Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 67 of 153
Found at i:21423714 original size:20 final size:20
Alignment explanation
Indices: 21423676--21423714 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21423666 ATTTCAAATA
*
21423676 TAAGGAAATAAAATGTAACC
1 TAAGGAAATAAAATATAACC
21423696 TAAGGTAAATAAAA-ATAAC
1 TAAGG-AAATAAAATATAAC
21423715 TATTTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (20 bp):
TAAGGAAATAAAATATAACC
Found at i:21425666 original size:16 final size:16
Alignment explanation
Indices: 21425645--21425678 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21425635 CGACGTGTTG
21425645 CTATAAATCACAAACT
1 CTATAAATCACAAACT
21425661 CTATAAATCACAAACT
1 CTATAAATCACAAACT
21425677 CT
1 CT
21425679 TTACCTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
CTATAAATCACAAACT
Found at i:21430773 original size:29 final size:28
Alignment explanation
Indices: 21430724--21430779 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
21430714 CTTGTCATTT
21430724 ATTTCACATTTCAACCTCTAAATTTTCAC
1 ATTTCACATTTCAACCTCT-AATTTTCAC
21430753 ATTTCACAATTT-AATCC-CTAATTTTCA
1 ATTTCAC-ATTTCAA-CCTCTAATTTTCA
21430780 TTTTTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 8 0.32
29 11 0.44
30 6 0.24
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTTCACATTTCAACCTCTAATTTTCAC
Found at i:21435850 original size:31 final size:33
Alignment explanation
Indices: 21435791--21435857 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 33
21435781 AGAATAATAT
21435791 TTAAATATATATTAAAATATTTTTTATTTTGATA
1 TTAAATATATATTAAAATA-TTTTTATTTTGATA
* *
21435825 TTAAAT-TGTATTAAAATA-TTTTATTTTGTTA
1 TTAAATATATATTAAAATATTTTTATTTTGATA
21435856 TT
1 TT
21435858 GTCATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 14 0.45
33 11 0.35
34 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (33 bp):
TTAAATATATATTAAAATATTTTTATTTTGATA
Found at i:21442302 original size:17 final size:17
Alignment explanation
Indices: 21442280--21442313 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21442270 ATTGACAATG
21442280 TTATAAAAAATAATTAA
1 TTATAAAAAATAATTAA
*
21442297 TTATAAAAAGTAATTAA
1 TTATAAAAAATAATTAA
21442314 AAATAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TTATAAAAAATAATTAA
Found at i:21442335 original size:33 final size:33
Alignment explanation
Indices: 21442289--21442355 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
21442279 GTTATAAAAA
*
21442289 ATAATTAATTATAA-AAAGTAATTAAAAATAATT
1 ATAATTAATTATAATAAA-TAATTAAAAACAATT
*
21442322 ATAATTTAA-TATAATAAATAATTTAAAACAATT
1 ATAA-TTAATTATAATAAATAATTAAAAACAATT
21442355 A
1 A
21442356 ATTAAAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (33 bp):
ATAATTAATTATAATAAATAATTAAAAACAATT
Found at i:21446133 original size:12 final size:11
Alignment explanation
Indices: 21446105--21446149 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
21446095 TCATTAATAA
21446105 ATAAACGAGTC
1 ATAAACGAGTC
*
21446116 ATAAACGAGCTT
1 ATAAACGAG-TC
21446128 ATAAACGAGTC
1 ATAAACGAGTC
*
21446139 AATAAATGAGT
1 -ATAAACGAGT
21446150 TTGCTCGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (11 bp):
ATAAACGAGTC
Found at i:21452665 original size:211 final size:211
Alignment explanation
Indices: 21452297--21452724 Score: 822
Period size: 211 Copynumber: 2.0 Consensus size: 211
21452287 GTGTCTTAAG
21452297 CCTA-ATGGCAGCTCCTTTTTGGATCCTAAGCTCCTGTACTGAAAGTAGATTGAAATTAATGCTT
1 CCTAGATGGCAGCTCCTTTTTGGATCCTAAGCTCCTGTACTGAAAGTAGATTGAAATTAATGCTT
21452361 GGCTTAAAAGTTGACCCTTTATTTAACAAAACAAATACTTAAATTCTTTGGCTTACTAAGAAGAA
66 GGCTTAAAAGTTGACCCTTTATTTAACAAAACAAATACTTAAATTCTTTGGCTTACTAAGAAGAA
*
21452426 TATTTTTCAAAAAATTACGTTAAATTAAACTCCTAGGAAAGACTGGAGAGGTCACAGATGGTCCC
131 TATTTTTCAAAAAATTACGTTAAATTAAACTCCTAGGAAAGACTGGAGAGGTCACAAATGGTCCC
21452491 GTTTAAGTCTCAATCT
196 GTTTAAGTCTCAATCT
21452507 CCTAGATGGCAGCTCCTTTTTGGATCCTAAGCTCCTGTACTGAAAGTAGATTGAAATTAATGCTT
1 CCTAGATGGCAGCTCCTTTTTGGATCCTAAGCTCCTGTACTGAAAGTAGATTGAAATTAATGCTT
* *
21452572 GGCTTAAAAGTTGACCCTTTATTTAACAAAACAAATACTTAAATTCTTTGGCTTCCTAAGACGAA
66 GGCTTAAAAGTTGACCCTTTATTTAACAAAACAAATACTTAAATTCTTTGGCTTACTAAGAAGAA
21452637 TATTTTTCAAAAAATTACGTTAAATTAAACTCCTAGGAAAGACTGGAGAGGTCACAAATGGTCCC
131 TATTTTTCAAAAAATTACGTTAAATTAAACTCCTAGGAAAGACTGGAGAGGTCACAAATGGTCCC
21452702 GTTTAAGTCTCAATCT
196 GTTTAAGTCTCAATCT
21452718 CCTAGAT
1 CCTAGAT
21452725 AGAGTTTTAA
Statistics
Matches: 214, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
210 4 0.02
211 210 0.98
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (211 bp):
CCTAGATGGCAGCTCCTTTTTGGATCCTAAGCTCCTGTACTGAAAGTAGATTGAAATTAATGCTT
GGCTTAAAAGTTGACCCTTTATTTAACAAAACAAATACTTAAATTCTTTGGCTTACTAAGAAGAA
TATTTTTCAAAAAATTACGTTAAATTAAACTCCTAGGAAAGACTGGAGAGGTCACAAATGGTCCC
GTTTAAGTCTCAATCT
Found at i:21455673 original size:34 final size:34
Alignment explanation
Indices: 21455630--21455698 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
21455620 GACATAATTG
21455630 TGTTAGATTAATTACATTTCTTAACTTAGAAATA
1 TGTTAGATTAATTACATTTCTTAACTTAGAAATA
21455664 TGTTAGATTAATTACATTTCTTAACTTAGAAATA
1 TGTTAGATTAATTACATTTCTTAACTTAGAAATA
21455698 T
1 T
21455699 TAAGCCCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (34 bp):
TGTTAGATTAATTACATTTCTTAACTTAGAAATA
Found at i:21460642 original size:45 final size:45
Alignment explanation
Indices: 21460592--21460681 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
21460582 AGTGGAATTT
21460592 GACATAAATAGCCTTATATTTGATGTTTTAAATGTTTATAAACCA
1 GACATAAATAGCCTTATATTTGATGTTTTAAATGTTTATAAACCA
* *
21460637 GACATAAATGGTCTTATATTTGATGTTTTAAATGTTTATAAACCA
1 GACATAAATAGCCTTATATTTGATGTTTTAAATGTTTATAAACCA
21460682 AGGTTAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (45 bp):
GACATAAATAGCCTTATATTTGATGTTTTAAATGTTTATAAACCA
Found at i:21461555 original size:43 final size:42
Alignment explanation
Indices: 21461483--21461585 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
21461473 TATCAAGATG
* * ** ** *
21461483 TGATTACATGTAAGACCATGTGTGGGACATTGGTATTGTATTA
1 TGATTACGTGTAAGACCATGTCTAAGACATTGACATTGT-TAA
21461526 TGATTACGTGTAAGACCATGTCTAAGACATTGACATTGTTAA
1 TGATTACGTGTAAGACCATGTCTAAGACATTGACATTGTTAA
*
21461568 TCGATTATGTGTAAGACC
1 T-GATTACGTGTAAGACC
21461586 TATCTTGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 3 0.06
43 48 0.94
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTAAGACATTGACATTGTTAA
Found at i:21467618 original size:19 final size:19
Alignment explanation
Indices: 21467573--21467619 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
21467563 TAAATATTAA
*
21467573 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
21467592 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
21467611 AATAAAAAT
1 AATAAAAAT
21467620 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:21472657 original size:14 final size:14
Alignment explanation
Indices: 21472637--21472681 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
21472627 CACTAAAAAT
21472637 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
21472651 TACACCCTAAACTA
1 TAAACCCTAAACTA
21472665 TAAACCCTAAACTA
1 TAAACCCTAAACTA
21472679 TAA
1 TAA
21472682 TGATAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:21472818 original size:22 final size:22
Alignment explanation
Indices: 21472775--21472815 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21472765 CTATAATTAA
* *
21472775 TTTAAACCTTAAACTCCTAATC
1 TTTAAACCCTAAACTCATAATC
21472797 TTTAAACCCTAAAC-CATAA
1 TTTAAACCCTAAACTCATAA
21472816 ATCCTAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (22 bp):
TTTAAACCCTAAACTCATAATC
Found at i:21473270 original size:21 final size:21
Alignment explanation
Indices: 21473244--21473328 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
21473234 ACTCTTAAAC
* *
21473244 CTTAAACCCTAAACCGTATAT
1 CTTAAACCATAAACCATATAT
*
21473265 CTTAAACCATAGTTAACTCATAAACCT
1 CTTAAACCATA---AAC-CATATA--T
*
21473292 GCTTAAACCCTAAACCATATAT
1 -CTTAAACCATAAACCATATAT
21473314 CTTAAACCATAAACC
1 CTTAAACCATAAACC
21473329 TTAAACTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.41, C:0.28, G:0.04, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:21473313 original size:49 final size:46
Alignment explanation
Indices: 21473228--21473324 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 46
21473218 CTTCAAATAC
* *
21473228 TAGTTAACTCTTAAACCTTAAACCCTAAACCGTATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
21473274 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAA-C--CTTAAACCCTAAACCATATATCTTAAACCA
21473323 TA
1 TA
21473325 AACCTTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 14 0.30
47 1 0.02
49 31 0.67
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:21473321 original size:14 final size:14
Alignment explanation
Indices: 21473295--21473334 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
