Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 78 of 770
Found at i:23028860 original size:40 final size:40
Alignment explanation
Indices: 23028835--23028974 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
23028825 AATTGGTTAC
* *
23028835 ATATGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTAT
1 ATATGGCACTTAGTGTGCGATTCGACATAACTTCGGCTAT
* *
23028875 AAATGGCACTCAGTGTGCGATTCGACATAACTTCGGCTAT
1 ATATGGCACTTAGTGTGCGATTCGACATAACTTCGGCTAT
* * * *
23028915 ATATGGCACTTAGCGTGCGATTTGAGATAGCTTCGGCTAT
1 ATATGGCACTTAGTGTGCGATTCGACATAACTTCGGCTAT
* ***
23028955 GTACAACACTTAGTGTGCGA
1 ATATGGCACTTAGTGTGCGA
23028975 GATATTGAGT
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (40 bp):
ATATGGCACTTAGTGTGCGATTCGACATAACTTCGGCTAT
Found at i:23029013 original size:28 final size:28
Alignment explanation
Indices: 23028960--23029014 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
23028950 GCTATGTACA
* *
23028960 ACACTTAGTGTGCGAGATATTGAGTATG
1 ACACTTAGTGTGCGAGACATTAAGTATG
*
23028988 ACACTTAGTGTGCGAGGCATTAAGTAT
1 ACACTTAGTGTGCGAGACATTAAGTAT
23029015 TCAACGGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
ACACTTAGTGTGCGAGACATTAAGTATG
Found at i:23033034 original size:35 final size:35
Alignment explanation
Indices: 23032926--23033039 Score: 147
Period size: 35 Copynumber: 3.3 Consensus size: 35
23032916 TCTATGGCAA
*
23032926 AGTTATGAAATGTAGGTATGGTATTATCCATACTG
1 AGTTATGAAATGTAGGTATGGTATTAACCATACTG
* * ** *
23032961 AGCTATGATATGTAGGTATGGTATTTCCCATACCG
1 AGTTATGAAATGTAGGTATGGTATTAACCATACTG
* *
23032996 AGTTATGAAACGTAAGTATGGTATTAACCATACTG
1 AGTTATGAAATGTAGGTATGGTATTAACCATACTG
*
23033031 AGTTGTGAA
1 AGTTATGAA
23033040 TCGTGGCACT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
AGTTATGAAATGTAGGTATGGTATTAACCATACTG
Found at i:23039041 original size:40 final size:40
Alignment explanation
Indices: 23038997--23039139 Score: 196
Period size: 40 Copynumber: 3.6 Consensus size: 40
23038987 ACAAATCGAT
*
23038997 TATATATGGCACTTAGTGTGAAATTCGACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCGACATAGCTTCGGC
* * *
23039037 TATATATGGCACTCAGTGTGCGATTCAACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCGACATAGCTTCGGC
* * **
23039077 TATATATGGCACTTAGTGTGCAATTTGAGATAGCTTCAAC
1 TATATATGGCACTTAGTGTGCAATTCGACATAGCTTCGGC
* *
23039117 TATGTACGGCACTTAGTGTGCAA
1 TATATATGGCACTTAGTGTGCAA
23039140 GATATTGAGT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTCGACATAGCTTCGGC
Found at i:23043189 original size:38 final size:38
Alignment explanation
Indices: 23043138--23043524 Score: 621
Period size: 38 Copynumber: 10.1 Consensus size: 38
23043128 ATATTCGATG
*
23043138 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
23043176 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
23043214 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
23043252 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
23043290 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
23043328 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
**
23043366 TATATCCGGGTTAAATCCCGCAGGCTTTATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
23043404 TATATTCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
23043444 AATATCTGGGTTAAATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
23043482 TATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
23043520 TATAT
1 TATAT
23043525 TAGGGCCTTC
Statistics
Matches: 322, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
38 286 0.89
39 10 0.03
40 26 0.08
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:23043599 original size:43 final size:43
Alignment explanation
Indices: 23043522--23043603 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
23043512 GCTGGTATTA
* **
23043522 TATTAGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTAGGGCCTTCGTGCCTAGCAAGCGTAATGCCGGTGATGTG
* * *
23043565 TATTCGGGCCTTCGTGCGTAGCAGGCGTAATGCCGGTGA
1 TATTAGGGCCTTCGTGCCTAGCAAGCGTAATGCCGGTGA
23043604 AATGATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTAGGGCCTTCGTGCCTAGCAAGCGTAATGCCGGTGATGTG
Found at i:23045702 original size:126 final size:125
Alignment explanation
Indices: 23045469--23046089 Score: 700
Period size: 126 Copynumber: 5.0 Consensus size: 125
23045459 GGCCAAGCAG
* * * * *
23045469 GAACTACTGTAGAAAA-AAAGCATCGACGTGGGAGCTTTTTTTAGTACTTTTGCTAACAATGCAT
1 GAACTACTGTAGAAAAGAGAG--TCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT
* * ***
23045533 CCTGCTTGAAGCATTTTTGACACTACTTTTTCAGAATTATCTTCTCAAAATTATTTTTTCAA
64 CCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
* ** *
23045595 GAACTATTGTAGAATAAGAGAGTTTACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
1 GAACTACTGTAGAA-AAGAGAGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* * * *
23045660 CTGCTTGAAGCGTTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATTATTTTCTCAG
65 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
* * * * * *
23045721 GAACTACTGTAGGAAAAGAGTGTCAACGTGGGAGCTGTTTTCAGTACTTTTACTGACAGTACATT
1 GAACTACTGTA-GAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATC
* * * *
23045786 CTTCTTGAAGCGTTTTTTACACTATTTTTTCAAAACCGTCTTCTCAAATTTATTTTTTC-A
65 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
* * * * **
23045846 GAACTACTATAGAAAA-AAAGTCCATGTGGGAGCTTTTTTCAATACTTTTGCTGACAGTATATCC
1 GAACTACTGTAGAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
23045910 TGCTTAAAGCG-TTTTGACATTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT-TA
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
* ** *
23045968 GAAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC--TTTT-AGTACTTTTGCTGGTAGTGCAC
1 G-AACTACTGTAG-AAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAT
* * * * *
23046030 CCTACTTGAAGCATTTTTGATACTATTTTTTTCAGAACTGTCTTCTTAAAATTATTTTTT
64 CCTGCTTGAAGCGTTTTTGACACTA-TTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
23046090 TAGAAACTAC
Statistics
Matches: 419, Mismatches: 67, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
122 70 0.17
123 71 0.17
124 40 0.10
125 24 0.06
126 206 0.49
127 5 0.01
128 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (125 bp):
GAACTACTGTAGAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
Found at i:23046244 original size:34 final size:34
Alignment explanation
Indices: 23046186--23046279 Score: 127
Period size: 34 Copynumber: 2.8 Consensus size: 34
23046176 CTTAAACACA
* *
23046186 AAATTATTTTT-AAAAATCCCTAAACTCTAATTT
1 AAATTATTTTTAAAAAAACCCTAAACCCTAATTT
*
23046219 AAATTATTTTTAAAAAAACCTTAAACCCTAATTT
1 AAATTATTTTTAAAAAAACCCTAAACCCTAATTT
* * *
23046253 AATTTATTTTAAAAAAAACCCTCAACC
1 AAATTATTTTTAAAAAAACCCTAAACC
23046280 TTAACCCCAC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 11 0.21
34 42 0.79
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (34 bp):
AAATTATTTTTAAAAAAACCCTAAACCCTAATTT
Found at i:23047535 original size:48 final size:48
Alignment explanation
Indices: 23047483--23047588 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 48
23047473 AGTGATAATT
23047483 TTAAATTTTCAATACTATTTGATATTTT-TTAAATTTATGCAAATT-TAA
1 TTAAATTTTCAATACTATTTGATATTTTATT-AATTTATGC-AATTATAA
*
23047531 TTAAATTTAT-AATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-TCAATACTATTTGATATTTTATTAATTTATGCAATTATAA
*
23047579 TTAAAATTTC
1 TTAAATTTTC
23047589 TATATTGCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
47 5 0.10
48 44 0.85
49 3 0.06
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.52
Consensus pattern (48 bp):
TTAAATTTTCAATACTATTTGATATTTTATTAATTTATGCAATTATAA
Found at i:23047601 original size:48 final size:47
Alignment explanation
Indices: 23047483--23047616 Score: 130
Period size: 48 Copynumber: 2.8 Consensus size: 47
23047473 AGTGATAATT
* *
23047483 TTAAATTT-TCAATACTATTTGATATTTTTTAAATTTATGCAAATTTAA
1 TTAAATTTAT-AATACTACTTGATATTTTTT-CATTTATGCAAATTTAA
*
23047531 TTAAATTTATAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAATTTATAATACTACTTGATATTTT-TTCATTTATGCAAATT-TAA
* * * * *
23047579 TTAAAATTTCT-ATATTGCTTGATTTTTTTTCACTTATG
1 TT-AAATTTATAATACTACTTGATATTTTTTCATTTATG
23047617 ATGTTTGCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
47 13 0.17
48 52 0.69
49 10 0.13
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (47 bp):
TTAAATTTATAATACTACTTGATATTTTTTCATTTATGCAAATTTAA
Found at i:23048612 original size:7 final size:7
Alignment explanation
Indices: 23048600--23048638 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
23048590 AGTCGTTTCA
23048600 TATTTAG
1 TATTTAG
23048607 TATTTAG
1 TATTTAG
23048614 TATTTAG
1 TATTTAG
*
23048621 TATTTAA
1 TATTTAG
23048628 TATTTAG
1 TATTTAG
23048635 TATT
1 TATT
23048639 ATGTATTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:23052966 original size:126 final size:126
Alignment explanation
Indices: 23052741--23053352 Score: 929
Period size: 126 Copynumber: 4.8 Consensus size: 126
23052731 TTATAGCCTC
* * * * **
23052741 ATTTTTCTACGAACTACTGTAGAAAAAGAGCGTCCACATGGAAAATTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * *
23052806 ACAGTGCATCCTGCTTTAAGC-ATTCCTGACACTATTTGTTCAGAAACGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTC-GACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
23052867 ATTTTTCTACGAACTATTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * *
23052932 ACAGTGCATCCTACTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTACTGAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
23052993 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* *
23053058 ACAGTGCATCTTTCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
23053119 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCATGTAGGAGCTTTTTTTTAGAATTTTTGCT
