Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 57 of 204
Found at i:18406553 original size:5 final size:5
Alignment explanation
Indices: 18406545--18406570 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18406535 GAGATGGAAT
18406545 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
18406571 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:18407047 original size:31 final size:30
Alignment explanation
Indices: 18407012--18407071 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18407002 GGAGGTGGGA
*
18407012 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
18407043 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
18407072 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:18407383 original size:9 final size:9
Alignment explanation
Indices: 18407366--18407396 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18407356 TCGAGTTGAT
18407366 TCGAATAAC
1 TCGAATAAC
*
18407375 TCGATTAAC
1 TCGAATAAC
18407384 TCGAATAAC
1 TCGAATAAC
18407393 TCGA
1 TCGA
18407397 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:18423808 original size:25 final size:25
Alignment explanation
Indices: 18423773--18423843 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
18423763 ACACACCATA
*
18423773 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
18423798 GCTCTCATGAGCTTCTCGATATTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* *
18423823 GCT-TGCAAGAGCTTCCTGATA
1 GCTCT-CATGAGCTTCCCGATA
18423844 TACAGCTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:18423875 original size:25 final size:25
Alignment explanation
Indices: 18423831--18423917 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
18423821 TGGCTTGCAA
* * *
18423831 GAGCTTCCTGATATACAGCTCGTAT
1 GAGCTTCCCGTTATATAGCTCGTAT
**
18423856 GAGCTTCCCGTTACT-TAGCTTATAT
1 GAGCTTCCCGTTA-TATAGCTCGTAT
* * * *
18423881 GAGCTTCCTGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATATAGCTCGTAT
18423906 GAGCTTCCCGTT
1 GAGCTTCCCGTT
18423918 TGCATGCTTG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 1 0.02
25 46 0.96
26 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCGTAT
Found at i:18426644 original size:44 final size:43
Alignment explanation
Indices: 18426596--18426793 Score: 222
Period size: 44 Copynumber: 4.6 Consensus size: 43
18426586 CGATATGTGA
18426596 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGCGAT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-CGAT
18426640 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGCGAT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-CGAT
* * * * *
18426684 TTACGTGTAAGACCATGCCTGGGACATCGGCATAGTATAT-GAG
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTCGAT
* * * * * *
18426727 TTA-GTGTAAGACCCTGCCGGGGACAGTGACATCGATATTTGAT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGAT-TTCGAT
* *
18426770 TT-CATGTAAGACCACGTCTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
18426794 GTTGCCATTG
Statistics
Matches: 132, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.02
42 26 0.20
43 25 0.19
44 76 0.58
45 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTCGAT
Found at i:18429318 original size:26 final size:27
Alignment explanation
Indices: 18429268--18429318 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
18429258 AGTTAATAAA
* *
18429268 TTCTCTTTGAGTTTTTTTTTCAAGAAT
1 TTCTCTTTGAGTTTCTTTTACAAGAAT
*
18429295 TTCTC-TTGAGTTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTCTTTTACAAGA
18429319 GTTTTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.55
Consensus pattern (27 bp):
TTCTCTTTGAGTTTCTTTTACAAGAAT
Found at i:18433276 original size:21 final size:21
Alignment explanation
Indices: 18433251--18433290 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18433241 AACTATGCGA
18433251 GTCAAAATAGGTATGCTGGTG
1 GTCAAAATAGGTATGCTGGTG
* *
18433272 GTCAAAATTGGTGTGCTGG
1 GTCAAAATAGGTATGCTGG
18433291 CATGCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (21 bp):
GTCAAAATAGGTATGCTGGTG
Found at i:18437308 original size:7 final size:7
Alignment explanation
Indices: 18437296--18437320 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18437286 ATAATTAAAT
18437296 TATTTTA
1 TATTTTA
18437303 TATTTTA
1 TATTTTA
18437310 TATTTTA
1 TATTTTA
18437317 TATT
1 TATT
18437321 AATAATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:18437559 original size:17 final size:17
Alignment explanation
Indices: 18437522--18437559 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18437512 TATTAATAAA
* *
18437522 ATATTAATATTTTTTTT
1 ATATTAATATTTTTATC
18437539 ATATTAATATTTTTATC
1 ATATTAATATTTTTATC
18437556 ATAT
1 ATAT
18437560 ATATTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTAATATTTTTATC
Found at i:18440843 original size:9 final size:9
Alignment explanation
Indices: 18440829--18441045 Score: 104
Period size: 9 Copynumber: 23.1 Consensus size: 9
18440819 CTAGAAAATA
18440829 AAAAATTAT
1 AAAAATTAT
*
18440838 AAAAATAAT
1 AAAAATTAT
18440847 AAAAATTAT
1 AAAAATTAT
* * *
18440856 TAGAATTAC
1 AAAAATTAT
*
18440865 AAAAA-AAT
1 AAAAATTAT
*
18440873 CAAAATTAT
1 AAAAATTAT
18440882 -AAAATGCTAT
1 AAAAAT--TAT
*
18440892 AAATACTTAT
1 AAA-AATTAT
* *
18440902 AAAATTTGTAA
1 AAAA-AT-TAT
18440913 AAAATATTAT
1 AAAA-ATTAT
18440923 AGAAAATTAT
1 A-AAAATTAT
18440933 AAAACAATTAT
1 -AAA-AATTAT
*
18440944 AAAAATTTT
1 AAAAATTAT
18440953 AAAAA-T-T
1 AAAAATTAT
*
18440960 AAAAATAAT
1 AAAAATTAT
18440969 AAAAATGT-T
1 AAAAAT-TAT
18440978 ATAAAA-TAT
1 A-AAAATTAT
* *
18440987 AAAAGCTTAC
1 AAAA-ATTAT
* *
18440997 AAGAATTTT
1 AAAAATTAT
*
18441006 AAAAATATAG
1 AAAAAT-TAT
*
18441016 AAAAAATAT
1 AAAAATTAT
18441025 AGAAAATTAT
1 A-AAAATTAT
18441035 AAAAATATAT
1 AAAAAT-TAT
18441045 A
1 A
18441046 TATATAAATT
Statistics
Matches: 157, Mismatches: 31, Indels: 39
0.69 0.14 0.17
Matches are distributed among these distances:
7 6 0.04
8 15 0.10
9 64 0.41
10 50 0.32
11 20 0.13
12 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:18440936 original size:21 final size:20
Alignment explanation
Indices: 18440892--18441045 Score: 76
Period size: 19 Copynumber: 8.0 Consensus size: 20
18440882 AAAATGCTAT
* *
18440892 AAATACTTATAAAATTTGTAAA
1 AAATA-TTATAAAAATTAT-AA
18440914 AAATATTATAGAAAATTATAA
1 AAATATTATA-AAAATTATAA
*
18440935 AACA-ATTATAAAAATT-TTA
1 AA-ATATTATAAAAATTATAA
*
18440954 AAA-A-T-TAAAAATAATAA
1 AAATATTATAAAAATTATAA
*
18440971 AAATGTTAT-AAAA-TAT-A
1 AAATATTATAAAAATTATAA
** * * *
18440988 AAAGCTTACAAGAATTTTAA
1 AAATATTATAAAAATTATAA
* * *
18441008 AAATA-TAGAAAAAATATAG
1 AAATATTATAAAAATTATAA
18441027 AAA-ATTATAAAAATATATA
1 AAATATTATAAAAAT-TATA
18441046 TATATAAATT
Statistics
Matches: 100, Mismatches: 21, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
16 7 0.07
17 13 0.13
18 8 0.08
19 30 0.30
20 15 0.15
21 15 0.15
22 12 0.12
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
AAATATTATAAAAATTATAA
Found at i:18441022 original size:11 final size:11
Alignment explanation
Indices: 18441006--18441030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18440996 CAAGAATTTT
18441006 AAAAATATAGA
1 AAAAATATAGA
18441017 AAAAATATAGA
1 AAAAATATAGA
18441028 AAA
1 AAA
18441031 TTATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAATATAGA
Found at i:18441364 original size:16 final size:16
Alignment explanation
Indices: 18441327--18441366 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18441317 TTAATAAAAT
* *
18441327 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
18441343 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
18441359 TAAAATTA
1 TAAAATTA
18441367 TCAAATTATT
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:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:18448549 original size:24 final size:24
Alignment explanation
Indices: 18448422--18448564 Score: 112
Period size: 25 Copynumber: 5.8 Consensus size: 24
18448412 CAGCTCTTAT
*
18448422 GAGCGTCCCGTTATATGGCTCTTCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
18448447 AGAGCTTCCCGATTAATGGCTCTTCG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
* *
18448473 GAGCTTCCCGAT-ATGGCTCATT-T
1 GAGCTTCCCGTTAATGGCTC-TTCG
* * * *
18448496 GAACTTCCTGATATATGGCT-ATCTG
1 GAGCTTCCCGTTA-ATGGCTCTTC-G
*
18448521 AAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
* * *
18448545 GAGCTACCTGTTATTGGCTC
1 GAGCTTCCCGTTAATGGCTC
18448565 GCACGAGCTT
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
23 18 0.19
24 26 0.28
25 27 0.29
26 20 0.21
27 3 0.03
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:18448563 original size:48 final size:48
Alignment explanation
Indices: 18448427--18448563 Score: 118
Period size: 48 Copynumber: 2.8 Consensus size: 48
18448417 CTTATGAGCG
* * * *
18448427 TCCCGTTATATGGCTCTTCGAGAGCTTCCCGATTAATGGCTCTTCGGAGCT
1 TCCCGTTA-ATGGCTCTTCG-GAGCTTCCTG-TTATTGGCTATTCGAAGCT
* * * *
18448478 TCCCGAT-ATGGCTCATT-TGAACTTCCTGATATATGGCTA-TCTGAAGCT
1 TCCCGTTAATGGCTC-TTCGGAGCTTCCTGTTAT-TGGCTATTC-GAAGCT
*
18448526 TCCCGTTAATGGCTCTTCGGAGCTACCTGTTATTGGCT
1 TCCCGTTAATGGCTCTTCGGAGCTTCCTGTTATTGGCT
18448564 CGCACGAGCT
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
47 4 0.06
48 31 0.46
49 25 0.37
50 2 0.03
51 6 0.09
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.35
Consensus pattern (48 bp):
TCCCGTTAATGGCTCTTCGGAGCTTCCTGTTATTGGCTATTCGAAGCT
Found at i:18449648 original size:9 final size:9
Alignment explanation
Indices: 18449634--18449668 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
18449624 TAAAAAATAA
18449634 CCGAATTAC
1 CCGAATTAC
*
18449643 CCGAATTAA
1 CCGAATTAC
18449652 CCGAATTAC
1 CCGAATTAC
18449661 CCGAATTA
1 CCGAATTA
18449669 TCCAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (9 bp):
CCGAATTAC
Found at i:18449654 original size:18 final size:18
Alignment explanation
Indices: 18449631--18449668 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18449621 GGTTAAAAAA
18449631 TAACCGAATTACCCGAAT
1 TAACCGAATTACCCGAAT
18449649 TAACCGAATTACCCGAAT
1 TAACCGAATTACCCGAAT
18449667 TA
1 TA
18449669 TCCAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (18 bp):
TAACCGAATTACCCGAAT
Found at i:18449676 original size:18 final size:18
Alignment explanation
Indices: 18449631--18449677 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
18449621 GGTTAAAAAA
*
18449631 TAACCGAATTACCCGAAT
1 TAACCAAATTACCCGAAT
*
18449649 TAACCGAATTACCCGAAT
