Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 74 of 168
Found at i:21787679 original size:9 final size:9
Alignment explanation
Indices: 21787665--21787833 Score: 108
Period size: 9 Copynumber: 17.4 Consensus size: 9
21787655 AAATGACTTT
21787665 TTTTTATAA
1 TTTTTATAA
21787674 TTTTTATATA
1 TTTTTATA-A
21787684 TTTTTAATAA
1 TTTTT-ATAA
21787694 TTTATTATAA
1 TTT-TTATAA
*
21787704 CTTTTATAA
1 TTTTTATAA
*
21787713 GTTATTATAA
1 -TTTTTATAA
* *
21787723 TATTTACAA
1 TTTTTATAA
*
21787732 TTTTTATGGA
1 TTTTTAT-AA
21787742 TTTTT-TAA
1 TTTTTATAA
21787750 TTTTTTAATAA
1 -TTTTT-ATAA
*
21787761 TTTATTA-GA
1 TTT-TTATAA
*
21787770 TTGATTATAA
1 TT-TTTATAA
21787780 TTTTTATAA
1 TTTTTATAA
21787789 GTTTTTATAA
1 -TTTTTATAA
* *
21787799 TATTAATAA
1 TTTTTATAA
*
21787808 GTTTCTATGAA
1 -TTTTTAT-AA
21787819 TTTTTTTATAA
1 --TTTTTATAA
21787830 TTTT
1 TTTT
21787834 ATCTAAATCT
Statistics
Matches: 124, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.01
9 54 0.44
10 49 0.40
11 14 0.11
12 6 0.05
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:21787683 original size:11 final size:11
Alignment explanation
Indices: 21787663--21787711 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
21787653 ATAAATGACT
*
21787663 TTTTTTTATAA
1 TTTTTATATAA
21787674 TTTTTATAT-A
1 TTTTTATATAA
21787684 TTTTTA-ATAA
1 TTTTTATATAA
*
21787694 TTTAT-TATAA
1 TTTTTATATAA
*
21787704 CTTTTATA
1 TTTTTATA
21787712 AGTTATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 2 0.06
10 19 0.61
11 10 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTTATATAA
Found at i:21787689 original size:19 final size:18
Alignment explanation
Indices: 21787665--21787833 Score: 108
Period size: 19 Copynumber: 8.7 Consensus size: 18
21787655 AAATGACTTT
21787665 TTTTTATAATTTTTATATA
1 TTTTTATAATTTTTATA-A
21787684 TTTTTAATAATTTATTATAA
1 TTTTT-ATAATTT-TTATAA
* *
21787704 CTTTTATAAGTTATTATAA
1 TTTTTATAA-TTTTTATAA
* * *
21787723 TATTTACAATTTTTATGGA
1 TTTTTATAATTTTTAT-AA
21787742 TTTTT-TAATTTTTTAATAA
1 TTTTTATAA-TTTTT-ATAA
* *
21787761 TTTATTA-GATTGATTATAA
1 TTT-TTATAATT-TTTATAA
21787780 TTTTTATAAGTTTTTATAA
1 TTTTTATAA-TTTTTATAA
* * *
21787799 TATTAATAAGTTTCTATGAA
1 TTTTTATAA-TTTTTAT-AA
21787819 TTTTTTTATAATTTT
1 --TTTTTATAATTTT
21787834 ATCTAAATCT
Statistics
Matches: 116, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
18 11 0.09
19 65 0.56
20 25 0.22
21 8 0.07
22 7 0.06
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:21790903 original size:54 final size:54
Alignment explanation
Indices: 21790799--21790921 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
21790789 GGGGGCACGC
* * * *
21790799 GGCCGTGTCGCAGCCCATGTAACTCACTGACTTGAGACACACGGTCGTGTCCCA
1 GGCCGTGTCTCAGCCCATATAACTCACTAACTTGAGACACACGCTCGTGTCCCA
* * *
21790853 -GCCTGTGTCTCAGCCCATATAACTCACTAACTTGGGTCACACGACT-GTGTCGCA
1 GGCC-GTGTCTCAGCCCATATAACTCACTAACTTGAGACACACG-CTCGTGTCCCA
*
21790907 GGCCGTGTGTCAGCC
1 GGCCGTGTCTCAGCC
21790922 TGTATGGACT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
53 3 0.05
54 51 0.88
55 4 0.07
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (54 bp):
GGCCGTGTCTCAGCCCATATAACTCACTAACTTGAGACACACGCTCGTGTCCCA
Found at i:21794203 original size:5 final size:5
Alignment explanation
Indices: 21794193--21794237 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
21794183 ATGAACATTT
*
21794193 ATATC ATATC ATATA ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
21794238 GTGCCATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:21801973 original size:23 final size:23
Alignment explanation
Indices: 21801942--21801992 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
21801932 ACCTACTTTC
* * *
21801942 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
21801965 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
21801988 TTACA
1 TTACA
21801993 TTTCTCCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:21803620 original size:50 final size:50
Alignment explanation
Indices: 21803538--21803847 Score: 351
Period size: 50 Copynumber: 6.2 Consensus size: 50
21803528 TATCCTAGAT
* ** * * * * *
21803538 ATGGTCTTACATGAGATTTCTTATATCGGTGCCCATGCCATGTCCTAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *** * ** *
21803588 ATGATCTTATGGGGGACCTCTCATCTCAGTGCCAACATCATGTCGCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *
21803638 ATGGTCTTACATAGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
21803688 ATGGTCTTAC-----ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
21803733 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *
21803783 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAACGCCATGTCCCAGAC
21803839 ATGGTCTTA
1 ATGGTCTTA
21803848 TACGGGATCG
Statistics
Matches: 220, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
45 44 0.20
50 141 0.64
53 5 0.02
56 30 0.14
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:21803743 original size:95 final size:95
Alignment explanation
Indices: 21803603--21803793 Score: 328
Period size: 95 Copynumber: 2.0 Consensus size: 95
21803593 CTTATGGGGG
* *
21803603 ACCTCTCATCTCAGTGCCAACATCATGTCGCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
1 ACCTCTCATCTCAGTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
*
21803668 GCCAACGCCATGTCCTAGACATGGTCTTAC
66 GCCAACGCCATGTCCCAGACATGGTCTTAC
* * *
21803698 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
1 ACCTCTCATCTCAGTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
21803763 GCCAACGCCATGTCCCAGACATGGTCTTAC
66 GCCAACGCCATGTCCCAGACATGGTCTTAC
21803793 A
1 A
21803794 TGGGACCTCT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (95 bp):
ACCTCTCATCTCAGTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGT
GCCAACGCCATGTCCCAGACATGGTCTTAC
Found at i:21803749 original size:145 final size:147
Alignment explanation
Indices: 21803563--21803847 Score: 385
Period size: 145 Copynumber: 1.9 Consensus size: 147
21803553 ATTTCTTATA
* * * ** *
21803563 TCGGTGCCCATGCCATGTCCTAGACATGATCTTATGGGGGACCTCTCATCTCAGTGCCAACATCA
1 TCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACCTCTCATCTCAGTGCCAACACCA
* * *
21803628 TGTCGCAGACATGGTCTTACATAGGACCTCTC-ATCTC-GGTGCCAACGCCATGTCCTAGACATG
66 TGTCCCAGACATGGTCTTACATAGGACCTCTCAATCTCAGATGCCAACGCCATGTCCCAGACATG
21803691 GTCTTACACCTCTCATC
131 GTCTTACACCTCTCATC
* * * *
21803708 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCA
1 TCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACCTCTCATCTCAGTGCCAACACCA
* *
21803773 TGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGA
66 TGTCCCAGACATGGTCTTACATAGGACCTCTC--AATCTC-A-GATGCCAACGCCATGTCCCAGA
21803838 CATGGTCTTA
127 CATGGTCTTA
21803848 TACGGGATCG
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
145 85 0.71
148 5 0.04
151 29 0.24
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (147 bp):
TCGGTGCCAACGCCATGTCCCAGACATGATCTTACAGGGGACCTCTCATCTCAGTGCCAACACCA
TGTCCCAGACATGGTCTTACATAGGACCTCTCAATCTCAGATGCCAACGCCATGTCCCAGACATG
GTCTTACACCTCTCATC
Found at i:21806919 original size:23 final size:23
Alignment explanation
Indices: 21806888--21806939 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
21806878 ACCTACCTTC
* *
21806888 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
21806911 TTACAGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
21806934 TTACAG
1 TTACAG
21806940 AGCCATGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGGTA
Found at i:21810930 original size:25 final size:23
Alignment explanation
Indices: 21810898--21810949 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 23
21810888 GGATTTTTAT
21810898 TTTATTTAATATTAATATAATCATA
1 TTTATTTAATATTAATATAA--ATA
21810923 TTTATTTAATATTAATATAAATA
1 TTTATTTAATATTAATATAAATA
21810946 TTTA
1 TTTA
21810950 AATTAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 7 0.26
25 20 0.74
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTATTTAATATTAATATAAATA
Found at i:21810960 original size:25 final size:24
Alignment explanation
Indices: 21810898--21810961 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
21810888 GGATTTTTAT
*
21810898 TTTATTTAATATTAATATAATCATA
1 TTTAATTAATATTAATATAA-CATA
*
21810923 TTTATTTAATATTAATATAA-ATA
1 TTTAATTAATATTAATATAACATA
21810946 TTTAAATTAATTATTA
1 TTT-AATTAA-TATTA
21810962 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 25 0.69
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAATTAATATTAATATAACATA
Found at i:21810964 original size:18 final size:18
Alignment explanation
Indices: 21810920--21810966 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
21810910 TAATATAATC
21810920 ATATT-TATTTAATATTA
1 ATATTATATTTAATATTA
*
21810937 ATATAAATATTTAA-ATTA
1 ATAT-TATATTTAATATTA
21810955 ATTATTATATTT
1 A-TATTATATTT
21810967 TTTAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATATTTAATATTA
Found at i:21811156 original size:15 final size:14
Alignment explanation
Indices: 21811118--21811156 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
21811108 TGTAAGTAAT
21811118 ATTTAAAATAAAAA
1 ATTTAAAATAAAAA
*
21811132 AATTATAAATAAAAA
1 ATTTA-AAATAAAAA
21811147 ATTTGAAAAT
1 ATTT-AAAAT
21811157 TATATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 4 0.19
15 16 0.76
16 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATTTAAAATAAAAA
Found at i:21813115 original size:36 final size:36
Alignment explanation
Indices: 21813068--21813141 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
21813058 TGTTTCCTGC
21813068 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
1 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
21813104 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
1 AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
21813140 AA
1 AA
21813142 TTTTGGGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.08, G:0.22, T:0.46
Consensus pattern (36 bp):
AAATCTTATTGTGTTACCATTTGGGGAGTTTGATTT
Found at i:21832764 original size:41 final size:40
Alignment explanation
Indices: 21832702--21832862 Score: 250
Period size: 41 Copynumber: 3.9 Consensus size: 40
21832692 TCCTGACCTT
21832702 TTGGAGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TTGG-GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
21832743 TCTGTGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATGC
1 T-TGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
21832784 TTGGGGGTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TT-GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
21832825 TTTGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 -TTGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
21832863 AAGCATTTTA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
40 1 0.01
41 104 0.95
42 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
TTGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:21833268 original size:15 final size:15
Alignment explanation
Indices: 21833218--21833264 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
21833208 TATTTTAAGG
*
21833218 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
21833233 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
21833248 -TTAGGGATTAT-GA
1 TTTAGGGATTATGGA
21833261 TTTA
1 TTTA
21833265 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 2 0.07
14 14 0.47
15 14 0.47
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:21833555 original size:14 final size:14
Alignment explanation