1 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGAAATTTTGCT
*
23053184 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
23053246 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTA
1 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
23053311 ACAGTGTATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCA
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCA
23053353 AAATTATTCT
Statistics
Matches: 444, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
126 326 0.73
127 118 0.27
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:23053297 original size:253 final size:252
Alignment explanation
Indices: 23052741--23053352 Score: 947
Period size: 253 Copynumber: 2.4 Consensus size: 252
23052731 TTATAGCCTC
* * * *
23052741 ATTTTTCTACGAACTACTGTAGAAAAAGAGCGTCCACATGGAAAATTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
* * * *
23052806 ACAGTGCATCCTGCTTTAAGC-ATTCCTGACACTATTTGTTCAGAAACGTCTACTTAGAATTATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTC-GACACTATTTGTTCAGAAACGTCTACTCAGAATTATT
*
23052870 TTTCTACGAACTATTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACA
130 TTTCTACGAACTATTATAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAAAAATTTTGCTGACA
* *
23052935 GTGCATCCTACTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTACTGAGAATT
195 GTGCATCCTACTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
23052993 ATTTTTCTACGAACTATTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAAAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
* *
23053058 ACAGTGCATCTTTCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTT
* * * * *
23053123 TTCTACGAACTATTGTAGCAAAAGAGCGTCCATGTAGGAGCTTTTTTTTAGAATTTTTGCTGACA
131 TTCTACGAACTATTATAGCAAAAGAGCGTCCACGTAGGAGC-TTTTTTCAAAAATTTTGCTGACA
* * *
23053188 GTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAACGTCTACTCAGAATT
195 GTGCATCCTACTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * * *
23053246 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
*
23053311 ACAGTGTATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCA
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCA
23053353 AAATTATTCT
Statistics
Matches: 326, Mismatches: 32, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
252 152 0.47
253 174 0.53
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (252 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGATTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATTATTT
TTCTACGAACTATTATAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAAAAATTTTGCTGACAG
TGCATCCTACTTGAAGCATTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:23053970 original size:19 final size:19
Alignment explanation
Indices: 23053948--23054056 Score: 143
Period size: 19 Copynumber: 5.8 Consensus size: 19
23053938 ACGATTATGT
* *
23053948 ATCAATTAACTCTAAATTA
1 ATCAATTAACCCTAATTTA
*
23053967 ATCAATTAACCCTAAAATTA
1 ATCAATTAACCCT-AATTTA
*
23053987 ATTAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
23054006 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
23054025 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
*
23054041 ATCAATTAACCATAAT
1 ATCAATTAACCCTAAT
23054057 ACCCTAGACT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.19
17 1 0.01
18 1 0.01
19 46 0.57
20 18 0.22
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:23054007 original size:39 final size:38
Alignment explanation
Indices: 23053948--23054051 Score: 142
Period size: 39 Copynumber: 2.8 Consensus size: 38
23053938 ACGATTATGT
* *
23053948 ATCAATTAACTCTAAATTAATCAATTAACCCTAAAATTA
1 ATCAATTAACCCTAATTTAATCAATTAACCCT-AAATTA
* *
23053987 ATTAATTAACCCTAATTTAATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTAATCAATTAACCCTAAATTA
23054025 ATCAA-T--CCCTAATTTAATCAATTAACC
1 ATCAATTAACCCTAATTTAATCAATTAACC
23054052 ATAATACCCT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
35 21 0.35
37 1 0.02
38 9 0.15
39 29 0.48
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTAACCCTAAATTA
Found at i:23054036 original size:16 final size:17
Alignment explanation
Indices: 23053995--23054046 Score: 79
Period size: 16 Copynumber: 3.0 Consensus size: 17
23053985 TAATTAATTA
23053995 ACCCTAATTTAATCAATT
1 ACCCTAATTTAATCAA-T
23054013 AACCCTAATTTAATCAAT
1 -ACCCTAATTTAATCAAT
23054031 -CCCTAATTTAATCAAT
1 ACCCTAATTTAATCAAT
23054047 TAACCATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.48
18 1 0.03
19 16 0.48
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (17 bp):
ACCCTAATTTAATCAAT
Found at i:23054182 original size:15 final size:16
Alignment explanation
Indices: 23054150--23054227 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 16
23054140 TTAAATTCTA
23054150 AACCCTAAAAAACACT
1 AACCCTAAAAAACACT
*
23054166 AACCCTAAAAATC-CT
1 AACCCTAAAAAACACT
** *
23054181 AACCCTAAATCA-ATT
1 AACCCTAAAAAACACT
* *
23054196 AAACCTTAAAAAACCCT
1 -AACCCTAAAAAACACT
*
23054213 AGCCCTAAAAAACAC
1 AACCCTAAAAAACAC
23054228 GGGCAAAACG
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
15 12 0.26
16 33 0.72
17 1 0.02
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.17
Consensus pattern (16 bp):
AACCCTAAAAAACACT
Found at i:23055196 original size:27 final size:27
Alignment explanation
Indices: 23055166--23055222 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
23055156 TTTTAATTTG
*
23055166 TAATATATATATTTATT-AATAAAATAT
1 TAATAAATATATTT-TTCAATAAAATAT
*
23055193 TAATAAATATATTTTTCAATAATATAT
1 TAATAAATATATTTTTCAATAAAATAT
23055220 TAA
1 TAA
23055223 GAATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATAAATATATTTTTCAATAAAATAT
Found at i:23055318 original size:22 final size:20
Alignment explanation
Indices: 23055256--23055318 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
23055246 ATTATGGTTA
23055256 AATTTATTATTAAAAT-AA-
1 AATTTATTATTAAAATAAAT
* *
23055274 AATTGTAATATT-AAATAATT
1 AATT-TATTATTAAAATAAAT
23055294 AATTATATTATTAAATATAAAT
1 AATT-TATTATTAAA-ATAAAT
23055316 AAT
1 AAT
23055319 GAAATATGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 10 0.29
21 2 0.06
22 8 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATTTATTATTAAAATAAAT
Found at i:23056294 original size:69 final size:67
Alignment explanation
Indices: 23056149--23056407 Score: 248
Period size: 69 Copynumber: 3.9 Consensus size: 67
23056139 ATATCTTCCT
*
23056149 TATTTTCATAAAAAAAGTTAATTTTAATCCCATATTGACT-----A-ACTCTCATAGCTCACTAT
1 TATTTTCAT-TAAAAAGTTAATTTTAATCCCATATTGACTAGAGAATACTCTCATAGCTCAC--T
*
23056208 TTTAC
63 TCTAC
* * *
23056213 TAATTTCATTAAAAAGTTAATTTTAATCTCATATTGGCTAGAGAATACTCTCATAGCTCACTTCT
1 TATTTTCATTAAAAAGTTAATTTTAATCCCATATTGACTAGAGAATACTCTCATAGCTCACTTCT
23056278 AAAC
66 --AC
* * * * * *
23056282 TATTTTCCTTAAAAAGTTAATTTTAA-CCTTACATTGACTATAGAATATTCCCATAGCTCACTTC
1 TATTTTCATTAAAAAGTTAATTTTAATCC-CATATTGACTAGAGAATACTCTCATAGCTCACTTC
23056346 -AC
65 TAC
* * * ** *
23056348 TATTTTTATTAGAAAGTTAGTTTTAATCCCATATTGGTTAGAGAACACTCTCAT-GCTCAC
1 TATTTTCATTAAAAAGTTAATTTTAATCCCATATTGACTAGAGAATACTCTCATAGCTCAC
23056408 ACTTACCTTA
Statistics
Matches: 159, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
63 27 0.17
64 8 0.05
65 6 0.04
66 41 0.26
67 5 0.03
68 2 0.01
69 70 0.44
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (67 bp):
TATTTTCATTAAAAAGTTAATTTTAATCCCATATTGACTAGAGAATACTCTCATAGCTCACTTCT
AC
Found at i:23057569 original size:60 final size:60
Alignment explanation
Indices: 23057448--23057594 Score: 145
Period size: 60 Copynumber: 2.5 Consensus size: 60
23057438 ATTTGTTAAC
* * * * * *
23057448 TTTTATAATTAGAATTAAATTAATAAATTTTGTAAATGTTCATGACTAAATTTATTGAAT
1 TTTTAGAAGTAGAACTAAATTAATAAATCTTGTAAATATTCATGACTAAATTTAGTGAAT
* **
23057508 TTATTAGAAGTAGAACTAAA-TAATAAATCTTGTAAATATTGATGGTTAAATTT-GTGAAAT
1 TT-TTAGAAGTAGAACTAAATTAATAAATCTTGTAAATATTCATGACTAAATTTAGTG-AAT
** * *
23057568 TTTTAGATTTAGGATTAAATTAATAAA
1 TTTTAGAAGTAGAACTAAATTAATAAA
23057595 ATATATAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 15 0.21
60 42 0.59
61 14 0.20
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.43
Consensus pattern (60 bp):
TTTTAGAAGTAGAACTAAATTAATAAATCTTGTAAATATTCATGACTAAATTTAGTGAAT
Found at i:23059026 original size:23 final size:23
Alignment explanation
Indices: 23059000--23059046 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23058990 CTCTAAAACT
23059000 ATGTTCATAACTGTTTATGTTCA
1 ATGTTCATAACTGTTTATGTTCA
23059023 ATGTTCATAACTGTTTATGTTCA
1 ATGTTCATAACTGTTTATGTTCA
23059046 A
1 A
23059047 ATGGGTGCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (23 bp):
ATGTTCATAACTGTTTATGTTCA
Found at i:23063755 original size:19 final size:19
Alignment explanation
Indices: 23063731--23063771 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
23063721 AAAAATGGAT
* *
23063731 AATTAATTTTTATATGTTA
1 AATTAATCTTTATATATTA
23063750 AATTAATCTTTATATATTA
1 AATTAATCTTTATATATTA
23063769 AAT
1 AAT
23063772 AGAGTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTAATCTTTATATATTA
Found at i:23066771 original size:22 final size:22
Alignment explanation
Indices: 23066746--23066797 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
23066736 AACCTAAATA
23066746 AAACTAAAATTGAGCTGAAACC
1 AAACTAAAATTGAGCTGAAACC
23066768 AAACTAAAATTGAGCTGAAACC
1 AAACTAAAATTGAGCTGAAACC
*
23066790 AAATTAAA
1 AAACTAAA
23066798 TATTCCAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.19
Consensus pattern (22 bp):
AAACTAAAATTGAGCTGAAACC
Found at i:23070456 original size:17 final size:17
Alignment explanation
Indices: 23070436--23070468 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23070426 CTATAAGCAA