21473285 TAAACCTGCT
*
21473295 TAAACCCTAAACCA
1 TAAACCTTAAACCA
* *
21473309 TATATCTTAAACCA
1 TAAACCTTAAACCA
21473323 TAAACCTTAAAC
1 TAAACCTTAAAC
21473335 TGTAATGATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:21473553 original size:41 final size:40
Alignment explanation
Indices: 21473496--21473704 Score: 267
Period size: 41 Copynumber: 5.1 Consensus size: 40
21473486 GTTATATGAC
* *
21473496 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
21473537 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
21473578 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* ** * **
21473618 TTTTAGCGGCATTTTAGTAAAAAAG-GCCTCTGTTGCTCTGT
1 TTTTAGCGGCGTTTTA--CCAAAAGCGCCGCTAATGCTCTGT
* * *
21473659 TTTTAGTGGCGTTTTACCAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
21473699 ATTTTA
1 -TTTTA
21473705 AAATTTTTGC
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
40 31 0.21
41 109 0.73
42 5 0.03
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:21473670 original size:81 final size:81
Alignment explanation
Indices: 21473496--21473704 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 81
21473486 GTTATATGAC
* * * **
21473496 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTTTGGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCATTTTAAAAAAAGC
21473561 GCCGCTAATGCTCTGGT
65 GCCGCTAATGCTCTGGT
21473578 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCATTTTAGTAAAAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCATTTTA--AAAAAAG
* **
21473643 -GCCTCTGTTGCTCT-GT
64 CGCCGCTAATGCTCTGGT
* * *
21473659 TTTTAGTGGCGTTTTACCAAAAACGCCGCTATTGCTCTGTATTTTA
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT-TTTTA
21473705 AAATTTTTGC
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
81 56 0.50
82 52 0.46
83 5 0.04
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTTTTTAGCGGCATTTTAAAAAAAGCG
CCGCTAATGCTCTGGT
Found at i:21475163 original size:33 final size:33
Alignment explanation
Indices: 21475121--21475186 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
21475111 ACACGAGAAT
21475121 AAGACGATACATACTAACTAGTGGGTGGTGCAA
1 AAGACGATACATACTAACTAGTGGGTGGTGCAA
*
21475154 AAGACGATACATACTGACTAGTGGGTGGTGCAA
1 AAGACGATACATACTAACTAGTGGGTGGTGCAA
21475187 TCATTGATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (33 bp):
AAGACGATACATACTAACTAGTGGGTGGTGCAA
Found at i:21487080 original size:16 final size:17
Alignment explanation
Indices: 21487030--21487080 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
21487020 ATGGAAATAT
*
21487030 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
21487047 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
21487066 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
21487081 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:21487099 original size:22 final size:21
Alignment explanation
Indices: 21487040--21487082 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
21487030 AATCTTTAAG
21487040 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
21487059 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
21487080 GAT
1 GAT
21487083 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:21493651 original size:132 final size:132
Alignment explanation
Indices: 21493412--21494611 Score: 2096
Period size: 132 Copynumber: 9.1 Consensus size: 132
21493402 CAAAGAAACT
* * *
21493412 AGATTTGGCAT-CCTGTGTTTATAGGGAAACAGATAGAAGATAGCAGATCTGACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGG-AACAAATCGAAGATAGCAGATCTGACATTCCTGTGCT
* *
21493476 TACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCAGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
21493541 AGC
130 AGC
* * *
21493544 AGATTTGGAATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGTTCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
21493609 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21493674 GC
131 GC
* *
21493676 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGTTCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
21493741 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21493806 GC
131 GC
* * * *
21493808 AGATTTTGCATCCCTATGTTTATAGGGAATAAATCGAAGATAGTAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
21493873 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21493938 GC
131 GC
* *
21493940 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGTAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
21494005 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21494070 GC
131 GC
21494072 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
21494137 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21494202 GC
131 GC
*
21494204 AGATTTGGCATCCCTGTGTTTATAGGGAATAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * * * * *
21494269 ATAGCGAAACAGATCAAAGATTTTAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21494334 GC
131 GC
21494336 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
21494401 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
21494466 GC
131 GC
* * *
21494468 AGATTTGGCATCCCTATGTTTATAGGGAACAAATCGAAAATAGCAGATCTAACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* *
21494533 ACAGTGAAGCAGATCGAAGATTTCAGCATGGTATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
21494598 GT
131 GC
21494600 AGATTTGGCATC
1 AGATTTGGCATC
21494612 TCCGTATTCG
Statistics
Matches: 1024, Mismatches: 43, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
132 1009 0.99
133 15 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:21495142 original size:36 final size:36
Alignment explanation
Indices: 21495102--21495216 Score: 185
Period size: 36 Copynumber: 3.1 Consensus size: 36
21495092 CATCTTTAAG
21495102 GATATGCAATCTTAGATATGATACAATCTAAGATAT
1 GATATGCAATCTTAGATATGATACAATCTAAGATAT
*
21495138 GATATGCAATCTTAGATATGATACAATCTTAGATAT
1 GATATGCAATCTTAGATATGATACAATCTAAGATAT
21495174 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA--CAATC-T-AAGATAT
21495214 GAT
1 GAT
21495217 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
36 58 0.79
38 5 0.07
39 1 0.01
40 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
GATATGCAATCTTAGATATGATACAATCTAAGATAT
Found at i:21495149 original size:19 final size:19
Alignment explanation
Indices: 21495102--21495216 Score: 175
Period size: 19 Copynumber: 6.2 Consensus size: 19
21495092 CATCTTTAAG
21495102 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
21495121 GATA--CAATCTAAGATAT
1 GATATGCAATCTTAGATAT
21495138 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21495157 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21495174 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
21495193 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
21495214 GAT
1 GAT
21495217 CTTGTAATCT
Statistics
Matches: 88, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 33 0.38
19 46 0.52
21 9 0.10
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:21495157 original size:14 final size:15
Alignment explanation
Indices: 21495102--21495194 Score: 62
Period size: 17 Copynumber: 5.5 Consensus size: 15
21495092 CATCTTTAAG
21495102 GATATG-CAATCTTA
1 GATATGACAATCTTA
*
21495116 GATATGATACAATCTAA
1 GATATG--ACAATCTTA
21495133 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
21495152 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
21495169 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
21495188 GATATGA
1 GATATGA
21495195 TATGCAATCT
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 6 0.09
17 34 0.49
19 30 0.43
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:21497610 original size:23 final size:23
Alignment explanation
Indices: 21497580--21497639 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
21497570 GATTTCAATG
*
21497580 AAACACACC-GAAATAGTCCAACC
1 AAACACACCAG-AATAATCCAACC
*
21497603 AAACACACCAGAATAATCCACCC
1 AAACACACCAGAATAATCCAACC
21497626 AAACACACCAGAAT
1 AAACACACCAGAAT
21497640 GACACTCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.50, C:0.35, G:0.07, T:0.08
Consensus pattern (23 bp):
AAACACACCAGAATAATCCAACC
Found at i:21498684 original size:9 final size:10
Alignment explanation
Indices: 21498672--21498733 Score: 62
Period size: 9 Copynumber: 6.5 Consensus size: 10
21498662 TATTTATTAG
21498672 TTAATAA-AA
1 TTAATAATAA
21498681 TTAATAATAA
1 TTAATAATAA
21498691 -TAATAATACA
1 TTAATAATA-A
21498701 TT-ATAATAA
1 TTAATAATAA
21498710 -T-ATAATAA
1 TTAATAATAA
*
21498718 TATAATAATAT
1 T-TAATAATAA
21498729 TTAAT
1 TTAAT
21498734 TCATAAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
8 8 0.17
9 16 0.35
10 14 0.30
11 8 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAATAATAA
Found at i:21498690 original size:3 final size:3
Alignment explanation
Indices: 21498673--21498727 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