1 TAACCAAATTACCCGAAT
*
18449667 TATCCAAATTA
1 TAACCAAATTA
18449678 TATGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (18 bp):
TAACCAAATTACCCGAAT
Found at i:18449713 original size:6 final size:6
Alignment explanation
Indices: 18449684--18449726 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
18449674 ATTATATGTT
* * *
18449684 TTTTAT TTTTAT TTTTAG ACTTTAG TTTTAG TTTTAG TTTTAG
1 TTTTAG TTTTAG TTTTAG -TTTTAG TTTTAG TTTTAG TTTTAG
18449727 AATTTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (6 bp):
TTTTAG
Found at i:18449737 original size:25 final size:25
Alignment explanation
Indices: 18449684--18449737 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
18449674 ATTATATGTT
* * * *
18449684 TTTTATTTTTATTTTTAGACTTTAG
1 TTTTAGTTTTAGTTTTAGAATTTAC
*
18449709 TTTTAGTTTTAGTTTTAGAATTTTC
1 TTTTAGTTTTAGTTTTAGAATTTAC
18449734 TTTT
1 TTTT
18449738 TATTTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.69
Consensus pattern (25 bp):
TTTTAGTTTTAGTTTTAGAATTTAC
Found at i:18449790 original size:18 final size:18
Alignment explanation
Indices: 18449767--18449820 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
18449757 AATTTTTCTG
18449767 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
18449785 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
18449803 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
18449821 TTAGGTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.11, C:0.02, G:0.46, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:18451515 original size:201 final size:199
Alignment explanation
Indices: 18451172--18451573 Score: 734
Period size: 201 Copynumber: 2.0 Consensus size: 199
18451162 ATCGAAATTA
18451172 AGCTGGATAGTGTGACTTGAGTGCCGAACCGATCATCCAACCTTCCAAGTATCTACAAAAAAAAA
1 AGCTGGATAGTGTGACTTGAGTGCCGAACCGATCATCCAACCTTCCAAGTATCTACAAAAAAAAA
*
18451237 GATTAACATAAGTAAGCTTTAAGTAGCTTAGTACATCGTCAGTTTAACCAAAACACACCAGATAC
66 GATTAACATAAGTAAGCTTTAAGTAGCTTAGTACATCGTCAGTCTAACCAAAACACACCAGATAC
18451302 TCACACGAGCCAATCCAACCGAAACACATCAATACTCAAAAGAGCTAGTCCCTTATAAACACACC
131 TCACACGAGCCAATCCAACCGAAACACATCAATACTCAAAAGAGCTAGTCCCTTATAAACACACC
18451367 AAAC
196 AAAC
18451371 AGCTGGATAGTGTGACTTGAGTGCCG-ACCTGATCATCCAACCTTCCAAGTATCTACAAAAAAAA
1 AGCTGGATAGTGTGACTTGAGTGCCGAACC-GATCATCCAACCTTCCAAGTATCTAC--AAAAAA
18451435 AAAGATTAACATAAGTAAGCTTTAAGTAGCTTAGTACATCGTCAGTCTAACCAAAACACACCAGA
63 AAAGATTAACATAAGTAAGCTTTAAGTAGCTTAGTACATCGTCAGTCTAACCAAAACACACCAGA
* * *
18451500 TAGTTACACGAGCCAATCCAACCGAAACACATCAATACTCGAAAGAGCTAGTCCCTTATAAACAC
128 TACTCACACGAGCCAATCCAACCGAAACACATCAATACTCAAAAGAGCTAGTCCCTTATAAACAC
18451565 ACCAAAC
193 ACCAAAC
18451572 AG
1 AG
18451574 AGTATAACAT
Statistics
Matches: 196, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
198 3 0.02
199 52 0.27
201 141 0.72
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.21
Consensus pattern (199 bp):
AGCTGGATAGTGTGACTTGAGTGCCGAACCGATCATCCAACCTTCCAAGTATCTACAAAAAAAAA
GATTAACATAAGTAAGCTTTAAGTAGCTTAGTACATCGTCAGTCTAACCAAAACACACCAGATAC
TCACACGAGCCAATCCAACCGAAACACATCAATACTCAAAAGAGCTAGTCCCTTATAAACACACC
AAAC
Found at i:18460435 original size:23 final size:23
Alignment explanation
Indices: 18460405--18460511 Score: 97
Period size: 23 Copynumber: 4.1 Consensus size: 23
18460395 NNNNNNNNAG
18460405 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
18460428 GGTTAGGGCAGTGGATTTTTAATTAAATTAGGTTA
1 GGTT-----AG-GG-TTTTTAATT-AA--A--TTA
18460463 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
18460487 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
18460510 GG
1 GG
18460512 GTTATTATTA
Statistics
Matches: 71, Mismatches: 0, Indels: 26
0.73 0.00 0.27
Matches are distributed among these distances:
23 29 0.41
24 3 0.04
26 1 0.01
28 4 0.06
29 11 0.15
30 11 0.15
31 4 0.06
33 1 0.01
35 3 0.04
36 4 0.06
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:18460485 original size:29 final size:29
Alignment explanation
Indices: 18460403--18460496 Score: 154
Period size: 29 Copynumber: 3.2 Consensus size: 29
18460393 NNNNNNNNNN
18460403 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
18460432 AGGG-CAGTGGATTTTTAATTAAATTAGGTT
1 AGGGTTAG-GG-TTTTTAATTAAATTAGGTT
18460462 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
18460491 AGGGTT
1 AGGGTT
18460497 TTTAATTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
28 2 0.03
29 31 0.52
30 25 0.42
31 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.43
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:18460487 original size:24 final size:24
Alignment explanation
Indices: 18460460--18460515 Score: 105
Period size: 23 Copynumber: 2.4 Consensus size: 24
18460450 TTAAATTAGG
18460460 TTAGGGTTAGGGTTTTTAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAA
18460484 TTA-GGTTAGGGTTTTTAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAA
18460507 TTAGGGTTA
1 TTAGGGTTA
18460516 TTATTACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (24 bp):
TTAGGGTTAGGGTTTTTAATTAAA
Found at i:18460623 original size:25 final size:25
Alignment explanation
Indices: 18460589--18460699 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
18460579 TTTCTATGCC
*
18460589 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
18460614 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTT
* * * *
18460635 AATAAC-TCGAAA-AAATTTCTATGTG
1 TATTACATC-AAATAAACTTCTAT-TT
18460660 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
18460685 TATTACATCAAATAA
1 TATTACATCAAATAA
18460700 TAAATTTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 2 0.03
23 2 0.03
24 4 0.06
25 35 0.52
26 11 0.16
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:18460624 original size:71 final size:71
Alignment explanation
Indices: 18460517--18460701 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
18460507 TTAGGGTTAT
*
18460517 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
18460582 CTATGCC
65 CTATGCC
*
18460589 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
**
18460654 TATGTG
66 TATGCC
18460660 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
18460702 AATTTAAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:18461799 original size:7 final size:7
Alignment explanation
Indices: 18461789--18461813 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18461779 TTATATACAT
18461789 AATACTA
1 AATACTA
18461796 AATACTA
1 AATACTA
18461803 AATACTA
1 AATACTA
18461810 AATA
1 AATA
18461814 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:18462912 original size:9 final size:9
Alignment explanation
Indices: 18462894--18462942 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
18462884 GCCATTGATG
18462894 AAAATATAA
1 AAAATATAA
*
18462903 AAAATTTAA
1 AAAATATAA
* *
18462912 AATTATTTTAA
1 AA--AATATAA
18462923 AAAATATAA
1 AAAATATAA
18462932 AAAATATAA
1 AAAATATAA
18462941 AA
1 AA
18462943 TTATTTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 26 0.76
11 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATATAA
Found at i:18462934 original size:29 final size:29
Alignment explanation
Indices: 18462894--18462956 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
18462884 GCCATTGATG
*
18462894 AAAATATAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAATATAAAATTATTTTAA
*
18462923 AAAATATAAAAAATATAAAATTATTTTCA
1 AAAATATAAAAAATATAAAATTATTTTAA
18462952 AAAAT
1 AAAAT
18462957 GAAATTGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAAAAATATAAAATTATTTTAA
Found at i:18463013 original size:51 final size:51
Alignment explanation
Indices: 18462957--18463078 Score: 199
Period size: 51 Copynumber: 2.4 Consensus size: 51
18462947 TTTCAAAAAT
*
18462957 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
18463008 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGGATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
18463059 GAAATTTGAAAGGAAATTGA
1 GAAA-TTGAGAGGAAATTGA
18463079 GAGGATTAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
51 52 0.79
52 14 0.21
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:18468326 original size:38 final size:37
Alignment explanation
Indices: 18468271--18468348 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 37
18468261 GGTAGTAGCT
18468271 TAGATTTTTAATGTCTTTTAAGAAATTATTGGAATGG
1 TAGATTTTTAATGTCTTTTAAGAAATTATTGGAATGG
18468308 TAGAGTTTTTAATGTCTTTTAAGAAATTATTGGAATGG
1 TAGA-TTTTTAATGTCTTTTAAGAAATTATTGGAATGG
18468346 TAG
1 TAG
18468349 GGTGTTTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 36 0.90
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (37 bp):
TAGATTTTTAATGTCTTTTAAGAAATTATTGGAATGG
Found at i:18471735 original size:19 final size:19
Alignment explanation
Indices: 18471711--18471751 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18471701 AATTTAATAA
*
18471711 TAAGGTTTATTAAGTAAAT
1 TAAGGTTAATTAAGTAAAT
* *
18471730 TAAGGTTAATTATGTTAAT
1 TAAGGTTAATTAAGTAAAT
18471749 TAA
1 TAA
18471752 CCATTTAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAGGTTAATTAAGTAAAT
Found at i:18473593 original size:2 final size:2
Alignment explanation
Indices: 18473586--18473674 Score: 178
Period size: 2 Copynumber: 44.5 Consensus size: 2
18473576 TATGTATGTA
18473586 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
18473628 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
18473670 TG TG T
1 TG TG T
18473675 CTTATTATGA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:18477333 original size:14 final size:15
Alignment explanation
Indices: 18477290--18477349 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
18477280 ATAACTTAAA
*
18477290 TTCAACACTTAATTT
1 TTCAACACTTATTTT
* *
18477305 TTCAATATTTATTTT
1 TTCAACACTTATTTT
18477320 TTCAACACTT-TTTT
1 TTCAACACTTATTTT
*
18477334 TT-AGCACTTAATTTT
1 TTCAACACTT-ATTTT
18477349 T
1 T
18477350 GACTTTATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 6 0.16
14 6 0.16
15 25 0.68
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.57
Consensus pattern (15 bp):
TTCAACACTTATTTT
Found at i:18478735 original size:16 final size:15
Alignment explanation
Indices: 18478712--18478741 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18478702 GATTTTTTCC
18478712 TTTTTTTATTTATTA
1 TTTTTTTATTTATTA
18478727 TTTTATTTATTTATT
1 TTTT-TTTATTTATT
18478742 TTTAGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTTATTTATTA
Found at i:18478744 original size:14 final size:14
Alignment explanation
Indices: 18478714--18478765 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
18478704 TTTTTTCCTT
18478714 TTTTTATTTA-TTA
1 TTTTTATTTATTTA
18478727 -TTTTATTTATTTA
1 TTTTTATTTATTTA
** *
18478740 TTTTTAGCTATTCA
1 TTTTTATTTATTTA
*
18478754 CTTTTATTTATT
1 TTTTTATTTATT
18478766 GTTTATTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 9 0.29
13 3 0.10
14 19 0.61
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:18478870 original size:23 final size:24
Alignment explanation
Indices: 18478822--18478883 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
18478812 TTAAACTAGA
* *
18478822 TTATTA-TATTTTTATTGTCCCTT
1 TTATTATTATTTTGATTGTCCCGT
*
18478845 TTATTATTATTTTGATTGT-TCGT
1 TTATTATTATTTTGATTGTCCCGT
18478868 TTA-TATT-TTATTGATT
1 TTATTATTATT-TTGATT
18478884 TATCATTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 10 0.29
23 11 0.32
24 11 0.32
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.66
Consensus pattern (24 bp):
TTATTATTATTTTGATTGTCCCGT
Found at i:18478878 original size:24 final size:23
Alignment explanation
Indices: 18478822--18478879 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
18478812 TTAAACTAGA
* *
18478822 TTATTATATTTTTATTGTCCCTT
1 TTATTTTATTTTGATTGTCCCTT
* *
18478845 TTATTATTATTTTGATTGTTCGTT
1 TTATT-TTATTTTGATTGTCCCTT
18478869 TATATTTTATT
1 T-TATTTTATT
18478880 GATTTATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.17
24 20 0.69
25 4 0.14
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (23 bp):
TTATTTTATTTTGATTGTCCCTT
Found at i:18480557 original size:20 final size:21
Alignment explanation
Indices: 18480532--18480581 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
18480522 ATTTATTTTC
18480532 ATTTTTTATTACTCGT-TT-AT
1 ATTTTTTATTA-TCGTATTGAT
* *
18480552 ATTTTTTTTTATGGTATTGAT
1 ATTTTTTATTATCGTATTGAT
18480573 ATTTTTTAT
1 ATTTTTTAT
18480582 GGTAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.48
21 10 0.40
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.68
Consensus pattern (21 bp):
ATTTTTTATTATCGTATTGAT
Found at i:18480579 original size:18 final size:19
Alignment explanation
Indices: 18480556--18480596 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
18480546 GTTTATATTT
*
18480556 TTTTTTATGGT-ATTGATA
1 TTTTTTATGGTAATTAATA
18480574 TTTTTTATGGTAATTAATA
1 TTTTTTATGGTAATTAATA
18480593 TTTT
1 TTTT
18480597 AAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.63
Consensus pattern (19 bp):
TTTTTTATGGTAATTAATA
Found at i:18483846 original size:29 final size:32
Alignment explanation
Indices: 18483805--18483877 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
18483795 TGCATATATG
18483805 AATT-TTAAAAATTTT-AAT-TA-TTATTTAT
1 AATTATTAAAAATTTTAAATATATTTATTTAT
* *
18483833 AATTATTAACAATTTTAAATATATTTTTTTAT
1 AATTATTAAAAATTTTAAATATATTTATTTAT
18483865 AATTATTTAAAAA
1 AATTA-TTAAAAA
18483878 ACCACTTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.11
29 10 0.27
30 3 0.08
31 2 0.05
32 12 0.32
33 6 0.16
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
AATTATTAAAAATTTTAAATATATTTATTTAT
Found at i:18493549 original size:19 final size:19
Alignment explanation
Indices: 18493504--18493543 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
18493494 AGTTCATGTT
* *
18493504 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
18493523 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
18493542 TT
1 TT
18493544 ATATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:18493715 original size:11 final size:11
Alignment explanation
Indices: 18493699--18493726 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18493689 TTAACGATAC
18493699 ACAGTACCTAA
1 ACAGTACCTAA
18493710 ACAGTACCTAA
1 ACAGTACCTAA
18493721 ACAGTA
1 ACAGTA
18493727 ATTAGTAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (11 bp):
ACAGTACCTAA
Found at i:18493752 original size:6 final size:6
Alignment explanation
Indices: 18493741--18493769 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18493731 GTAACGATAG
18493741 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
18493770 TTCAACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:18493906 original size:45 final size:45
Alignment explanation
Indices: 18493749--18494009 Score: 321
Period size: 45 Copynumber: 5.9 Consensus size: 45
18493739 AGCAGTAACA
* * * ** **
18493749 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAATTT
1 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
*
18493794 GTAATAGT-ACGGTAACAGTATTCGACACACAAAGTGTC-AATCG
1 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
* * * * *
18493837 ATAACAGTAACGATAACAGTATTCGACACACAAAGTGTCGAATTG
1 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
* *
18493882 GTACTAGTAACGGTAATAGTATTCGACACACAAAGTGCCGAATCG
1 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
*
18493927 ATAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
* * * *
18493972 GTAATAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCC
1 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCC
18494010 TGATCAATAA
Statistics
Matches: 188, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
43 9 0.05
44 62 0.33
45 117 0.62
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCG
Found at i:18494244 original size:32 final size:32
Alignment explanation
Indices: 18494192--18494252 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
18494182 AATTCATTAC
* *
18494192 TTCAGTAATTTCACAGTTCAATGCAGTACACA
1 TTCAGTAACTTCACAATTCAATGCAGTACACA
* *
18494224 TTCAGTAACTTCATAATTCAATTCAGTAC
1 TTCAGTAACTTCACAATTCAATGCAGTAC
18494253 TCAAAACAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (32 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACA
Found at i:18500901 original size:13 final size:13
Alignment explanation
Indices: 18500883--18500932 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
18500873 TTGGCAATGC
*
18500883 TTTTGAAAAGTGT
1 TTTTGAAAAGTGA
18500896 TTTTGAAAAGTGA
1 TTTTGAAAAGTGA
** * *
18500909 CGTGGAAAAGTGC
1 TTTTGAAAAGTGA
18500922 TTTTGAAAAGT
1 TTTTGAAAAGT
18500933 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (13 bp):
TTTTGAAAAGTGA
Found at i:18506168 original size:28 final size:28
Alignment explanation
Indices: 18506132--18506310 Score: 164
Period size: 28 Copynumber: 6.4 Consensus size: 28
18506122 TTTTTTATTG
*
18506132 TACAATTTTACCCCTATTTTATAGATTT
1 TACAATTTTACCCCTATTTTCTAGATTT
* * *
18506160 TGCAATTTTGCCCCTTTTTTTCTAGATTT
1 TACAATTTTACCCC-TATTTTCTAGATTT
18506189 TACAATTTTACCCCT-TTTT-TAGATTT
1 TACAATTTTACCCCTATTTTCTAGATTT
* * * * *
18506215 TACAACTTTGCTCATATTTTCTAGATCT
1 TACAATTTTACCCCTATTTTCTAGATTT
* * * * *
18506243 TACAGTTTTGCCCTTATTTTCCAAATTT
1 TACAATTTTACCCCTATTTTCTAGATTT
* * *
18506271 TATAGTTTTACCCCTATTTTTTAGATTT
1 TACAATTTTACCCCTATTTTCTAGATTT
* *
18506299 TATAGTTTTACC
1 TACAATTTTACC
18506311 TAGAATTATA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
26 18 0.15
27 8 0.06
28 74 0.60
29 24 0.19
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (28 bp):
TACAATTTTACCCCTATTTTCTAGATTT
Found at i:18507120 original size:23 final size:23
Alignment explanation
Indices: 18507068--18507114 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18507058 TGCCATAGCA
* *
18507068 TATTATTATAATAAGTTATTTAT
1 TATTTTTATAATAAGTTATATAT
18507091 TATTTTTATAAT-A-TTATATAT
1 TATTTTTATAATAAGTTATATAT
18507112 TAT
1 TAT
18507115 GATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTATAATAAGTTATATAT
Found at i:18507133 original size:24 final size:24
Alignment explanation
Indices: 18507087--18507133 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18507077 AATAAGTTAT
* *
18507087 TTATTATTTTTATAATATTATATA
1 TTATGATTTTTATAATATCATATA
18507111 TTATGATTTTTATGAAT-TCATAT
1 TTATGATTTTTAT-AATATCATAT
18507134 TTTAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TTATGATTTTTATAATATCATATA
Found at i:18508119 original size:42 final size:42
Alignment explanation
Indices: 18508039--18508236 Score: 237
Period size: 42 Copynumber: 4.8 Consensus size: 42
18508029 AAATATATTT
* * *
18508039 ATTTTTTTAAAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
18508080 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
18508122 A-TTTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTT-A
* * ***
18508163 ATTTTTTTT-AATTTTAAAAAATTTTAAAAATA-TTTTAAAA
1 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
* *
18508203 ATACTTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 AT--TTTTTTTAAATTTTAAAATATTTTTAAAATA
18508237 AAAATGGGCC
Statistics
Matches: 140, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
40 34 0.24
41 44 0.31
42 54 0.39
43 8 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (42 bp):
ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:18508204 original size:11 final size:11
Alignment explanation
Indices: 18508173--18508210 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
18508163 ATTTTTTTTA
18508173 ATTTTAAAAA-
1 ATTTTAAAAAT
18508183 ATTTTAAAAAT
1 ATTTTAAAAAT
18508194 ATTTTAAAAAT
1 ATTTTAAAAAT
18508205 ACTTTT
1 A-TTTT
18508211 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 12 0.46
12 4 0.15
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:18508231 original size:53 final size:52
Alignment explanation
Indices: 18508130--18508234 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
18508120 TAATTTTTTT
* **
18508130 AATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTTTAATTTTAAAA
1 AATTTTAAAATATTTTAAAAATACTTTTTTTAAATTTTTTAAAATTTTAAAA
*
18508182 AATTTTAAAAATATTTTAAAAATACTTTTTTT-AATTTTTTAAAATTTTTAAA
1 AATTTT-AAAATATTTTAAAAATACTTTTTTTAAATTTTTTAAAATTTTAAAA
18508234 A
1 A
18508235 TAAAAATGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 24 0.50
53 24 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (52 bp):
AATTTTAAAATATTTTAAAAATACTTTTTTTAAATTTTTTAAAATTTTAAAA
Found at i:18521294 original size:45 final size:45
Alignment explanation
Indices: 18521242--18521415 Score: 149
Period size: 45 Copynumber: 3.9 Consensus size: 45
18521232 TTGGTTTGAT
* *
18521242 TCATGATGCCATAGTA-TCTTTCAG-TGATGATCTTACTTGATAAAA
1 TCATGATGCCATA-AAGTCTTTCAGCT-ATGATCTTACTCGATAAAA
* * *
18521287 TCGTGATGCCATAAAGTCTTTCAGCTATGGTCTTACTCGATAGAA
1 TCATGATGCCATAAAGTCTTTCAGCTATGATCTTACTCGATAAAA
* * * * *
18521332 TCATGATGCCATAACA-TCTTTTAGCCAT-AGTTTTACTTGATAGAA