23070436 AATTAAACAAGTTAAAT
1 AATTAAACAAGTTAAAT
23070453 AATTAAACAAGTTAAA
1 AATTAAACAAGTTAAA
23070469 AGGCTGTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (17 bp):
AATTAAACAAGTTAAAT
Found at i:23075466 original size:16 final size:16
Alignment explanation
Indices: 23075435--23075487 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
23075425 GTTTTATCAA
*
23075435 TTTAGTCATTTGTTTAT
1 TTTA-TCATTTATTTAT
*
23075452 TTTATCGTTTATTTAT
1 TTTATCATTTATTTAT
23075468 TTTATCATTTATTTAT
1 TTTATCATTTATTTAT
23075484 TTTA
1 TTTA
23075488 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTATCATTTATTTAT
Found at i:23079405 original size:46 final size:46
Alignment explanation
Indices: 23079256--23079431 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
23079246 TCACTTGTGT
* * *
23079256 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGA-GATGA
* * *
23079302 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGAGATGA
* *
23079350 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGATG-A
* *
23079397 -AGCCAGTGTAAAACATGTCTGGAACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
23079432 TAAACGTTGT
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 58 0.52
47 29 0.26
48 23 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGATGA
Found at i:23083226 original size:6 final size:6
Alignment explanation
Indices: 23083215--23083249 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
23083205 CTATAAATAA
23083215 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCT
23083250 TTCTCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCTCTC
Found at i:23084759 original size:23 final size:24
Alignment explanation
Indices: 23084715--23084760 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
23084705 ATGTTGGTTG
23084715 AATTATTGAATCTTATGGAATGAGA
1 AATTATT-AATCTTATGGAATGAGA
23084740 AATTATT-ATCTTA-GGTAATGA
1 AATTATTAATCTTATGG-AATGA
23084761 TTCTTGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
25 7 0.35
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (24 bp):
AATTATTAATCTTATGGAATGAGA
Found at i:23085348 original size:36 final size:35
Alignment explanation
Indices: 23085308--23085421 Score: 86
Period size: 36 Copynumber: 3.2 Consensus size: 35
23085298 AACTAGTATT
*
23085308 GGGCACAAATCATTGTAGATTTATCTGACTAGTGCA
1 GGGCACAAATCATTGTAG-TTTATCAGACTAGTGCA
** * ** *
23085344 GGGCACACCT-ATTGTCAGTTTATCCGACTAGCACT
1 GGGCACAAATCATTGT-AGTTTATCAGACTAGTGCA
* * * * *
23085379 GGGCGCAAAACATTTTCGGTTTATCAGACTAGTGTA
1 GGGCACAAATCATTGT-AGTTTATCAGACTAGTGCA
23085415 GGGCACA
1 GGGCACA
23085422 TCTATCATCT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
35 24 0.41
36 34 0.59
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (35 bp):
GGGCACAAATCATTGTAGTTTATCAGACTAGTGCA
Found at i:23085409 original size:71 final size:71
Alignment explanation
Indices: 23085290--23085531 Score: 252
Period size: 71 Copynumber: 3.4 Consensus size: 71
23085280 GTATTTTTCG
* * * * * * *
23085290 GTTTATCCAACTAGTATTGGGCACAAATCATTGTAGATTTATCTGACTAGTGCAGGGCACACCTA
1 GTTTATCCAACTAGCACTGGGCGCAAAACATTGTCGGTTTATCAGACTAGTGCAGGGCACACCTA
*
23085355 TTGTCA
66 TCGTCA
* * * *
23085361 GTTTATCCGACTAGCACTGGGCGCAAAACATTTTCGGTTTATCAGACTAGTGTAGGGCACATCTA
1 GTTTATCCAACTAGCACTGGGCGCAAAACATTGTCGGTTTATCAGACTAGTGCAGGGCACACCTA
*
23085426 TCATCTA
66 TCGTC-A
* * * *
23085433 -TTTATCCAACTAGCACTGGGTGCAAAACATTGTCGGTTTATCCGATTAGTGCAAGGCACACCTA
1 GTTTATCCAACTAGCACTGGGCGCAAAACATTGTCGGTTTATCAGACTAGTGCAGGGCACACCTA
* *
23085497 TGGTCT
66 TCGTCA
* ** * *
23085503 GGTTATCTGACTAACACTAGGCGCAAAAC
1 GTTTATCCAACTAGCACTGGGCGCAAAAC
23085532 TTAGTTATGG
Statistics
Matches: 139, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
71 138 0.99
72 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (71 bp):
GTTTATCCAACTAGCACTGGGCGCAAAACATTGTCGGTTTATCAGACTAGTGCAGGGCACACCTA
TCGTCA
Found at i:23085473 original size:36 final size:35
Alignment explanation
Indices: 23085354--23085475 Score: 86
Period size: 36 Copynumber: 3.4 Consensus size: 35
23085344 GGGCACACCT
* *
23085354 ATTGTCAGTTTATCCGACTAGCACTGGGCGCAAAAC
1 ATTGTCGGTTTATCCAACTAGCACTGGG-GCAAAAC
* ** * * *
23085390 ATTTTCGGTTTAT-CAGACTAG-TGTAGGGCACATC
1 ATTGTCGGTTTATCCA-ACTAGCACTGGGGCAAAAC
** **
23085424 TATCATCTATTTATCCAACTAGCACTGGGTGCAAAAC
1 -ATTGTCGGTTTATCCAACTAGCACTGGG-GCAAAAC
23085461 ATTGTCGGTTTATCC
1 ATTGTCGGTTTATCC
23085476 GATTAGTGCA
Statistics
Matches: 60, Mismatches: 21, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
34 5 0.08
35 18 0.30
36 32 0.53
37 5 0.08
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (35 bp):
ATTGTCGGTTTATCCAACTAGCACTGGGGCAAAAC
Found at i:23090492 original size:15 final size:15
Alignment explanation
Indices: 23090445--23090492 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
23090435 GAAAACTGAG
**
23090445 TAAAGAAATTCAAGA
1 TAAAGAAACCCAAGA
*
23090460 TAGAGAAACCC-AGAA
1 TAAAGAAACCCAAG-A
23090475 TAAAGAAACCCAAGA
1 TAAAGAAACCCAAGA
23090490 TAA
1 TAA
23090493 GATACTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
TAAAGAAACCCAAGA
Found at i:23095748 original size:15 final size:15
Alignment explanation
Indices: 23095728--23095756 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23095718 GGAGTTAGTT
23095728 CCACCATTTGTGATC
1 CCACCATTTGTGATC
23095743 CCACCATTTGTGAT
1 CCACCATTTGTGAT
23095757 GAAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (15 bp):
CCACCATTTGTGATC
Found at i:23098829 original size:33 final size:33
Alignment explanation
Indices: 23098792--23098858 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
23098782 ATTGAAGGCC
23098792 TTAGCTTTTCCTTGATGCTCGAATAAATTGTAT
1 TTAGCTTTTCCTTGATGCTCGAATAAATTGTAT
23098825 TTAGCTTTTCCTTGATGCTCGAATAAATTGTAT
1 TTAGCTTTTCCTTGATGCTCGAATAAATTGTAT
23098858 T
1 T
23098859 GAATTGCTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (33 bp):
TTAGCTTTTCCTTGATGCTCGAATAAATTGTAT
Found at i:23099466 original size:40 final size:39
Alignment explanation
Indices: 23099301--23099484 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
23099291 AAATTGAATG
* * *
23099301 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
23099341 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
23099381 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
23099421 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
23099460 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
23099485 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:23099509 original size:80 final size:81
Alignment explanation
Indices: 23099341--23099529 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
23099331 GCTGGAAATT
* * * *
23099341 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
23099406 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
23099422 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
23099485 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
23099501 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
23099530 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:23102227 original size:16 final size:18
Alignment explanation
Indices: 23102192--23102229 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23102182 ATCCTTATAT
23102192 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
23102210 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
23102226 AAAT
1 AAAT
23102230 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:23112428 original size:14 final size:13
Alignment explanation
Indices: 23112402--23112434 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
23112392 ATCAATCAAA
23112402 AAAAAG-AAAAAG
1 AAAAAGAAAAAAG
23112414 AAAAAGAAAAGAAG
1 AAAAAGAAAA-AAG
23112428 AAAAAGA
1 AAAAAGA
23112435 GAGTGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 3 0.16
14 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:23113074 original size:48 final size:48
Alignment explanation
Indices: 23113022--23113122 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
23113012 ACCCGTCACT
* * *
23113022 CCTTCAGTGCCTGCAACACCAACTAAACATTGGGCTCCAACTCCTGCA
1 CCTTCAATGCCTACAACACCAACTAAACATTGGACTCCAACTCCTGCA
* * * *
23113070 CCTTCAATGCCTACAACACCAATTCAACCTTGGACTCCAGCTCCTGCA
1 CCTTCAATGCCTACAACACCAACTAAACATTGGACTCCAACTCCTGCA
23113118 CCTTC
1 CCTTC
23113123 GGCACCATCC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.23
Consensus pattern (48 bp):
CCTTCAATGCCTACAACACCAACTAAACATTGGACTCCAACTCCTGCA
Found at i:23113243 original size:66 final size:66
Alignment explanation
Indices: 23113149--23113441 Score: 403
Period size: 66 Copynumber: 4.4 Consensus size: 66
23113139 TCAGCAGTAG
*
23113149 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGTCTACACCTTCTGTG
1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG
23113214 C
66 C
*
23113215 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACAACTTCTGTG
1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG
23113280 C
66 C
* * * * * *
23113281 CAGCAACACAATCTGAACCTTGGGCTCCAGGCCCTGCACCTTGGGCACCAACTACACCTACTGTG
1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG
23113346 C
66 C
* * * * *
23113347 CAGCAACACCATCTCAACCTTGGGCTCCAGGCCCTGCACCATGGACACC-AGCTACACCTTCTGT
1 CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGA-CTACACCTTCTGT
23113411 GC
65 GC
* *
23113413 CAAC-A-ACCATATCTGACCCTTGGGCTCCA
1 CAGCAACACCATA--TGAACCTTGGGCTCCA
23113442 ACTCCATCTC
Statistics
Matches: 206, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
64 5 0.02
65 2 0.01
66 199 0.97
ACGTcount: A:0.23, C:0.40, G:0.19, T:0.19
Consensus pattern (66 bp):
CAGCAACACCATATGAACCTTGGGCTCCAGCCCCTGCACCCTGGGCACCGACTACACCTTCTGTG