Indices: 21833535--21833614 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
21833525 ACGAATTATA
21833535 GTTTAAGGGTT-GG
1 GTTTAAGGGTTAGG
*
21833548 GCTTTAAGGTTTAGG
1 G-TTTAAGGGTTAGG
21833563 GTTTAAGGGTTTAGG
1 GTTTAAGGG-TTAGG
* ***
21833578 GGTTAAACATTAGG
1 GTTTAAGGGTTAGG
* *
21833592 GGTTAAGAGTTAGG
1 GTTTAAGGGTTAGG
21833606 GATTTAAGG
1 G-TTTAAGG
21833615 TATAGGGATT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
13 1 0.02
14 33 0.63
15 18 0.35
ACGTcount: A:0.25, C:0.03, G:0.38, T:0.35
Consensus pattern (14 bp):
GTTTAAGGGTTAGG
Found at i:21833949 original size:50 final size:50
Alignment explanation
Indices: 21833878--21834085 Score: 283
Period size: 50 Copynumber: 4.0 Consensus size: 50
21833868 AAACCATTTG
* *
21833878 ATATATTTTATAATATTAGTTTAAATAAAATTAATAAATAAGTATAAATAAA
1 ATATA-TTTA-AATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
21833930 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAAT--AA-A
*
21833983 TATTTAAATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 -A--T--ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
21834038 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATATA-TTTAAATA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATA
21834086 TTAGTTTAAA
Statistics
Matches: 143, Mismatches: 4, Indels: 20
0.86 0.02 0.12
Matches are distributed among these distances:
50 79 0.55
51 5 0.03
52 8 0.06
53 1 0.01
54 2 0.01
55 1 0.01
56 3 0.02
58 44 0.31
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:21833974 original size:35 final size:34
Alignment explanation
Indices: 21833928--21834104 Score: 143
Period size: 35 Copynumber: 5.0 Consensus size: 34
21833918 AGTATAAATA
21833928 AAATATATTTAAATATTAGTTTAAATAGAATTAAT
1 AAATATATTTAAATATTAGTTTAAATA-AATTAAT
21833963 AAATA-AGTTTAAATAAAATATA-TTTAAAT--ATT--T
1 AAATATA-TTTAAAT---AT-TAGTTTAAATAAATTAAT
* * *
21833996 AAATATTAATTTAAATA-GAATTAATAAATAAGTTTAAAT
1 AAATA-T-ATTTAAATATTAGTT--TAAATAA-ATT-AAT
21834035 AAAATATATTTAAATATTAGTTTAAATAGAATTAAT
1 -AAATATATTTAAATATTAGTTTAAATA-AATTAAT
*
21834071 AAATATATTTAAATATTAGTTTAAATAAAATAAT
1 AAATATATTTAAATATTAGTTTAAATAAATTAAT
21834105 TTTTGTTCAA
Statistics
Matches: 116, Mismatches: 6, Indels: 41
0.71 0.04 0.25
Matches are distributed among these distances:
30 1 0.01
31 2 0.02
32 1 0.01
33 11 0.09
34 7 0.06
35 49 0.42
36 6 0.05
37 8 0.07
38 19 0.16
39 7 0.06
40 5 0.04
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (34 bp):
AAATATATTTAAATATTAGTTTAAATAAATTAAT
Found at i:21833988 original size:15 final size:15
Alignment explanation
Indices: 21833970--21834050 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
21833960 AATAAATAAG
21833970 TTTAAATAAAATATA
1 TTTAAATAAAATATA
*
21833985 TTTAAATATTTAA-ATA
1 TTTAAATA--AAATATA
* * *
21834001 -TTAATTTAAATAGA
1 TTTAAATAAAATATA
*
21834015 ATT-AAT-AAATA-A
1 TTTAAATAAAATATA
21834027 GTTTAAATAAAATATA
1 -TTTAAATAAAATATA
21834043 TTTAAATA
1 TTTAAATA
21834051 TTAGTTTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
12 1 0.02
13 9 0.18
14 7 0.14
15 28 0.55
16 4 0.08
17 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTAAATAAAATATA
Found at i:21834000 original size:23 final size:23
Alignment explanation
Indices: 21833895--21833981 Score: 111
Period size: 23 Copynumber: 3.6 Consensus size: 23
21833885 TTATAATATT
21833895 AGTTTAAATAAAATTAATAAATA
1 AGTTTAAATAAAATTAATAAATA
* *
21833918 AGTATAAATAAAATATATTTAAATA
1 AGTTTAAATAAAAT-TA-ATAAATA
*
21833943 TTAGTTTAAATAGAATTAATAAATA
1 --AGTTTAAATAAAATTAATAAATA
21833968 AGTTTAAATAAAAT
1 AGTTTAAATAAAAT
21833982 ATATTTAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 26 0.48
24 2 0.04
25 12 0.22
26 2 0.04
27 12 0.22
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
AGTTTAAATAAAATTAATAAATA
Found at i:21834009 original size:58 final size:58
Alignment explanation
Indices: 21833932--21834052 Score: 233
Period size: 58 Copynumber: 2.1 Consensus size: 58
21833922 TAAATAAAAT
*
21833932 ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
1 ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
21833990 ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
1 ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
21834048 ATATT
1 ATATT
21834053 AGTTTAAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (58 bp):
ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
Found at i:21834012 original size:108 final size:109
Alignment explanation
Indices: 21833884--21834085 Score: 354
Period size: 108 Copynumber: 1.9 Consensus size: 109
21833874 TTTGATATAT
*
21833884 TTTATAATATTAGTTTAAATAAAATTAATAAATAAGTATAAATAAAATATATTTAAATATTAGTT
1 TTTATAATATTAATTTAAATAAAATTAATAAATAAGTATAAATAAAATATATTTAAATATTAGTT
21833949 TAAATAGAATTAATAAATA-AGTTTAAATAAAATATATTTAAATA
66 TAAATAGAATTAATAAATATA-TTTAAATAAAATATATTTAAATA
* *
21833993 TTTA-AATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAAATATTAGTT
1 TTTATAATATTAATTTAAATAAAATTAATAAATAAGTATAAATAAAATATATTTAAATATTAGTT
21834057 TAAATAGAATTAATAAATATATTTAAATA
66 TAAATAGAATTAATAAATATATTTAAATA
21834086 TTAGTTTAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
108 84 0.94
109 5 0.06
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (109 bp):
TTTATAATATTAATTTAAATAAAATTAATAAATAAGTATAAATAAAATATATTTAAATATTAGTT
TAAATAGAATTAATAAATATATTTAAATAAAATATATTTAAATA
Found at i:21834033 original size:23 final size:24
Alignment explanation
Indices: 21833995--21834085 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 24
21833985 TTTAAATATT
*
21833995 TAAATATTAATTTAAATAGAATTAA
1 TAAATA-TAGTTTAAATAGAATTAA
* *
21834020 TAAATA-AGTTTAAATAAAATATATT
1 TAAATATAGTTTAAATAGAAT-TA-A
21834045 TAAATATTAGTTTAAATAGAATTAA
1 TAAATA-TAGTTTAAATAGAATTAA
21834070 TAAATATA-TTTAAATA
1 TAAATATAGTTTAAATA
21834086 TTAGTTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 20 0.35
24 4 0.07
25 18 0.32
26 2 0.04
27 13 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TAAATATAGTTTAAATAGAATTAA
Found at i:21836414 original size:27 final size:27
Alignment explanation
Indices: 21836320--21836414 Score: 72
Period size: 27 Copynumber: 3.5 Consensus size: 27
21836310 TACTTGTATT
*
21836320 TAAAATAATAAAACT-TA-AAAAAGTT-
1 TAAAATAATAAAAATATATAAAAA-TTA
* * **
21836345 TAAAACAAATTAAAAATACATAAATTTTA
1 TAAAA-TAA-TAAAAATATATAAAAATTA
*
21836374 TAAAAGAA-ATAAAATATATAAAAATTA
1 TAAAATAATA-AAAATATATAAAAATTA
21836401 TAAAATAATAAAAA
1 TAAAATAATAAAAA
21836415 CTTGAAAGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 5 0.09
26 3 0.06
27 31 0.58
28 6 0.11
29 8 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAATAATAAAAATATATAAAAATTA
Found at i:21838248 original size:13 final size:13
Alignment explanation
Indices: 21838232--21838263 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
21838222 TTTATTATTT
21838232 TAAATTCTAAAAC
1 TAAATTCTAAAAC
21838245 TAAATTCTAAAAC
1 TAAATTCTAAAAC
21838258 TAAATT
1 TAAATT
21838264 TATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATTCTAAAAC
Found at i:21838561 original size:43 final size:43
Alignment explanation
Indices: 21838453--21838679 Score: 289
Period size: 43 Copynumber: 5.3 Consensus size: 43
21838443 ATATTATGTT
* ** * * * *
21838453 TTTAGCGGCGTTTTTGCTAGAAGCGCCACTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
21838495 TTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
21838538 TTTAGCGACGTTTATGGGAAAAGCGCCGCTGAAA-GTCGTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCT-AAAGGTCGTGGTC
21838581 TTTAGCGGCGTTTGTGAGAAGAA-CGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGAGAA-AAGCGCCGCTAAAGGTCGTGGTC
*
21838624 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
21838667 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
21838680 TTTTTGGTGC
Statistics
Matches: 164, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
42 35 0.21
43 124 0.76
44 5 0.03
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:21844988 original size:29 final size:32
Alignment explanation
Indices: 21844940--21844999 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
21844930 AATTTTGTGC
21844940 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAAA
* *
21844972 AGGAA-ACAA-TT-GGGCTAGATTGAAGAAA
1 AGGAATACAATTTGGGGCTAAATAGAAGAAA
21845000 GAAGCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 15 0.58
30 2 0.08
31 4 0.15
32 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.27, T:0.18
Consensus pattern (32 bp):
AGGAATACAATTTGGGGCTAAATAGAAGAAAA
Found at i:21846880 original size:30 final size:30
Alignment explanation
Indices: 21846846--21846905 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21846836 TATTAATATG
* *
21846846 TATACATACATATA-TATACAAAGATAAATA
1 TATACATACATAGATTATA-AAAAATAAATA
*
21846876 TATACATATATAGATTATAAAAAATAAATA
1 TATACATACATAGATTATAAAAAATAAATA
21846906 CATATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (30 bp):
TATACATACATAGATTATAAAAAATAAATA
Found at i:21846923 original size:24 final size:23
Alignment explanation
Indices: 21846851--21846927 Score: 64
Period size: 26 Copynumber: 3.0 Consensus size: 23
21846841 ATATGTATAC
* *
21846851 ATACATATATATACAAAGATAAATAT
1 ATACATATAAATA-AAA-A-AAATAA
*
21846877 ATACATATATAGATTATAAAAAATAA
1 ATACATATA-A-A-TAAAAAAAATAA
21846903 ATACATATAAATAAAATAAAATAA
1 ATACATATAAATAAAA-AAAATAA
21846927 A
1 A
21846928 AATAATTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 4 0.09
24 9 0.21
25 1 0.02
26 23 0.53
27 1 0.02
28 3 0.07
29 2 0.05
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.29
Consensus pattern (23 bp):
ATACATATAAATAAAAAAAATAA
Found at i:21846929 original size:30 final size:28
Alignment explanation
Indices: 21846895--21846955 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
21846885 ATAGATTATA
21846895 AAAAATAAATACATATAAATAAAATAAAAT
1 AAAAATAAATACAT-TAAATAAAA-AAAAT
* * *
21846925 AAAAATAATTACATTATATTAAAAAAAT
1 AAAAATAAATACATTAAATAAAAAAAAT
21846953 AAA
1 AAA
21846956 TATGCGTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 8 0.29
29 7 0.25
30 13 0.46
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAATAAATACATTAAATAAAAAAAAT
Found at i:21848737 original size:45 final size:45
Alignment explanation
Indices: 21848632--21848779 Score: 145
Period size: 45 Copynumber: 3.3 Consensus size: 45
21848622 TTCTAATCCA
* * * * *
21848632 CTCCACTACAACTTTAGGGATATAGGATTTG-TTTATTTAGTCTG
1 CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
* * * ** * *
21848676 CCCCACTGCAATTTTAGGGGGATAAGACTTGCTTCCTTGAGTTTG
1 CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
* * *
21848721 CTCCACTACAACTTTAGGGAAATAAGACTCGCTTTCTTGGGTCTA
1 CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
*
21848766 CTCCACTGCAACTT
1 CTCCACTACAACTT
21848780 CAAGGAGATA
Statistics
Matches: 81, Mismatches: 22, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 24 0.30
45 57 0.70
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
CTCCACTACAACTTTAGGGAAATAAGACTTGCTTTCTTGAGTCTG
Found at i:21848874 original size:44 final size:44
Alignment explanation
Indices: 21848765--21848922 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 44
21848755 TCTTGGGTCT
* * * **
21848765 ACTCCACTGCAACTTCAAGGAGATAAAACCCGAT-GTGAT-AT--
1 ACTCCACTGCAACTTCAGGGAGATAAGATCCG-TGGTTTTAATCC
* *
21848806 ACTCTACTGCACCTTC-GGAGAGATAAGATCCGTGGTTTTAATCC
1 ACTCCACTGCAACTTCAGG-GAGATAAGATCCGTGGTTTTAATCC
* *** * * *
21848850 ACTCCACTGCAACTTCAGGGAGATAGGATAATTGGCTTCAAACC