1 TCATGATGCCATAA-AGTCTTTCAGCTATGA-TCTTACTCGATAAAA
** * * *
18521377 TTGTGATGTCATAACGTCTTTCAACTATGATCTTACTCG
1 TCATGATGCCATAAAGTCTTTCAGCTATGATCTTACTCG
18521416 TTTCTGGTAT
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.01
45 99 0.96
46 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (45 bp):
TCATGATGCCATAAAGTCTTTCAGCTATGATCTTACTCGATAAAA
Found at i:18521306 original size:90 final size:90
Alignment explanation
Indices: 18521197--18521415 Score: 242
Period size: 90 Copynumber: 2.4 Consensus size: 90
18521187 TCATTTTTTG
* ** * * * * * **
18521197 TCGTGTTGCCATAGTGTCTTTCAACTATGGTCTTATTGGTTTGATTCATGATGCCATAGTATCTT
1 TCGTGATGCCATAAAGTCTTTCAACTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
**
18521262 TCAGTGAT-GATCTTACTTGATAAAA
66 TCAGCCATAG-TCTTACTTGATAAAA
*
18521287 TCGTGATGCCATAAAGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
1 TCGTGATGCCATAAAGTCTTTCAACTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
* * *
18521352 TTAGCCATAGTTTTACTTGATAGAA
66 TCAGCCATAGTCTTACTTGATAAAA
* * * *
18521377 TTGTGATGTCATAACGTCTTTCAACTATGATCTTACTCG
1 TCGTGATGCCATAAAGTCTTTCAACTATGGTCTTACTCG
18521416 TTTCTGGTAT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
90 106 0.99
91 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (90 bp):
TCGTGATGCCATAAAGTCTTTCAACTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
TCAGCCATAGTCTTACTTGATAAAA
Found at i:18526417 original size:22 final size:22
Alignment explanation
Indices: 18526373--18526422 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
18526363 GTATGGGTTC
*
18526373 AACACTTCTATGCTCTCTGTTT
1 AACACTTCTATGCTCTCTATTT
*
18526395 AACACTT-TAGTGCTCTTTATTT
1 AACACTTCTA-TGCTCTCTATTT
*
18526417 AGCACT
1 AACACT
18526423 GCGGTGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (22 bp):
AACACTTCTATGCTCTCTATTT
Found at i:18529256 original size:21 final size:20
Alignment explanation
Indices: 18529208--18529252 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
18529198 CTAAAGTATT
18529208 GATACTTTACATCAGGGTACC
1 GATACTTTACA-CAGGGTACC
18529229 GATACTTTACA-AGGGTACC
1 GATACTTTACACAGGGTACC
18529248 GATAC
1 GATAC
18529253 ACTTGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.54
21 11 0.46
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (20 bp):
GATACTTTACACAGGGTACC
Found at i:18530624 original size:14 final size:14
Alignment explanation
Indices: 18530592--18530630 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
18530582 AAAAAAACAA
*
18530592 TATAAATATATTATT
1 TATAAA-ATATTATG
*
18530607 TATAAAATTTTATG
1 TATAAAATATTATG
18530621 TATAAAATAT
1 TATAAAATAT
18530631 AAAGTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TATAAAATATTATG
Found at i:18551371 original size:47 final size:46
Alignment explanation
Indices: 18551273--18551374 Score: 109
Period size: 49 Copynumber: 2.2 Consensus size: 46
18551263 ATGTTTTCAA
* *
18551273 CATTTTTCATGCTACTTTCTCTTTCATTTTCTCTGCATCGTCTTAAG
1 CATTTTTCATGCTACTCTCTCTTTCATTTTCTCTCCATCGTCTT-AG
* * *
18551320 CATTTTTCATTCATATCTCTCTCTTTCATTTTCTTTACCATC-TCTT-T
1 CATTTTTCATGC-TA-CTCTCTCTTTCATTTTCTCT-CCATCGTCTTAG
18551367 CATTTTTC
1 CATTTTTC
18551375 CCTCTTTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
47 19 0.40
48 2 0.04
49 22 0.47
50 4 0.09
ACGTcount: A:0.15, C:0.26, G:0.04, T:0.55
Consensus pattern (46 bp):
CATTTTTCATGCTACTCTCTCTTTCATTTTCTCTCCATCGTCTTAG
Found at i:18563542 original size:19 final size:18
Alignment explanation
Indices: 18563515--18563553 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
18563505 CAGCCCCCCA
18563515 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
*
18563534 TTAATTCTTCATTACAAT
1 TTAACTCTTCATTACAAT
18563552 TT
1 TT
18563554 GGTTCCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:18565786 original size:19 final size:19
Alignment explanation
Indices: 18565762--18565814 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
18565752 AAGCTAGTTT
18565762 TAATTCTAGTTTTAAAGGC
1 TAATTCTAGTTTTAAAGGC
* * * *
18565781 TAATTCCAATTTTATAGGT
1 TAATTCTAGTTTTAAAGGC
* *
18565800 TAATCCTAGTATTAA
1 TAATTCTAGTTTTAA
18565815 GTCTAATACT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (19 bp):
TAATTCTAGTTTTAAAGGC
Found at i:18570429 original size:6 final size:6
Alignment explanation
Indices: 18570420--18570459 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
18570410 AAGAAAAAGA
* *
18570420 AAAATC AAAATC AAAATC AAAGTC AAAATC AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
18570460 AATAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:18570435 original size:18 final size:18
Alignment explanation
Indices: 18570414--18570460 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
18570404 AAATGAAAGA
18570414 AAAAGAAAAATCAAAATC
1 AAAAGAAAAATCAAAATC
** *
18570432 AAAATCAAAGTCAAAATC
1 AAAAGAAAAATCAAAATC
18570450 AAAATGAAAAA
1 AAAA-GAAAAA
18570461 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.70, C:0.11, G:0.06, T:0.13
Consensus pattern (18 bp):
AAAAGAAAAATCAAAATC
Found at i:18570467 original size:62 final size:61
Alignment explanation
Indices: 18570401--18570545 Score: 156
Period size: 62 Copynumber: 2.3 Consensus size: 61
18570391 GGCTCAGATC
18570401 AAAAAATGAAAGAAAAAGAA-AAATCAAAATCAAAATCAA-AGTCAAAATCA-AAATGA-AAAAA
1 AAAAAA-GAAAGAAAAAGAAGAAA--AAAATCAAAATCAAGA-TCAAAAT-AGAAATGAGAAAAA
*
18570462 T
61 G
*
18570463 AAAAAAAAAAGGAAGAAAGAAGAAAAAAATCAAAATCAAGATCAAAATAGAAATGAGAAAAAG
1 AAAAAAGAAA-GAA-AAAGAAGAAAAAAATCAAAATCAAGATCAAAATAGAAATGAGAAAAAG
* *
18570526 AAAGAAGAATGAAAAA-AAGA
1 AAAAAAGAAAGAAAAAGAAGA
18570546 GAAATCTAGA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
60 4 0.06
61 7 0.10
62 39 0.54
63 19 0.26
64 3 0.04
ACGTcount: A:0.72, C:0.06, G:0.13, T:0.10
Consensus pattern (61 bp):
AAAAAAGAAAGAAAAAGAAGAAAAAAATCAAAATCAAGATCAAAATAGAAATGAGAAAAAG
Found at i:18570472 original size:19 final size:19
Alignment explanation
Indices: 18570450--18570542 Score: 53
Period size: 19 Copynumber: 4.6 Consensus size: 19
18570440 AGTCAAAATC
*
18570450 AAAATGAAAAAATAAAAAA
1 AAAATGAAAAAAGAAAAAA
* * *
18570469 AAAAGGAAGAAAGAAGAAA
1 AAAATGAAAAAAGAAAAAA
*
18570488 AAAATCAAAATCAAGATCAAAATA
1 AAAATGAAAA--AAGA--AAAA-A
* *
18570512 GAAATGAGAAAAAG-AAAGA
1 AAAATGA-AAAAAGAAAAAA
*
18570531 AGAATGAAAAAA
1 AAAATGAAAAAA
18570543 AGAGAAATCT
Statistics
Matches: 55, Mismatches: 13, Indels: 13
0.68 0.16 0.16
Matches are distributed among these distances:
18 5 0.09
19 28 0.51
20 3 0.05
21 4 0.07
23 6 0.11
24 6 0.11
25 3 0.05
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAATGAAAAAAGAAAAAA
Found at i:18570524 original size:56 final size:53
Alignment explanation
Indices: 18570401--18570543 Score: 128
Period size: 56 Copynumber: 2.6 Consensus size: 53
18570391 GGCTCAGATC
* * * * *
18570401 AAAAAATGAAAGAAAAAGAA-AAATCAAAATCAAAATCAAAGTCAAAATCAAAAT
1 AAAAAATAAAAAAAAAAGAAGAAA-GAAAA-AAAAATCAAAATCAAAATCAAAAT
*
18570455 GAAAAAATAAAAAAAAAAGGAAGAAAGAAGAAAAAAATCAAAATCAAGATCAAAAT
1 -AAAAAATAAAAAAAAAA-GAAGAAAGAA-AAAAAAATCAAAATCAAAATCAAAAT
* * *
18570511 -AGAAATGAGAAAAAGAAAGAAGAATGAAAAAAA
1 AAAAAAT-A-AAAAAAAAAGAAGAAAGAAAAAAA
18570544 GAGAAATCTA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
54 10 0.14
55 25 0.34
56 34 0.46
57 5 0.07
ACGTcount: A:0.72, C:0.06, G:0.13, T:0.10
Consensus pattern (53 bp):
AAAAAATAAAAAAAAAAGAAGAAAGAAAAAAAAATCAAAATCAAAATCAAAAT
Found at i:18571346 original size:13 final size:13
Alignment explanation
Indices: 18571328--18571353 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18571318 CTGAGTCAAA
18571328 AAAATGAAAAATG
1 AAAATGAAAAATG
18571341 AAAATGAAAAATG
1 AAAATGAAAAATG
18571354 GAGAGGCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:18572875 original size:175 final size:175
Alignment explanation
Indices: 18572584--18573547 Score: 1509
Period size: 175 Copynumber: 5.5 Consensus size: 175
18572574 CCCTAGGAAA
* *
18572584 TAGACCGAAGAATTTCAGATCTTAACCCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* * * *
18572649 CTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTATTTGAAGTTACAGC
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
* * *
18572714 AGAGTTGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAG
131 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
*
18572759 TAGACCGAAGAATTTTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
18572824 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAAAAAGGATCTTATCTATCTGAAGTTATAGC
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
* * * * * * *
18572889 AGAGTAGATCGTATTAGGTCTTATCTCTCTGAGATTATAATGGAA
131 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
* *
18572934 TAGACTGAAGAATTTCAGATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* * * *
18572999 CTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGATCTTATTTCTCTGAAGTTACAGC
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
*
18573064 AGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
131 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
*
18573109 TAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* * * *
18573174 CTATAT-CCTGAGATTACAATGGAGCGAATTAAAATAAAGGATCTTATCTCTGTGAAGTTATAGC
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
* * * *
18573238 AGAGTAGATTGCATCAGGTCTTATCTCTCTGAGATTACAGTGGAA
131 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
* * * *
18573283 TAGACCGAAGAATTTTAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGTAATC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
18573348 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
18573413 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
131 AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
* * *
18573458 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGAT
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-AT
* *
18573522 CTTATCTCCCTGAGATTACAGCGGAG
65 CCTATCTCCCTGAGATTACAGTGGAG
18573548 TAGATTGAAG
Statistics
Matches: 721, Mismatches: 66, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
174 159 0.22
175 562 0.78
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (175 bp):
TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGC
AGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAG
Found at i:18573373 original size:349 final size:350
Alignment explanation
Indices: 18572582--18573541 Score: 1575
