 AAGGCGTTT-TT-ATAA-AAACACCTTCAATAATTTCCTTCTAAAATTT-TTAGGATTATTA
16601455 AAGGC
1 AAGGC
16601460 ATCTTCTACT
Statistics
Matches: 99, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
59 4 0.04
60 5 0.05
61 8 0.08
62 63 0.64
63 13 0.13
64 6 0.06
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (58 bp):
AAGGCGTTTTTATAAAAACACCTTCAATAATTTCCTTCTAAAATTTTTAGGATTATTA
Found at i:16602487 original size:80 final size:79
Alignment explanation
Indices: 16602354--16602600 Score: 334
Period size: 80 Copynumber: 3.1 Consensus size: 79
16602344 TTTAAATATT
* * *
16602354 ATGGTTTGCTGAACCTTGTTGTCTGATATTATTTTGCTAAATGGTATTGTATGATATTGGGGGGC
1 ATGGTTTGCTGAACCTTGTTATCTGATATTGTTTTGCTGAAT-GTATTGTATGATATTGGGGGGC
16602419 TGAATCATATGCTGA
65 TGAATCATATGCTGA
* * * *
16602434 ATGGTTTGTTGAACCTTGTTATTTGATATTGTTTTGCCGAATAGTATTGTATGATATTGAGGGGC
1 ATGGTTTGCTGAACCTTGTTATCTGATATTGTTTTGCTGAAT-GTATTGTATGATATTGGGGGGC
*
16602499 TAAATCATATGCTGA
65 TGAATCATATGCTGA
* * *
16602514 ATGGTTTGCTGAACCTTATTATCTGATATTGTTTTGTTGAATGATTTTGTATGATATT-GGGGGC
1 ATGGTTTGCTGAACCTTGTTATCTGATATTGTTTTGCTGAATG-TATTGTATGATATTGGGGGGC
* **
16602578 TGAGTTGTATGCTGA
65 TGAATCATATGCTGA
16602593 ATGGTTTG
1 ATGGTTTG
16602601 TAGAATGGTG
Statistics
Matches: 146, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
79 25 0.17
80 121 0.83
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (79 bp):
ATGGTTTGCTGAACCTTGTTATCTGATATTGTTTTGCTGAATGTATTGTATGATATTGGGGGGCT
GAATCATATGCTGA
Found at i:16602623 original size:25 final size:25
Alignment explanation
Indices: 16602589--16602643 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
16602579 GAGTTGTATG
* * *
16602589 CTGAATGGTTTG-TAGAATGGTGTTT
1 CTGAGTGGTTTGCTA-AAAGGTGTGT
16602614 CTGAGTGGTTTGCTAAAAGGTGTGT
1 CTGAGTGGTTTGCTAAAAGGTGTGT
16602639 CTGAG
1 CTGAG
16602644 CACGTTGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.20, C:0.07, G:0.35, T:0.38
Consensus pattern (25 bp):
CTGAGTGGTTTGCTAAAAGGTGTGT
Found at i:16607071 original size:2 final size:2
Alignment explanation
Indices: 16607064--16607094 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16607054 TTGCATCAAT
*
16607064 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16607095 GTTGAACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.