21498663 ATTTATTAGT
*
21498673 TAA TAA -AA TTAA TAA TAA TAA TAA TACA TTA TAA TAA T-A TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
21498718 T-A TAA TAA TA
1 TAA TAA TAA TA
21498728 TTTAATTCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 6 0.13
3 35 0.78
4 4 0.09
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:21498708 original size:16 final size:15
Alignment explanation
Indices: 21498673--21498727 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
21498663 ATTTATTAGT
21498673 TAATAA-AATTAATAA
1 TAATAATAA-TAATAA
*
21498688 TAATAATAATACATTA
1 TAATAATAATA-ATAA
21498704 TAATAAT-ATAATAA
1 TAATAATAATAATAA
21498718 T-ATAATAATA
1 TAATAATAATA
21498728 TTTAATTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 5 0.14
14 7 0.20
15 11 0.31
16 12 0.34
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:21498715 original size:8 final size:8
Alignment explanation
Indices: 21498684--21498728 Score: 63
Period size: 8 Copynumber: 5.2 Consensus size: 8
21498674 AATAAAATTA
21498684 ATAATAAT
1 ATAATAAT
21498692 AATAATACATT
1 -ATAATA-A-T
21498703 ATAATAAT
1 ATAATAAT
21498711 ATAATAAT
1 ATAATAAT
21498719 ATAATAAT
1 ATAATAAT
21498727 AT
1 AT
21498729 TTAATTCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 19 0.56
9 7 0.21
10 7 0.21
11 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:21500138 original size:16 final size:16
Alignment explanation
Indices: 21500117--21500156 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
21500107 TGTGTGCTGC
21500117 AAAAGTACGAGGTCAT
1 AAAAGTACGAGGTCAT
* *
21500133 AAAAGTGCGAGTTCAT
1 AAAAGTACGAGGTCAT
*
21500149 CAAAGTAC
1 AAAAGTAC
21500157 AAGCTTGAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (16 bp):
AAAAGTACGAGGTCAT
Found at i:21500371 original size:17 final size:16
Alignment explanation
Indices: 21500306--21500374 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
21500296 ATGCTAACTG
* *
21500306 CAAACTGCGAGTTCAC
1 CAAATTGCGAGCTCAC
*
21500322 CAAATGTGCAAGCTCAC
1 CAAAT-TGCGAGCTCAC
* *
21500339 CAAAAAATGTGAGCTCAC
1 C--AAATTGCGAGCTCAC
21500357 CAAGATTGCGAGCTCAC
1 CAA-ATTGCGAGCTCAC
21500374 C
1 C
21500375 TGCGAACTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 6 0.15
17 22 0.54
18 10 0.24
19 3 0.07
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (16 bp):
CAAATTGCGAGCTCAC
Found at i:21503929 original size:93 final size:93
Alignment explanation
Indices: 21503768--21503949 Score: 274
Period size: 93 Copynumber: 2.0 Consensus size: 93
21503758 GAGAAGATTC
* *
21503768 AAGAAAACACTCGAAAAACACCAGCGAAACTAAATTAAAAACGGATCTCCATCAAGATCAAAGGT
1 AAGAAAACACTCAAAAAACACCAGCGAAACTAAATTAAAAACGGATCTCCATCAAGATCAAAGAT
*
21503833 CTCCTTTTAATTTATTTTAAAGTTATTG
66 CTCCTTTTAATCTATTTTAAAGTTATTG
* * * * * *
21503861 AAGAAAACACTTAAAAAACACCATCGAAACTAACTTAGAAGCGGATCTCCATCAAGATCGAAGAT
1 AAGAAAACACTCAAAAAACACCAGCGAAACTAAATTAAAAACGGATCTCCATCAAGATCAAAGAT
*
21503926 CTCCTTTTAATCTATTTTGAAGTT
66 CTCCTTTTAATCTATTTTAAAGTT
21503950 TTATTGAGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (93 bp):
AAGAAAACACTCAAAAAACACCAGCGAAACTAAATTAAAAACGGATCTCCATCAAGATCAAAGAT
CTCCTTTTAATCTATTTTAAAGTTATTG
Found at i:21505427 original size:28 final size:28
Alignment explanation
Indices: 21505395--21505448 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
21505385 ACTTATCACC
21505395 AACCTCGATTCAAATGGTCTTACATACT
1 AACCTCGATTCAAATGGTCTTACATACT
21505423 AACCTCGATTCAAATGGTCTTACATA
1 AACCTCGATTCAAATGGTCTTACATA
21505449 TCCTAAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (28 bp):
AACCTCGATTCAAATGGTCTTACATACT
Found at i:21505806 original size:69 final size:68
Alignment explanation
Indices: 21505725--21505917 Score: 215
Period size: 69 Copynumber: 2.8 Consensus size: 68
21505715 AGCTGTTTCA
* ** * * * *
21505725 AAGGTTGTGATCATAAACCAGTGAGCCTTTATGATATCAGTTAGGAACGTGGGTTCGCAAGCCGT
1 AAGGTTGCGATCATAAACCAGCAAGCCTTTGTAATATCAGTT-GGAACGTAGGTCCGCAAGCCGT
21505790 ATTG
65 ATTG
* * * * *
21505794 GAGGTTGCGATCACAAACCGGCAAGCCTTTGTAATATCAGTTGGAAACGTAGGTCCGCGAGCTGT
1 AAGGTTGCGATCATAAACCAGCAAGCCTTTGTAATATCAGTTGG-AACGTAGGTCCGCAAGCCGT
*
21505859 GTTG
65 ATTG
* * *
21505863 AAGGCTGCGATCATAAACCAGCAAGCCTTTGTAATATCAATTGGGAACATAGGTC
1 AAGGTTGCGATCATAAACCAGCAAGCCTTTGTAATATCAGTT-GGAACGTAGGTC
21505918 TGCGAGCTGC
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
68 2 0.02
69 99 0.96
70 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (68 bp):
AAGGTTGCGATCATAAACCAGCAAGCCTTTGTAATATCAGTTGGAACGTAGGTCCGCAAGCCGTA
TTG
Found at i:21505923 original size:69 final size:69
Alignment explanation
Indices: 21505794--21505949 Score: 215
Period size: 69 Copynumber: 2.3 Consensus size: 69
21505784 AGCCGTATTG
* * * * * *
21505794 GAGGTTGCGATCACAAACCGGCAAGCCTTTGTAATATCAGTTGGAAACGTAGGTCCGCGAGCTGT
1 GAGGCTGCGATCATAAACCAGCAAGCCTTTGTAATATCAATTGGAAACATAGGTCCGCGAGCTGC
*
21505859 G-TT
66 GCTA
* *
21505862 GAAGGCTGCGATCATAAACCAGCAAGCCTTTGTAATATCAATTGGGAACATAGGTCTGCGAGCTG
1 G-AGGCTGCGATCATAAACCAGCAAGCCTTTGTAATATCAATTGGAAACATAGGTCCGCGAGCTG
21505927 CGCTA
65 CGCTA
21505932 GAGGCTGCGATCATAAAC
1 GAGGCTGCGATCATAAAC
21505950 TGACAAGCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.01
69 74 0.96
70 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (69 bp):
GAGGCTGCGATCATAAACCAGCAAGCCTTTGTAATATCAATTGGAAACATAGGTCCGCGAGCTGC
GCTA
Found at i:21505977 original size:69 final size:67
Alignment explanation
Indices: 21505794--21505978 Score: 201
Period size: 69 Copynumber: 2.7 Consensus size: 67
21505784 AGCCGTATTG
* * * * * *
21505794 GAGGTTGCGATCACAAACCGGCAAGCCTTTGTAATATCAGTTGGAAACGTAGGTCCGCGAGCTGT
1 GAGGCTGCGATCATAAA-CGACAAGCCTTTGTAATATCAGTTGGGAACATAGGTCCGCGAGCTGC
*
21505859 GTT
65 GTA
* * *
21505862 GAAGGCTGCGATCATAAACCAGCAAGCCTTTGTAATATCAATTGGGAACATAGGTCTGCGAGCTG
1 G-AGGCTGCGATCATAAACGA-CAAGCCTTTGTAATATCAGTTGGGAACATAGGTCCGCGAGCTG
21505927 CGCTA
64 CG-TA
* *
21505932 GAGGCTGCGATCATAAACTGACAAG-CTTGTATAATATCAGCTGGGAA
1 GAGGCTGCGATCATAAAC-GACAAGCCTT-TGTAATATCAGTTGGGAA
21505979 TGTAAGTTCA
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
68 5 0.05
69 90 0.92
70 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (67 bp):
GAGGCTGCGATCATAAACGACAAGCCTTTGTAATATCAGTTGGGAACATAGGTCCGCGAGCTGCG
TA
Found at i:21508086 original size:13 final size:13
Alignment explanation
Indices: 21508068--21508094 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21508058 TTTTAAGTTC
21508068 ATAAAACATTTAT
1 ATAAAACATTTAT
21508081 ATAAAACATTTAT
1 ATAAAACATTTAT
21508094 A
1 A
21508095 GCATAGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAAACATTTAT
Found at i:21516048 original size:17 final size:17
Alignment explanation
Indices: 21516026--21516061 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
21516016 ACTCCTCCAA
21516026 CTTTTAACCTTTATACT
1 CTTTTAACCTTTATACT
*
21516043 CTTTTAACCTTTATTCT
1 CTTTTAACCTTTATACT
21516060 CT
1 CT
21516062 GTAACCTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (17 bp):
CTTTTAACCTTTATACT
Found at i:21518743 original size:51 final size:51
Alignment explanation
Indices: 21518667--21518778 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
21518657 CATAAAACCG
* * *
21518667 TAGATGAAAGAGGCCATAACAGTCTATTAT-AAGGTAAATGGCGTAAGACCA
1 TAGATAAAAGAGGCCATAACAGTCTAGTATGAA-GTAAATAGCGTAAGACCA
** * *
21518718 TAGATAAAAGAGGGTATGACAGTCTAGTATGAAGTACATAGCGTAAGACCA
1 TAGATAAAAGAGGCCATAACAGTCTAGTATGAAGTAAATAGCGTAAGACCA
21518769 TAGATGAAAA
1 TAGAT-AAAA
21518779 ATGTCATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 46 0.88
52 6 0.12
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (51 bp):
TAGATAAAAGAGGCCATAACAGTCTAGTATGAAGTAAATAGCGTAAGACCA
Found at i:21519049 original size:26 final size:27
Alignment explanation
Indices: 21519002--21519052 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
21518992 CACGAAATAT
**
21519002 AGATAGTCCATCAGGGTAGTAAACACA
1 AGATAGTCCATCAGGACAGTAAACACA
21519029 AGATAGTCCA-CAGGACAGTAAACA
1 AGATAGTCCATCAGGACAGTAAACA
21519053 TGAGGTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.16
Consensus pattern (27 bp):
AGATAGTCCATCAGGACAGTAAACACA
Found at i:21520862 original size:28 final size:28
Alignment explanation
Indices: 21520794--21520869 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
21520784 AAAATTGACA
*
21520794 TACAACTCATGTGAGTAAATTCAAATAT
1 TACAACTCATGTGAGCAAATTCAAATAT
* * *
21520822 CACAGCTCATGTGAGCAAATTCGAATAT
1 TACAACTCATGTGAGCAAATTCAAATAT
**
21520850 TACAACTTGTGTGAGCAAAT
1 TACAACTCATGTGAGCAAAT
21520870 CGGTCACGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (28 bp):
TACAACTCATGTGAGCAAATTCAAATAT
Found at i:21522606 original size:47 final size:47
Alignment explanation
Indices: 21522537--21522629 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
21522527 TGAAAGTGAG
*
21522537 TAAAAGAAATTTCTTTTAAAAGACTACAACTTGAGTTATAAAACATT
