Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 70 of 205
Found at i:20876923 original size:38 final size:38
Alignment explanation
Indices: 20876880--20876955 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
20876870 TGGCGACATT
* * *
20876880 ATGAAAGTGGTTATTTACAGGCTCTACGAAGCGACACC
1 ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
* *
20876918 ATGAAAATGGTTATCTATAGGCTCTACGGAGCAACACC
1 ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
20876956 TTGGAAGAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (38 bp):
ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
Found at i:20887741 original size:12 final size:13
Alignment explanation
Indices: 20887724--20887752 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
20887714 TTTCACATTT
20887724 TTTTATTTTCA-A
1 TTTTATTTTCACA
20887736 TTTTATTTTCACA
1 TTTTATTTTCACA
20887749 TTTT
1 TTTT
20887753 TCTGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTTTCACA
Found at i:20897763 original size:15 final size:15
Alignment explanation
Indices: 20897743--20897773 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20897733 CTTGAATTAA
20897743 TATGTCATAATATAG
1 TATGTCATAATATAG
20897758 TATGTCATAATATAG
1 TATGTCATAATATAG
20897773 T
1 T
20897774 TCTCAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TATGTCATAATATAG
Found at i:20903047 original size:99 final size:99
Alignment explanation
Indices: 20902846--20903088 Score: 339
Period size: 99 Copynumber: 2.5 Consensus size: 99
20902836 ATCTGTTTAA
* * * *
20902846 AATGTCAGGGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCTGCTTAGGAATA
1 AATGTCAGGGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCTACTTAGGAATA
* * *
20902911 AGATTTGCCGTTGTGGCCTCAATCTTTTAATTGC
66 AGATCTGCCGTCGTGGCCTCAATCTTTTAATTAC
* * *
20902945 AATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCA-TTACTT-GGAAGT
1 AATGTCAGGGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCTACTTAGGAA-T
20903008 AAGATCTGCCGTCGTGGCCTCAATCTTTTAAATTAC
65 AAGATCTGCCGTCGTGGCCTCAATCTTTT-AATTAC
*
20903044 AATGTC-GAGGGAGTGAGATCCGCCATTGTAGCTTCAATCTGTTCC
1 AATGTCAG-GGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCC
20903089 TCTAGATCGC
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
97 4 0.03
98 33 0.26
99 92 0.71
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
AATGTCAGGGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCTACTTAGGAATA
AGATCTGCCGTCGTGGCCTCAATCTTTTAATTAC
Found at i:20903227 original size:166 final size:164
Alignment explanation
Indices: 20902934--20903252 Score: 489
Period size: 166 Copynumber: 1.9 Consensus size: 164
20902924 TGGCCTCAAT
20902934 CTTTTAATTGCAATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTA
1 CTTTTAATTGCAATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTA
* *
20902999 CTTGGAAGTAAGATCTGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGGAGTGAGATC
66 CTAGGAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGGAGTGAGATC
*
20903064 CGCCATTGTAGCTTCAATCTGTTCCTCTAGATCG
131 CACCATTGTAGCTTCAATCTGTTCCTCTAGATCG
* * *
20903098 CTTTTAAATTGCAATGTC-GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTGCAT
1 CTTTT-AATTGCAATGTCAGGGG-AGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCAT
* * *
20903162 TGCTAAGTAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCG-GGGAAGTGA
64 TACT-AGGAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGG-AGTGA
* *
20903226 GATTCACCGTTGTAGCTTCAATCTGTT
127 GATCCACCATTGTAGCTTCAATCTGTT
20903253 TTGCTACATT
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
164 9 0.06
165 56 0.40
166 75 0.54
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (164 bp):
CTTTTAATTGCAATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTA
CTAGGAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGGAGTGAGATC
CACCATTGTAGCTTCAATCTGTTCCTCTAGATCG
Found at i:20903293 original size:49 final size:48
Alignment explanation
Indices: 20903235--20903398 Score: 156
Period size: 49 Copynumber: 3.4 Consensus size: 48
20903225 AGATTCACCG
20903235 TTGTAGCTTCAATCTGTTTTGCTACATTGCCTGAAAGTAAGATTTTCCA
1 TTGTAGCTTCAATCT-TTTTGCTACATTGCCTGAAAGTAAGATTTTCCA
* * * * * * ** *
20903284 TTGTGGCTTCGATC-TTTT--TA-ATTGCAATGGGGAAGTGAGACTCGCCG
1 TTGTAGCTTCAATCTTTTTGCTACATTGC-CT--GAAAGTAAGATTTTCCA
20903331 TTGTAGCTTCAATCTGTTTTGCTACATTGCCTGAAAGTAAGATTTTCCA
1 TTGTAGCTTCAATCT-TTTTGCTACATTGCCTGAAAGTAAGATTTTCCA
* *
20903380 TTGTGGCTTCGATCTTTTT
1 TTGTAGCTTCAATCTTTTT
20903399 AATTGCAATG
Statistics
Matches: 87, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
44 5 0.06
45 3 0.03
47 27 0.31
48 4 0.05
49 40 0.46
51 3 0.03
52 5 0.06
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (48 bp):
TTGTAGCTTCAATCTTTTTGCTACATTGCCTGAAAGTAAGATTTTCCA
Found at i:20903303 original size:100 final size:98
Alignment explanation
Indices: 20903098--20903702 Score: 634
Period size: 96 Copynumber: 6.2 Consensus size: 98
20903088 CTCTAGATCG
* * *
20903098 CTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTGCATT
1 CTTTTTAATTGCAATGT-GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCATC
* * * * *
20903163 G-CTAAGTAAGTAAGATCCGCCGTCGTGGCCTCAAT
65 GCCT--GAAAGTAAGATTCGCCGTTGTGGCTTCGAT
* * * *
20903198 CTTTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTTTGCTACATT
1 CTTTTTAATTGCAATGT-GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCATC
** *
20903263 GCCTGAAAGTAAGATTTTCCATTGTGGCTTCGAT
65 GCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
* * *
20903297 CTTTTTAATTGCAA--TGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTTTGCTACATTG
1 CTTTTTAATTGCAATGTGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCATCG
** *
20903360 CCTGAAAGTAAGATTTTCCATTGTGGCTTCGAT
66 CCTGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
* * * * * ** *
20903393 CTTTTTAATTGCAATGTTAGGGAAGTAAGATTCTCTGTTGTACCTTCAATCTGTTCCGTTGCATC
1 CTTTTTAATTGCAATG-TGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCATC
* * * * * *
20903458 GCCAATG-ATGTGAGACTCGCTGTTGTAGCTTCAAT
65 GCC--TGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
* * * * * ** *
20903493 CTATTTGACTGCAATGTTGGGGAAGTGAGACTT-GCTGTTGTAGCTTCAATCTGTTCTATTGCGT
1 CTTTTTAATTGCAATG-TGGGGAAGTGAGA-TTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCAT
20903557 CGCCT-AGAAGTAAGATTCGCCGTTGTGGCTTCGAT
64 CGCCTGA-AAGTAAGATTCGCCGTTGTGGCTTCGAT
* * *
20903592 C-TTTTAGATTGCAA--TGGGGAAGTGAGACTCACCGTTGTAGCTTCAATCTGTTATGCTGCATC
1 CTTTTTA-ATTGCAATGTGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCATC
20903654 GCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
65 GCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
20903688 CTTTTTAATTGCAAT
1 CTTTTTAATTGCAAT
20903703 CTATGGTTAC
Statistics
Matches: 431, Mismatches: 60, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.00
96 172 0.40
97 7 0.02
98 4 0.01
99 104 0.24
100 137 0.32
101 6 0.01
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (98 bp):
CTTTTTAATTGCAATGTGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTTGCTGCATCG
CCTGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
Found at i:20903588 original size:49 final size:48
Alignment explanation
Indices: 20903119--20903689 Score: 155
Period size: 50 Copynumber: 11.6 Consensus size: 48
20903109 CAATGTCGGG
* ** *
20903119 GAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTT-TCGCTGCATTG-CT
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTAT-ATTGCATCGCCT