Period size: 349 Copynumber: 2.7 Consensus size: 350
18572572 TTCCCTAGGA
* * *
18572582 AATAGACCGAAGAATTTCAGATCTTAACCCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 AATAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * *
18572647 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTATTTGAAGTTACA
66 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
* * *
18572712 GCAGAGTTGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTAGAGTAGACCGAAGAATTTTAG
131 GCAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
18572777 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
196 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * * *
18572842 AGTGGAGCGGATTAAAAAAAAGGATCTTATCTATCTGAAGTTATAGCAGAGTAGATCGTATTAGG
261 AATGGAGCGAATTAAAAAAAAGGATCTTATCTATCTGAAGTTATAGCAGAGTAGATCGCATCAGG
*
18572907 TCTTATCTCTCTGAGATTATAATGG
326 TCTTATCTCTCTGAGATTACAATGG
*
18572932 AATAGACTGAAGAATTTCAGATCTTATCT-TCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 AATAGACCGAAGAATTTCAGATCTTATCTCT-CTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
* * *
18572996 ATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAATGATCTTATTTCTCTGAAGTTAC
65 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
18573061 AGCAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
130 AGCAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
* *
18573126 GATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATAT-CCTGAGATTA
195 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * * *
18573190 CAATGGAGCGAATTAAAATAAAGGATCTTATCTCTGTGAAGTTATAGCAGAGTAGATTGCATCAG
260 CAATGGAGCGAATTAAAAAAAAGGATCTTATCTATCTGAAGTTATAGCAGAGTAGATCGCATCAG
*
18573255 GTCTTATCTCTCTGAGATTACAGTGG
325 GTCTTATCTCTCTGAGATTACAATGG
* * *
18573281 AATAGACCGAAGAATTTTAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGTAA
1 AATAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
*
18573346 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATA
66 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
*
18573411 GCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
131 GCAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
* * * *
18573476 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTA
196 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGATTA
18573540 CA
260 CA
18573542 GCGGAGTAGA
Statistics
Matches: 566, Mismatches: 40, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
348 1 0.00
349 320 0.57
350 245 0.43
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (350 bp):
AATAGACCGAAGAATTTCAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
GCAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AATGGAGCGAATTAAAAAAAAGGATCTTATCTATCTGAAGTTATAGCAGAGTAGATCGCATCAGG
TCTTATCTCTCTGAGATTACAATGG
Found at i:18573448 original size:129 final size:129
Alignment explanation
Indices: 18573299--18574342 Score: 556
Period size: 129 Copynumber: 8.0 Consensus size: 129
18573289 GAAGAATTTT
* * **
18573299 AGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTG-AGAT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGTAATCCTATCTCCCTGAAG-T
* * **
18573363 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATCGCATC
65 TACAGTGGAGCGGATTAAAATACAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGCATC
* * * ** ** * *
18573428 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGT-A-ATCCTATCTCCCTGAAG
* * ** * * * *
18573493 TTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTG-AGATTACAGCGGAGTAGATTGA
64 TTACAGTGGAGCGGATTAAAATACAG-GATCTTATCTCTCTGAAG-TTACAGTGGAGTAGATCGC
*
18573556 AGC
127 ATC
* * * * * * * *
18573559 TAGTAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAATAAAG-GAT-CTCATCTCTCTG
1 -AG--ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAAGAAAGTAATCCT-ATCTCCCTG
* * *** * * *
18573622 AAGTTGCAGTAGAGCGGA-TCGCATACA-G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG
61 AAGTTACAGTGGAGCGGATTAAAATACAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATC-
*
18573684 AAGACTTTC
125 --G-C-ATC
* ** * *
18573693 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTTCCTG-AGA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGTA-ATCCTATCTCCCTGAAG-
* * * ** * * *
18573756 TTACAGCGGAGCAGATT-GAAGCCAGAGATCTTATCT-TCCTG-AGATTACAGCGGAGCAAATCG
64 TTACAGTGGAGCGGATTAAAATACAG-GATCTTATCTCT-CTGAAG-TTACAGTGGAGTAGATCG
* *
18573818 AAGAC
126 CA-TC
* * * ** * ** ** *
18573823 ACTATCCTATCTCCCTGAAGTTACAGTGAAGTGGATT-AAAAAAGGGATATTATCTCTCTGAAGT
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGTAATCCTATCTCCCTGAAGT
** ** *** * * * *
18573887 TACAGCAGAGTAGA-TCGCAT-CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA
65 TACAGTGGAGCGGATTAAAATACAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATC---GC
18573949 ATTTC
127 A--TC
* * * * *
18573954 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-CAATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGTAATCCTATCTCCCTGAAGTT
* * * * *
18574018 ACAGTGGAGCGGATTAAAATA-ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATC
66 ACAGTGGAGCGGATTAAAATACA-GGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT-
18574082 C
129 C
* ** ** * * *
18574083 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCA-AACGAAAGGAACCT-ATCATATCTCTCTAAAG
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG-AA-GAAAGTAATCCTATCTCCCTGAAG
* * * *
18574145 TTACAGTGGAGTGGATTAAAACTACA-GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA
64 TTACAGTGGAGCGGATTAAAA-TACAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGCA
18574209 TCC
128 T-C
* * * *
18574212 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAAAATCAATCCTATCTTCCTGAAGT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGT-AATCCTATCTCCCTGAAGT
* * *** * * * *
18574275 TGCAGT-GACGTGGATTAAAATGGTGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCGT
65 TACAGTGGA-GCGGATTAAAATACAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGCAT
18574339 C
129 C
18574340 AGA
1 AGA
18574343 CTTTATTTTT
Statistics
Matches: 698, Mismatches: 162, Indels: 110
0.72 0.17 0.11
Matches are distributed among these distances:
127 30 0.04
128 38 0.05
129 245 0.35
130 107 0.15
131 158 0.23
132 35 0.05
133 31 0.04
134 50 0.07
135 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (129 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAAAGTAATCCTATCTCCCTGAAGTT
ACAGTGGAGCGGATTAAAATACAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGCATC
Found at i:18573555 original size:219 final size:220
Alignment explanation
Indices: 18573299--18574111 Score: 906
Period size: 219 Copynumber: 3.7 Consensus size: 220
18573289 GAAGAATTTT
* * *
18573299 AGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA-T
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGT
* * *
18573363 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATCGCAT-
66 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATA
*
18573427 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CA-GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
18573492 GTTACAGTGGAGCAGATTGAAGCCAG
195 GTTACAGTGGAGCAGATTGAAGCCAG
* * *
18573518 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCT-AAAGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGT
* * *
18573582 TACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATA
66 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATA
* *
18573647 CAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGG
131 CAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
18573712 TTACAGTGGAGCAGATTGAAGCCAG
196 TTACAGTGGAGCAGATTGAAGCCAG
* * * *
18573737 AGATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCCAG-AGATCTTATCTTCCTGAGA-
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGAG
* * * ** * * ** * * ** **
18573800 TTACAGCGGAGC-AAATCGAAGACACTATCCTATCTCCCTGAAGTTACAGT-GAAGTGGAT-TAA
65 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG-AGCAGATCGCA
* * * * ** * * *
18573862 AAAAGGGATATTATCTCTCTGAAGTTACAGCAGAGTAGATC---GCA--TCAGGTCTTATCTCCC
129 TACA--G-TCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCC
* ** * *
18573922 TGAGGTTACAGTGGAGTAGACCGAAG-AATTTC
191 TGAGGTTACAGTGGAGCAGATTGAAGCCA---G
* * *
18573954 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC-A-CAATCCTATCTCCCTGA-AG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAGAG
* *
18574016 TTACAGTGGAGCGGATTAAAATAATA-GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCA
65 TTACAGTGGAGCGGATTAAAATAA-AGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA
* *
18574080 TCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
129 TACAGTCTTATCTCCCTGAAGTTACAGTGGAG
18574112 CAAACGAAAG
Statistics
Matches: 495, Mismatches: 81, Indels: 40
0.80 0.13 0.06
Matches are distributed among these distances:
214 1 0.00
215 61 0.12
216 25 0.05
217 74 0.15
218 40 0.08
219 263 0.53
220 31 0.06
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (220 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAGT
TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATA
CAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
TTACAGTGGAGCAGATTGAAGCCAG
Found at i:18573981 original size:173 final size:174
Alignment explanation
Indices: 18573781--18574111 Score: 504
Period size: 173 Copynumber: 1.9 Consensus size: 174
18573771 TTGAAGCCAG
* *
18573781 AGATCTTATCTTCCTGAGATTACAGCGGAGCAAATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAAATCGAAGACACAATCCTATCTCCCTGAAGTTA
* * * *
18573846 CAGTGAAGTGGATTAAAA-AAGGGATATTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT-CA
66 CAGTGAAGCGGATTAAAATAAGAGATATTATCTCTCTGAAGTTACAGCAGAGCAGAGCGCATCCA
*
18573909 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
131 -GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTC
* *
18573954 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAAATCGAAGACACAATCCTATCTCCCTGAAGTTA
* * * * *
18574019 CAGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCA
66 CAGTGAAGCGGATTAAAATAAGAGATATTATCTCTCTGAAGTTACAGCAGAGCAGAGCGCATCCA
*
18574084 GTCTTATCTCCCTGAAGTTGCAGTGGAG
131 GTCTTATCTCCCTGAAGTTACAGTGGAG
18574112 CAAACGAAAG
Statistics
Matches: 141, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
173 77 0.55
174 62 0.44
175 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (174 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAAATCGAAGACACAATCCTATCTCCCTGAAGTTA