1 ACTCCACTGCAACTTCAGGGAGATAAGATCCGTGGTTTTAATCC
*
21848894 GCTCCACTGCAACTTCAGGGAGATAAGAT
1 ACTCCACTGCAACTTCAGGGAGATAAGAT
21848923 TTGCCATACA
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.02
41 28 0.30
42 2 0.02
44 59 0.63
45 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATCCGTGGTTTTAATCC
Found at i:21849269 original size:44 final size:44
Alignment explanation
Indices: 21849220--21849769 Score: 608
Period size: 44 Copynumber: 12.8 Consensus size: 44
21849210 ATCTGCTATT
* * *
21849220 TTCAACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACGATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
21849264 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTATAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
21849308 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
21849352 TTCAACCCATTCCACTGCTGACTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
21849396 TTTAACCTATTCCACTACTGTCCAGGGAGATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * *
21849435 TT-AATCTATTCCACTGCT-ACCCAAGGAAATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGA-CCAGGGAGATAGGATTCACAATC
21849478 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * *
21849522 TTTAACCTATTCCACTGTTGTCTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
** *
21849566 TTTGACCTATTTCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
** * *
21849610 TTTGACCTATTTCACTGCTGACCAGGGAGATAGG----GC--TC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * * * * *
21849648 TTTAATCTATTCCACTTCCGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
21849692 TTCAACCTATTCAACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
21849736 TTTAACCTATTCCACTACTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
21849770 GCTGGGGTCA
Statistics
Matches: 427, Mismatches: 62, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
38 56 0.13
39 2 0.00
40 3 0.01
42 3 0.01
43 3 0.01
44 357 0.84
45 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:21849599 original size:214 final size:214
Alignment explanation
Indices: 21849261--21849769 Score: 750
Period size: 214 Copynumber: 2.4 Consensus size: 214
21849251 AGGGTTCACG
* * * *
21849261 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CCTATAATCTTCAATCTATTCCACTG
1 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTTAACCTATTCCACTG
* * * *
21849325 CTGCCCAGGGAGATAGAATTCTCAATCTTCAACCCATTCCACTGCTGACTAGGGAGATAGGATTC
65 CTGACCAGGGAGATAGGATTCACAATCTTCAACCCATTCCACTGCTGACCAGGGAGATAGGATTC
* * *
21849390 ACAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGATTCTTTAATCTATTCCACTGCTAC
130 ACAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGACTCTTTAATCTATTCCACTGCCAC
21849455 CCAAGGAAATAGAATTCTCA
195 CCAAGGAAATAGAATTCTCA
*
21849475 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGT
1 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGC
* * ** * *
21849540 TGTCTAGGGAGATAGGATTCACAATCTTTGACCTATTTCACTGCTGACCAGGGAGATAGGATTCA
66 TGACCAGGGAGATAGGATTCACAATCTTCAACCCATTCCACTGCTGACCAGGGAGATAGGATTCA
* * * * * *
21849605 CAATCTTTGACCTATTTCACTGCTGACCAGGGAGATAGGGCTCTTTAATCTATTCCACTTCCGCC
131 CAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGACTCTTTAATCTATTCCACTGCCACC
* *
21849670 CAGGGAGATAGAATTCTCA
196 CAAGGAAATAGAATTCTCA
* *
21849689 ATCTTCAACCTATTCAACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTAC
1 ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGC
21849754 TGACCAGGGAGATAGG
66 TGACCAGGGAGATAGG
21849770 GCTGGGGTCA
Statistics
Matches: 264, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
214 263 1.00
215 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (214 bp):
ATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGC
TGACCAGGGAGATAGGATTCACAATCTTCAACCCATTCCACTGCTGACCAGGGAGATAGGATTCA
CAATCTTTAACCTATTCCACTACTGACCAGGGAGATAGGACTCTTTAATCTATTCCACTGCCACC
CAAGGAAATAGAATTCTCA
Found at i:21849772 original size:126 final size:128
Alignment explanation
Indices: 21849220--21849769 Score: 566
Period size: 126 Copynumber: 4.3 Consensus size: 128
21849210 ATCTGCTATT
* * *
21849220 TTCAACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATA-GG-T-AC-ATCTTTAACCTATTCCACTTCTG
* * * * * *
21849284 ACCAGGGAGATAGGA-CCTATAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTC
61 TCCAGGGAGATAGGATTCT-CAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTCAC
21849348 AATC
125 AATC
* * *
21849352 TTCAACCCATTCCACTGCTGACTAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG--T-AC-ATCTTTAACCTATTCCACTTCTGT
* * * *
21849417 CCAGGGAGATAGGA-T-TC--T-TT-AATCTATTCCACTGCT-ACCCAAGGAAATAGAATTCTCA
62 CCAGGGAGATAGGATTCTCAATCTTCAACCTATTCCACTGCTGA-CCAGGGAGATAGAATTCACA
21849475 ATC
126 ATC
21849478 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGT-TG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG--T-AC-ATCTTTAACCTATTCCACT-TCTG
* * ** * *
21849542 TCTAGGGAGATAGGATTCACAATCTTTGACCTATTTCACTGCTGACCAGGGAGATAGGATTCACA
61 TCCAGGGAGATAGGATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACA
21849607 ATC
126 ATC
** * * * * *
21849610 TTTGACCTATTTCACTGCTGACCAGGGAGATAGG-GC-TCTTTAATCTATTCCACTTCCGCCCAG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGTACATCTTTAACCTATTCCACTTCTGTCCAG
* * *
21849673 GGAGATAGAATTCTCAATCTTCAACCTATTCAACTGCTGACCAGGGAGATAGGATTCACAATC
66 GGAGATAGGATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
* *
21849736 TTTAACCTATTCCACTACTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
21849770 GCTGGGGTCA
Statistics
Matches: 365, Mismatches: 41, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
125 1 0.00
126 220 0.60
127 3 0.01
128 3 0.01
130 1 0.00
131 5 0.01
132 130 0.36
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (128 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGTACATCTTTAACCTATTCCACTTCTGTCCAG
GGAGATAGGATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
Found at i:21849828 original size:88 final size:88
Alignment explanation
Indices: 21849736--21850170 Score: 306
Period size: 88 Copynumber: 5.0 Consensus size: 88
21849726 ATTCACAATC
* * * * *
21849736 TTTAACCTATTCCACTACTGA-CCAGGGAGATAGGGCTGGGGTCATCAATCTGCTTCGCTGTCGG
1 TTTAACCTACTCCACTAC-AACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGG
21849800 TACAGGAAGGCAAGATCTGCTATT
65 TACAGGAAGGCAAGATCTGCTATT
* * * * ** * *
21849824 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTTTCTTCGATCTGCTTCACTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
*
21849889 GCAGGAAGGCAAGATCTGCTATT
66 ACAGGAAGGCAAGATCTGCTATT
* * * * * ** * **
21849912 TTT-AGC--CTGCGCTGCAACCCAGGGAGACAAGGCTGGTGT-ATTTGATCTGCTTCGCTACCGG
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCA-TCAATCTGCTTCACTGTCGG
* *
21849973 TGCAGGAAGGCAAGATCTTCTATT
65 TACAGGAAGGCAAGATCTGCTATT
* * * * * * * * * * * * *
21849997 TTTAGCTTGCTCCGCTGCAACCTAGGGAGGCAATGTTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
* *
21850062 GCAGGAAGGTAAGATCTGCTATT
66 ACAGGAAGGCAAGATCTGCTATT
* * ** * * * * * * ** **
21850085 TTT-ACCTTCTCCGCTGTAACCCAGGGAGGCAAGGCTAGTGACTTCGATCTGCTTCGTTGTTAGT
1 TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
*
21850149 ATAGGAAGGCAAGATCTGCTAT
66 ACAGGAAGGCAAGATCTGCTAT
21850171 CTTCACTGAT
Statistics
Matches: 288, Mismatches: 53, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
85 72 0.25
87 71 0.25
88 145 0.50
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
TTTAACCTACTCCACTACAACCCAGGGAGACAAGGCTGGGGTCATCAATCTGCTTCACTGTCGGT
ACAGGAAGGCAAGATCTGCTATT
Found at i:21849974 original size:85 final size:86
Alignment explanation
Indices: 21849783--21850170 Score: 492
Period size: 88 Copynumber: 4.5 Consensus size: 86
21849773 GGGGTCATCA
* *
21849783 ATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTT-AGCT-CTCCGCTGCAACCCA
* *
21849848 GGGAGGCAAGGCTGGTTTCTTCG
64 GGGAGGCAAGGCTGGTGTATTCG
* *
21849871 ATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC-CTGCGCTGCAACCCAGG
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTCTCCGCTGCAACCCAGG
* *
21849935 GAGACAAGGCTGGTGTATTTG
66 GAGGCAAGGCTGGTGTATTCG
** * *
21849956 ATCTGCTTCGCTACCGGTGCAGGAAGGCAAGATCTTCTATTTTTAGCTTGCTCCGCTGCAACCTA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC-T-CTCCGCTGCAACCCA
* * *
21850021 GGGAGGCAATGTTGGTGTCTTCG
64 GGGAGGCAAGGCTGGTGTATTCG
* * *
21850044 ATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTTTTACCTTCTCCGCTGTAACCCAG
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGC-TCTCCGCTGCAACCCAG
*
21850109 GGAGGCAAGGCTAGTG-ACTTCG
65 GGAGGCAAGGCTGGTGTA-TTCG
* ** **
21850131 ATCTGCTTCGTTGTTAGTATAGGAAGGCAAGATCTGCTAT
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
21850171 CTTCACTGAT
Statistics
Matches: 260, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
85 76 0.29
87 67 0.26
88 117 0.45
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (86 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCTCTCCGCTGCAACCCAGG
GAGGCAAGGCTGGTGTATTCG
Found at i:21850046 original size:173 final size:174
Alignment explanation
Indices: 21849783--21850170 Score: 528
Period size: 173 Copynumber: 2.2 Consensus size: 174
21849773 GGGGTCATCA
**
21849783 ATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
*
21849848 GGGAGGCAAGGCTGGTTTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
66 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
* * * *
21849913 TTAGC-CTGCGCTGCAACCCAGGGAGACAAGGCTGGTGTA-TTTG
131 TTACCTCTCCGCTGCAACCCAGGGAGACAAGGCTAGTG-ACTTCG
* * * * *
21849956 ATCTGCTTCGCTACCGGTGCAGGAAGGCAAGATCTTCTATTTTTAGCTTGCTCCGCTGCAACCTA
1 ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* * * *
21850021 GGGAGGCAATGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGTAAGATCTGCTATTT
66 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
* *
21850086 TTACCTTCTCCGCTGTAACCCAGGGAGGCAAGGCTAGTGACTTCG
131 TTACC-TCTCCGCTGCAACCCAGGGAGACAAGGCTAGTGACTTCG
* **** *
21850131 ATCTGCTTCGTTGTTAGTATAGGAAGGCAAGATCTGCTAT
1 ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTAT
21850171 CTTCACTGAT
Statistics
Matches: 186, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
173 122 0.66
174 1 0.01
175 63 0.34
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (174 bp):
ATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
TTACCTCTCCGCTGCAACCCAGGGAGACAAGGCTAGTGACTTCG
Found at i:21855954 original size:30 final size:28
Alignment explanation
Indices: 21855915--21855978 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
21855905 TATATAGATT
21855915 ATAAGAAATAATTACATATAAATAAAATAAA
1 ATAA-AAATAATTACAT-TAAATAAAA-AAA
* *
21855946 ATAAAAATAATTACATTATATTAAAAAA
1 ATAAAAATAATTACATTAAATAAAAAAA
21855974 ATAAA
1 ATAAA
21855979 TATGCGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 8 0.26
29 7 0.23
30 12 0.39
31 4 0.13
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAAAATAATTACATTAAATAAAAAAA
Found at i:21856019 original size:25 final size:26
Alignment explanation
Indices: 21855990--21856039 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21855980 ATGCGTATGT
*
21855990 ATATATA-A-ATATGTGTAAAAAATAC
1 ATATATACATATAT-TGAAAAAAATAC
21856015 ATATATACATATATTGAAAAAAATA
1 ATATATACATATATTGAAAAAAATA
21856040 ATTAAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (26 bp):
ATATATACATATATTGAAAAAAATAC
Found at i:21856019 original size:27 final size:26
Alignment explanation
Indices: 21855989--21856039 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