C
Found at i:23114069 original size:20 final size:22
Alignment explanation
Indices: 23114034--23114075 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
23114024 CACAATAGTC
23114034 CTCTCACAATTCTCTCTAAATT
1 CTCTCACAATTCTCTCTAAATT
*
23114056 CTCTCA-AATT-TCTCTCAATT
1 CTCTCACAATTCTCTCTAAATT
23114076 TTTGTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (22 bp):
CTCTCACAATTCTCTCTAAATT
Found at i:23115911 original size:18 final size:18
Alignment explanation
Indices: 23115888--23115931 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23115878 ATACCAGGTG
*
23115888 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
*
23115906 TGTATCCTAACCCTTTTA
1 TGTATCCTAACCCTTATA
*
23115924 TGTTTCCT
1 TGTATCCT
23115932 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:23116358 original size:25 final size:24
Alignment explanation
Indices: 23116313--23116359 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
23116303 CCAACATTGA
*
23116313 TTTTTTTAATATATTTGTATAAAC
1 TTTTTTTAATATATTTATATAAAC
23116337 TTTTTTT-ATATAGTTTCATATAA
1 TTTTTTTAATATA-TTT-ATATAA
23116360 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTTTTAATATATTTATATAAAC
Found at i:23116602 original size:130 final size:130
Alignment explanation
Indices: 23116338--23116646 Score: 541
Period size: 129 Copynumber: 2.4 Consensus size: 130
23116328 TGTATAAACT
*
23116338 TTTTTTATATAG-TTTCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTT
*
23116402 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTT
65 TTTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATAGTT
23116467 A
130 A
* * *
23116468 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTATTTTTGATATTTTAATTTTACTTTAC-TT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTT
23116532 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATAGTTA
66 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATAGTTA
*
23116597 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTA
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTATTTTTAATATTTTA
23116647 CAATAAATGT
Statistics
Matches: 171, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
129 114 0.67
130 52 0.30
131 5 0.03
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.57
Consensus pattern (130 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACGTTACTTT
TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATAGTTA
Found at i:23119983 original size:126 final size:126
Alignment explanation
Indices: 23119760--23120065 Score: 451
Period size: 126 Copynumber: 2.5 Consensus size: 126
23119750 TAGTCTAAGG
* * *
23119760 CTTTTTCAGATACTACTGTAG-AAAAAATGTGTCCACGTGGGAGC---TTTCCGTAATTTTGCTG
1 CTTTTTCAGATACTACTGTAGCAAAAGA-GCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTG
* * *
23119821 ACAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
65 ACAGTGCATCATTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA
* * *
23119883 TTTTTTCTGATACTACTGTAGCAAAAGAGCGTCCACGTGGTAGCTTTTTTCCGTAATTTTACTGA
1 CTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGA
* * *
23119948 TAGTGCATCATTCTTGAAGCATTTTTGATACTATTTGTTCAAAAACATCTTTTCAAAATTA
66 CAGTGCATCATTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA
*
23120009 CTTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTT-CGTAATT
1 CTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATT
23120066 AATAGTTAAT
Statistics
Matches: 163, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
123 33 0.20
124 5 0.03
125 7 0.04
126 118 0.72
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
CTTTTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTACTGA
CAGTGCATCATTCTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA
Found at i:23120198 original size:7 final size:7
Alignment explanation
Indices: 23120186--23120234 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
23120176 AAAAACACTA
23120186 AAACCCT
1 AAACCCT
23120193 AAACCCT
1 AAACCCT
*
23120200 AAAAACCTT
1 --AAACCCT
23120209 AAACCACT
1 AAACC-CT
23120217 AAACCCT
1 AAACCCT
23120224 -AACCCT
1 AAACCCT
23120230 AAACC
1 AAACC
23120235 AATCAAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 6 0.17
7 18 0.50
8 6 0.17
9 6 0.17
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:23120201 original size:15 final size:15
Alignment explanation
Indices: 23120178--23120232 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
23120168 TTCCCTTAAA
*
23120178 AAACACTAAAACCCT
1 AAACCCTAAAACCCT
*
23120193 AAACCCTAAAAACCTT
1 AAACCCT-AAAACCCT
23120209 AAACCACT-AAACCCT
1 AAACC-CTAAAACCCT
23120224 -AACCCTAAA
1 AAACCCTAAA
23120233 CCAATCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 6 0.18
15 12 0.35
16 12 0.35
17 2 0.06
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCCTAAAACCCT
Found at i:23120203 original size:24 final size:24
Alignment explanation
Indices: 23120176--23120225 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23120166 TTTTCCCTTA
23120176 AAAAACACTAAAACC-CTAAACCCT
1 AAAAAC-CTAAAACCACTAAACCCT
*
23120200 AAAAACCTTAAACCACTAAACCCT
1 AAAAACCTAAAACCACTAAACCCT
23120224 AA
1 AA
23120226 CCCTAAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (24 bp):
AAAAACCTAAAACCACTAAACCCT
Found at i:23120259 original size:17 final size:17
Alignment explanation
Indices: 23120185--23120272 Score: 72
Period size: 16 Copynumber: 5.0 Consensus size: 17
23120175 AAAAAACACT
23120185 AAAACCCTAAACCCT-A
1 AAAACCCTAAACCCTAA
*
23120201 AAAACCTTAAACCACTAA
1 AAAACCCTAAACC-CTAA
* * *
23120219 ACCCTAACCCTAAACCAATCA
1 A---AAACCCTAAACC-CTAA
23120240 AAAACCCT-AACCCTAA
1 AAAACCCTAAACCCTAA
*
23120256 AAAACCTTAAACCCTAA
1 AAAACCCTAAACCCTAA
23120273 TTTAATTGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
16 21 0.37
17 14 0.25
18 8 0.14
21 14 0.25
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAACCCTAAACCCTAA
Found at i:23120359 original size:15 final size:15
Alignment explanation
Indices: 23120339--23120386 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
23120329 CTTAAAAATA
23120339 CTAAAACCTTAAACC
1 CTAAAACCTTAAACC
23120354 CTAAAAACCTTAAACC
1 CT-AAAACCTTAAACC
23120370 ACTAAAA-CTT-AACC
1 -CTAAAACCTTAAACC
23120384 CTA
1 CTA
23120387 GAATAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.10
14 4 0.13
15 5 0.16
16 17 0.55
17 2 0.06
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAAAACCTTAAACC
Found at i:23120369 original size:156 final size:160
Alignment explanation
Indices: 23120089--23120586 Score: 612
Period size: 156 Copynumber: 3.0 Consensus size: 160
23120079 ATTAATAAAT
23120089 CTTAAACCCTAATTTAATTGATTTTTT-AATTTCATAGTTAATTTAATTAATTAATCCTCAACTC
1 CTTAAACCCTAATTTAATTGATTTTTTAAATTTCATAGTTAATTTAATTAATTAA--C-C-ACTC
23120153 TAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAAAACCTTAAACCACTA
62 -------ATTAATTTTTCCCTT-AAAAACACTAAAACCCTAAACCCTAAAAACCTTAAACCACTA
*
23120218 AACCCTAACCCTAAACCAATCAAAAACCCTAACCCTAAAAAAC
119 AACCCTAACCCTAAA-TAATCAAAAACCCTAACCCTAAAAAAC
23120261 CTTAAACCCTAATTTAATTGATTTTTT-AATTTCATAGTTAATTTAATTAATTAA-C-C-C-TTA
1 CTTAAACCCTAATTTAATTGATTTTTTAAATTTCATAGTTAATTTAATTAATTAACCACTCATTA
* * * *
23120321 ATTTTTCCCTTAAAAATACTAAAACCTTAAACCCTAAAAACCTTAAACCACTAAAACTTAACCCT
66 ATTTTTCCCTTAAAAACACTAAAACCCTAAACCCTAAAAACCTTAAACCACTAAACCCTAACCCT
* *
23120386 AGAATAATCAAAAACCCTAATCATAAAAAAC
131 A-AATAATCAAAAACCCTAACCCTAAAAAAC
*
23120417 CTTAAACCCTAATTTAATTTATTTTTTAAATTTCATAGTTAATTTAATTAATTAACCCTCGACTC
1 CTTAAACCCTAATTTAATTGATTTTTTAAATTTCATAGTTAATTTAATTAATTAA--C-C-ACTC
* ** *
23120482 TAATTAAATTAATTTTCTCTTAAAAACACTAAAACCCTAAACTTTAAAAACCTCAAACCACTAAA
62 --ATT-AA-T--TTTTCCCTTAAAAACACTAAAACCCTAAACCCTAAAAACCTTAAACCACTAAA
*
23120547 CCCTAACCTTAAAATAATCAAAAACCCTAACCCTAAAAAA
121 CCCTAACCCT-AAATAATCAAAAACCCTAACCCTAAAAAA
23120587 AGGGGGCAAA
Statistics
Matches: 290, Mismatches: 19, Indels: 35
0.84 0.06 0.10
Matches are distributed among these distances:
156 101 0.35
157 43 0.15
161 1 0.00
163 1 0.00
164 1 0.00
165 1 0.00
166 1 0.00
167 2 0.01
168 3 0.01
169 1 0.00
171 80 0.28
172 55 0.19
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.32
Consensus pattern (160 bp):
CTTAAACCCTAATTTAATTGATTTTTTAAATTTCATAGTTAATTTAATTAATTAACCACTCATTA
ATTTTTCCCTTAAAAACACTAAAACCCTAAACCCTAAAAACCTTAAACCACTAAACCCTAACCCT
AAATAATCAAAAACCCTAACCCTAAAAAAC
Found at i:23120377 original size:16 final size:16
Alignment explanation
Indices: 23120338--23120381 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
23120328 CCTTAAAAAT
23120338 ACTAAAACCTTAAACC
1 ACTAAAACCTTAAACC
23120354 -CTAAAAACCTTAAACC
1 ACT-AAAACCTTAAACC
23120370 ACTAAAA-CTTAA
1 ACTAAAACCTTAA
23120382 CCCTAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.27
16 17 0.65
17 2 0.08
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.20
Consensus pattern (16 bp):
ACTAAAACCTTAAACC
Found at i:23120528 original size:24 final size:24
Alignment explanation
Indices: 23120501--23120547 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
23120491 TAATTTTCTC
23120501 TTAAAAACACTAAAACC-CTAAACT
1 TTAAAAAC-CTAAAACCACTAAACT
*
23120525 TTAAAAACCTCAAACCACTAAAC
1 TTAAAAACCTAAAACCACTAAAC
23120548 CCTAACCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (24 bp):
TTAAAAACCTAAAACCACTAAACT
Found at i:23120568 original size:30 final size:32
Alignment explanation
Indices: 23120508--23120568 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 32
23120498 CTCTTAAAAA
* *
23120508 CACTAAAACCCTAAACTTTAAAAACCTCAAAC
1 CACTAAAACCCTAAACCTTAAAAACATCAAAC
23120540 CACT-AAACCCT-AACCTTAAAATA-ATCAAA
1 CACTAAAACCCTAAACCTTAAAA-ACATCAAA
23120569 AACCCTAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 14 0.54