CAGTGAAGCGGATTAAAATAAGAGATATTATCTCTCTGAAGTTACAGCAGAGCAGAGCGCATCCA
GTCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTC
Found at i:18574059 original size:44 final size:43
Alignment explanation
Indices: 18572774--18574333 Score: 403
Period size: 44 Copynumber: 35.8 Consensus size: 43
18572764 CGAAGAATTT
* **
18572774 TAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCTA
1 TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATA
* * *
18572818 GTA-ATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAAAA
1 -TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATA
* ** * ** * ***
18572861 AAGGATCTTATCTATCTGAAGTTATAGCAGAGTAGA-TCGTAT-
1 TA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * * ** * *
18572903 TAGGTCTTATCTCTCTG-AGATTATAATGGAATAGACTGAAGAATT
1 TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTAA-AATA
* * **
18572948 TCAGATCTTATCTTCCTG-AGATTACAGCGGAGCAGATTGAAGCTA
1 T-AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATA
*
18572993 GTA-ATCCTATCTCCCTG-AGATTACAGTGGAGCAGATTAAAATA
1 -TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATA
* * * ** ** ***
18573036 AATGATCTTATTTCTCTGAAGTTACAGCAGAGTTGA-TCGCAT-
1 TA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * * ** *
18573078 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AATA
* * **
18573123 TCAGATCTTATCTCTCTG-AGATTACAGCGGAGCAGATTGAAGCTA
1 T-AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATA
* * *
18573168 GTA-ATCCTATAT-CCTG-AGATTACAATGGAGC-GAATTAAAATA
1 -TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAG-ATTAAAATA
* ** * ** * **
18573210 AAGGATCTTATCTCTGTGAAGTTATAGCAGAGTAGATT-GCAT-
1 TA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * ** ** *
18573252 CAGGTCTTATCTCTCTG-AGATTACAGTGGAATAGACCGAAGAATTT
1 TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTAA-AA-TA
* * **
18573298 TAGATCTTATCTCTCTGAGGTTACAGTGGAGCAGATTGAAGCTA
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA
* *
18573342 GTA-ATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATA
1 -TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATA
* * * ** * ***
18573385 AAGGATCTTATCTCTCTGAAGTTATAGCAGAGTAGA-TCGCAT-
1 TA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * * ** *
18573427 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AATA
* ***
18573472 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 T-AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA
* * * **
18573517 GAGATCTTATCTCCCTG-AGATTACAGCGGAGTAGATTGAAGCTA
1 TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATA
* * * *
18573561 GTA-ATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAATA
1 -TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * * * * ***
18573604 AAGGATCTCATCTCTCTGAAGTTGCAGTAGAGCGGA-TCGCATA
1 TA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * ** * *
18573647 CAG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTT
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AATA
* ***
18573691 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 T-AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA
* * * ***
18573736 GAGATCTTATCTTCCTG-AGATTACAGCGGAGCAGATTGAAGCCA
1 TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATT-AAAATA
* * * * * * *
18573780 GAGATCTTATCTTCCTG-AGATTACAGCGGAGCAAATCGAAGACA
1 TAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGAT-TAAAATA
* * ** *
18573824 CT--ATCCTATCTCCCTGAAGTTACAGTGAAGTGGATTAAAAAA
1 -TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
** * * ** * ***
18573866 GGGATATTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGCAT-
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * * ** *
18573907 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AATA
* * * * *
18573952 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA
1 T-AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAAAATA
* * *
18573997 CA-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-A
* * * **** *
18574040 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-GCGCATC
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * * **
18574082 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACGAAAGGA-A
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA--ATA
*** * * * **
18574125 CCTATCATATCTCTCTAAAGTTACAGTGGAGTGGATTAAAACTA
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-TA
* * * * *** *
18574169 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATC
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
* * *
18574211 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAA
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATA
* * * ** *
18574254 TCA-ATCCTATCTTCCTGAAGTTGCAGT-GACGTGGATTAAAATGG
1 T-AGATCTTATCTCCCTGAAGTTACAGTGGA-GCAGATTAAAAT-A
* * * *
18574298 TGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
18574334 CGCGTCAGAC
Statistics
Matches: 1108, Mismatches: 322, Indels: 171
0.69 0.20 0.11
Matches are distributed among these distances:
40 4 0.00
41 211 0.19
42 31 0.03
43 150 0.14
44 492 0.44
45 30 0.03
46 189 0.17
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATA
Found at i:18574099 original size:41 final size:41
Alignment explanation
Indices: 18574044--18574245 Score: 163
Period size: 41 Copynumber: 4.8 Consensus size: 41
18574034 AAATAATAGA
* **
18574044 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATAGCATCCAG
* * * *
18574085 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACGAAAGGAACCTA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGC--A-GATAGCATCC-AG
* * * ** ** *
18574129 TCATATCTCTCTAAAGTTACAGTGGAGTGGATTAAAACTACAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TAGCA-TCCAG
* * *
18574172 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAA
1 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATAGCATCCAG
*
18574214 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
18574246 TAAAAAAATC
Statistics
Matches: 123, Mismatches: 30, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
41 58 0.47
42 6 0.05
43 4 0.03
44 54 0.44
45 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATAGCATCCAG
Found at i:18576022 original size:5 final size:5
Alignment explanation
Indices: 18576012--18576038 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18576002 TTTGTTATTG
18576012 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
18576039 ATAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:18576326 original size:13 final size:13
Alignment explanation
Indices: 18576308--18576333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18576298 TTTTTAAAAC
18576308 ATGTATTTTATAT
1 ATGTATTTTATAT
18576321 ATGTATTTTATAT
1 ATGTATTTTATAT
18576334 TTTATGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTATTTTATAT
Found at i:18576576 original size:16 final size:16
Alignment explanation
Indices: 18576555--18576593 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18576545 AACGTATACA
18576555 TATATATACATACTTT
1 TATATATACATACTTT
*
18576571 TATATATACATGCTTT
1 TATATATACATACTTT
*
18576587 CATATAT
1 TATATAT
18576594 CTCCATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:18576593 original size:34 final size:34
Alignment explanation
Indices: 18576553--18576617 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
18576543 ATAACGTATA
*
18576553 CATATATATACATACTTTTATATATACATGCTTT
1 CATATATATACATAATTTTATATATACATGCTTT
* * * *
18576587 CATATATCTCCATAATTTTATGTATATATGC
1 CATATATATACATAATTTTATATATACATGC
18576618 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (34 bp):
CATATATATACATAATTTTATATATACATGCTTT
Found at i:18576987 original size:112 final size:112
Alignment explanation
Indices: 18576860--18577074 Score: 322
Period size: 112 Copynumber: 1.9 Consensus size: 112
18576850 AAAAAGAAAT
* * *
18576860 TTTTCTAAATGAGGCAATATTTAGCATTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGT
1 TTTTCGAAATAAGGCAATATTTAGCATTTCGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGT
* *
18576925 GTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAAA
66 GTCGATTTTTCTCATTCAACCAAATAGCGAAATATCCTTTTAAAAAA
* * * *
18576972 TTTTCGAAATAAGGCAATGTTTTGCATTTCGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGT
1 TTTTCGAAATAAGGCAATATTTAGCATTTCGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGT
* * *
18577037 GTCGATTTTTCTCGTTTACCCAAATAGCGAAATATCCT
66 GTCGATTTTTCTCATTCAACCAAATAGCGAAATATCCT
18577075 CTCGAATTTC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (112 bp):
TTTTCGAAATAAGGCAATATTTAGCATTTCGGAAATTCGAGAAAACATGCCCTAAGGTGCTAGGT
GTCGATTTTTCTCATTCAACCAAATAGCGAAATATCCTTTTAAAAAA
Found at i:18578563 original size:27 final size:27
Alignment explanation
Indices: 18578525--18578601 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
18578515 TAGTATTGGC
*
18578525 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTCGT
*
18578552 GCCTACCTGGGAGGCGCCAATGGTCGT
1 GCCTATCTGGGAGGCGCCAATGGTCGT
*
18578579 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
18578602 GCCGGGCCGG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTCGT
Found at i:18584277 original size:18 final size:18
Alignment explanation
Indices: 18584254--18584291 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
18584244 CTTTTTTAAA
18584254 TTACAATTTTT-TATAATT
1 TTACAATTTTTATAT-ATT
18584272 TTACAATTTTTATATATT
1 TTACAATTTTTATATATT
18584290 TT
1 TT
18584292 TTAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TTACAATTTTTATATATT
Found at i:18586845 original size:2 final size:2
Alignment explanation
Indices: 18586838--18586869 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18586828 AAACATGAGA
18586838 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
18586870 CAAACATGAT
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:18587190 original size:40 final size:42
Alignment explanation
Indices: 18587102--18587191 Score: 121
Period size: 46 Copynumber: 2.1 Consensus size: 42
18587092 TATTATGCTT
18587102 AGTATAACAGGAAGTTAACTTACCAATCATTTACATTTACCTTTAA
1 AGTATAACAGGAAGTTAACTTACCAATCATTTAC---TA-CTTTAA
*
18587148 AGTATAACGGGAAGTTAACTTACCAATCATTTAC-A-TTTAA
1 AGTATAACAGGAAGTTAACTTACCAATCATTTACTACTTTAA
18587188 AGTA
1 AGTA
18587192 AGCATGCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
40 9 0.21
42 1 0.02
46 33 0.77
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (42 bp):
AGTATAACAGGAAGTTAACTTACCAATCATTTACTACTTTAA