1 TAAAAGAAATTTCTTTTAAAAGACTACAACTCGAGTTATAAAACATT
21522584 TAAAAGAAATTTCTTTTAAAAGACTACAACTCGAGTTATAAAACAT
1 TAAAAGAAATTTCTTTTAAAAGACTACAACTCGAGTTATAAAACAT
21522630 GAAACCAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (47 bp):
TAAAAGAAATTTCTTTTAAAAGACTACAACTCGAGTTATAAAACATT
Found at i:21528216 original size:18 final size:19
Alignment explanation
Indices: 21528176--21528224 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
21528166 ATAAGTCTTC
21528176 AAAAATAATTAAAAGAAAGAT
1 AAAAATAA--AAAAGAAAGAT
*
21528197 AAAAATAAAAATGAAA-AT
1 AAAAATAAAAAAGAAAGAT
21528215 AAAAATAAAA
1 AAAAATAAAA
21528225 TAAATAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 12 0.44
19 7 0.26
21 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAAATAAAAAAGAAAGAT
Found at i:21528218 original size:5 final size:6
Alignment explanation
Indices: 21528195--21528228 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
21528185 TAAAAGAAAG
*
21528195 ATAAAA ATAAAA ATGAAA ATAAAA AT-AAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
21528229 TAAATGGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:21534905 original size:100 final size:100
Alignment explanation
Indices: 21534732--21534931 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
21534722 CCACTGGCTC
*
21534732 GCAATGTTGCTCATACAAGATGTAGAAAATCCATAACAAACGCAGGATCTCAGCCATCTCTACGG
1 GCAATGTTGCTCACACAAGATGTAGAAAATCCATAACAAACGCAGGATCTCAGCCATCTCTACGG
21534797 TCTGTATCACTAGCTCAAGGCCTGATAGTCAATAT
66 TCTGTATCACTAGCTCAAGGCCTGATAGTCAATAT
* * *
21534832 GCAATGTTTCTCACACAAGATGTAGAAAATCCATAACAAATGTAGGATCTCAGCCATCTCTACGG
1 GCAATGTTGCTCACACAAGATGTAGAAAATCCATAACAAACGCAGGATCTCAGCCATCTCTACGG
21534897 TCTGTATCACTAGCTCAAGGCCTGATAGTCAATAT
66 TCTGTATCACTAGCTCAAGGCCTGATAGTCAATAT
21534932 CCATTTTCAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (100 bp):
GCAATGTTGCTCACACAAGATGTAGAAAATCCATAACAAACGCAGGATCTCAGCCATCTCTACGG
TCTGTATCACTAGCTCAAGGCCTGATAGTCAATAT
Found at i:21541223 original size:17 final size:19
Alignment explanation
Indices: 21541182--21541226 Score: 67
Period size: 17 Copynumber: 2.5 Consensus size: 19
21541172 TTTGTCATGC
*
21541182 TTTTAGGATGACACTTCAT
1 TTTTAGGATCACACTTCAT
21541201 TTTTAGGA-CACACTTCA-
1 TTTTAGGATCACACTTCAT
21541218 TTTTAGGAT
1 TTTTAGGAT
21541227 TGTTCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTTAGGATCACACTTCAT
Found at i:21543578 original size:10 final size:10
Alignment explanation
Indices: 21543563--21543587 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21543553 ATTGATATCA
21543563 TTATATTTTG
1 TTATATTTTG
21543573 TTATATTTTG
1 TTATATTTTG
21543583 TTATA
1 TTATA
21543588 ATAATGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTATATTTTG
Found at i:21544428 original size:23 final size:23
Alignment explanation
Indices: 21544398--21544479 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
21544388 AGCACGCTTG
*
21544398 TGAATTTAGCACTCCGGTGCTCC
1 TGAATTTAGCACTTCGGTGCTCC
* *
21544421 TGAATTTAGCATTTCAGTGCTCC
1 TGAATTTAGCACTTCGGTGCTCC
* *
21544444 CGAACTTAGCACTTCGGTGCTCC
1 TGAATTTAGCACTTCGGTGCTCC
*
21544467 T-AATTTAGAACTT
1 TGAATTTAGCACTT
21544480 ATGTGATCGT
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
22 10 0.20
23 39 0.80
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (23 bp):
TGAATTTAGCACTTCGGTGCTCC
Found at i:21546638 original size:18 final size:19
Alignment explanation
Indices: 21546606--21546650 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
21546596 TTAAGAATGA
* * *
21546606 TTAACTAATTAAATTTGAT
1 TTAATTAATTAAATTTAAC
21546625 TTAATTAATT-AATTTAAC
1 TTAATTAATTAAATTTAAC
21546643 TTAATTAA
1 TTAATTAA
21546651 AGGTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAATTAATTAAATTTAAC
Found at i:21554166 original size:28 final size:28
Alignment explanation
Indices: 21554126--21554180 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21554116 GCTTAACAGG
21554126 AACTTTTTATTAAGAAGTGAGCATAAGC
1 AACTTTTTATTAAGAAGTGAGCATAAGC
21554154 AACTTTTTATTAAGAAGTGAGCATAAG
1 AACTTTTTATTAAGAAGTGAGCATAAG
21554181 ATATAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (28 bp):
AACTTTTTATTAAGAAGTGAGCATAAGC
Found at i:21556145 original size:15 final size:14
Alignment explanation
Indices: 21556107--21556152 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
21556097 GGTAAAATAT
*
21556107 TTTCCGGAAAATGA
1 TTTCTGGAAAATGA
*
21556121 TTTCTGGAAAATAA
1 TTTCTGGAAAATGA
21556135 TTTCTTGGAAAATGA
1 TTTC-TGGAAAATGA
21556150 TTT
1 TTT
21556153 ACTTTTCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:21556306 original size:2 final size:2
Alignment explanation
Indices: 21556299--21556323 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21556289 GAGTTTACTT
21556299 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21556324 CAATAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21556648 original size:22 final size:22
Alignment explanation
Indices: 21556623--21556711 Score: 83
Period size: 22 Copynumber: 4.0 Consensus size: 22
21556613 ATCCAAGTGC
* *
21556623 ATAACTAATATTACACTATATG
1 ATAACTAATATTACACCACATG
21556645 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* **
21556667 ATAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
21556690 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
21556712 TAAAAGTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 32 0.60
23 9 0.17
24 12 0.23
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:21557705 original size:32 final size:32
Alignment explanation
Indices: 21557659--21557719 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
21557649 TGTCAATCAT
21557659 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
21557691 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
21557720 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:21557726 original size:27 final size:30
Alignment explanation
Indices: 21557659--21557732 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
21557649 TGTCAATCAT
*
21557659 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
21557691 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
21557719 -TCAATATCTAACAA
1 TTCAATATCTAACAA
21557733 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:21559889 original size:3 final size:3
Alignment explanation
Indices: 21559881--21559905 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21559871 TAAGGTTGAG
21559881 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
21559906 TTTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:21566346 original size:42 final size:42
Alignment explanation
Indices: 21566283--21566409 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
21566273 CTTCGTTTTC
** * *
21566283 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
21566326 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
21566367 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
21566408 TC
1 TC
21566410 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:21566471 original size:47 final size:46
Alignment explanation
Indices: 21566368--21566491 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
21566358 ATTCATATAT
* * * * *
21566368 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
21566414 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
21566461 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
21566492 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:21566603 original size:31 final size:31
Alignment explanation
Indices: 21566516--21566603 Score: 126
Period size: 31 Copynumber: 2.8 Consensus size: 31
21566506 CTTGTAGCTT
*
21566516 GTAGCCAAAGCTACCA-TTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTT-TTCACTTATCAG
*
21566547 GTAG-CAGAAGCTACGACTTTTCACTTATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTTATCAG
21566578 GTAGCCAAAGCTACCACTTTTCACTT
1 GTAGCCAAAGCTACCACTTTTCACTT
21566604 GTCATTTGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.04
31 45 0.88
32 4 0.08
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTTATCAG
Found at i:21566685 original size:50 final size:51
Alignment explanation
Indices: 21566578--21566706 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
21566568 CACTTATCAG
* * *
21566578 GTAGCCAAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
21566629 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
21566679 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
21566707 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:21571267 original size:22 final size:21
Alignment explanation
Indices: 21571216--21571272 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
21571206 CAAGAGCCTA
21571216 AGGTCTCGAGACATATTTGTAT
1 AGGTCTCGAGACA-ATTTGTAT
* *
21571238 A-GTCTCGAGACAATTGTTTCT
1 AGGTCTCGAGACAATT-TGTAT
*
21571259 AGGTCTCGACACAA
1 AGGTCTCGAGACAA