21855979 TATGCGTATG
* *
21855989 TATATATAAATATGTGTAAAAAATACA
1 TATATACAAATAT-TGAAAAAAATACA
*
21856016 TATATACATATATTGAAAAAAATA
1 TATATACAAATATTGAAAAAAATA
21856040 ATTAAATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (26 bp):
TATATACAAATATTGAAAAAAATACA
Found at i:21862985 original size:71 final size:71
Alignment explanation
Indices: 21862895--21863028 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
21862885 AGCACTTGGT
* * *
21862895 GCAAATCTTCTGTCAGTTTATCTGACTAGTGCTG-GCCACAACTGCCGTCGGTTATCCGACTAGT
1 GCAAATCTTCTATCAGTTTATCTGACTAATGCTGAG-CACAACTACCGTCGGTTATCCGACTAGT
21862959 GCTAAAC
65 GCTAAAC
* * *
21862966 GCAAATCTTCTATTAGTTTATTTGACTAATGCTGAGCACAACTATCGTCGGTTATCCGACTAG
1 GCAAATCTTCTATCAGTTTATCTGACTAATGCTGAGCACAACTACCGTCGGTTATCCGACTAG
21863029 CTGGGCGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 55 0.98
72 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (71 bp):
GCAAATCTTCTATCAGTTTATCTGACTAATGCTGAGCACAACTACCGTCGGTTATCCGACTAGTG
CTAAAC
Found at i:21864172 original size:42 final size:42
Alignment explanation
Indices: 21864126--21864206 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
21864116 GTTCGAAGGT
* * * *
21864126 TACACGGCCTGAGACATGGGCGTGTGCCTCAGTCGTGTGAGG
1 TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTGAGG
21864168 TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTG
1 TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTG
21864207 GGGCACACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.27, G:0.35, T:0.20
Consensus pattern (42 bp):
TACACGGCCTAAGACACGGGCATGTGCCTCAGCCGTGTGAGG
Found at i:21864383 original size:41 final size:42
Alignment explanation
Indices: 21864317--21864395 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
21864307 TTATTATACT
21864317 TACATGTTATTTTTTTTAAAATAAAAAAAT-TGAAAAAATTAG
1 TACATGTTATTTTTTTTAAAAT-AAAAAATGTGAAAAAATTAG
***
21864359 TACAT-TTATTTTTTTTACCTTAAAAAATGTGAAAAAA
1 TACATGTTATTTTTTTTAAAATAAAAAATGTGAAAAAA
21864396 AGAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 7 0.21
41 21 0.64
42 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (42 bp):
TACATGTTATTTTTTTTAAAATAAAAAATGTGAAAAAATTAG
Found at i:21864953 original size:18 final size:18
Alignment explanation
Indices: 21864930--21864964 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21864920 GTTTTTGTTT
21864930 TTGTTCTTGTTATTATTC
1 TTGTTCTTGTTATTATTC
*
21864948 TTGTTCTTTTTATTATT
1 TTGTTCTTGTTATTATT
21864965 TTATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.09, G:0.09, T:0.71
Consensus pattern (18 bp):
TTGTTCTTGTTATTATTC
Found at i:21871528 original size:4 final size:4
Alignment explanation
Indices: 21871519--21871544 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21871509 CACACCTCTA
21871519 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
21871545 AGACTAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:21874322 original size:521 final size:515
Alignment explanation
Indices: 21872899--21874639 Score: 2523
Period size: 521 Copynumber: 3.4 Consensus size: 515
21872889 CGTAGATACC
* * ** *
21872899 CCCTTATGATACAAAGGCATGTTGTCCCCAATTGATCTTATAGAATTGCCTTTCTACGGGTTTGA
1 CCCTTATGATACAAGGGCATGTT-TTCCCTGTTGATCTTATGGAATTGCCTTTCTACGGGTTTGA
* * * * **
21872964 TGTTATTCTTGGTATGGACCGGTTGACTAAACACAAGGCTAAGGTAGAATTTAAGACGAAAAGAA
65 TGTTATTCTTGATATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACTAA
* * * *
21873029 TTACTTAGAAGAATAGTGATGTGTTGGAAATTGTTGTTGTCGTTCAAATACTGTGATTTATGTCT
130 TTACTTAGAAGAATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACTGAGATTTATGTCT
*
21873094 AATGTGGTTTCAACTATGAAGGCTGAGAAGATGATGGGAACAGGTTGTGAAG----CTTAGCCTC
195 AATGTGGTTTCAACTATGAAGGCTGAGAAGATGAT-GGAAGAGGTTGTGAAGCTTACTTAGCCTC
* * * * *
21873155 TGTGATGAATTCAGTTAGTAAGGAGCTGAGAGTTCAGGATA-TTCCAATTTTTAAGGATATTCCT
259 TGTGATGAATTCAGTTAGTAAGGAGCTGAGAGTTCAGGATATTTGC-ACTCTTAAGAATTTTCCT
** * * *
21873219 AATGTGTTTCCTAAAGAGTTTTCTGGTTTGCCACCAAAATGTGAAGTGGATTTTGGTATTGAGCT
323 AACATGTTTCCTGAAGAGTTGTCTGGTTTGCCACCAGAATGTGAAGTGGATTTTGGTATTGAGCT
* * * *
21873284 CTATCTTGGTACTGCACCAGTGTCTATAGCACCCTATCGTATGCCACCAAAAGAACTCAAAGAAT
388 CTATCCTGGTACTGCACCAGTGTCTATAG--CCCTATCGTATGGCACCAAAAGAGCTCAAAGAGT
* * *
21873349 TACAGATTTAGTTGCAAGAGTTGCTTGACAGAGGGTTCA-TCTGACTGAGTTTATCTCCGTAGGG
451 TAAAGATTTAGTTGCAAGAGTTGCTTGACAGAGGGTTCATTC-GAC-GAGTGTATCTCCGTGGGG
21873413 TG
514 TG
* * *
21873415 CCCTTATGATACAAGGGCATGTTTTACCTTTTGATCTTATGGAATTGCCTTTCTATGGGTTTGAT
1 CCCTTATGATACAAGGGCATGTTTTCCCTGTTGATCTTATGGAATTGCCTTTCTACGGGTTTGAT
** *
21873480 GTTATTCTTGGCATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACAAAT
66 GTTATTCTTGATATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACTAAT
* *
21873545 TACTTAGAGGAATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACAGAGATTTATGTCTA
131 TACTTAGAAGAATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACTGAGATTTATGTCTA
**
21873610 ATGTGGTTTTGACTATGAAGGCTGAGAAGATGATGAGAAGAGGTTGTGAAGCTTACTTAGCACT-
196 ATGTGGTTTCAACTATGAAGGCTGAGAAGATGATG-GAAGAGGTTGTGAAGCTTACTTAGC-CTC
* *
21873674 TTTGATGAATTCAGTTAGTAAGGAGCTGAGAGTTCAGGATATTTGCTCTCTTAA-AGATTTTCCT
259 TGTGATGAATTCAGTTAGTAAGGAGCTGAGAGTTCAGGATATTTGCACTCTTAAGA-ATTTTCCT
* * *
21873738 AACATGTTTCCTGAAGAGTTGTCTAGTTTGCCACCAGAATGTAAAGTGGATTTTGGCATTGAGCT
323 AACATGTTTCCTGAAGAGTTGTCTGGTTTGCCACCAGAATGTGAAGTGGATTTTGGTATTGAGCT
* * * *
21873803 TTATCCTGATACTGCACCAGTGTCTATATTGCCTTATCATATGGCACCAAAAGAGCTCAAAGAGT
388 CTATCCTGGTACTGCACCAGTGTCTATA--GCCCTATCGTATGGCACCAAAAGAGCTCAAAGAGT
* * *
21873868 TAAAGATTTAGTTGTAAGAGTTGCTTGACAAATGGATT-ATTCGATCGAGTGTATCTCCGTGGGG
451 TAAAGATTTAGTTGCAAGAGTTGCTTGACAGA-GGGTTCATTCGA-CGAGTGTATCTCCGTGGGG
21873932 TG
514 TG
*
21873934 CCCTTAAGATACAAGGGCATGTTTTCCCTGTTGATCTTATTGG-ATTGCCTTTCTACGGGTTTGA
1 CCCTTATGATACAAGGGCATGTTTTCCCTGTTGATCTTA-TGGAATTGCCTTTCTACGGGTTTGA
21873998 TGTTATTCTTGATATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACTAA
65 TGTTATTCTTGATATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACTAA
* * * * *
21874063 TTTACTTAGAGGTAATAGTGATGGGTTGGAAATTGTTGATATTGTTTAAAGACTGAGATTTATGT
130 -TTACTTAGAAG-AATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACTGAGATTTATGT
* * * *
21874128 CTAATGTGGTTTCCATTATGAAGTCTGAGAAGATGATGGTAAGAGTTTGTGAAGCTTACTTAGCC
193 CTAATGTGGTTTCAACTATGAAGGCTGAGAAGATGATGG-AAGAGGTTGTGAAGCTTACTTAGCC
* *
21874193 TCTGTGATGAATTCAGTTAGTAAGGAGCTGAGAGTTTAGGATATTTGCACTGTTAAGAATTTTCC
257 TCTGTGATGAATTCAGTTAGTAAGGAGCTGAGAGTTCAGGATATTTGCACTCTTAAGAATTTTCC
*
21874258 TAACATGTTTCCTGAAGAGTTGTCTGGTTTGCCACCAGAATGTGAAGTTGATTTTGGTATTGAGC
322 TAACATGTTTCCTGAAGAGTTGTCTGGTTTGCCACCAGAATGTGAAGTGGATTTTGGTATTGAGC
* * *
21874323 TCTATCCTGGTATTGCACTAGTGTCTATAGCATCCTATCGTATGGCACGAAAAGAGCTCAAAGAG
387 TCTATCCTGGTACTGCACCAGTGTCTATAGC--CCTATCGTATGGCACCAAAAGAGCTCAAAGAG
*
21874388 TTAAAGATTTAGTTGCAAGAGTTGCTTGACAGAGGGTTCATTCGACCTAGTGTATCTCCGTGGGG
450 TTAAAGATTTAGTTGCAAGAGTTGCTTGACAGAGGGTTCATTCGA-CGAGTGTATCTCCGTGGGG
21874453 TG
514 TG
* *
21874455 CCCTTATGATATAAGGGCATGTTTTCCCTGTTGATCTTATGGAATTGTCTTTCTACGGGTTTGAT
1 CCCTTATGATACAAGGGCATGTTTTCCCTGTTGATCTTATGGAATTGCCTTTCTACGGGTTTGAT
*
21874520 GTTATTCTTGATATGGACTGGTTGACTGAACTTAAGGCTAAGGTAGAATTTAAGACGAAA-TGAA
66 GTTATTCTTGATATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACT-AA
*
21874584 TTACTCAGAAGAATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACTGAGA
130 TTACTTAGAAGAATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACTGAGA
21874640 AGATGATGGG
Statistics
Matches: 1103, Mismatches: 98, Indels: 45
0.89 0.08 0.04
Matches are distributed among these distances:
514 1 0.00
515 200 0.18
516 22 0.02
519 380 0.34
520 46 0.04
521 453 0.41
522 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (515 bp):
CCCTTATGATACAAGGGCATGTTTTCCCTGTTGATCTTATGGAATTGCCTTTCTACGGGTTTGAT
GTTATTCTTGATATGGACTGGTTGACTGAACATAAGGCTAAGGTAGAATTTAAGACGAAACTAAT
TACTTAGAAGAATAGTGATGGGTTGGAAATTGTTGTTGTCGTTGAAAGACTGAGATTTATGTCTA
ATGTGGTTTCAACTATGAAGGCTGAGAAGATGATGGAAGAGGTTGTGAAGCTTACTTAGCCTCTG
TGATGAATTCAGTTAGTAAGGAGCTGAGAGTTCAGGATATTTGCACTCTTAAGAATTTTCCTAAC
ATGTTTCCTGAAGAGTTGTCTGGTTTGCCACCAGAATGTGAAGTGGATTTTGGTATTGAGCTCTA
TCCTGGTACTGCACCAGTGTCTATAGCCCTATCGTATGGCACCAAAAGAGCTCAAAGAGTTAAAG
ATTTAGTTGCAAGAGTTGCTTGACAGAGGGTTCATTCGACGAGTGTATCTCCGTGGGGTG
Found at i:21881401 original size:22 final size:22
Alignment explanation
Indices: 21881339--21881410 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
21881329 ACTATTCAAA
* **
21881339 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
21881361 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
21881383 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
21881405 CATGAG
1 CATGAG
21881411 GGTTTAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:21892585 original size:27 final size:27
Alignment explanation
Indices: 21892547--21892600 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
21892537 AATAAATATG
21892547 TACATCTCTCACTGCGTCAACTACCAC
1 TACATCTCTCACTGCGTCAACTACCAC
*
21892574 TACATCTCTCACTGCGTCAACTGCCAC
1 TACATCTCTCACTGCGTCAACTACCAC
21892601 ACTTGTCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.41, G:0.09, T:0.26
Consensus pattern (27 bp):
TACATCTCTCACTGCGTCAACTACCAC
Found at i:21894827 original size:11 final size:11
Alignment explanation
Indices: 21894811--21894836 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21894801 GATTCCTAGA
21894811 AATTTATTTGT
1 AATTTATTTGT
21894822 AATTTATTTGT
1 AATTTATTTGT
21894833 AATT
1 AATT
21894837 ATAAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
AATTTATTTGT
Found at i:21896586 original size:15 final size:15
Alignment explanation
Indices: 21896563--21896594 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21896553 TCATTAATGA
21896563 AATGCATTAATTTTT
1 AATGCATTAATTTTT
*
21896578 AATGTATTAATTTTT
1 AATGCATTAATTTTT
21896593 AA
1 AA
21896595 AATTTTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
AATGCATTAATTTTT
Found at i:21896831 original size:16 final size:16
Alignment explanation
Indices: 21896812--21896842 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21896802 GAAAAAAACG
21896812 TATAAACTCAAAAGTA
1 TATAAACTCAAAAGTA
*
21896828 TATATACTCAAAAGT
1 TATAAACTCAAAAGT
21896843 GTAGTTATCT
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:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
TATAAACTCAAAAGTA
Found at i:21898624 original size:24 final size:25
Alignment explanation
Indices: 21898566--21898624 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
21898556 GTGTTATCAT
* *
21898566 CATATAAAAGTAAAATGAATTATTA
1 CATATAAAATTAAAATGAATTATAA
* *
21898591 CAT-TCGAAATTAAAAT-ATTTATAA
1 CATAT-AAAATTAAAATGAATTATAA
21898615 CATATAAAAT
1 CATATAAAAT
21898625 GCAAAATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (25 bp):
CATATAAAATTAAAATGAATTATAA
Found at i:21899071 original size:16 final size:17
Alignment explanation
Indices: 21899052--21899085 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21899042 AAACTTCTCA
21899052 CCAAAAA-AAAAAACTG
1 CCAAAAATAAAAAACTG
*
21899068 CCAAAAATAAAAAGCTG
1 CCAAAAATAAAAAACTG
21899085 C
1 C
21899086 TCACACCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.62, C:0.21, G:0.09, T:0.09
Consensus pattern (17 bp):
CCAAAAATAAAAAACTG
Found at i:21902181 original size:3 final size:3
Alignment explanation