Found at i:18590088 original size:38 final size:38
Alignment explanation
Indices: 18590037--18590126 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
18590027 TTCGGTACAG
*
18590037 CATGGTGAGTAGGGATGGGTGGGTTGATTTAATCCCCA
1 CATGGTGTGTAGGGATGGGTGGGTTGATTTAATCCCCA
*
18590075 CATGGTGTGTAGGGATGGGTGGGTTGATTTAATCCTCA
1 CATGGTGTGTAGGGATGGGTGGGTTGATTTAATCCCCA
18590113 CATGGTGTGTAGGG
1 CATGGTGTGTAGGG
18590127 TTGGACGGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.19, C:0.11, G:0.39, T:0.31
Consensus pattern (38 bp):
CATGGTGTGTAGGGATGGGTGGGTTGATTTAATCCCCA
Found at i:18591673 original size:38 final size:37
Alignment explanation
Indices: 18591603--18591739 Score: 107
Period size: 38 Copynumber: 3.6 Consensus size: 37
18591593 ACACACTAGA
* * * *
18591603 TTGACACCCAGTGCCTCATCAGATAGTTCGAAGAAAAG
1 TTGACACCCAGTGTCTCATCGGCTAG-CCGAAGAAAAG
*
18591641 TTGACACCCAGTGTCTCATCGGCCTAGCCGAAGTAAAG
1 TTGACACCCAGTGTCTCATCGG-CTAGCCGAAGAAAAG
* * * *
18591679 -TGATACCCAGTATCTCATCGAATCTATCCGAAGTAAAA-
1 TTGACACCCAGTGTCTCATCG--GCTAGCCGAAG-AAAAG
*
18591717 TAGTGACACCCAGTGTCTTATCG
1 T--TGACACCCAGTGTCTCATCG
18591740 ACTCGAGGTC
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
37 18 0.23
38 38 0.48
39 6 0.08
41 17 0.22
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (37 bp):
TTGACACCCAGTGTCTCATCGGCTAGCCGAAGAAAAG
Found at i:18591728 original size:41 final size:38
Alignment explanation
Indices: 18591631--18591740 Score: 114
Period size: 41 Copynumber: 2.8 Consensus size: 38
18591621 TCAGATAGTT
* *
18591631 CGAAGAAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAGC
* * * *
18591669 CGAAGTAAAGTGATACCCAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
*
18591707 CGAAGTAAAATAGTGACACCCAGTGTCTTATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
18591741 CTCGAGGTCG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 18 0.31
38 19 0.32
40 2 0.03
41 20 0.34
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:18591876 original size:18 final size:17
Alignment explanation
Indices: 18591829--18591883 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
18591819 GGGTTTCCAA
*
18591829 TTCAATTCAAACTCACT
1 TTCAATTCAAATTCACT
* *
18591846 TTCATTTCAAAATTTACT
1 TTCAATTC-AAATTCACT
18591864 TTCAATATCAAATTCACT
1 TTCAAT-TCAAATTCACT
18591882 TT
1 TT
18591884 TTCATTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 7 0.23
18 22 0.71
19 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.44
Consensus pattern (17 bp):
TTCAATTCAAATTCACT
Found at i:18594319 original size:24 final size:25
Alignment explanation
Indices: 18594287--18594339 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
18594277 TCTGGGCTGT
18594287 ATAA-CAGGAAGGTCATAAGAGCC-
1 ATAATCAGGAAGGTCATAAGAGCCA
*
18594310 ATAATCAGGAAGGTCATACGAGCCA
1 ATAATCAGGAAGGTCATAAGAGCCA
18594335 ATAAT
1 ATAAT
18594340 GGGTAGCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 4 0.15
24 18 0.67
25 5 0.19
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (25 bp):
ATAATCAGGAAGGTCATAAGAGCCA
Found at i:18601235 original size:9 final size:9
Alignment explanation
Indices: 18601225--18601257 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
18601215 TTCTCCTTCT
18601225 TTTC-TTTC
1 TTTCTTTTC
18601233 TTTCTTTTTC
1 TTTC-TTTTC
18601243 TTTCTTTTC
1 TTTCTTTTC
18601252 TTTCTT
1 TTTCTT
18601258 CTTTTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.17
9 11 0.48
10 8 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:18601247 original size:23 final size:22
Alignment explanation
Indices: 18601221--18601265 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
18601211 TGCGTTCTCC
18601221 TTCTTTTCTTTCTTTCTTTTTCT
1 TTCTTTTCTTTC-TTCTTTTTCT
18601244 TTCTTTTCTTTCTTCTTTTTCT
1 TTCTTTTCTTTCTTCTTTTTCT
18601266 ATTAATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTTTCTTTCTTCTTTTTCT
Found at i:18604081 original size:21 final size:22
Alignment explanation
Indices: 18604057--18604098 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18604047 AGGGGAATTA
* *
18604057 CTTGGATTTTTA-TAAGAAAAC
1 CTTGGAGTTTTACAAAGAAAAC
18604078 CTTGGAGTTTTACAAAGAAAA
1 CTTGGAGTTTTACAAAGAAAA
18604099 ACTATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (22 bp):
CTTGGAGTTTTACAAAGAAAAC
Found at i:18606438 original size:63 final size:63
Alignment explanation
Indices: 18606371--18606603 Score: 337
Period size: 63 Copynumber: 3.7 Consensus size: 63
18606361 CACACACCCA
* * * *
18606371 TGTCTCTGGCCCATGTGTCC-CTAATTCCAAAACAGTGAGTTACACGACTTGGATACGCGCCTG
1 TGTCTCTAGCCCGTGTG-CCTCTAATTCCAAAACAGTGAGTTACACGACCTGGATATGCGCCTG
*
18606434 TGTCTTTAGCCCGTGTGCCTCTAATTCCAAAACAGTGAGTTACACGACCTGGATATGCGCCTG
1 TGTCTCTAGCCCGTGTGCCTCTAATTCCAAAACAGTGAGTTACACGACCTGGATATGCGCCTG
*
18606497 TGTCTTTAGCCCGTGTGCCTCTAATTCCAAAACAGTGAGTTACACGACCTGGACATATGC-CC-G
1 TGTCTCTAGCCCGTGTGCCTCTAATTCCAAAACAGTGAGTTACACGACCTGG--ATATGCGCCTG
* * *
18606560 TATCTCTAGCCCGTGTGCCTCTAACTCTAAAACAGTGAGTTACA
1 TGTCTCTAGCCCGTGTGCCTCTAATTCCAAAACAGTGAGTTACA
18606604 TGGCCTACAA
Statistics
Matches: 158, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
62 2 0.01
63 148 0.94
64 2 0.01
65 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (63 bp):
TGTCTCTAGCCCGTGTGCCTCTAATTCCAAAACAGTGAGTTACACGACCTGGATATGCGCCTG
Found at i:18608619 original size:73 final size:74
Alignment explanation
Indices: 18608453--18608638 Score: 302
Period size: 74 Copynumber: 2.5 Consensus size: 74
18608443 TTTGCGGCGG
*
18608453 TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACTGTTTCTGAGCTTTTGGGGGGATT
1 TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTTTTGGGGGGATT
* *
18608518 TAACGGTGT
66 TAACAGCGT
* *
18608527 TTTTGAGAAAGCGCTGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTTTTTGGGGG-TT
1 TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTTTTGGGGGGATT
*
18608591 TAGCAGCGT
66 TAACAGCGT
*
18608600 TTTTCAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAC
1 TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAC
18608639 GCTGTTTCCT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 45 0.43
74 59 0.57
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (74 bp):
TTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTTTTGGGGGGATT
TAACAGCGT
Found at i:18608646 original size:73 final size:73
Alignment explanation
Indices: 18608447--18608689 Score: 319
Period size: 73 Copynumber: 3.3 Consensus size: 73
18608437 AGGTCTTTTG
* *
18608447 CGGCGGTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACTGTTTCTGAGCTTTTGGG
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACTGTTTCTGAGCTTTTTGG
18608512 GGGATTTAA
66 GGG-TTTAA
* * *
18608521 CGGTGTTTTTGAGAAAGCGCTGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTTTTTGG
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACTGTTTCTGAGCTTTTTGG
*
18608586 GGGTTTAG
66 GGGTTTAA
* * *
18608594 CAGCGTTTTTCAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTCCTGA--TATTTT
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACTGTTT-CTGAGCT-TTTT
* * *
18608657 GGGGATCTAC
64 GGGGGTTTAA
* *
18608667 CGGCGTTTCTAAGAAAGCGCCGC
1 CGGCGTTTTTGAGAAAGCGCCGC
18608690 TAATGCTCAG
Statistics
Matches: 149, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
72 1 0.01
73 81 0.54
74 67 0.45
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (73 bp):
CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACACTGTTTCTGAGCTTTTTGG
GGGTTTAA
Found at i:18608784 original size:113 final size:113
Alignment explanation
Indices: 18608586--18608819 Score: 292
Period size: 113 Copynumber: 2.1 Consensus size: 113
18608576 AGCTTTTTGG
* *
18608586 GGGTTTAGCAGCGTTTTTCAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCTGTTTCCTGA
1 GGGTTTAGCAGCGTTTTTCAGAAAGCGCAGCAAAAAAACCTAAGCCCAACGACGCCGTTTCCTGA
* *
18608651 TATTTTGGGGATCTACCGGCGTTTCTAAGAAAGCGCCGCTAATGCTCA
66 TATTTCGGGGATCTACCGGCGTTTCTAAGAAAGCGCCACTAATGCTCA
* * ** * *
18608699 GGGTTTGGCGGCGTTTTTGGGATAGCGCAGCAAGAAAAA-CTAAGCCCAACGACGCCGTTTTCT-
1 GGGTTTAGCAGCGTTTTTCAGAAAGCGCAGCAA-AAAAACCTAAGCCCAACGACGCCGTTTCCTG
* * * * *
18608762 ATGCTTTCGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCACTAATGCTCA
65 AT-ATTTCGGGGATCTACCGGCGTTTCTAAGAAAGCGCCACTAATGCTCA
18608812 GGGATTTA
1 GGG-TTTA
18608820 AAATAATTTA
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
112 2 0.02
113 92 0.90
114 8 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (113 bp):
GGGTTTAGCAGCGTTTTTCAGAAAGCGCAGCAAAAAAACCTAAGCCCAACGACGCCGTTTCCTGA
TATTTCGGGGATCTACCGGCGTTTCTAAGAAAGCGCCACTAATGCTCA
Found at i:18609129 original size:7 final size:7
Alignment explanation
Indices: 18609093--18609131 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
18609083 GTTAGGGGGA
18609093 TTTAGGG
1 TTTAGGG
*
18609100 GTTAGGG
1 TTTAGGG
*
18609107 ATTTGGGG
1 -TTTAGGG
18609115 TTTAGGG
1 TTTAGGG
18609122 TTTAGGG
1 TTTAGGG
18609129 TTT
1 TTT
18609132 CAACGGTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:18609131 original size:14 final size:15
Alignment explanation
Indices: 18609089--18609131 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
18609079 AAGGGTTAGG
*
18609089 GGGATTTAGGGGTTA
1 GGGATTTAGGGTTTA
*
18609104 GGGATTTGGGGTTTA
1 GGGATTTAGGGTTTA
18609119 GGG-TTTAGGGTTT
1 GGGATTTAGGGTTT
18609132 CAACGGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.40
Consensus pattern (15 bp):
GGGATTTAGGGTTTA
Found at i:18609928 original size:21 final size:20
Alignment explanation
Indices: 18609902--18609972 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
18609892 AATAAATTTT
18609902 TTAGGGGTTATGCTTTAGGGG
1 TTAGGGGTTA-GCTTTAGGGG
*
18609923 TTAGGGGTTAAGCTTTAAGGG
1 TTAGGGGTT-AGCTTTAGGGG
* *
18609944 TTAAGGG--AGATTTAGGGG
1 TTAGGGGTTAGCTTTAGGGG
*
18609962 TTATGGGTTAG
1 TTAGGGGTTAG
18609973 GGATTTGGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.36
20 2 0.05
21 24 0.57
22 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.41, T:0.35
Consensus pattern (20 bp):
TTAGGGGTTAGCTTTAGGGG
Found at i:18611454 original size:21 final size:21
Alignment explanation
Indices: 18611428--18611477 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
18611418 CTACAACTTA
18611428 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCGGCAGCAAGGG
*
18611449 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGGG
18611470 AAGCAGAG
1 AAGCAGAG