21571273 GTAACCTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 12 0.40
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (21 bp):
AGGTCTCGAGACAATTTGTAT
Found at i:21571364 original size:21 final size:21
Alignment explanation
Indices: 21571338--21571384 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
21571328 TCAAGTTTCG
* *
21571338 AGACAAGAATCCCTTGTCTTA
1 AGACAAGAATCCCTTCTCTCA
*
21571359 AGACAAGAATCCTTTCTCTCA
1 AGACAAGAATCCCTTCTCTCA
21571380 AGACA
1 AGACA
21571385 TTCAAACATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (21 bp):
AGACAAGAATCCCTTCTCTCA
Found at i:21581751 original size:40 final size:40
Alignment explanation
Indices: 21581663--21581836 Score: 197
Period size: 40 Copynumber: 4.3 Consensus size: 40
21581653 TGCTCGATAT
* * * * * *
21581663 ATCGCACACTAAGTGTCGTACATA-CTCGAAACTATCTCAA
1 ATCGCACACTAAGTGCCATATATAGC-CGAAGCTATGTCGA
*
21581703 ATCTCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
1 ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
* * * *
21581743 ACCGCACACTAAGTGGCATATATAGCTGAAGCTATATCGA
1 ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
* * * *
21581783 ATCACACACTAAGGGCCATATATAGCCGAAGATATGTCGT
1 ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
21581823 ATCGCACACTAAGT
1 ATCGCACACTAAGT
21581837 TCCACAAATA
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
40 110 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
Found at i:21581801 original size:80 final size:80
Alignment explanation
Indices: 21581665--21581836 Score: 229
Period size: 80 Copynumber: 2.1 Consensus size: 80
21581655 CTCGATATAT
* * * * *
21581665 CGCACACTAAGTGTCGTACATACTCGAAACTATCTCAAATCTCACACTAAGTGCCATATATAGCC
1 CGCACACTAAGTGGCATACATACTCGAAACTATATCAAATCACACACTAAGGGCCATATATAGCC
*
21581730 GAAGCTATGTCGAAC
66 GAAGATATGTCGAAC
* * *
21581745 CGCACACTAAGTGGCATATATAGCT-GAAGCTATATCGAATCACACACTAAGGGCCATATATAGC
1 CGCACACTAAGTGGCATACATA-CTCGAAACTATATCAAATCACACACTAAGGGCCATATATAGC
* *
21581809 CGAAGATATGTCGTAT
65 CGAAGATATGTCGAAC
21581825 CGCACACTAAGT
1 CGCACACTAAGT
21581837 TCCACAAATA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 78 0.98
81 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (80 bp):
CGCACACTAAGTGGCATACATACTCGAAACTATATCAAATCACACACTAAGGGCCATATATAGCC
GAAGATATGTCGAAC
Found at i:21585432 original size:20 final size:20
Alignment explanation
Indices: 21585396--21585437 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
21585386 AAAAACTCAA
*
21585396 ATAATTTTTAATTAAATTTTT
1 ATAATTTTTAA-TAAATATTT
21585417 ATAATTTTATAA-AAATATTT
1 ATAATTTT-TAATAAATATTT
21585437 A
1 A
21585438 AAGCTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 8 0.42
22 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAATTTTTAATAAATATTT
Found at i:21586834 original size:16 final size:16
Alignment explanation
Indices: 21586813--21586847 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
21586803 AAATATAAAA
21586813 TAGGCCAATTGAATTT
1 TAGGCCAATTGAATTT
21586829 TAGGCCAATTGAATTT
1 TAGGCCAATTGAATTT
21586845 TAG
1 TAG
21586848 CCCAGTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (16 bp):
TAGGCCAATTGAATTT
Found at i:21586856 original size:16 final size:16
Alignment explanation
Indices: 21586817--21586856 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
21586807 ATAAAATAGG
*
21586817 CCAATTGAATTTTAGG
1 CCAATTGAATTTTAGC
21586833 CCAATTGAATTTTAGC
1 CCAATTGAATTTTAGC
*
21586849 CCAGTTGA
1 CCAATTGA
21586857 TATGGTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (16 bp):
CCAATTGAATTTTAGC
Found at i:21588489 original size:18 final size:19
Alignment explanation
Indices: 21588468--21588505 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21588458 AATATGAAAT
21588468 TAAATTAT-ATTGTATTAA
1 TAAATTATAATTGTATTAA
* *
21588486 TAAATTTTAATTGTTTTAA
1 TAAATTATAATTGTATTAA
21588505 T
1 T
21588506 TTCGTAGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TAAATTATAATTGTATTAA
Found at i:21588735 original size:24 final size:24
Alignment explanation
Indices: 21588691--21588737 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
21588681 ATTTAAATGG
21588691 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
21588715 ATTGAATTTA-TAT-TGATTGAATT
1 ATTG-ATTTAGTATGTGA-TGAATT
21588738 GGCATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:21595506 original size:46 final size:46
Alignment explanation
Indices: 21595453--21595654 Score: 361
Period size: 46 Copynumber: 4.4 Consensus size: 46
21595443 ATGGGAATCC
21595453 GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
21595499 GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
21595545 GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
* *
21595591 GTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAGTTGA
1 GTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAGTTGA
*
21595637 GTCCGAGTTCGCTTATGG
1 GTCCGAGTTCACTTATGG
21595655 GCGGGTCACA
Statistics
Matches: 152, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
45 2 0.01
46 150 0.99
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
GTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
Found at i:21598130 original size:28 final size:28
Alignment explanation
Indices: 21598071--21598199 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 28
21598061 CATGTGGCAA
** *
21598071 AAAAATATAAAAAA-A-TAAAAATCAAT
1 AAAAATATAAAAAATATTAAATTTTAAT
*
21598097 AAAAAATTATAAAAACTATTAAATTTTAAT
1 -AAAAA-TATAAAAAATATTAAATTTTAAT
*
21598127 AAAAATATAAAAGAAT-TTAAATTTTATT
1 AAAAATATAAAA-AATATTAAATTTTAAT
* * *
21598155 AAAATTA-AAAAAATTATAAAAATTGTAA-
1 AAAAATATAAAAAA-TAT-TAAATTTTAAT
*
21598183 AAAAATATAAAATATAT
1 AAAAATATAAAAAATAT
21598200 AGAAATATAG
Statistics
Matches: 82, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
26 2 0.02
27 10 0.12
28 42 0.51
29 20 0.24
30 8 0.10
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AAAAATATAAAAAATATTAAATTTTAAT
Found at i:21598158 original size:27 final size:27
Alignment explanation
Indices: 21598098--21598174 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
21598088 AAAATCAATA
*
21598098 AAAAATTATAAAAACTATTAAATTTTAAT
1 AAAAATTA-AAAAAAT-TTAAATTTTAAT
*
21598127 AAAAATATAAAAGAATTTAAATTTT-AT
1 AAAAAT-TAAAAAAATTTAAATTTTAAT
*
21598154 TAAAATTAAAAAAATTATAAA
1 AAAAATTAAAAAAATT-TAAA
21598175 AATTGTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.21
27 11 0.26
28 9 0.21
29 11 0.26
30 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (27 bp):
AAAAATTAAAAAAATTTAAATTTTAAT
Found at i:21598215 original size:56 final size:52
Alignment explanation
Indices: 21598069--21598216 Score: 116
Period size: 56 Copynumber: 2.6 Consensus size: 52
21598059 TACATGTGGC
* * * *
21598069 AAAAAAATATAAAAAAATAAAAATCAATAAAAAATTATAAAAACTATTAAATTTT
1 AAAAAAATATAAAAATAT-AAAAT--ATAAAAAATTAAAAAAACTATAAAATTGT
* * * * *
21598124 AATAAAAATATAAAAGAATTTAAATTTTATTAAAATTAAAAAAATTATAAAAATTGT
1 AA-AAAAATAT-AAA-AATATAAAATATA-AAAAATTAAAAAAACTAT-AAAATTGT
21598181 AAAAAAATATAAAATATATAGAAATATAGAAAAATT
1 AAAAAAATATAAAA-ATATA-AAATATA-AAAAATT
21598217 TCTAAGATTT
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
54 1 0.01
55 11 0.15
56 42 0.58
57 15 0.21
58 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (52 bp):
AAAAAAATATAAAAATATAAAATATAAAAAATTAAAAAAACTATAAAATTGT
Found at i:21600909 original size:40 final size:40
Alignment explanation
Indices: 21600849--21600985 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
21600839 TCGAGAATAT
* *
21600849 AAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
** * *
21600889 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
* * ** *
21600929 AAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
* *
21600969 AAGGCGGATAGGATTTG
1 AAAGTGGATAGGATTTG
21600986 ACCTGAAAAG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCCTGATTCACTATAATAACTC
Found at i:21601040 original size:78 final size:78
Alignment explanation
Indices: 21600950--21601101 Score: 277
Period size: 78 Copynumber: 1.9 Consensus size: 78
21600940 GATTTATTCC
*
21600950 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
21601015 GTTACATGATATA
66 GTTACATGATATA
* *
21601028 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
21601093 GTTACATGA
66 GTTACATGA
21601102 GATGTGACTC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:21611964 original size:3 final size:3
Alignment explanation
Indices: 21611956--21611981 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21611946 TAGGGGATTA
21611956 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
21611982 ATTTTTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21627532 original size:23 final size:24
Alignment explanation
Indices: 21627506--21627551 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
21627496 GAAATGTTTT
21627506 TTAA-ATATTTTTGAGCTTAAAAA
1 TTAATATATTTTTGAGCTTAAAAA