Indices: 21902175--21902201 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21902165 ATAATAATAA
21902175 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
21902202 CTAAACTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21902857 original size:16 final size:16
Alignment explanation
Indices: 21902836--21902867 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21902826 TCTATAAAAA
21902836 AAGTGTGGAAAATAAT
1 AAGTGTGGAAAATAAT
21902852 AAGTGTGGAAAATAAT
1 AAGTGTGGAAAATAAT
21902868 GAAGAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (16 bp):
AAGTGTGGAAAATAAT
Found at i:21903927 original size:15 final size:15
Alignment explanation
Indices: 21903904--21903961 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
21903894 AATTAAGTAC
*
21903904 TTAAATTTTCAATAA
1 TTAATTTTTCAATAA
21903919 TTAATTTTTCAA-AA
1 TTAATTTTTCAATAA
* * *
21903933 CTTATTTTTTTAATAC
1 -TTAATTTTTCAATAA
*
21903949 TTACTTTTTCAAT
1 TTAATTTTTCAAT
21903962 TTATCAAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 2 0.06
15 32 0.91
16 1 0.03
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTTTTCAATAA
Found at i:21903936 original size:30 final size:30
Alignment explanation
Indices: 21903902--21903960 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
21903892 TAAATTAAGT
21903902 ACTTAAATTTTCAATAATTAATTTTTCAAA
1 ACTTAAATTTTCAATAATTAATTTTTCAAA
** * * *
21903932 ACTTATTTTTTTAATACTTACTTTTTCAA
1 ACTTAAATTTTCAATAATTAATTTTTCAA
21903961 TTTATCAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.53
Consensus pattern (30 bp):
ACTTAAATTTTCAATAATTAATTTTTCAAA
Found at i:21905115 original size:7 final size:7
Alignment explanation
Indices: 21905092--21905235 Score: 85
Period size: 7 Copynumber: 20.3 Consensus size: 7
21905082 ATTTTAGGGT
21905092 TTTAAGG
1 TTTAAGG
21905099 TTT-AGTG
1 TTTAAG-G
*
21905106 TTTATGG
1 TTTAAGG
21905113 TTTAAGG
1 TTTAAGG
*
21905120 TAT-AGTG
1 TTTAAG-G
* *
21905127 CTTATGG
1 TTTAAGG
*
21905134 TTTAGGG
1 TTTAAGG
**
21905141 TTTATTG
1 TTTAAGG
* *
21905148 TGTATGG
1 TTTAAGG
21905155 TTTAAGG
1 TTTAAGG
*
21905162 TTTAGGG
1 TTTAAGG
21905169 TTTAAGG
1 TTTAAGG
*
21905176 TTTAAGA
1 TTTAAGG
21905183 TTTAAGG
1 TTTAAGG
*
21905190 TTTTAAAG
1 -TTTAAGG
*
21905198 TTTAGGG
1 TTTAAGG
*
21905205 TTTATGG
1 TTTAAGG
**
21905212 TTTAAAC
1 TTTAAGG
*
21905219 TTTAGGG
1 TTTAAGG
21905226 TTTTAAGG
1 -TTTAAGG
21905234 TT
1 TT
21905236 CAATTACTTT
Statistics
Matches: 102, Mismatches: 29, Indels: 12
0.71 0.20 0.08
Matches are distributed among these distances:
6 4 0.04
7 84 0.82
8 14 0.14
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:21905118 original size:21 final size:21
Alignment explanation
Indices: 21905092--21905186 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
21905082 ATTTTAGGGT
21905092 TTTAAGGTTTAGTGTTTATGG
1 TTTAAGGTTTAGTGTTTATGG
* *
21905113 TTTAAGGTATAGTGCTTATGG
1 TTTAAGGTTTAGTGTTTATGG
* * *
21905134 TTTAGGGTTTATTGTGTATGG
1 TTTAAGGTTTAGTGTTTATGG
* *
21905155 TTTAAGGTTTAGGGTTTAAGG
1 TTTAAGGTTTAGTGTTTATGG
*
21905176 TTTAAGATTTA
1 TTTAAGGTTTA
21905187 AGGTTTTAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTAGTGTTTATGG
Found at i:21905202 original size:36 final size:36
Alignment explanation
Indices: 21905155--21905231 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
21905145 TTGTGTATGG
*
21905155 TTTAAGGTTTAGGGTTTAAGGTTTAAGA-TTTAAGGT
1 TTTAAAGTTTAGGGTTTAAGGTTTAA-ACTTTAAGGT
* *
21905191 TTTAAAGTTTAGGGTTTATGGTTTAAACTTTAGGGT
1 TTTAAAGTTTAGGGTTTAAGGTTTAAACTTTAAGGT
21905227 TTTAA
1 TTTAA
21905232 GGTTCAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 36 0.97
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (36 bp):
TTTAAAGTTTAGGGTTTAAGGTTTAAACTTTAAGGT
Found at i:21905517 original size:7 final size:7
Alignment explanation
Indices: 21905505--21905750 Score: 91
Period size: 7 Copynumber: 34.4 Consensus size: 7
21905495 AGATTTTTGA
21905505 GTTTAGG
1 GTTTAGG
21905512 GTTTAGG
1 GTTTAGG
* *
21905519 GTATA-T
1 GTTTAGG
* *
21905525 TTTTAAG
1 GTTTAGG
21905532 GTTTAGG
1 GTTTAGG
**
21905539 GTTTAAA
1 GTTTAGG
21905546 GTTTAGG
1 GTTTAGG
*
21905553 GTTTATG
1 GTTTAGG
* *
21905560 ATTTAGT
1 GTTTAGG
*
21905567 GTTAAGAG
1 GTTTAG-G
*
21905575 G-TTAGT
1 GTTTAGG
21905581 GTTTATGG
1 GTTTA-GG
* *
21905589 TTTATAAG
1 GTT-TAGG
* * *
21905597 ATCTAGAA
1 GTTTAG-G
21905605 GTTTAGG
1 GTTTAGG
*
21905612 GTTTTAAG
1 G-TTTAGG
**
21905620 GTTTAAT
1 GTTTAGG
*
21905627 GTTTATG
1 GTTTAGG
*
21905634 GTTTAGA
1 GTTTAGG
* *
21905641 GTATAGT
1 GTTTAGG
* *
21905648 GCTTATG
1 GTTTAGG
21905655 GTTTAGG
1 GTTTAGG
*
21905662 GTTTATG
1 GTTTAGG
* *
21905669 GTGTATG
1 GTTTAGG
21905676 GTTTAGG
1 GTTTAGG
*
21905683 GTTTATG
1 GTTTAGG
* *
21905690 ATTTAAG
1 GTTTAGG
*
21905697 GTTTAAG
1 GTTTAGG
21905704 GTTTAAGG
1 GTTT-AGG
*
21905712 TTTTAGG
1 GTTTAGG
*
21905719 GTTTAAG
1 GTTTAGG
*
21905726 GTTTAAG
1 GTTTAGG
*
21905733 CTTTAGG
1 GTTTAGG
21905740 GCTTTAGG
1 G-TTTAGG
21905748 GTT
1 GTT
21905751 CAATTACTCT
Statistics
Matches: 171, Mismatches: 59, Indels: 18
0.69 0.24 0.07
Matches are distributed among these distances:
6 4 0.02
7 137 0.80
8 28 0.16
9 2 0.01
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:21908191 original size:20 final size:22
Alignment explanation
Indices: 21908152--21908193 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
21908142 TATATATTAT
21908152 TTTTTAAATATTAAAACCTATA
1 TTTTTAAATATTAAAACCTATA
*
21908174 TTTTT-AATA-TATAACCTATA
1 TTTTTAAATATTAAAACCTATA
21908194 CTAGTATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 4 0.21
22 5 0.26
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTTAAATATTAAAACCTATA
Found at i:21908281 original size:14 final size:15
Alignment explanation
Indices: 21908255--21908284 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21908245 AATTTTAAAA
21908255 ATATTTATAAATATT
1 ATATTTATAAATATT
21908270 ATATTT-TAAATATT
1 ATATTTATAAATATT
21908284 A
1 A
21908285 AAACCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTATAAATATT
Found at i:21908311 original size:20 final size:21
Alignment explanation
Indices: 21908269--21908321 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
21908259 TTATAAATAT
21908269 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
21908290 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
*
21908310 TATATTTCAAAT
1 TATATTTTAAAT
21908322 TCATTACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:21908321 original size:97 final size:98
Alignment explanation
Indices: 21908207--21908413 Score: 344
Period size: 97 Copynumber: 2.1 Consensus size: 98
21908197 GTATGGATAA
*
21908207 ATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATATTTATAAATATTA-
1 ATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATAAATATTAC
*
21908271 TATTTTAAATATTAAAACCTATATTTTTAATAT
66 AATTTTAAATATTAAAACCTATATTTTTAATAT
* ** *
21908304 ATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATTTTAC
1 ATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATAAATATTAC
21908369 AATTTTAAATATTAAAACCTATATTTTTAATAT
66 AATTTTAAATATTAAAACCTATATTTTTAATAT
*
21908402 ATCACCTATATT
1 ATAACCTATATT
21908414 AGTATGAATA
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 59 0.58
98 43 0.42
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (98 bp):
ATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATAAATATTAC
AATTTTAAATATTAAAACCTATATTTTTAATAT
Found at i:21908345 original size:120 final size:118
Alignment explanation
Indices: 21908232--21908719 Score: 610
Period size: 121 Copynumber: 4.0 Consensus size: 118
21908222 AATTCATTAC
* ** * *
21908232 TAATAACT-TTTTAAATTTTAAAAATATTTATAAATATTATATTTTAAATATTAAAACCTATATT
1 TAATAATTATTTTAAATTTT-AAAATA-TTA-AAA-CCTATATTTTTAATA-TATAACCTATATT
*
21908296 -T-TTAATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACA
61 ATATGAATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTT-AACA
* *
21908353 TAATTATTTATTTTACAATTTT-AAATATTAAAACCTATATTTTTAATATATCACCTATATTAGT
1 TAA-TAATTATTTTA-AATTTTAAAATATTAAAACCTATATTTTTAATATATAACCTATATTA-T
*
21908417 ATGAATATATTACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACA
63 ATGAATATATAACCTATATTTCAAATTCATTACTAATAACTTTT-TAAATTTTA-ACA
* * *
21908475 TAATAATAAATATTATATTTT-AAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTA
1 TAATAAT-TATTTTAAATTTTAAAATATTAAAACCTATATTTTTAATATATAACCTATATTA-TA
*
21908539 TGGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACA
64 TGAATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTT-AACA
* * *
21908595 TAATTATT-TATTTATATTTTAAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTA
1 TAATAATTAT-TTTAAATTTTAAAATATTAAAACCTATATTTTTAATATATAACCTATATTA-TA
* *
21908659 TGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACA
64 TGAATATATAACCTATATTTCAAATTCATTACTAATAACTTTT-TAAATTTTA-ACA
21908716 TAAT
1 TAAT
21908720 TATAAATGTT
Statistics
Matches: 332, Mismatches: 21, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
118 12 0.04
119 21 0.06
120 106 0.32
121 155 0.47
122 27 0.08
123 5 0.02
124 6 0.02
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (118 bp):
TAATAATTATTTTAAATTTTAAAATATTAAAACCTATATTTTTAATATATAACCTATATTATATG
AATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAACA
Found at i:21908388 original size:218 final size:218
Alignment explanation
Indices: 21908125--21908534 Score: 678
Period size: 218 Copynumber: 1.9 Consensus size: 218
21908115 ATTCCTATGC
**
21908125 AATTTTAAAAATAATTATATATATTATTTTTTAAATATTAAAACCTATATTTTTAATATATAACC
1 AATTTTAAAAATAATTATATATATTAAATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
21908190 TATACTAGTATGGATAAATAACCTATATTTCAAATTCATTACTAATAACTTTT-TAAATTTTAAA
66 TATACTAGTATGAATAAATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAA
* *
21908254 AATATTTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTTCA
131 AATAATAATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTTCA
21908319 AATTCATTACTAATAACTTTTTA
196 AATTCATTACTAATAACTTTTTA
* * * *
21908342 AATTTTAAACATAATTATTTATTTTACAATTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAAAATAATTATATATATTA-AATTTTAAATATTAAAACCTATATTTTTAATATATAAC
* * * *
21908407 CTATATTAGTATGAATATATTACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAT
65 CTATACTAGTATGAATAAATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAA
*
21908472 ACATAATAATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATT
130 AAATAATAATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATT
21908535 AGTATGGATA
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 23 0.13
218 85 0.48
219 69 0.39
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (218 bp):
AATTTTAAAAATAATTATATATATTAAATTTTAAATATTAAAACCTATATTTTTAATATATAACC
TATACTAGTATGAATAAATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAA
AATAATAATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTTCA
AATTCATTACTAATAACTTTTTA
Found at i:21908440 original size:121 final size:121
Alignment explanation
Indices: 21908299--21908742 Score: 705
Period size: 121 Copynumber: 3.7 Consensus size: 121
21908289 CTATATTTTT
21908299 AATATATAACCTATATTTCAAATTCATTACTAATAACTTTT-TAAATTTTAAACATAATTATTTA
1 AATATATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAACATAATTATTTA
*
21908363 TTTTACAATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATG
66 TTTTA-TATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATG
* * * **
21908420 AATATATTACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATAATAAA
1 AATATATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAACATAATTATTTA
* *
21908485 TATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATG
66 TTTTATATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATG
*
21908541 GATATATAACCTATATTTCAAATTCATTACTAATAACTTTT-TAAATTTTAAACATAATTATTTA
1 AATATATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAACATAATTATTTA
21908605 -TTTATATTTTAAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATG
66 TTTTATATTTT-AAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATG
* * * **
21908661 GATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATTATAAA
1 AATATATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAACATAATTATTTA
*
21908726 TGTTATATTTTTAAATA
66 TTTTATA-TTTTAAATA
21908743 ACTTATTACT
Statistics
Matches: 297, Mismatches: 21, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
119 9 0.03
120 103 0.35
121 148 0.50
122 33 0.11
123 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (121 bp):
AATATATAACCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTAAACATAATTATTTA
TTTTATATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATG
Found at i:21908505 original size:21 final size:21
Alignment explanation
Indices: 21908488--21908534 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
21908478 TAATAAATAT
21908488 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
21908509 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
21908529 TATATT
1 TATATT
21908535 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:21908734 original size:241 final size:243
Alignment explanation
Indices: 21908300--21908742 Score: 802
Period size: 241 Copynumber: 1.8 Consensus size: 243
21908290 TATATTTTTA
21908300 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
*
21908365 TTACAATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGAATATATTAC
66 TTACAATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGAATATATAAC
21908430 CTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATAATAAATATTATA-TT
131 CTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATAATAAATATTATATTT
21908494 TTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGG
196 TTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGG
21908542 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTA-T
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
* * *
21908606 TTA-TATTTTAAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGATATGTAA
66 TTACAATTTT-AAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGAATATATAA
* *
21908670 CCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATTATAAATGTTATATT
130 CCTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATAATAAATATTATATT
21908735 TTTAAATA
195 TTTAAATA
21908743 ACTTATTACT
Statistics
Matches: 193, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
240 5 0.03
241 116 0.60
242 72 0.37
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (243 bp):
ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATT
TTACAATTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGAATATATAAC
CTATATTTCAAATTCATTACTAATAACTTTTCTAAATTTTATACATAATAATAAATATTATATTT
TTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGG
Found at i:21908950 original size:52 final size:55
Alignment explanation
Indices: 21908889--21909237 Score: 380
Period size: 52 Copynumber: 6.3 Consensus size: 55
21908879 ACATAACTCA
*
21908889 CATAACTTACATAACTTA-ATAACTTATATATATATATATATAT-ATATCAT-A-T
1 CATAACTTACATAACTTACATAACTTACATA-ATATATATATATCATATCATAATT
* *
21908941 CATAACTTACATAACTCACATAACTTACATAA-ATATATATATCATATCTTAACTT
1 CATAACTTACATAACTTACATAACTTACATAATATATATATATCATATCATAA-TT
*
21908996 ACATAACTCACATAACTTACATAACTTA-ATAACATATATATATATCATATCATAACTTT
1 -CATAACTTACATAACTTACATAACTTACAT-A-ATATATATATATCATATCATAA--TT
*
21909055 CATAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTT
1 CATAACTTACATAACTTACATAACTTACATAAT--AT--ATATATATCATATCATAA--TT
* * *
21909116 CATAACTCACATAACTTACATAACTTACATAATACATAAATAT-ATATCAT-A-T
1 CATAACTTACATAACTTACATAACTTACATAATATATATATATCATATCATAATT
* * * * *
21909168 AATAACTTTCATAACTCACATAACTTACATAATACATAAATAT-ATATCAT-A-T
1 CATAACTTACATAACTTACATAACTTACATAATATATATATATCATATCATAATT
21909220 CATAACTTACATAACTTA
1 CATAACTTACATAACTTA
21909238 TTTATACTTA
Statistics
Matches: 266, Mismatches: 16, Indels: 30
0.85 0.05 0.10
Matches are distributed among these distances:
51 10 0.04
52 88 0.33
53 12 0.05
55 4 0.02
56 33 0.12
57 10 0.04
58 47 0.18
59 7 0.03
61 55 0.21
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (55 bp):
CATAACTTACATAACTTACATAACTTACATAATATATATATATCATATCATAATT
Found at i:21908956 original size:61 final size:59
Alignment explanation
Indices: 21908811--21909219 Score: 346
Period size: 61 Copynumber: 6.8 Consensus size: 59
21908801 TTCCACATAA
* * *
21908811 CATA-CATAACTCACATAACATACATAACTTAATAACTTATATATATCATAACTCAACTTACATA
1 CATATCATAACTCACATAACTTACATAACTTAATAACATATATATAT-AT-A-T--A--TATATA
*
21908875 A
59 T
*
21908876 CTTA-CATAACTCACATAACTTACATAACTTAATAACTTATATATATATATATATATATAT
1 CATATCATAACTCACATAACTTACATAACTTAATAAC--ATATATATATATATATATATAT
* * *
21908936 CATATCATAACTTACATAACTCACATAACTTACATAA-ATATATATATCATATCT-TA-A-
1 CATATCATAACTCACATAACTTACATAACTTA-ATAACATATATATAT-ATATATATATAT
*
21908993 CTTA-CATAACTCACATAACTTACATAACTTAATAACATATATATATATCATATCATA-A-
1 CATATCATAACTCACATAACTTACATAACTTAATAACATATATATATAT-ATAT-ATATAT
* * * * *
21909051 C-TTTCATAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAA
1 CATATCATAACTCACATAACTTACATAACTTA-ATAACATATATATATATAT-ATAT-ATAT
* * *
21909112 C-TTTCATAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATA-ATAA
1 CATATCATAACTCACATAACTTACATAACTTA-AT-A-ACATATATATATAT-ATATATATAT
*
21909173 C-TTTCATAACTCACATAACTTACATAA--TACATAA-ATATATATCATAT
1 CATATCATAACTCACATAACTTACATAACTTA-ATAACATATATAT-ATAT
21909220 CATAACTTAC
Statistics
Matches: 303, Mismatches: 22, Indels: 46
0.82 0.06 0.12
Matches are distributed among these distances:
55 6 0.02
56 45 0.15
57 9 0.03
58 37 0.12
59 34 0.11
60 14 0.05
61 90 0.30
62 6 0.02
63 13 0.04
64 3 0.01
65 35 0.12
66 2 0.01
67 9 0.03
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (59 bp):
CATATCATAACTCACATAACTTACATAACTTAATAACATATATATATATATATATATAT
Found at i:21908987 original size:47 final size:47
Alignment explanation
Indices: 21908926--21909019 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
21908916 ATATATATAT
21908926 ATATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
1 ATATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
*
21908973 ATATATATATCATATCTTAACTTACATAACTCACATAACTTACATAA
1 ATATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
21909020 CTTAATAACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (47 bp):
ATATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
Found at i:21909235 original size:9 final size:9
Alignment explanation
Indices: 21908805--21909237 Score: 245
Period size: 9 Copynumber: 48.1 Consensus size: 9
21908795 ACTAATTTCC
*
21908805 ACATAACAT
1 ACATAACTT
*
21908814 ACATAACTC
1 ACATAACTT
*
21908823 ACATAACAT
1 ACATAACTT
21908832 ACATAACTT
1 ACATAACTT
21908841 A-ATAACTT
1 ACATAACTT
* *
21908849 ATATATATCAT
1 ACATA-A-CTT
21908860 A-ACTCAACTT
1 ACA-T-AACTT
21908870 ACATAACTT
1 ACATAACTT
*
21908879 ACATAACTC
1 ACATAACTT
21908888 ACATAACTT
1 ACATAACTT
21908897 ACATAACTT
1 ACATAACTT
21908906 A-ATAACTT
1 ACATAACTT
*
21908914 ATAT-A--T
1 ACATAACTT
*
21908920 ATATATA-TAT
1 ACATA-ACT-T
* * *
21908930 ATATATCAT
1 ACATAACTT
21908939 ATCATAACTT
1 A-CATAACTT
*
21908949 ACATAACTC
1 ACATAACTT
21908958 ACATAACTT
1 ACATAACTT
*
21908967 ACATAAATAT
1 ACATAACT-T
* * *
21908977 ATATATCAT
1 ACATAACTT
*
21908986 ATCTTAACTT
1 A-CATAACTT
*
21908996 ACATAACTC
1 ACATAACTT
21909005 ACATAACTT
1 ACATAACTT
21909014 ACATAACTT
1 ACATAACTT
21909023 A-ATAACATAT
1 ACATAAC-T-T
* *
21909033 ATATATATCAT
1 ACATA-A-CTT
21909044 ATCATAACTT
1 A-CATAACTT
* *
21909054 TCATAACTC
1 ACATAACTT
21909063 ACATAACTT
1 ACATAACTT
21909072 ACATAACTT
1 ACATAACTT
21909081 ACATAA--T
1 ACATAACTT
*
21909088 ACATAA-AT
1 ACATAACTT
* * *
21909096 ATATATCAT
1 ACATAACTT
21909105 ATCATAACTT
1 A-CATAACTT
* *
21909115 TCATAACTC
1 ACATAACTT
21909124 ACATAACTT
1 ACATAACTT
21909133 ACATAACTT
1 ACATAACTT
21909142 ACATAA--T
1 ACATAACTT
*
21909149 ACATAA-AT
1 ACATAACTT
* *
21909157 ATATATCATAT
1 ACATAAC-T-T
21909168 A-ATAACTT
1 ACATAACTT
* *
21909176 TCATAACTC
1 ACATAACTT
21909185 ACATAACTT
1 ACATAACTT
21909194 ACATAA--T
1 ACATAACTT
*
21909201 ACATAA-AT
1 ACATAACTT
* * *
21909209 ATATATCAT
1 ACATAACTT
21909218 ATCATAACTT
1 A-CATAACTT
21909228 ACATAACTT
1 ACATAACTT
21909237 A
1 A
21909238 TTTATACTTA
Statistics
Matches: 335, Mismatches: 57, Indels: 64
0.73 0.12 0.14
Matches are distributed among these distances:
6 5 0.01
7 21 0.06
8 39 0.12
9 203 0.61
10 47 0.14
11 14 0.04
12 5 0.01
13 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
ACATAACTT
Found at i:21909236 original size:61 final size:60
Alignment explanation
Indices: 21908881--21909235 Score: 406
Period size: 61 Copynumber: 6.1 Consensus size: 60
21908871 CATAACTTAC
* * *
21908881 ATAACTCACATAACTTACATAACTTA-ATAACTTATATATATATATAT-ATAT-ATATCATATC
1 ATAACTCACATAACTTACATAACTTACATAA--TACATA-ATATATATCATATCATAACTTA-C
* * * *
21908942 ATAACTTACATAACTCACATAACTTACATAA-ATAT-ATATATCAT-AT--CTTAACTTAC
1 ATAACTCACATAACTTACATAACTTACATAATACATAATATAT-ATCATATCATAACTTAC
*
21908998 ATAACTCACATAACTTACATAACTTA-AT-A-ACATATATATATATCATATCATAACTTTC
1 ATAACTCACATAACTTACATAACTTACATAATACATA-ATATATATCATATCATAACTTAC
*
21909056 ATAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTTC
1 ATAACTCACATAACTTACATAACTTACATAATACAT-AATATATATCATATCATAACTTAC
* *
21909117 ATAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTTC
1 ATAACTCACATAACTTACATAACTTACATAATACAT-AATATATATCATATCATAACTTAC
21909178 ATAACTCACATAACTTACATAA--TAC---AT--A-AATATATATCATATCATAACTTAC
1 ATAACTCACATAACTTACATAACTTACATAATACATAATATATATCATATCATAACTTAC
21909230 ATAACT
1 ATAACT
21909236 TATTTATACT
Statistics
Matches: 269, Mismatches: 13, Indels: 33
0.85 0.04 0.10
Matches are distributed among these distances:
52 28 0.10
54 5 0.02
55 4 0.01
56 35 0.13
57 11 0.04
58 38 0.14
59 9 0.03
60 1 0.00
61 133 0.49
62 5 0.02
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.35
Consensus pattern (60 bp):
ATAACTCACATAACTTACATAACTTACATAATACATAATATATATCATATCATAACTTAC
Found at i:21915120 original size:43 final size:43
Alignment explanation
Indices: 21915056--21915320 Score: 311
Period size: 43 Copynumber: 6.2 Consensus size: 43
21915046 GAACGGTACT
* *
21915056 TTTAGCGGCATTTGTGAA-AAAAGCGTCGCTAAAGGTCATGTT-
1 TTTAGCGGCGTTTGT-AATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
21915098 TTTAGCGACGTTTATAATAAAAACGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTAATAAAAGCGCCGCTAAAGGTCATGTTC
*
21915141 TTTAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGG-CATGTTC
1 TTTAGCGGCGTTTGTAATAAAAGCGCCGCTAAAGGTCATGTTC
* * ** **
21915183 TTTAGCGGCGTTTGTGATAAAATCGCCGCTAAAGAACATGACC
1 TTTAGCGGCGTTTGTAATAAAAGCGCCGCTAAAGGTCATGTTC
* *
21915226 TTTAGCGGCGTTTGTTATAAAAGCACCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTAATAAAAGCGCCGCTAAAGGTCATGTTC
** * * * *
21915269 TTTAGCATCGTTTGTGATAAAAGCGTCACTAAATGTCATGTTC
1 TTTAGCGGCGTTTGTAATAAAAGCGCCGCTAAAGGTCATGTTC
21915312 TTTAGCGGC
1 TTTAGCGGC
21915321 ATTTATGTGA