31 8 0.31
32 4 0.15
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.20
Consensus pattern (32 bp):
CACTAAAACCCTAAACCTTAAAAACATCAAAC
Found at i:23123973 original size:24 final size:25
Alignment explanation
Indices: 23123935--23123989 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
23123925 TCTAAAACTC
* *
23123935 AGATAGCTTAATTTG-AAATACTAT
1 AGATAGCATAATTTGAAAACACTAT
*
23123959 AGATAGCATATTTTGAAAACACTAT
1 AGATAGCATAATTTGAAAACACTAT
23123984 AGATAG
1 AGATAG
23123990 TACTATCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (25 bp):
AGATAGCATAATTTGAAAACACTAT
Found at i:23129776 original size:13 final size:13
Alignment explanation
Indices: 23129740--23129779 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23129730 TGTGGTGCAC
23129740 GCCACACGGGCAT
1 GCCACACGGGCAT
**
23129753 GCCTTACGGGCAT
1 GCCACACGGGCAT
*
23129766 GCCACATGGGCAT
1 GCCACACGGGCAT
23129779 G
1 G
23129780 TGGTTTCTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCACACGGGCAT
Found at i:23140670 original size:16 final size:16
Alignment explanation
Indices: 23140639--23140681 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
23140629 AGTATAGTAG
23140639 ATTTT-GTTTATTATTTT
1 ATTTTAGTTTA-T-TTTT
23140656 ATTTCTAGTTTATTTTT
1 ATTT-TAGTTTATTTTT
23140673 ATTTTAGTT
1 ATTTTAGTT
23140682 GAGGGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 12 0.50
18 2 0.08
19 5 0.21
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (16 bp):
ATTTTAGTTTATTTTT
Found at i:23143719 original size:23 final size:22
Alignment explanation
Indices: 23143666--23143719 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
23143656 CTTAACCTAA
*
23143666 AATTATTAATTCTAATTATTTT
1 AATTATTTATTCTAATTATTTT
23143688 AA-TATTTTATT-TAATTAATTTTT
1 AATTA-TTTATTCTAATT-A-TTTT
23143711 AATTATTTA
1 AATTATTTA
23143720 ATTATCTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 8 0.30
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTATTTATTCTAATTATTTT
Found at i:23143720 original size:15 final size:15
Alignment explanation
Indices: 23143666--23143722 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
23143656 CTTAACCTAA
*
23143666 AATTA-TTAA-TTCT
1 AATTATTTAATTTTT
23143679 AATTATTTTAATATTTT
1 AATTA-TTTAAT-TTTT
* *
23143696 ATTTAATTAATTTTT
1 AATTATTTAATTTTT
23143711 AATTATTTAATT
1 AATTATTTAATT
23143723 ATCTAATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 5 0.14
15 18 0.51
16 5 0.14
17 7 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTATTTAATTTTT
Found at i:23146775 original size:41 final size:41
Alignment explanation
Indices: 23146730--23146847 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23146720 TGAAAGATAA
23146730 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23146771 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23146801 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23146842 ATGTAG
1 ATGTAG
23146848 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23146786 original size:71 final size:71
Alignment explanation
Indices: 23146698--23146861 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23146688 GAGATGTATC
23146698 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23146763 AGGACA
66 AGGACA
23146769 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23146834 AGGACA
66 AGGACA
23146840 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23146862 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23153882 original size:41 final size:41
Alignment explanation
Indices: 23153837--23153954 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23153827 TGAAAGATAA
23153837 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23153878 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23153908 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23153949 ATGTAG
1 ATGTAG
23153955 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23153893 original size:71 final size:71
Alignment explanation
Indices: 23153805--23153968 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23153795 GAGATGTATC
23153805 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23153870 AGGACA
66 AGGACA
23153876 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23153941 AGGACA
66 AGGACA
23153947 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23153969 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23156327 original size:16 final size:16
Alignment explanation
Indices: 23156294--23156327 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23156284 TGTTGTTGTA
*
23156294 ATATAAATGAATCTAT
1 ATATAAATGAATCCAT
*
23156310 ATATAAATGTATCCAT
1 ATATAAATGAATCCAT
23156326 AT
1 AT
23156328 TATGACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
ATATAAATGAATCCAT
Found at i:23159666 original size:11 final size:11
Alignment explanation
Indices: 23159650--23159674 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23159640 GAAATTACAC
23159650 AAACATTTTCG
1 AAACATTTTCG
23159661 AAACATTTTCG
1 AAACATTTTCG
23159672 AAA
1 AAA
23159675 TTATTTTTTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (11 bp):
AAACATTTTCG
Found at i:23173172 original size:84 final size:84
Alignment explanation
Indices: 23172920--23173173 Score: 355
Period size: 84 Copynumber: 3.0 Consensus size: 84
23172910 ACTTTTTATC
* * * *
23172920 GCCCAAATCCTTAAGTGACTACCATAACGATGATGCAACCCTTTTTTAATTTAGTCCTCAACTTT
1 GCCCTAATCATTAAGTGACTAACATAACGATGATGCAACCCTTTTTAAATTTAGTCCTCAACTTT
*
23172985 TATACTTTCTATCAATTTA
66 TATACTTTCTATCAATTTG
* * * * * *
23173004 GCCCTAATTATTAAGTGACTAATATAATGATGATACAATCCTTTTCTAAATTTAGACCTCAACTT
1 GCCCTAATCATTAAGTGACTAACATAACGATGATGCAACCCTTTT-TAAATTTAGTCCTCAACTT
23173069 TTATACTTTCTATCAATTTG
65 TTATACTTTCTATCAATTTG
* * * * *
23173089 GCGCTAATCATTAAGTGACTAACATAACGCTCATGTAACCCTTTTTAAATTTAGTCTTCAACTTT
1 GCCCTAATCATTAAGTGACTAACATAACGATGATGCAACCCTTTTTAAATTTAGTCCTCAACTTT
23173154 TATACTTTCTATCAATTTG
66 TATACTTTCTATCAATTTG
23173173 G
1 G
23173174 ACCAAATTTT
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
84 75 0.51
85 72 0.49
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (84 bp):
GCCCTAATCATTAAGTGACTAACATAACGATGATGCAACCCTTTTTAAATTTAGTCCTCAACTTT
TATACTTTCTATCAATTTG
Found at i:23173268 original size:16 final size:16
Alignment explanation
Indices: 23173243--23173283 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23173233 TTTAAAAATT
*
23173243 ATATAGAAAATTATAA
1 ATATATAAAATTATAA
*
23173259 ATATATAAAATTTTAA
1 ATATATAAAATTATAA
23173275 A-ATATAAAA
1 ATATATAAAA
23173284 GAATACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
ATATATAAAATTATAA
Found at i:23173312 original size:17 final size:17
Alignment explanation
Indices: 23173254--23173314 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
23173244 TATAGAAAAT
*
23173254 TATAAATATATAAAATT-
1 TATAAAAATA-AAAATTA
*
23173271 T-TAAAATATAAAAGAATA
1 TATAAAA-ATAAAA-ATTA
*
23173289 CATAAAAATAAAAATTA
1 TATAAAAATAAAAATTA
23173306 TATAAAAAT
1 TATAAAAAT
23173315 CTTATTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.20
17 17 0.49
18 6 0.17
19 5 0.14
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
TATAAAAATAAAAATTA
Found at i:23176660 original size:11 final size:10
Alignment explanation
Indices: 23176630--23176656 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
23176620 AGTAATTTAT
23176630 GCCAAAAGAA
1 GCCAAAAGAA
23176640 GCCAAAAGAA
1 GCCAAAAGAA
23176650 GCCAAAA
1 GCCAAAA
23176657 AGAACAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.22, G:0.19, T:0.00
Consensus pattern (10 bp):
GCCAAAAGAA
Found at i:23189638 original size:28 final size:30
Alignment explanation
Indices: 23189568--23189647 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 30
23189558 TTTAATTAAT
*
23189568 TTTTAT-AATTTTATACTTTTTTAAAAATAA
1 TTTTATAAATTTTATAC-TTTTAAAAAATAA
**
23189598 TTTTA-ATGCTTTTA-A-TTTTAAAAAATAA
1 TTTTATA-AATTTTATACTTTTAAAAAATAA
*
23189626 TTTTATAAATTTTTAAACTTTT
1 TTTTATAAA-TTTTATACTTTT
23189648 GAAATTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
28 17 0.44
29 6 0.15
30 7 0.18
31 9 0.23
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTATAAATTTTATACTTTTAAAAAATAA
Found at i:23189654 original size:17 final size:17
Alignment explanation
Indices: 23189632--23189668 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
23189622 ATAATTTTAT
*
23189632 AAATTTTTAAACTTTTG
1 AAATTTTTAAAATTTTG
23189649 AAATTTTTAAAATTTTG
1 AAATTTTTAAAATTTTG
23189666 AAA
1 AAA
23189669 AGTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
AAATTTTTAAAATTTTG
Found at i:23191094 original size:25 final size:23
Alignment explanation
Indices: 23191066--23191125 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 23
23191056 ATGTATTTTT
23191066 AATATATTTTAAATAATTATTAAAA
1 AATATATTTT-AAT-ATTATTAAAA
*
23191091 AATAATTATTTTAATATTTTTAAAA
1 AAT-A-TATTTTAATATTATTAAAA
23191116 ATATATATTT
1 A-ATATATTT
23191126 GATGACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.16
25 14 0.45
26 6 0.19
27 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATATTTTAATATTATTAAAA
Found at i:23192335 original size:2 final size:2
Alignment explanation
Indices: 23192328--23192363 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23192318 TGGGATTTAA
23192328 AT AT 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 AT AT
23192364 GCCCTTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23196927 original size:18 final size:18
Alignment explanation
Indices: 23196904--23196940 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23196894 AATAAAGCCT
23196904 TAACCATGCTCAGTAGGC
1 TAACCATGCTCAGTAGGC
23196922 TAACCATGCTCAGTAGGC