**
21627529 TTAATTATATTTTTTTGCTTAAA
1 TTAA-TATATTTTTGAGCTTAAA
21627552 TTTATATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (24 bp):
TTAATATATTTTTGAGCTTAAAAA
Found at i:21629202 original size:17 final size:17
Alignment explanation
Indices: 21629170--21629203 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21629160 AGAAATTAAT
* *
21629170 ATAATAATATATTAAAG
1 ATAATAATAAAATAAAG
21629187 ATAATAATAAAATAAAG
1 ATAATAATAAAATAAAG
21629204 CACATAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
ATAATAATAAAATAAAG
Found at i:21629243 original size:17 final size:17
Alignment explanation
Indices: 21629182--21629244 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
21629172 AATAATATAT
21629182 TAAAGATAAT-AATAAAA
1 TAAAGA-AATAAATAAAA
* *
21629199 TAAAGCACATAATTAAAA
1 TAAAG-AAATAAATAAAA
* *
21629217 CATA-AAATAAATAAAA
1 TAAAGAAATAAATAAAA
21629233 TAAAGAAATAAA
1 TAAAGAAATAAA
21629245 GAAACAATTG
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
16 12 0.34
17 14 0.40
18 9 0.26
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (17 bp):
TAAAGAAATAAATAAAA
Found at i:21631769 original size:39 final size:39
Alignment explanation
Indices: 21631726--21631804 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
21631716 TGAAGTTAGG
21631726 AAAATTTTTGAAATAGCGAATAGTGTACTAGAAATAAAT
1 AAAATTTTTGAAATAGCGAATAGTGTACTAGAAATAAAT
*
21631765 AAAATTTTTGAAATTGCGAATAGTGTACTAGAAATAAAT
1 AAAATTTTTGAAATAGCGAATAGTGTACTAGAAATAAAT
21631804 A
1 A
21631805 TTTTTTAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (39 bp):
AAAATTTTTGAAATAGCGAATAGTGTACTAGAAATAAAT
Found at i:21631818 original size:39 final size:38
Alignment explanation
Indices: 21631727--21631814 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 38
21631717 GAAGTTAGGA
* *
21631727 AAATTTTTGAAATAGCGAATAGTGTACTAGAAATAAAT
1 AAATTTTTAAAATTGCGAATAGTGTACTAGAAATAAAT
*
21631765 AAAATTTTTGAAATTGCGAATAGTGTACTAGAAATAAAT
1 -AAATTTTTAAAATTGCGAATAGTGTACTAGAAATAAAT
*
21631804 -ATTTTTTAAAA
1 AAATTTTTAAAA
21631815 AATTAGAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 9 0.20
39 37 0.80
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.35
Consensus pattern (38 bp):
AAATTTTTAAAATTGCGAATAGTGTACTAGAAATAAAT
Found at i:21632551 original size:33 final size:33
Alignment explanation
Indices: 21632509--21632590 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
21632499 TTAGAATTAA
* *
21632509 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
21632542 TGTTTTTGGTTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
* *
21632573 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
21632591 AATGCAGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGC
Found at i:21632864 original size:22 final size:22
Alignment explanation
Indices: 21632837--21632895 Score: 118
Period size: 22 Copynumber: 2.7 Consensus size: 22
21632827 AGTGGCGCCT
21632837 AAAAGCGCCGCTAAAGGCTAAA
1 AAAAGCGCCGCTAAAGGCTAAA
21632859 AAAAGCGCCGCTAAAGGCTAAA
1 AAAAGCGCCGCTAAAGGCTAAA
21632881 AAAAGCGCCGCTAAA
1 AAAAGCGCCGCTAAA
21632896 AGTCTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.08
Consensus pattern (22 bp):
AAAAGCGCCGCTAAAGGCTAAA
Found at i:21636468 original size:19 final size:19
Alignment explanation
Indices: 21636407--21636468 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
21636397 TTGAAAATTC
*
21636407 TAAAAATTTCTAAAAATACA
1 TAAAAATTT-TAAAAATAAA
*
21636427 TAGAAAA-TTAAAAAATTAAA
1 TA-AAAATTTTAAAAA-TAAA
*
21636447 TAAAAATTTTAAAAATAGA
1 TAAAAATTTTAAAAATAAA
21636466 TAA
1 TAA
21636469 GGGGAGAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 15 0.43
20 16 0.46
21 4 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
TAAAAATTTTAAAAATAAA
Found at i:21644355 original size:87 final size:87
Alignment explanation
Indices: 21644223--21644775 Score: 634
Period size: 87 Copynumber: 6.4 Consensus size: 87
21644213 ATTTCTGGCC
* ***
21644223 GTTACCCTACTGCATAGGGGTTTAAGGCCCATCACC-TCTGATCTGTTTCCCTACTGCTTAGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTC-GATCTGTTTCCCTACTGCTTAGGGG
21644287 GTTAAGATCTGTAAATTCAGCCT
65 GTTAAGATCTGTAAATTCAGCCT
* * ** * * *
21644310 ATTACCTTACTATTTAGGGGGTTAAGGCTTGTCACCTTCGATCTGTTTTCCTACTGCTTAGGGTG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
21644375 ATGAGATCTGTAAATTCAGCCT
66 TTAAGATCTGTAAATTCAGCCT
* *
21644397 GTTACCTTA-TGCTTAGGGGTTTAAGGCCCT-TCACCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGG-CTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGG
*
21644460 GTTAAGATCTGTAAATTTAGCCT
65 GTTAAGATCTGTAAATTCAGCCT
* * ** ** *
21644483 GTTACCCTATTGCTTAGGGGTTTAAGGCCAT-TCGTCTTCGATCT-ACTCCACTACTGCTTAGAG
1 GTTACCCTACTGCTTAGGGGTTTAAGG-CTTGTCACCTTCGATCTGTTTCC-CTACTGCTTAGGG
* * * * *
21644546 AGATCAGATCTGTAAATTTAACCT
64 GGTTAAGATCTGTAAATTCAGCCT
** * * * *
21644570 GTTACCCTACTGCTTAGGGGTTTAAGG-TCCATCGCCTTCGATCTGTTTTCGTACTACTTAGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGG
21644634 GTTAAGATCTGTAAATTCAGCCT
65 GTTAAGATCTGTAAATTCAGCCT
* * ** *
21644657 GTTACCCCACTGCTTAGGGGTTTAAGGCCTGTTGCCTTCGATCTATTTCCCTACTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
21644722 TTAAGATCTGTAAATTTAGCCT
66 TTAAGATCTGTAAATTCAGCCT
*
21644744 GTTACCCTACTGCTTAAGGGG-TTATGGCTTGT
1 GTTACCCTACTGCTT-AGGGGTTTAAGGCTTGT
21644776 GAATTCACCG
Statistics
Matches: 395, Mismatches: 62, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
86 76 0.19
87 310 0.78
88 9 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (87 bp):
GTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
TTAAGATCTGTAAATTCAGCCT
Found at i:21644497 original size:43 final size:43
Alignment explanation
Indices: 21644265--21644767 Score: 235
Period size: 43 Copynumber: 11.6 Consensus size: 43
21644255 CACCTCTGAT
* *
21644265 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** * * ** * *
21644308 CTATTACCTTACTATTTAGGGGGTTAAG-GCTTGTCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTTAG-C
** * * * *
21644352 CTGTTTTCCTACTGCTTAGGGTGATGAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** * ** * *
21644395 CTGTTACCTTA-TGCTTAGGGGTTTAAGGCCCT-TCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GATCTGTAAATTTAG-C
*
21644438 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** ** * *
21644481 CTGTTACCCTATTGCTTAGGGGTTTAAGGCCAT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAAT-TTAG-C
** * * * * *
21644525 CTACT-CCACTACTGCTTAGAGAGATCAGATCTGTAAATTTAAC
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** **** * *
21644568 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
** * * *
21644612 CTGTTTTCGTACTACTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * ** **** * *
21644655 CTGTTACCCCACTGCTTAGGGGTTTAAGGCCTGTTGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
* *
21644699 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
*
21644742 CTGTTACCCTACTGCTTAAGGGGTTA
1 CTGTTACCCTACTGCTTAGGGGGTTA
21644768 TGGCTTGTGA
Statistics
Matches: 305, Mismatches: 139, Indels: 32
0.64 0.29 0.07
Matches are distributed among these distances:
42 17 0.06
43 159 0.52
44 127 0.42
45 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
Found at i:21644650 original size:174 final size:173
Alignment explanation
Indices: 21644223--21644766 Score: 734
Period size: 174 Copynumber: 3.1 Consensus size: 173
21644213 ATTTCTGGCC
*
21644223 GTTACCCTACTGCATAGGGGTTTAAGGCCCATCACC-TCTGATCTGTTTCCCTACTGCTTAGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTC-GATCTGTTTCCCTACTGCTTAGGGG
* * ** * * *
21644287 GTTAAGATCTGTAAATTCAGCCTATTACCTTACTATTTAGGGGGTTAAGGCTTGTCACCTTCGAT
65 GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTGTCGCCTTCGAT
* * * * *
21644352 CTGTTTTCCTACTGCTTAGGGTGATGAGATCTGTAAATTCAGCCT
130 CT-ATTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCT
* *
21644397 GTTACCTTA-TGCTTAGGGGTTTAAGGCCCTTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* * *
21644461 TTAAGATCTGTAAATTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCAT-TCGTCTTCGAT
66 TTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC-TGTCGCCTTCGAT
* * * *
21644525 CTACTCCACTACTGCTTAGAGAGATCAGATCTGTAAATTTAACCT
130 CTATTCC-CTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCT
* * * * *
21644570 GTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTTCGTACTACTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
21644635 TTAAGATCTGTAAATTCAGCCTGTTACCCCACTGCTTAGGGGTTTAAGGCCTGTTGCCTTCGATC
66 TTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTGTCGCCTTCGATC
* *
21644700 TATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCT
131 TA-TTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCT
21644744 GTTACCCTACTGCTTAAGGGGTT
1 GTTACCCTACTGCTT-AGGGGTT
21644767 ATGGCTTGTG
Statistics
Matches: 324, Mismatches: 39, Indels: 13
0.86 0.10 0.03
Matches are distributed among these distances:
172 2 0.01
173 145 0.45
174 167 0.52
175 10 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (173 bp):
GTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG
TTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTGTCGCCTTCGATC
TATTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCT
Found at i:21661542 original size:29 final size:29
Alignment explanation
Indices: 21661499--21661556 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
21661489 CATTGATTGA
* *
21661499 ATATAGTTGGGTTATGCCATTGTTTAAAT
1 ATATAGTTGGATTATGCCATTGTTAAAAT
21661528 ATATAGTTGGATTATGCCATTGTTAAAAT
1 ATATAGTTGGATTATGCCATTGTTAAAAT
21661557 GAAATGTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (29 bp):
ATATAGTTGGATTATGCCATTGTTAAAAT
Found at i:21666438 original size:60 final size:60
Alignment explanation
Indices: 21666331--21666447 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
21666321 AGCGAAGACC
* * * * *
21666331 CAGTACCTTTATACTGAAGGCCCAACATCGAATTTGGCCCATAACTATCATACGCCAGAT
1 CAGTACCCTTATACGGAAGGCCCAACACCGAACTTGGCCCATAACTATCAAACGCCAGAT
* * * *
21666391 CAGTACCCTTATGCGGAAGGTCCAACGCCGAACTTGGCCCAGT-ACTATTAAACGCCA
1 CAGTACCCTTATACGGAAGGCCCAACACCGAACTTGGCCCA-TAACTATCAAACGCCA
21666448 TATCTGCAGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 46 0.98
61 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (60 bp):
CAGTACCCTTATACGGAAGGCCCAACACCGAACTTGGCCCATAACTATCAAACGCCAGAT
Found at i:21667970 original size:48 final size:48
Alignment explanation
Indices: 21667899--21667992 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
21667889 TCAAGTATGC
*
21667899 AAATTTTATTCTTTTGTCTTTAAATGTTCGAATTATAGAAATATCAGA
1 AAATTGTATTCTTTTGTCTTTAAATGTTCGAATTATAGAAATATCAGA
*
21667947 AAATTGTATTCTTTTGTCTTTAAATGTTCTAATTATAGAAATATCA
1 AAATTGTATTCTTTTGTCTTTAAATGTTCGAATTATAGAAATATCA
21667993 CTAAGTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.47
Consensus pattern (48 bp):
AAATTGTATTCTTTTGTCTTTAAATGTTCGAATTATAGAAATATCAGA
Found at i:21671342 original size:26 final size:26
Alignment explanation
Indices: 21671304--21671441 Score: 127
Period size: 26 Copynumber: 5.3 Consensus size: 26
21671294 ATAACTGGCC
* *
21671304 TTGAGCCAGTGTTTATTTAGCATGCT
1 TTGAGCCAATGTTTATTTAGCAGGCT
*
21671330 TTGAGCCAATGTTTACTTAGCAGGCCT
1 TTGAGCCAATGTTTATTTAGCAGG-CT
* * * *
21671357 TT-AGTCGATGTTTATTTAGGAGGTT
1 TTGAGCCAATGTTTATTTAGCAGGCT
** * *
21671382 TTGAGCCGGTGATTATTTAGTAGGCT
1 TTGAGCCAATGTTTATTTAGCAGGCT
* *
21671408 ATGAGTCAATGTTTATTTA-CTAGGCT
1 TTGAGCCAATGTTTATTTAGC-AGGCT
21671434 TTGAGCCA
1 TTGAGCCA
21671442 GTGAATAGTT
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
25 3 0.03
26 81 0.92
27 4 0.05
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.40
Consensus pattern (26 bp):
TTGAGCCAATGTTTATTTAGCAGGCT
Found at i:21671385 original size:52 final size:52
Alignment explanation
Indices: 21671313--21671457 Score: 141
Period size: 52 Copynumber: 2.8 Consensus size: 52
21671303 CTTGAGCCAG
* * * *
21671313 TGTTTATTTAGCATGCTTTGAGCCAATGTTTACTTAGCAGGCCT-TTAGTCGA
1 TGTTTATTTAGCAGGCTTTGAGCCAATGATTACTTAGCAGG-CTATGAGTCAA
* * ** * *
21671365 TGTTTATTTAGGAGGTTTTGAGCCGGTGATTATTTAGTAGGCTATGAGTCAA
1 TGTTTATTTAGCAGGCTTTGAGCCAATGATTACTTAGCAGGCTATGAGTCAA
* * *
21671417 TGTTTATTTA-CTAGGCTTTGAGCCAGTGAATAGTTAGCAGG
1 TGTTTATTTAGC-AGGCTTTGAGCCAATGATTACTTAGCAGG
21671458 TATTATGTAC
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
51 2 0.03
52 73 0.97
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (52 bp):
TGTTTATTTAGCAGGCTTTGAGCCAATGATTACTTAGCAGGCTATGAGTCAA
Found at i:21678452 original size:22 final size:21
Alignment explanation
Indices: 21678424--21678488 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
21678414 TAGTGAAATG
21678424 ACAACAATACAGTGGGAAAACA
1 ACAACAA-ACAGTGGGAAAACA
* * *
21678446 ACAACAAAATAGTGAGAAAGCA
1 ACAAC-AAACAGTGGGAAAACA
* *
21678468 ACAACAAAGAGAGGGAAAACA
1 ACAACAAACAGTGGGAAAACA
21678489 TCAATTTCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 12 0.34
22 21 0.60
23 2 0.06
ACGTcount: A:0.58, C:0.15, G:0.20, T:0.06
Consensus pattern (21 bp):
ACAACAAACAGTGGGAAAACA
Found at i:21680330 original size:42 final size:42
Alignment explanation
Indices: 21680278--21680383 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
21680268 CGTATGAGTT
* * *
21680278 TCAGTTTAACCCA-ATTGGGTTTCCGTTTAGCTCTTTCGAGCA
1 TCAGTCTAACCCATA-TGGGTTTCCGTTCAGCTCTTACGAGCA
* *
21680320 TCAGTCTAACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCT
1 TCAGTCTAACCCATATGGGTTTCCGTTCAGCTCTTACGAGCA
*
21680362 TCTGT-TCAACCC-TATGGGTTTC
1 TCAGTCT-AACCCATATGGGTTTC
21680384 TGTTAGCACT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 11 0.20
42 44 0.79
43 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (42 bp):
TCAGTCTAACCCATATGGGTTTCCGTTCAGCTCTTACGAGCA
Found at i:21684444 original size:30 final size:30
Alignment explanation
Indices: 21684408--21684474 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
21684398 GTTGTACAGG
*
21684408 TCACACGCCCGTGTGAACAGGTCGTGTGCC
1 TCACACGCCCGTGTGAACAGGCCGTGTGCC
**
21684438 TCACACGCCTTTGTGAACAGGCCGTGTGCC
1 TCACACGCCCGTGTGAACAGGCCGTGTGCC
21684468 TCACACG
1 TCACACG
21684475 GCTTTAGACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (30 bp):
TCACACGCCCGTGTGAACAGGCCGTGTGCC
Found at i:21685730 original size:43 final size:42
Alignment explanation
Indices: 21685663--21685776 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
21685653 ATCTCGTACA
* * *
21685663 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATA-CG
*
21685706 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGAAATCAAATACG
* * *
21685748 AGGCCAACATACCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
21685777 AATAACACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 26 0.43
43 35 0.57
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATACG
Found at i:21687694 original size:17 final size:17
Alignment explanation
Indices: 21687672--21687704 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21687662 TGCAGATGCA
21687672 CTTAGTTAAAAATCGTT
1 CTTAGTTAAAAATCGTT
21687689 CTTAGTTAAAAATCGT
1 CTTAGTTAAAAATCGT
21687705 CACTATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
CTTAGTTAAAAATCGTT
Found at i:21690169 original size:24 final size:24
Alignment explanation
Indices: 21690137--21690184 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21690127 TTGTGTAGTA
21690137 GTTTAAAATGATGGAATAAAGTGT
1 GTTTAAAATGATGGAATAAAGTGT
21690161 GTTTAAAATGATGGAATAAAGTGT
1 GTTTAAAATGATGGAATAAAGTGT
21690185 TAATTGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (24 bp):
GTTTAAAATGATGGAATAAAGTGT
Found at i:21690780 original size:42 final size:41
Alignment explanation
Indices: 21690718--21690828 Score: 107
Period size: 42 Copynumber: 2.7 Consensus size: 41
21690708 TCATATGGGT
* * * ** * *
21690718 TTCAGTTTAACCCAATTGGGTTTCCGTTTAGCTCTTTTGAGC
1 TTCAGTTCAACCCTA-TGGGTTTCCGTTCAAATCCTATGAGC
*
21690760 TTCAG-TCTAACCCTTATGGGTTTTCGTTCAAATCCTATGAGC
1 TTCAGTTC-AACCC-TATGGGTTTCCGTTCAAATCCTATGAGC
*
21690802 TTCTGTTCAACCCTATGGGTTTCCGTT
1 TTCAGTTCAACCCTATGGGTTTCCGTT
21690829 AGCACTTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
41 14 0.25
42 39 0.70
43 3 0.05
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TTCAGTTCAACCCTATGGGTTTCCGTTCAAATCCTATGAGC
Found at i:21696266 original size:20 final size:20
Alignment explanation
Indices: 21696241--21696279 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21696231 AGATTAAATT
21696241 AAGATTAAGGGTAAATATTA
1 AAGATTAAGGGTAAATATTA
21696261 AAGATTAAGGGTAAATATT
1 AAGATTAAGGGTAAATATT
21696280 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (20 bp):
AAGATTAAGGGTAAATATTA
Found at i:21696903 original size:14 final size:13
Alignment explanation
Indices: 21696866--21696906 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
21696856 CTTTTGTTAG
21696866 TTTGAAATT-TTT
1 TTTGAAATTATTT
21696878 TATTGAAATTATTT
1 T-TTGAAATTATTT
21696892 TTTGAAACTTATTT
1 TTTGAAA-TTATTT
21696906 T
1 T
21696907 CAATGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.04
13 14 0.54
14 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (13 bp):
TTTGAAATTATTT
Found at i:21697720 original size:23 final size:23
Alignment explanation
Indices: 21697694--21697740 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
21697684 AAACAAATGC
*
21697694 TCATA-TTTATATTATTAAAATAT
1 TCATATTTTATACTA-TAAAATAT
21697717 TCATATTTTATACTATAAAATAT
1 TCATATTTTATACTATAAAATAT
21697740 T
1 T
21697741 TTTACTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (23 bp):
TCATATTTTATACTATAAAATAT
Found at i:21697802 original size:24 final size:23
Alignment explanation
Indices: 21697767--21697811 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21697757 ATTGTAATAT
* *
21697767 ATTTTTATTAAATTATTAATACG
1 ATTTTTAATAAAATATTAATACG