18611478 CAGAGCAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.18, G:0.48, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGGG
Found at i:18611878 original size:43 final size:43
Alignment explanation
Indices: 18611838--18612022 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
18611828 GGGAAGCGAT
* * * *
18611838 GCTAAAGAACATGAACTTTAGCGGCATTTTTGCGAAAAGCGCC
1 GCTAAAGAACATGAACATTAGCGGCGTTTGTGGGAAAAGCGCC
** * * * *
18611881 ATTAAAGAACATGAACTTTAGCGGCGTTTGTGAGAGAGGCGCC
1 GCTAAAGAACATGAACATTAGCGGCGTTTGTGGGAAAAGCGCC
* *
18611924 GCTAAAGAACATGACCATTAGCAGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGAACATGAACATTAGCGGCGTTTGTGGGAAAAGCGCC
* *
18611967 ACTAAAGAACATGACCATTAGCGGCGTTTGTGGGAAAAGCGCC
1 GCTAAAGAACATGAACATTAGCGGCGTTTGTGGGAAAAGCGCC
18612010 GCTAAAGAACATG
1 GCTAAAGAACATG
18612023 TTATTTAGTG
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (43 bp):
GCTAAAGAACATGAACATTAGCGGCGTTTGTGGGAAAAGCGCC
Found at i:18612887 original size:3 final size:3
Alignment explanation
Indices: 18612879--18612914 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18612869 GCAATTTTAA
18612879 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18612915 GGTCATGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18614570 original size:9 final size:9
Alignment explanation
Indices: 18614529--18614570 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
18614519 ATTTTAACTT
18614529 TTTTTATATA
1 TTTTTATA-A
*
18614539 TTTTTTAGAA
1 -TTTTTATAA
18614549 TTTTTATAA
1 TTTTTATAA
18614558 -TTTTATAA
1 TTTTTATAA
18614566 TTTTT
1 TTTTT
18614571 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 8 0.29
9 12 0.43
10 1 0.04
11 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18614644 original size:20 final size:19
Alignment explanation
Indices: 18614584--18614647 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
18614574 AAAAATATAA
18614584 ATTTTGAAATTTTTATAAA-T
1 ATTTT-AAATTTTTA-AAATT
* *
18614604 ATTTTGAA-TTTTAAACTTT
1 ATTTTAAATTTTTAAA-ATT
18614623 ATTTTAAATTTTTTAAAATT
1 ATTTTAAA-TTTTTAAAATT
18614643 ATTTT
1 ATTTT
18614648 GATTTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 10 0.28
20 12 0.33
21 7 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAATT
Found at i:18614652 original size:19 final size:19
Alignment explanation
Indices: 18614593--18614655 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
18614583 AATTTTGAAA
18614593 TTTTTATAAA-TATTTTGA-
1 TTTTTA-AAATTATTTTGAT
* * *
18614611 ATTTTAAACTTTATTTTAAAT
1 TTTTTAAA-ATTATTTT-GAT
18614632 TTTTTAAAATTATTTTGAT
1 TTTTTAAAATTATTTTGAT
18614651 TTTTT
1 TTTTT
18614656 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 13 0.37
20 8 0.23
21 7 0.20
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTATTTTGAT
Found at i:18615309 original size:17 final size:17
Alignment explanation
Indices: 18615287--18615322 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18615277 ATTTTTGAAC
18615287 TAGTGAATTCTATGATT
1 TAGTGAATTCTATGATT
*
18615304 TAGTGAATTTTATGATT
1 TAGTGAATTCTATGATT
18615321 TA
1 TA
18615323 AAAAGAATTT
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:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (17 bp):
TAGTGAATTCTATGATT
Found at i:18616602 original size:46 final size:45
Alignment explanation
Indices: 18616549--18616677 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 45
18616539 TGGAAATTTA
18616549 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAA-CCATACTGAGTTG
18616595 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTG
1 TGAAAAGTAGGTATGGTGTTTCAGTGAAG-AAACCATACTGAGTTG
18616641 TGAAAAGTAGGTATGGTGTTTCAGTGAAGGAAACCAT
1 TGAAAAGTAGGTATGGTGTTTCAGTGAA-GAAACCAT
18616678 GCTAAGTTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
46 77 0.95
47 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (45 bp):
TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAACCATACTGAGTTG
Found at i:18622977 original size:29 final size:29
Alignment explanation
Indices: 18622933--18622989 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
18622923 CTGTCTTCTC
*
18622933 CCCCAAACGTTTTTTCCCCTCTGCTGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGTT
18622962 CCCCAAACGTTCTTTCCCCTCTGCTGGT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGT
18622990 GAAATTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.11, C:0.40, G:0.14, T:0.35
Consensus pattern (29 bp):
CCCCAAACGTTCTTTCCCCTCTGCTGGTT
Found at i:18625347 original size:12 final size:12
Alignment explanation
Indices: 18625330--18625358 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18625320 TAAAAAGTTT
18625330 AATATGATTTAC
1 AATATGATTTAC
18625342 AATATGATTTAC
1 AATATGATTTAC
18625354 AATAT
1 AATAT
18625359 ATTATTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
AATATGATTTAC
Found at i:18625608 original size:45 final size:44
Alignment explanation
Indices: 18625553--18625672 Score: 127
Period size: 48 Copynumber: 2.6 Consensus size: 44
18625543 GCAAAATTCT
18625553 ATTAGAGGAAAATATTTTCATACACATTTAACAT-GTAAAATTAAA
1 ATTAGAGGAAAATATTTTCATACACATTT--CATGGTAAAATTAAA
* ** *
18625598 ATTAGAGGAAAATATTTAC-TATCAGGTCCATTTTTTGGTAAAATTAAT
1 ATTAGAGGAAAATATTTTCATA-CA----CATTTCATGGTAAAATTAAA
18625646 ATTAGAGGAAAATATTTTCATACACAT
1 ATTAGAGGAAAATATTTTCATACACAT
18625673 GTAAACAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
44 5 0.08
45 20 0.32
47 1 0.02
48 30 0.48
49 7 0.11
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (44 bp):
ATTAGAGGAAAATATTTTCATACACATTTCATGGTAAAATTAAA
Found at i:18626396 original size:18 final size:18
Alignment explanation
Indices: 18626373--18626420 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
18626363 AAAATAGGAG
18626373 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
18626391 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
18626409 AAATGATGTTCA
1 AAATGATGTTCA
18626421 AATTGATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:18626969 original size:72 final size:72
Alignment explanation
Indices: 18626847--18627018 Score: 269
Period size: 72 Copynumber: 2.4 Consensus size: 72
18626837 AACAACAATG
* *
18626847 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
18626911 ATTTAT-
66 ATTTATA
* * *
18626917 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
18626982 TATTTATA
65 TATTTATA
18626990 CTAAAT-TAGTTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
18627019 ATATGATTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
70 1 0.01
71 24 0.26
72 65 0.71
73 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:18629084 original size:13 final size:13
Alignment explanation
Indices: 18629066--18629090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18629056 ACACTCAAAT
18629066 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
18629079 TTCTCAAAAGCA
1 TTCTCAAAAGCA
18629091 ATAAAGAACT
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:18631472 original size:17 final size:16
Alignment explanation
Indices: 18631441--18631474 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18631431 CTACAGTCGA
18631441 AGAAAAAGAAAAAAAT
1 AGAAAAAGAAAAAAAT
*
18631457 AGAAAATAGTAAAAAAT
1 AGAAAA-AGAAAAAAAT
18631474 A
1 A
18631475 TCCTTGATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAT
Found at i:18632610 original size:2 final size:2
Alignment explanation
Indices: 18632603--18632628 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18632593 ATAAGCGATC
18632603 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
18632629 TCCTTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18632886 original size:21 final size:21
Alignment explanation
Indices: 18632836--18632902 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
18632826 GACTGCGGGT
*
18632836 TGTAACTTGGAGAGGTAGGG-C
1 TGTAACTTGGTGAGGT-GGGAC
* * *
18632857 TATAGCTTGGTGATGTGGGAC
1 TGTAACTTGGTGAGGTGGGAC
*
18632878 TGTAACTTGGTGAGGTTGGAC
1 TGTAACTTGGTGAGGTGGGAC
18632899 TGTA
1 TGTA
18632903 CCCAGGAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.21, C:0.09, G:0.39, T:0.31
Consensus pattern (21 bp):
TGTAACTTGGTGAGGTGGGAC
Found at i:18632936 original size:21 final size:21
Alignment explanation
Indices: 18632906--18633109 Score: 212
Period size: 21 Copynumber: 9.7 Consensus size: 21
18632896 GACTGTACCC
* *
18632906 AGGAGAAGTGGGGCTATAAGC
1 AGGAGAAGTGGGGCTATATGA
* *
18632927 GGGTGAAGTGGGGCTATATGA
1 AGGAGAAGTGGGGCTATATGA
* *
18632948 AGGAGATGTGGGGCTATAGGA
1 AGGAGAAGTGGGGCTATATGA
* * *
18632969 AGGAGATGTGGGGCTGTACGA
1 AGGAGAAGTGGGGCTATATGA
* *
18632990 AGGAGATGTGGGGCTGTATGA
1 AGGAGAAGTGGGGCTATATGA
* * * *
18633011 TGGAGATGTGGGGCTGTACGA
1 AGGAGAAGTGGGGCTATATGA
* *
18633032 TGGAGAAGTGGGGCTATATGC
1 AGGAGAAGTGGGGCTATATGA
*
18633053 AGGAGAAGTGGGGCTATATGC
1 AGGAGAAGTGGGGCTATATGA
18633074 AGGAGAAGTGGGGCTATAT-A
1 AGGAGAAGTGGGGCTATATGA
* *
18633094 CGGGTGAAGTGGGGCT
1 -AGGAGAAGTGGGGCT
18633110 GTAGCTAGGT
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
21 161 1.00
ACGTcount: A:0.25, C:0.08, G:0.46, T:0.21
Consensus pattern (21 bp):
AGGAGAAGTGGGGCTATATGA
Found at i:18632973 original size:63 final size:63
Alignment explanation
Indices: 18632906--18633091 Score: 237
Period size: 63 Copynumber: 3.0 Consensus size: 63
18632896 GACTGTACCC
* * *
18632906 AGGAGAAGTGGGGCTATAAGCGGGTGAAGTGGGGCTATATGAAGGAGATGTGGGGCTATAGGA
1 AGGAGAAGTGGGGCTATAAGCAGGAGAAGTGGGGCTATATGAAGGAGATGTGGGGCTATACGA
* * * * * * * *
18632969 AGGAGATGTGGGGCTGTACGAAGGAGATGTGGGGCTGTATGATGGAGATGTGGGGCTGTACGA
1 AGGAGAAGTGGGGCTATAAGCAGGAGAAGTGGGGCTATATGAAGGAGATGTGGGGCTATACGA
* * * *
18633032 TGGAGAAGTGGGGCTATATGCAGGAGAAGTGGGGCTATATGCAGGAGAAGTGGGGCTATA
1 AGGAGAAGTGGGGCTATAAGCAGGAGAAGTGGGGCTATATGAAGGAGATGTGGGGCTATA
18633092 TACGGGTGAA
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.26, C:0.08, G:0.46, T:0.20
Consensus pattern (63 bp):
AGGAGAAGTGGGGCTATAAGCAGGAGAAGTGGGGCTATATGAAGGAGATGTGGGGCTATACGA
Found at i:18633132 original size:21 final size:21
Alignment explanation
Indices: 18633096--18633157 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
18633086 GCTATATACG
* *
18633096 GGTGAAGTGGGGCTGTAGCTA
1 GGTGAAGTGGGACTGTAACTA
*
18633117 GGTGAAGTGGGACTGTAACTG
1 GGTGAAGTGGGACTGTAACTA
* *
18633138 GGGGATGTGGGACTGTAACT
1 GGTGAAGTGGGACTGTAACT
18633158 TGGAGATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.10, G:0.45, T:0.24
Consensus pattern (21 bp):
GGTGAAGTGGGACTGTAACTA
Done.