1 TAACCATGCTCAGTAGGC
23196940 T
1 T
23196941 TAAGTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (18 bp):
TAACCATGCTCAGTAGGC
Found at i:23204749 original size:40 final size:39
Alignment explanation
Indices: 23204638--23204789 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
23204628 ATAAGCATGT
* * *
23204638 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
*
23204678 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCG-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTA
* *** *
23204718 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACGACTA
* * *
23204758 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
23204790 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
Found at i:23204772 original size:80 final size:80
Alignment explanation
Indices: 23204638--23204789 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
23204628 ATAAGCATGT
* *
23204638 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
23204703 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
23204718 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
23204781 CCCGGATAT
64 CCCGGATAT
23204790 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:23212692 original size:40 final size:40
Alignment explanation
Indices: 23212647--23212776 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
23212637 CGGAATATAA
23212647 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
23212687 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
23212727 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
23212767 CCGGATATAA
1 CCGGATATAA
23212777 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:23212791 original size:40 final size:40
Alignment explanation
Indices: 23212663--23212814 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
23212653 ATAAGCATGT
* * *
23212663 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
23212703 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
23212743 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
23212783 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
23212815 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:23212797 original size:80 final size:80
Alignment explanation
Indices: 23212663--23212814 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
23212653 ATAAGCATGT
* *
23212663 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
23212728 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
23212743 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
23212806 CCCGGATAT
64 CCCGGATAT
23212815 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:23218576 original size:46 final size:46
Alignment explanation
Indices: 23218508--23218644 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
23218498 TATATATACA
* * *
23218508 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
23218554 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
23218600 TATCTCATACACATTTCTCATTAGCCATTCGACCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
23218645 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:23218683 original size:47 final size:47
Alignment explanation
Indices: 23218618--23219004 Score: 495
Period size: 47 Copynumber: 8.1 Consensus size: 47
23218608 ACACATTTCT
* * *
23218618 CATTAGCCATTCGACCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * *
23218665 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
23218712 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
23218759 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
23218806 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * **
23218857 CATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
23218904 CATTGGCCATTCAGCCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * **
23218955 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
23219002 CAT
1 CAT
23219005 AAAATCCTAA
Statistics
Matches: 302, Mismatches: 30, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
47 214 0.71
49 11 0.04
51 77 0.25
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:23218888 original size:98 final size:96
Alignment explanation
Indices: 23218618--23219004 Score: 539
Period size: 98 Copynumber: 4.0 Consensus size: 96
23218608 ACACATTTCT
* * *
23218618 CATTAGCCATTCGACCTTA-C-CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
* * * *
23218681 TTATCTCATATATGCATGTTCACATTCATTA
66 TTATCACACATACGCATGTTCACATTCATCA
** *
23218712 CATTGGCCATTCGGCCTTATCACAC--ATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
1 CATTGGCCATTCGGCCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
23218775 TTATCACACATACGCATGTTCACATTCATCA
66 TTATCACACATACGCATGTTCACATTCATCA
*
23218806 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
23218871 CCTTATCACACATACGCATGTTCACATTCATCA
64 CCTTATCACACATACGCATGTTCACATTCATCA
* *
23218904 CATTGGCCATTCAGCCTTATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * ** **
23218969 CCTTATCTCATATATACACATTCACATTCATCA
64 CCTTATCACACATACGCATGTTCACATTCATCA
23219002 CAT
1 CAT
23219005 AAAATCCTAA
Statistics
Matches: 268, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
94 105 0.39
95 1 0.00
96 3 0.01
98 159 0.59
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACACATACGCATGTTCACATTCATCA
Found at i:23218889 original size:145 final size:142
Alignment explanation
Indices: 23218618--23219004 Score: 555
Period size: 145 Copynumber: 2.7 Consensus size: 142
23218608 ACACATTTCT
* * * *
23218618 CATTAGCCATTCGACCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
23218683 ATCTC--ATATATGCATGTTCACATTCATTACATTGGCCATTCGGCCTTATCACACATACGCATG
66 ATCTCATATATATACA-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
23218746 TTCACATTCATCA
130 TTCACATTCATCA
**
23218759 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
23218824 ATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGGCCTTATCACACATACGCA
66 AT--CTCATATATATACA-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
23218889 TGTTCACATTCATCA
128 TGTTCACATTCATCA
* * *
23218904 CATTGGCCATTCAGCCTTATCACACATATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACAC----ATATACATGTTCACATTCATCACATTGGCCATTCGG
*
23218969 CCTTATCTCATATATACACA-TTCACATTCATCACAT
62 CCTTATCTCATATATATACAGTTCACATTCATCACAT
23219005 AAAATCCTAA
Statistics
Matches: 220, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
141 61 0.28
143 2 0.01
145 107 0.49
147 12 0.05
149 38 0.17
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCTCATATATATACAGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:23223468 original size:33 final size:33
Alignment explanation
Indices: 23223430--23223494 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
23223420 CTTAACAAGG
**
23223430 GTAAGGCTTGGATAAAATTTAACAAAATTTGGA
1 GTAAGGCTTGGATAAAAAATAACAAAATTTGGA
23223463 GTAAGGCTTGGATAAAAAATAACAAAATTTGG
1 GTAAGGCTTGGATAAAAAATAACAAAATTTGG
23223495 CAAAGGTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.28
Consensus pattern (33 bp):
GTAAGGCTTGGATAAAAAATAACAAAATTTGGA
Found at i:23227072 original size:31 final size:31
Alignment explanation
Indices: 23227037--23227112 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
23227027 CATGTGAATG
23227037 ACGAGGCTAGGCTGACAC-GACCGTGTAAACA
1 ACGAGGCTAGGCTGACACTG-CCGTGTAAACA
*
23227068 ACGAGGCTAGGCTGACACTGCCGTGTGAACA
1 ACGAGGCTAGGCTGACACTGCCGTGTAAACA
*
23227099 ATGAGGCTAGGCTG
1 ACGAGGCTAGGCTG
23227113 TGCGCGCAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.33, T:0.16
Consensus pattern (31 bp):
ACGAGGCTAGGCTGACACTGCCGTGTAAACA
Found at i:23230042 original size:55 final size:54
Alignment explanation
Indices: 23229955--23230209 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
23229945 ATTAGGGTTT
* * *
23229955 AAGGATACCATCTACGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * *
23230010 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
23230065 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
23230118 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TAGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
23230167 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
23230210 GTACCCGTGT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 38 0.22
52 7 0.04
53 39 0.23
54 12 0.07
55 70 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:23230278 original size:5 final size:5
Alignment explanation
Indices: 23230268--23230295 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23230258 AGAGAATATC
23230268 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
1 AAGGT AAGGT AAGGT AAGGT AAGGT AAG
23230296 ATGAGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.39, T:0.18
Consensus pattern (5 bp):
AAGGT
Found at i:23230432 original size:16 final size:16
Alignment explanation
Indices: 23230411--23230441 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23230401 ATAAATTTGA
23230411 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
23230427 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
23230442 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:23232440 original size:71 final size:71
Alignment explanation
Indices: 23232353--23232516 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
23232343 GAGATGTATC
23232353 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23232418 AGGACA
66 AGGACA
23232424 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23232489 AGGACA
66 AGGACA
*
23232495 CCATGCAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23232517 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23240578 original size:55 final size:54
Alignment explanation