Statistics
Matches: 187, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
41 2 0.01
42 71 0.38
43 114 0.61
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:21915145 original size:85 final size:86
Alignment explanation
Indices: 21915056--21915341 Score: 339
Period size: 85 Copynumber: 3.3 Consensus size: 86
21915046 GAACGGTACT
* * *
21915056 TTTAGCGGCATTTGTGAAAAAAGCGTCGCTAAAGGTCATGTT-TTTAGCGACGTTTATAATAAAA
1 TTTAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGATAAAA
21915120 ACGCCACTAAAGGTCATGTTC
66 ACGCCACTAAAGGTCATGTTC
* *
21915141 TTTAGCGGCGTTTGT-AACAAAAGCGCCGCTAAAGG-CATGTTCTTTAGCGGCGTTTGTGATAAA
1 TTTAGCGGCATTTGTGAA-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGATAAA
* * ** **
21915204 ATCGCCGCTAAAGAACATGACC
65 AACGCCACTAAAGGTCATGTTC
* * * *
21915226 TTTAGCGGCGTTTGTTATAAAAGCACCGCTAAAGGTCATGTTCTTTAGC-ATCGTTTGTGATAAA
1 TTTAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGA-CGTTTGTGATAAA
* * *
21915290 AGCGTCACTAAATGTCATGTTC
65 AACGCCACTAAAGGTCATGTTC
21915312 TTTAGCGGCATTTATGTGAAAAAAG-GCCGC
1 TTTAGCGGCA-TT-TGTGAAAAAAGCGCCGC
21915342 CAAAATTAGC
Statistics
Matches: 168, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
84 8 0.05
85 95 0.57
86 50 0.30
87 6 0.04
88 9 0.05
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGATAAAA
ACGCCACTAAAGGTCATGTTC
Found at i:21915914 original size:20 final size:20
Alignment explanation
Indices: 21915880--21915919 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21915870 ATATTTTAAA
* * *
21915880 TTATTTTGATTTTATTTTAT
1 TTATTTTAATGTTATATTAT
21915900 TTATTTTAATGTTATATTAT
1 TTATTTTAATGTTATATTAT
21915920 CCTATTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATTTTAATGTTATATTAT
Found at i:21923800 original size:24 final size:24
Alignment explanation
Indices: 21923746--21923800 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
21923736 TTTTTTTCTT
* *
21923746 TTTTTTTCACATTCTTTTTCATTC
1 TTTTTTTCACATTATTTTTCACTC
** **
21923770 TCATTTTCATTTTATTTTTCACTC
1 TTTTTTTCACATTATTTTTCACTC
21923794 TTTTTTT
1 TTTTTTT
21923801 TAACTTTCTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTTTCACATTATTTTTCACTC
Found at i:21926552 original size:19 final size:20
Alignment explanation
Indices: 21926530--21926573 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
21926520 TTTAAGATTG
21926530 CCTT-CGATGTCGCGACACA
1 CCTTACGATGTCGCGACACA
* *
21926549 CCTTAATGATGTCGCGACATA
1 CCTT-ACGATGTCGCGACACA
21926570 CCTT
1 CCTT
21926574 TAGAGATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
21 17 0.81
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (20 bp):
CCTTACGATGTCGCGACACA
Found at i:21931338 original size:25 final size:24
Alignment explanation
Indices: 21931285--21931346 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
21931275 GGAATATAAG
21931285 TAAAATTAATTTTTGTGAAAGGGA
1 TAAAATTAATTTTTGTGAAAGGGA
21931309 TAAAATTAATTTTTGTGAAAGGGA
1 TAAAATTAATTTTTGTGAAAGGGA
* *
21931333 TAAAAATAGTTTTT
1 TAAAATTAATTTTT
21931347 AAAATTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (24 bp):
TAAAATTAATTTTTGTGAAAGGGA
Found at i:21932705 original size:19 final size:19
Alignment explanation
Indices: 21932668--21932705 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21932658 TTAATTAAGT
*
21932668 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
21932687 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
21932706 GAAAAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:21932866 original size:30 final size:31
Alignment explanation
Indices: 21932845--21932904 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 31
21932835 TTTATGTTTT
21932845 AAATATATTA-A-TATATTA-TTTTATTATA
1 AAATATATTATATTATATTATTTTTATTATA
*
21932873 AAATATATTATATTATATTATATTATATTATA
1 AAATATATTATATTATATTAT-TTTTATTATA
21932905 TTATATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 10 0.37
29 1 0.04
30 7 0.26
32 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
AAATATATTATATTATATTATTTTTATTATA
Found at i:21932884 original size:5 final size:5
Alignment explanation
Indices: 21932848--21932913 Score: 77
Period size: 5 Copynumber: 13.6 Consensus size: 5
21932838 ATGTTTTAAA
*
21932848 TATAT TA-A- TATAT TAT-T T-TAT TATAAAA TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TAT--AT TATAT TATAT TATAT TATAT
21932896 TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TAT
21932914 TATGTAAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 3 0.06
4 6 0.11
5 40 0.75
7 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:21934071 original size:13 final size:13
Alignment explanation
Indices: 21934051--21934088 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
21934041 TTTAATTGGA
21934051 AAATGAATTAAA-
1 AAATGAATTAAAT
21934063 AATATGAATTAAAT
1 AA-ATGAATTAAAT
21934077 AAAGTGAATTAA
1 AAA-TGAATTAA
21934089 TTTATGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 11 0.48
14 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (13 bp):
AAATGAATTAAAT
Found at i:21934251 original size:17 final size:19
Alignment explanation
Indices: 21934229--21934264 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
21934219 AAAGTGATCT
21934229 TGAATTG-GAAA-TGAAAG
1 TGAATTGTGAAATTGAAAG
21934246 TGAATTGTGAAATTGAAAG
1 TGAATTGTGAAATTGAAAG
21934265 CTATTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
TGAATTGTGAAATTGAAAG
Found at i:21934373 original size:23 final size:23
Alignment explanation
Indices: 21934346--21934477 Score: 148
Period size: 23 Copynumber: 6.0 Consensus size: 23
21934336 GTTTTGCCAA
*
21934346 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCATGTGTCGTATT
* *
21934369 TCAGGCGCTTTATGTGTCGTATT
1 TCAGGCACTTCATGTGTCGTATT
* * *
21934392 TCATGCACCTCGTGTGTCGTATT
1 TCAGGCACTTCATGTGTCGTATT
*
21934415 TCAGGCACTTCGTGTGTCGTA--
1 TCAGGCACTTCATGTGTCGTATT
* *
21934436 TCAGGCACCTCGTGTGT--TATT
1 TCAGGCACTTCATGTGTCGTATT
21934457 TCAGGCACTT-ATGTGTCGTAT
1 TCAGGCACTTCATGTGTCGTAT
21934478 ACTGATTAGG
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.02
20 5 0.05
21 25 0.27
22 3 0.03
23 59 0.63
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTCATGTGTCGTATT
Found at i:21934411 original size:46 final size:45
Alignment explanation
Indices: 21934358--21934477 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 45
21934348 AGGCACTTTA
* *
21934358 TGTGTCGTATTTCAGGCGCTTTATGTGTCGTATTTCATGCACCTCG
1 TGTGTCGTATTTCAGGCACTTTATGTGTCGTA-TTCAGGCACCTCG
**
21934404 TGTGTCGTATTTCAGGCACTTCGTGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACTTTATGTGTCGTATTCAGGCACCTCG
21934448 TGTGT--TATTTCAGGCAC-TTATGTGTCGTAT
1 TGTGTCGTATTTCAGGCACTTTATGTGTCGTAT
21934478 ACTGATTAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 10 0.15
42 12 0.18
44 16 0.24
46 29 0.43
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.40
Consensus pattern (45 bp):
TGTGTCGTATTTCAGGCACTTTATGTGTCGTATTCAGGCACCTCG
Found at i:21939470 original size:27 final size:27
Alignment explanation
Indices: 21939428--21939483 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
21939418 AATGTAAAGA
* * * *
21939428 ATTAGGAGCATGATATTTACGATTAAC
1 ATTAGGACCATAATATTCACAATTAAC
21939455 ATTAGGACCATAATATTCACAATTAAC
1 ATTAGGACCATAATATTCACAATTAAC
21939482 AT
1 AT
21939484 CGAATAATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (27 bp):
ATTAGGACCATAATATTCACAATTAAC
Found at i:21948014 original size:2 final size:2
Alignment explanation
Indices: 21948007--21948038 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21947997 TCGCCCCTTA
21948007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21948039 TATTTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21948173 original size:32 final size:32
Alignment explanation
Indices: 21948132--21948195 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
21948122 GGACAAAAAG
21948132 AAAAAAAAAAAAGAAGCAATCACATAGCTTCA
1 AAAAAAAAAAAAGAAGCAATCACATAGCTTCA
21948164 AAAAAAAAAAAAGAAGCAATCACATAGCTTCA
1 AAAAAAAAAAAAGAAGCAATCACATAGCTTCA
21948196 CGTAGCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.62, C:0.16, G:0.09, T:0.12
Consensus pattern (32 bp):
AAAAAAAAAAAAGAAGCAATCACATAGCTTCA
Found at i:21948225 original size:19 final size:19
Alignment explanation
Indices: 21948201--21948237 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
21948191 CTTCACGTAG
21948201 CATTATATTG-TAAAAAATA
1 CATTAT-TTGTTAAAAAATA
21948220 CATTATTTGTTAAAAAAT
1 CATTATTTGTTAAAAAAT
21948238 TTAGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
CATTATTTGTTAAAAAATA
Found at i:21951517 original size:13 final size:13
Alignment explanation
Indices: 21951499--21951523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21951489 TTCTTTAAAA
21951499 TTTTCTTTAATTT
1 TTTTCTTTAATTT
21951512 TTTTCTTTAATT
1 TTTTCTTTAATT
21951524 ATTAATCCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTAATTT
Found at i:21953455 original size:4 final size:4
Alignment explanation
Indices: 21953448--21953497 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
21953438 ATTTTTCTTC
* *
21953448 TTCT TTCT TT-T CTCT TT-T TTCAT CTCCT TTCT TTCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTC-T -TTCT TTCT TTCT TTCT TTCT TTCT
21953496 TT
1 TT
21953498 ATTCTCCATC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 5 0.13
4 29 0.76
5 2 0.05
6 2 0.05
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTCT
Found at i:21953466 original size:24 final size:25
Alignment explanation
Indices: 21953439--21953496 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
21953429 AACAAACAGA
*
21953439 TTTTTCTTCTTCTTTCTTT-TCTCT
1 TTTTTCTTCTCCTTTCTTTCTCTCT
* *
21953463 TTTTTCATCTCCTTTCTTTCTTTCT
1 TTTTTCTTCTCCTTTCTTTCTCTCT
21953488 TTCTTTCTT
1 TT-TTTCTT
21953497 TATTCTCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 17 0.61
25 6 0.21
26 5 0.18
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTCTTCTCCTTTCTTTCTCTCT
Found at i:21960376 original size:35 final size:35
Alignment explanation
Indices: 21960309--21960504 Score: 241
Period size: 35 Copynumber: 5.6 Consensus size: 35
21960299 TATTCCCTGT
* *
21960309 TTGGTGTGTTACGATTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* * * *
21960344 TTGGTGTGTTATGGTTAGG-TTATCTCTCATGAGCA
1 TTGGCGTGTTACGGTT-GGATTAGCTCTTATGAGCA
* *
21960379 TTGGAGTGTTACGGTTGAATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* ** *
21960414 TAGGCGTGTTACAATTGGATTAGCTCTCATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
*
21960449 TTGGCGTGTTACGGTTGGACTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
* *
21960484 TCGGCGTGTTATGGTTGGATT
1 TTGGCGTGTTACGGTTGGATT
21960505 GACAATATAC
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 133 0.98
36 2 0.01
ACGTcount: A:0.19, C:0.13, G:0.30, T:0.38
Consensus pattern (35 bp):
TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
Found at i:21960401 original size:70 final size:70
Alignment explanation
Indices: 21960309--21960504 Score: 268
Period size: 70 Copynumber: 2.8 Consensus size: 70
21960299 TATTCCCTGT
* * * * *
21960309 TTGGTGTGTTACGATTGGATTAGCTCTTATGAGCATTGGTGTGTTATGGTTAGG-TTATCTCTCA
1 TTGGAGTGTTACGGTTGGATTAGCTCTTATGAGCATAGGCGTGTTATGGTT-GGATTAGCTCTCA
21960373 TGAGCA
65 TGAGCA
* ***
21960379 TTGGAGTGTTACGGTTGAATTAGCTCTTATGAGCATAGGCGTGTTACAATTGGATTAGCTCTCAT
1 TTGGAGTGTTACGGTTGGATTAGCTCTTATGAGCATAGGCGTGTTATGGTTGGATTAGCTCTCAT
21960444 GAGCA
66 GAGCA
* * *