21697790 ATTTTTCAATAAAATATTAATA
1 ATTTTT-AATAAAATATTAATA
21697812 ATATTACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTTTAATAAAATATTAATACG
Found at i:21699650 original size:5 final size:5
Alignment explanation
Indices: 21699640--21699679 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
21699630 ATGTTACAAC
*
21699640 AAAAG AAAAG AAAAAG AAGAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
21699680 ATGAAACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21702519 original size:14 final size:14
Alignment explanation
Indices: 21702469--21702520 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
21702459 TATTTTAAGC
*
21702469 ATTTTATTTTTAATT
1 ATTTT-TTTTGAATT
*
21702484 ATTTTTTTAATGAATA
1 ATTTTTTT--TGAATT
*
21702500 AATTTTTTTGAATT
1 ATTTTTTTTGAATT
21702514 ATTTTTT
1 ATTTTTT
21702521 ATTTTAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 14 0.47
15 5 0.17
16 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
ATTTTTTTTGAATT
Found at i:21703909 original size:13 final size:16
Alignment explanation
Indices: 21703886--21703933 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
21703876 TTGTATTGTT
*
21703886 ATCATCTGGTAAGTTC
1 ATCACCTGGTAAGTTC
21703902 AT-A-C-GGTATAGTT-
1 ATCACCTGGTA-AGTTC
21703915 ATCACCTGGTAAGTTC
1 ATCACCTGGTAAGTTC
21703931 ATC
1 ATC
21703934 GGACTATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
13 6 0.22
14 6 0.22
15 6 0.22
16 9 0.33
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (16 bp):
ATCACCTGGTAAGTTC
Found at i:21711931 original size:131 final size:130
Alignment explanation
Indices: 21711685--21712017 Score: 435
Period size: 131 Copynumber: 2.6 Consensus size: 130
21711675 AAAAAACCGA
* * * * * *
21711685 AACCCAGCAC-AGTAGGGTACGATTCCTCGAATT-TCTAGACATTGAACATTGCCTT-GTTTT--
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTGAC-AAACATCGAACATTACCTTCGTTTTAA
** * * *
21711745 AGAATTTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAATGGGAAATT
64 AGAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATT
21711810 GC
129 GC
*
21711812 AA-CCATGCACGATAGGGCACGATTCCCCGAATTGACAAACATCGAACATTTCCTTCGTTTTAAA
1 AACCCA-GCACGATAGGGCACGATTCCCCGAATTGACAAACATCGAACATTACCTTCGTTTTAAA
*
21711876 GAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGGGAAATT
65 GAATTTTTAAA-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATT
*
21711941 GT
129 GC
* * *
21711943 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCGAACATCAAACATTACCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGACAAACATCGAACATTACCTTCGTTTTAAAG
21712008 AATTTTTAAA
66 AATTTTTAAA
21712018 TGAATAATCA
Statistics
Matches: 181, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
126 3 0.02
127 41 0.23
128 7 0.04
130 10 0.06
131 117 0.65
132 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (130 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGACAAACATCGAACATTACCTTCGTTTTAAAG
AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATTGC
Found at i:21713176 original size:27 final size:26
Alignment explanation
Indices: 21713136--21713287 Score: 95
Period size: 25 Copynumber: 6.0 Consensus size: 26
21713126 ATTCCAAATT
*
21713136 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
21713161 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
21713186 CTATATTATTTATATATATATTTTTACATG
1 CTATATTATGTATATATATA---TTA-ATA
* *
21713216 TTATCTTATGTATATAT-T-TTAAT-
1 CTATATTATGTATATATATATTAATA
* * * *
21713239 -TATATTATGTATGTAT-TTTTTACA
1 CTATATTATGTATATATATATTAATA
* *
21713263 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
21713288 TTATCACGTA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
22 15 0.15
23 3 0.03
24 4 0.04
25 58 0.58
29 4 0.04
30 16 0.16
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:21713290 original size:20 final size:20
Alignment explanation
Indices: 21713265--21713323 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
21713255 TTTTTACACT
21713265 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
21713285 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
21713308 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
21713324 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:21713462 original size:16 final size:15
Alignment explanation
Indices: 21713438--21713472 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
21713428 TAATTATTAT
21713438 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
21713454 TATTTTAATATTTTA
1 TATTCTAATATTTTA
21713469 TATT
1 TATT
21713473 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:21716129 original size:16 final size:16
Alignment explanation
Indices: 21716108--21716147 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
21716098 TAATATTTGA
21716108 TTTTTGTGT-TTATTCT
1 TTTTTGT-TATTATTCT
*
21716124 TTTTTGTTATTATTTT
1 TTTTTGTTATTATTCT
21716140 TTTTTGTT
1 TTTTTGTT
21716148 TTGTGTTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.07, C:0.03, G:0.10, T:0.80
Consensus pattern (16 bp):
TTTTTGTTATTATTCT
Found at i:21723430 original size:19 final size:19
Alignment explanation
Indices: 21723406--21723450 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
21723396 ACATCATTTT
21723406 CAGAAGCCCGAAGGCTGAA
1 CAGAAGCCCGAAGGCTGAA
21723425 CAGAAGCCCGAAGGCTGAA
1 CAGAAGCCCGAAGGCTGAA
21723444 CAGAAGC
1 CAGAAGC
21723451 TCATGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.27, G:0.31, T:0.04
Consensus pattern (19 bp):
CAGAAGCCCGAAGGCTGAA
Found at i:21723498 original size:21 final size:21
Alignment explanation
Indices: 21723438--21723559 Score: 86
Period size: 21 Copynumber: 5.9 Consensus size: 21
21723428 AAGCCCGAAG
*
21723438 GCTGAACAGAAGCTCATGAA-A
1 GCTGAACAGAAACTCAT-AAGA
* * * *
21723459 ACTAAAC-GAAACCCATAAGG
1 GCTGAACAGAAACTCATAAGA
* *
21723479 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAACTCATAAGA
** *
21723500 GCTGAGTAGAAACTCATAAGG
1 GCTGAACAGAAACTCATAAGA
* * * *
21723521 GTTAAACAGAAGCTCAAAAGA
1 GCTGAACAGAAACTCATAAGA
*
21723542 GCTGAACGGAAACTCATA
1 GCTGAACAGAAACTCATA
21723560 TGAGTTAAGA
Statistics
Matches: 71, Mismatches: 28, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
19 2 0.03
20 11 0.15
21 58 0.82
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAACTCATAAGA
Found at i:21723554 original size:42 final size:41
Alignment explanation
Indices: 21723442--21723578 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 41
21723432 CCGAAGGCTG
* * *
21723442 AACAGAAGCTCATGAAA-A-CTAAACGAAACCCATAAGGGTTG
1 AACAGAAGCTCA--AAAGAGCTGAACGAAACTCATAAGGGTTA
*
21723483 AACAGAAGCTCATAAGAGCTGAGTA-GAAACTCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTGA--ACGAAACTCATAAGGGTTA
* *
21723525 AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAAC-GAAACTCATAAGGGTTA
*
21723567 AGAAAGAAGCTC
1 A-ACAGAAGCTC
21723579 GTGTGAGCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 15 0.19
42 52 0.64
43 10 0.12
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (41 bp):
AACAGAAGCTCAAAAGAGCTGAACGAAACTCATAAGGGTTA
Found at i:21731759 original size:5 final size:5
Alignment explanation
Indices: 21731749--21731776 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21731739 TAATGAAGGA
21731749 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
21731777 TTATGTGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:21734035 original size:21 final size:22
Alignment explanation
Indices: 21734011--21734068 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 22
21734001 AGAAGAAGGT
21734011 GACAAAAAAGAAGAGA-A-AAGA
1 GACAAAAAAGAAGAGATAGAA-A
*
21734032 GACAGAAATA-AAGA-ATAGAAA
1 GACA-AAAAAGAAGAGATAGAAA
*
21734053 GACAAAAGAGAAGAGA
1 GACAAAAAAGAAGAGA
21734069 GATATGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.17
21 18 0.60
22 7 0.23
ACGTcount: A:0.67, C:0.05, G:0.24, T:0.03
Consensus pattern (22 bp):
GACAAAAAAGAAGAGATAGAAA
Found at i:21736118 original size:17 final size:16
Alignment explanation
Indices: 21736096--21736143 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
21736086 ACTTGAAAAA
21736096 AAATTATATATTTAAT
1 AAATTATATATTTAAT
21736112 AATATTAT-TA-TT--T
1 AA-ATTATATATTTAAT
21736125 AAATTATATATTTAAT
1 AAATTATATATTTAAT
21736141 AAA
1 AAA
21736144 ATTTATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 2 0.07
15 2 0.07
16 8 0.30
17 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTATATATTTAAT
Found at i:21736130 original size:12 final size:13
Alignment explanation
Indices: 21736096--21736139 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
21736086 ACTTGAAAAA
21736096 AAATTATATATTT
1 AAATTATATATTT
*
21736109 AATAATATTATTATTT
1 AA-ATTA-TA-TATTT
21736125 AAATTATATATTT
1 AAATTATATATTT
21736138 AA
1 AA
21736140 TAAAATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.35
14 5 0.19
15 5 0.19
16 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTATATATTT
Done.