Indices: 23240468--23240705 Score: 235
Period size: 55 Copynumber: 4.5 Consensus size: 54
23240458 ATTAGGGTTT
* * **
23240468 AAGGATA-CATGTAAGACTATGCCAAGGCATAGTAATTGGTAAGGTTTCTAT--GGC
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGCATTGGTAA-G-TTCTATAAGGC
* *
23240522 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * *
23240577 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
23240630 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
*
23240679 AAGGATACCATGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGCCAAG
23240706 TCATTCCAAG
Statistics
Matches: 157, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
49 25 0.16
52 8 0.05
53 46 0.29
54 16 0.10
55 58 0.37
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:23240673 original size:108 final size:110
Alignment explanation
Indices: 23240475--23240674 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 110
23240465 TTTAAGGATA
* * *
23240475 CATGTAAGACTATGCCAAGGCATAGTAATTGGTAAGGTTTCTATGGCAAGGATACCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATAGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
*
23240540 CATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
* *
23240585 CATGTAAGACCATGCCAAGGCAT-GGCATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATAGGAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGA
* *
23240647 CCATGTCGAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
23240675 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 8 0.10
110 22 0.27
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATAGGAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:23247751 original size:17 final size:16
Alignment explanation
Indices: 23247726--23247759 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23247716 GACTGACTTG
*
23247726 GGCCGTGTGGGCCACAC
1 GGCCATGTGGGCC-CAC
23247743 GGCCATGTGGGCCCAC
1 GGCCATGTGGGCCCAC
23247759 G
1 G
23247760 ACGTGTGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.12, C:0.35, G:0.41, T:0.12
Consensus pattern (16 bp):
GGCCATGTGGGCCCAC
Found at i:23256658 original size:18 final size:19
Alignment explanation
Indices: 23256627--23256665 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23256617 CTTTAAACTA
* *
23256627 AATTTAACCTCCTATTTTC
1 AATTAAACCTCCTAATTTC
23256646 AATTAAACC-CCTAATTTC
1 AATTAAACCTCCTAATTTC
23256664 AA
1 AA
23256666 AATTTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAACCTCCTAATTTC
Found at i:23263976 original size:37 final size:37
Alignment explanation
Indices: 23263917--23264025 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
23263907 AGCTCAGACG
* *
23263917 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
23263954 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23263991 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
23264026 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:23264288 original size:98 final size:98
Alignment explanation
Indices: 23264172--23264615 Score: 722
Period size: 98 Copynumber: 4.6 Consensus size: 98
23264162 GCACATCGCC
*
23264172 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
23264237 -GACCATTCGGCTTTACCACATATGCATATCTCA
66 AG-CCATTCGGCTTTACCACATATACATATCTCA
*
23264270 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
23264333 AGCCATTCGGCTTTACCACATATACATATCTCATA
66 AGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
23264368 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATACATATTTCACAT
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAT
23264430 TAGCCATTCGGCTTTACCACATATACATATCTCA
65 TAGCCATTCGGCTTTACCACATATACATATCTCA
23264464 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
* *
23264529 -GACCATTCAGCTTTACCACATATGCATATCTCA
66 AG-CCATTCGGCTTTACCACATATACATATCTCA
23264562 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
23264616 CACATTCACA
Statistics
Matches: 328, Mismatches: 10, Indels: 16
0.93 0.03 0.05
Matches are distributed among these distances:
96 88 0.27
97 4 0.01
98 236 0.72
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
AGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:23264296 original size:48 final size:48
Alignment explanation
Indices: 23264172--23264611 Score: 706
Period size: 48 Copynumber: 9.0 Consensus size: 48
23264162 GCACATCGCC
*
23264172 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
23264222 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
23264270 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
23264318 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
23264368 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
23264416 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
23264464 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
23264514 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
23264562 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
23264610 TA
1 TA
23264612 TATACACATT
Statistics
Matches: 365, Mismatches: 15, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
48 230 0.63
49 6 0.02
50 129 0.35
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:23264338 original size:146 final size:146
Alignment explanation
Indices: 23264172--23264611 Score: 862
Period size: 146 Copynumber: 3.0 Consensus size: 146
23264162 GCACATCGCC
*
23264172 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
23264237 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
66 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
23264302 ACATATACATATCTCA
131 ACATATACATATCTCA
23264318 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
23264383 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
66 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
23264448 ACATATACATATCTCA
131 ACATATACATATCTCA
23264464 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
23264529 GACCATTCAGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
66 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
23264594 ACATATACATATCTCA
131 ACATATACATATCTCA
23264610 TA
1 TA
23264612 TATACACATT
Statistics
Matches: 292, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 292 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (146 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
ACATATACATATCTCA
Found at i:23272887 original size:29 final size:29
Alignment explanation
Indices: 23272854--23273013 Score: 189
Period size: 29 Copynumber: 5.5 Consensus size: 29
23272844 GTGACGAGAT
23272854 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23272883 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
23272912 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * ***
23272941 CGGCACTAGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
23272970 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
23272999 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
23273014 GAAATCGAGT
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
28 2 0.02
29 110 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:23285719 original size:47 final size:47
Alignment explanation
Indices: 23285664--23285768 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
23285654 TAGTATTAAT
*
23285664 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
23285711 TATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
23285758 AATGTGATAAG
1 TATGTGATAAG
23285769 CCCCGAAGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:23287845 original size:40 final size:40
Alignment explanation
Indices: 23287801--23288075 Score: 453
Period size: 40 Copynumber: 6.9 Consensus size: 40
23287791 CTCGACGATG
*
23287801 ATCCGGGCAAAATCCCGAAGGGCATTCGTACCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
23287841 ATCCGGGC-AAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
23287880 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* * *
23287920 ATCAGGGCAAAATCCCGAAGGGCATTCATACCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
23287960 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCAGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* * *
23288000 ATCCGGGCTAAATCCCGAAGGGTATTCGTGCCGATGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
23288040 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTG
23288076 ATGTGTATTC
Statistics
Matches: 219, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 38 0.17
40 181 0.83
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:23291130 original size:47 final size:47
Alignment explanation
Indices: 23291061--23291165 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
23291051 TACTATTAAT
*
23291061 TATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
23291108 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
23291155 AATGTGATAAG
1 TATGTGATAAG
23291166 TCCCAAAGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:23301528 original size:27 final size:28
Alignment explanation
Indices: 23301461--23301529 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
23301451 AATGAGATTG
*
23301461 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTGAATTGTATA
* *
23301489 CCACTAAGTGTGCGAGTTGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTGAAT-TGTATA
23301516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23301530 GACTTACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 14 0.39
28 21 0.58
29 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTGAATTGTATA
Found at i:23304006 original size:46 final size:46
Alignment explanation
Indices: 23303956--23304131 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
23303946 TGGTTGAGCA