21960449 TTGGCGTGTTACGGTTGGACTAGCTCTTATGAGCATCGGCGTGTTATGGTTGGATT
1 TTGGAGTGTTACGGTTGGATTAGCTCTTATGAGCATAGGCGTGTTATGGTTGGATT
21960505 GACAATATAC
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
69 2 0.02
70 107 0.98
ACGTcount: A:0.19, C:0.13, G:0.30, T:0.38
Consensus pattern (70 bp):
TTGGAGTGTTACGGTTGGATTAGCTCTTATGAGCATAGGCGTGTTATGGTTGGATTAGCTCTCAT
GAGCA
Found at i:21990112 original size:55 final size:55
Alignment explanation
Indices: 21990053--21990156 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
21990043 TTCAAATACT
* * *
21990053 CCATATGATGCCATAGTCCCAGACTAGGTCTTACATGATATGGTCTTCACATGCA
1 CCATAAGATGCCATAATCCCAGACTAGGTCTTACACGATATGGTCTTCACATGCA
* *
21990108 CCATAAGATGCCATAATCCCAGATTAGGTTTTACACGATATGGTCTTCA
1 CCATAAGATGCCATAATCCCAGACTAGGTCTTACACGATATGGTCTTCA
21990157 TTTTCTATGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (55 bp):
CCATAAGATGCCATAATCCCAGACTAGGTCTTACACGATATGGTCTTCACATGCA
Found at i:21994281 original size:15 final size:15
Alignment explanation
Indices: 21994261--21994290 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21994251 GAGCCCCAAG
*
21994261 GTGCGAACCTTAAAT
1 GTGCGAACCCTAAAT
21994276 GTGCGAACCCTAAAT
1 GTGCGAACCCTAAAT
21994291 ATGAACCTGT
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:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
GTGCGAACCCTAAAT
Found at i:21997000 original size:20 final size:24
Alignment explanation
Indices: 21996956--21997005 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 24
21996946 ATAAATAAAT
21996956 AATAAATGAAAATAAGTATAGGTA
1 AATAAATGAAAATAAGTATAGGTA
21996980 AATAAAT-AAAATAA-TA-A-GTA
1 AATAAATGAAAATAAGTATAGGTA
21997000 AATAAA
1 AATAAA
21997006 AAAGGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.35
21 1 0.04
22 2 0.08
23 7 0.27
24 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (24 bp):
AATAAATGAAAATAAGTATAGGTA
Found at i:22005613 original size:19 final size:18
Alignment explanation
Indices: 22005547--22005613 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
22005537 CCTTACATAT
*
22005547 ATGCGAACCTTATTATGA
1 ATGCAAACCTTATTATGA
* *
22005565 ATACATACC-TATTATGA
1 ATGCAAACCTTATTATGA
*
22005582 ATGCAAACCTTATTATGT
1 ATGCAAACCTTATTATGA
22005600 ATGCAAACCCTTAT
1 ATGCAAA-CCTTAT
22005614 ACATAAGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.37
18 20 0.49
19 6 0.15
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (18 bp):
ATGCAAACCTTATTATGA
Found at i:22013119 original size:16 final size:18
Alignment explanation
Indices: 22013098--22013130 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22013088 ATCTTTTTAA
22013098 AAATTA-TAAAA-AATAT
1 AAATTATTAAAATAATAT
22013114 AAATTATTAAAATAATA
1 AAATTATTAAAATAATA
22013131 ATATAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTATTAAAATAATAT
Found at i:22013621 original size:18 final size:20
Alignment explanation
Indices: 22013587--22013630 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
22013577 AAAAAAAATT
*
22013587 TAAAAA-TACTAATAATTTA
1 TAAAAATTACTAATAATTAA
22013606 TAAAAATTA-TAA-AATTAA
1 TAAAAATTACTAATAATTAA
22013624 TAAAAAT
1 TAAAAAT
22013631 ACACATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 9 0.39
20 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAATTACTAATAATTAA
Found at i:22013899 original size:17 final size:16
Alignment explanation
Indices: 22013870--22013915 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 16
22013860 ATTTAAAAAT
22013870 ATTTTTTATATTTTG-
1 ATTTTTTATATTTTGA
22013885 A-TTTTTATAATATTTGA
1 ATTTTTTAT-AT-TTTGA
22013902 ATTTTTTATATTTT
1 ATTTTTTATATTTT
22013916 AAAAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 7 0.26
15 3 0.11
16 7 0.26
17 3 0.11
18 7 0.26
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
ATTTTTTATATTTTGA
Found at i:22017811 original size:45 final size:45
Alignment explanation
Indices: 22017713--22017924 Score: 248
Period size: 45 Copynumber: 4.7 Consensus size: 45
22017703 ATCGTTGGAA
* * * * ** ***
22017713 ATATAGGTGGATGCTATGTGCTAATTCCACCCGATATTAATGAAA
1 ATATAGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTT
*
22017758 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTT
1 ATATAGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTT
* *
22017803 ATATAGGTGGTTACTATGTGCTGATTTCACCAGATACCAATGGTT
1 ATATAGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTT
* * *
22017848 ATATAGGTGGTTGCTATGTGCCGATTTCACC-CAGTACCATTGAG-T
1 ATATAGGTGGTTGCTATGTGCTGATTTCACCGGA-TACCAATG-GTT
*
22017893 ATAAAGGTGGTTGCTATGTGCTGATTTCACCG
1 ATATAGGTGGTTGCTATGTGCTGATTTCACCG
22017925 AGTACTATTG
Statistics
Matches: 145, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 143 0.99
46 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ATATAGGTGGTTGCTATGTGCTGATTTCACCGGATACCAATGGTT
Found at i:22017935 original size:45 final size:45
Alignment explanation
Indices: 22017717--22017948 Score: 231
Period size: 45 Copynumber: 5.2 Consensus size: 45
22017707 TTGGAAATAT
* * * ** **
22017717 AGGTGGATGCTATGTGCTAATTCCACCCGA-TATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCA-CCGAGTACCAATGAGTATAA
*
22017762 AGGTGGTTGCTATGTGCTGATTTCACCG-GATACCAATG-GTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCGAG-TACCAATGAG-TATAA
* *
22017807 AGGTGGTTACTATGTGCTGATTTCACC-AGATACCAATG-GTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCGAG-TACCAATGAG-TATAA
* * *
22017852 AGGTGGTTGCTATGTGCCGATTTCACCCAGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCAATGAGTATAA
* * *
22017897 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCAATGAGTATAA
*
22017942 GGGTGGT
1 AGGTGGT
22017949 GCTGCGTGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
44 3 0.02
45 157 0.96
46 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACCGAGTACCAATGAGTATAA
Found at i:22019261 original size:44 final size:45
Alignment explanation
Indices: 22019187--22019280 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 45
22019177 TACACTCTGC
* *
22019187 ATGAACAAGTGTTTTTTGTGAGCTCTTCATATTAGCGAGCTCTAT
1 ATGAACAAGTGTTTTTTGCGAGCTCCTCATATTAGCGAGCTCTAT
* *
22019232 ATGAACAAGTG-TTTTTGCGAGCTCCTCATATTGGTGAGCTCTAT
1 ATGAACAAGTGTTTTTTGCGAGCTCCTCATATTAGCGAGCTCTAT
22019276 ATGAA
1 ATGAA
22019281 TATTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (45 bp):
ATGAACAAGTGTTTTTTGCGAGCTCCTCATATTAGCGAGCTCTAT
Found at i:22019291 original size:44 final size:44
Alignment explanation
Indices: 22019187--22019310 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
22019177 TACACTCTGC
* *
22019187 ATGAACAAGTGTTTTTTGTGAGCTCTTCATATTAGCGAGCTCTAT
1 ATGAACAAGT-TTTTTTGCGAGCTCCTCATATTAGCGAGCTCTAT
* * *
22019232 ATGAACAAGTGTTTTTGCGAGCTCCTCATATTGGTGAGCTCTAT
1 ATGAACAAGTTTTTTTGCGAGCTCCTCATATTAGCGAGCTCTAT
* ** * * *
22019276 ATGAATATTTTTTTTTGCAAGCTCTTTATATTAGC
1 ATGAACAAGTTTTTTTGCGAGCTCCTCATATTAGC
22019311 AAGCGATAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
44 55 0.85
45 10 0.15
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (44 bp):
ATGAACAAGTTTTTTTGCGAGCTCCTCATATTAGCGAGCTCTAT
Found at i:22020196 original size:11 final size:12
Alignment explanation
Indices: 22020178--22020204 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22020168 AATATGAAAT
22020178 CAAAAAAATTAA
1 CAAAAAAATTAA
22020190 CAAAAAAATTAA
1 CAAAAAAATTAA
22020202 CAA
1 CAA
22020205 TGTAAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (12 bp):
CAAAAAAATTAA
Found at i:22020363 original size:15 final size:15
Alignment explanation
Indices: 22020343--22020394 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
22020333 ACTACAAAAC
22020343 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
22020358 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
22020377 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
22020392 ATT
1 ATT
22020395 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:22020452 original size:15 final size:16
Alignment explanation
Indices: 22020432--22020462 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22020422 AATAAAATTA
22020432 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
22020447 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
22020463 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:22020603 original size:30 final size:30
Alignment explanation
Indices: 22020546--22020604 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22020536 TAAATAATTA
*
22020546 AATATGTATGTTTAATAATATTGAAAATAT
1 AATATGTATGTTTAATAATATTAAAAATAT
* *
22020576 AATATGTTAT-TTTAATATTTTTAAAAATA
1 AATATG-TATGTTTAATAATATTAAAAATA
22020605 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (30 bp):
AATATGTATGTTTAATAATATTAAAAATAT
Found at i:22021389 original size:18 final size:18
Alignment explanation
Indices: 22021366--22021400 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22021356 GCGACCCTCT
* *
22021366 ATATGTTTGCTAACCATG
1 ATATGTATGCGAACCATG
22021384 ATATGTATGCGAACCAT
1 ATATGTATGCGAACCAT
22021401 TTGTAAATAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
ATATGTATGCGAACCATG
Found at i:22021442 original size:18 final size:18
Alignment explanation
Indices: 22021419--22021472 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
22021409 AGAACCCTTA
*
22021419 TATGTTGTTATGCGAACC
1 TATGTTGTTATGCAAACC
*
22021437 TATGTTGTTATGTAAACC
1 TATGTTGTTATGCAAACC
*
22021455 TATGATGTT-TGCAAACC
1 TATGTTGTTATGCAAACC
22021472 T
1 T
22021473 TAGAAGTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 8 0.25
18 24 0.75
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (18 bp):
TATGTTGTTATGCAAACC
Found at i:22023911 original size:16 final size:16
Alignment explanation
Indices: 22023890--22023921 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22023880 TCAACACAAG
22023890 TATATTCACATACATA
1 TATATTCACATACATA
*
22023906 TATATTTACATACATA
1 TATATTCACATACATA
22023922 CCAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATTCACATACATA
Found at i:22024184 original size:50 final size:50
Alignment explanation
Indices: 22024101--22024337 Score: 303
Period size: 50 Copynumber: 4.7 Consensus size: 50
22024091 CGAATCATCA
* *
22024101 TTTGTGGACAAGCCACCACTGATTTGCAAATAAACTGCCACTAATAACAC
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACAC
* * * * *
22024151 TTTGTGGACAAGCCACCACTGATTTACAGATAAACTATCACTGATAAAAA
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACAC
* * * * *
22024201 TTTGTGGACAAGCTACCACTGATTTGCAAATAAACTATCACTGACAACAC
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACAC
* * * *
22024251 TTTATGGACAAGCCACCACCGGTTTGCAGATAAACTTCCACTAATAACAC
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACAC
* * *
22024301 TTTGTGGACTAGCCACCACTGATATGCAGATATACTA
1 TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTA
22024338 ACACATACTT
Statistics
Matches: 158, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 158 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (50 bp):
TTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTAATAACAC
Found at i:22030657 original size:16 final size:16
Alignment explanation
Indices: 22030638--22030674 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
22030628 CACAGAATAG
22030638 AGTTTTCAAAGTCTAT
1 AGTTTTCAAAGTCTAT
*
22030654 AGTTTTCACAGTCTAT
1 AGTTTTCAAAGTCTAT
22030670 AGTTT
1 AGTTT
22030675 CGAATCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.46
Consensus pattern (16 bp):
AGTTTTCAAAGTCTAT
Done.