23303956 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23304002 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23304047 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23304095 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23304132 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23304112 original size:93 final size:93
Alignment explanation
Indices: 23303953--23304123 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23303943 GGATGGTTGA
* *
23303953 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23304018 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23304046 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23304111 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23304124 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23307091 original size:15 final size:15
Alignment explanation
Indices: 23307052--23307130 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
23307042 GTATCTTGGG
*
23307052 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
23307067 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
23307082 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
23307096 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
23307111 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
23307125 TTTCTT
1 TTTCTT
23307131 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:23307115 original size:29 final size:29
Alignment explanation
Indices: 23307043--23307129 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
23307033 CATAGTATCG
* * * *
23307043 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
23307073 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
23307102 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
23307130 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:23309541 original size:46 final size:46
Alignment explanation
Indices: 23309491--23309666 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
23309481 TGGTTGAGCA
23309491 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23309537 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23309582 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
23309630 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23309667 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23309647 original size:93 final size:93
Alignment explanation
Indices: 23309488--23309658 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23309478 GGATGGTTGA
* *
23309488 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23309553 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23309581 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23309646 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23309659 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23311014 original size:31 final size:31
Alignment explanation
Indices: 23310968--23311048 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
23310958 GTACGGGGTG
*
23310968 TTACAGGGCCGAAGCCTTTTCATATTTCATA
1 TTACTGGGCCGAAGCCTTTTCATATTTCATA
*
23310999 TTACTGGGCCAAAGCCTTTTCATATTTCATA
1 TTACTGGGCCGAAGCCTTTTCATATTTCATA
23311030 TTACTGGGCCGAAGCCTTT
1 TTACTGGGCCGAAGCCTTT
23311049 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTACTGGGCCGAAGCCTTTTCATATTTCATA
Found at i:23311291 original size:24 final size:24
Alignment explanation
Indices: 23311240--23311382 Score: 173
Period size: 24 Copynumber: 6.0 Consensus size: 24
23311230 GCTTTATCAT
*
23311240 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
23311265 ATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
23311289 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
23311312 ATAACTGGGGCATAATCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
23311336 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
23311360 ATAACTAGGGCACAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
23311383 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
23 22 0.21
24 72 0.69
25 11 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:23311319 original size:47 final size:48
Alignment explanation
Indices: 23311240--23311381 Score: 180
Period size: 47 Copynumber: 3.0 Consensus size: 48
23311230 GCTTTATCAT
*
23311240 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAATCCCTTTCA
* **
23311289 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAATCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAATCCCTTTCA
* * * *
23311336 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCACAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAATCCCTTT
23311382 TTCACTTCCT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
47 44 0.52
48 28 0.33
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAATCCCTTTCA
Found at i:23311457 original size:20 final size:20
Alignment explanation
Indices: 23311432--23311492 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
23311422 TTATGATTAC
23311432 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
23311452 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* * *
23311472 GTCATGTGCATCTGATACAT
1 ATCATGTGCATATCATACAT
23311492 A
1 A
23311493 CCATATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:23311567 original size:25 final size:25
Alignment explanation
Indices: 23311535--23311582 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23311525 ATACATAAAC
* * *
23311535 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
23311560 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
23311583 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:23316694 original size:46 final size:46
Alignment explanation
Indices: 23316641--23316823 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
23316631 TATATATACA
* * * *
23316641 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
23316687 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
23316733 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
23316779 CATCTCATACACATTTCGCATTAGCCATTCAGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
23316824 ATACACTTCC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:23316868 original size:47 final size:47
Alignment explanation
Indices: 23316797--23317174 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
23316787 ACACATTTCG
* * * * * * *
23316797 CATTAGCCATTCAGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
23316844 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
23316891 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
23316938 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
23316985 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
23317032 CATTGGCCATTCGGCCTTATCACATATATGCATG-TCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
23317078 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
23317125 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
23317172 CAT
1 CAT
23317175 AAAATCCTAA
Statistics
Matches: 312, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 46 0.15
47 266 0.85
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:23317034 original size:23 final size:23
Alignment explanation
Indices: 23316960--23317034 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
23316950 GGCCTTATCA
23316960 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
23316983 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
23317005 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
23317030 CACAT
1 CACAT
23317035 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:23317206 original size:140 final size:137
Alignment explanation
Indices: 23316837--23317195 Score: 400
Period size: 140 Copynumber: 2.6 Consensus size: 137
23316827 CACTTCCACG
* * * ** ** *
23316837 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * *
23316902 CGGCCTTATCACATATATGCATATTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
65 --GCCTAATCAAATATATGCAT-GTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
23316967 GCATGTTCACA
127 GCATGTTCACA
* ** ** *
23316978 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * * *
23317043 CGGCCTTATCACATATATGCATGTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
65 --GCCTAATCAAATATATGCATGTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATG
23317108 CATGTTCACA
128 CATGTTCACA
* * *
23317118 TTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACA-T-AAAAT-
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
23317180 CCTAAATCAAAATATA
66 CCT-AATC-AAATATA
23317196 AATTTTCATG
Statistics
Matches: 200, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
134 3 0.01
135 3 0.01
136 6 0.03
137 2 0.01
139 1 0.00
140 100 0.50
141 85 0.43
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (137 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
CCTAATCAAATATATGCATGTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAT
GTTCACA
Found at i:23319820 original size:15 final size:15
Alignment explanation
Indices: 23319800--23319855 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
23319790 GTATCTTGGG
23319800 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
23319815 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
23319830 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
23319845 TTTCTTTATTC
1 TTTCTTTATTC
23319856 GGTTTTATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:23324196 original size:15 final size:15
Alignment explanation
Indices: 23324165--23324197 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
23324155 TAAATTACGA
23324165 AAATTTCACAAATAT
1 AAATTTCACAAATAT
23324180 AAATTCTCACAAA-AT
1 AAATT-TCACAAATAT
23324195 AAA
1 AAA
23324198 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTTCACAAATAT
Done.