* * * * * * **
20903166 AAGTAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAAT-GTCGGG
1 --G-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGC-ATCG-C-CT
* * * ** * *
20903219 GAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTTTGCTACATTGCCT
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGCATCGCCT
** * * * * **
20903267 GAAAGTAAGATTTTCCATTGTGGCTTCGATCT-TTTTAATTGCAAT-G-GG
1 G-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTAT-ATTGC-ATCGCCT
* * * ** * *
20903315 GAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTTTGCTACATTGCCT
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGCATCGCCT
** * * * * *
20903363 GAAAGTAAGATTTTCCATTGTGGCTTCGATCT-TTTTAATTGCAAT-G-TT
1 G-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTAT-ATTGC-ATCGCCT
* * * ***
20903411 AGGGAAGTAAGATTCTCTGTTGTACCTTCAATCTGTTCCGTTGCATCGCCAAT
1 ---GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGCATCGCC--T
* * * * * * *
20903464 GATGTGAGACTCGCTGTTGTAGCTTCAATCTATT-TGACTGCAAT-G-TT
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTAT-ATTGC-ATCGCCT
* * * *
20903511 GGGGAAGTGAGACTT-GCTGTTGTAGCTTCAATCTGTTCTATTGCGTCGCCT
1 ---GAAGTAAGA-TTCGCCGTTGTAGCTTCAATCTGTTATATTGCATCGCCT
* * * * **
20903562 AGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAGATTGCAAT-G-GG
1 -GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGC-ATCGCCT
* * * **
20903610 GAAGTGAGACTCACCGTTGTAGCTTCAATCTGTTATGCTGCATCGCCT
1 GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGCATCGCCT
* *
20903658 GAAAGTAAGATTCGCCGTTGTGGCTTCGATCT
1 G-AAGTAAGATTCGCCGTTGTAGCTTCAATCT
20903690 TTTTAATTGC
Statistics
Matches: 372, Mismatches: 112, Indels: 76
0.66 0.20 0.14
Matches are distributed among these distances:
46 4 0.01
47 60 0.16
48 19 0.05
49 117 0.31
50 160 0.43
51 11 0.03
53 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (48 bp):
GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTATATTGCATCGCCT
Found at i:20912680 original size:21 final size:22
Alignment explanation
Indices: 20912646--20912686 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20912636 TCGCAATGCG
*
20912646 TCTTCAAGTTCTTCTATCTTTT
1 TCTTCAAGTTCTTCAATCTTTT
20912668 TCTTCAA-TTCTTCAATCTT
1 TCTTCAAGTTCTTCAATCTT
20912687 GCTCAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.24, G:0.02, T:0.56
Consensus pattern (22 bp):
TCTTCAAGTTCTTCAATCTTTT
Found at i:20914280 original size:675 final size:675
Alignment explanation
Indices: 20912990--20914339 Score: 2655
Period size: 675 Copynumber: 2.0 Consensus size: 675
20912980 CCTCTTCAGC
20912990 CTTGTTCTTCCCTTTCCTCAACTTTTCAGCTTCCAACTTGTGGATATCGACATCTAGTCCCAAAC
1 CTTGTTCTTCCCTTTCCTCAACTTTTCAGCTTCCAACTTGTGGATATCGACATCTAGTCCCAAAC
20913055 GCATCTTTTCCTCTTCTAGCTGCTCTATCTTCCTTTCCAATTCCAAACTTCGTTTTTCAAAGTCC
66 GCATCTTTTCCTCTTCTAGCTGCTCTATCTTCCTTTCCAATTCCAAACTTCGTTTTTCAAAGTCC
20913120 TGTTTGATGATCTCTAATTCTGATGGAACTATTTGCAAATGCTCCTCTATGGATCAAACGCAATC
131 TGTTTGATGATCTCTAATTCTGATGGAACTATTTGCAAATGCTCCTCTATGGATCAAACGCAATC
*
20913185 TTCTCTTGGCCCGGGGATATTATCATTAATCCTCTTACTTCGCCATCCATGATACTCGGGGGTCG
196 TTCTCTTGGCCCGAGGATATTATCATTAATCCTCTTACTTCGCCATCCATGATACTCGGGGGTCG
20913250 TCATCGCTCCCACAGTAAATCGTTTCATCCGATGAGTTTGCCTCCAAGCATTGGTCATCTCTCGA
261 TCATCGCTCCCACAGTAAATCGTTTCATCCGATGAGTTTGCCTCCAAGCATTGGTCATCTCTCGA
20913315 ATCTTCTTCTTGTAACCATCATCTTTATACGAAAACTCGCACTGAGCTAGTCCTTGGGTGGCAGG
326 ATCTTCTTCTTGTAACCATCATCTTTATACGAAAACTCGCACTGAGCTAGTCCTTGGGTGGCAGG
20913380 CACGAACTGTCTTGACCCATATTGTTTCAGTACCATCAATGGCGCATAGCCAACAGCTCCCCAAA
391 CACGAACTGTCTTGACCCATATTGTTTCAGTACCATCAATGGCGCATAGCCAACAGCTCCCCAAA
*
20913445 TCCCAAGTAAAGGGACCCAGTCGAAATTCCCACATCGATACAAGATTTCATCGGGCACCATCCAA
456 TCCCAAGTAAAGGGACCCAGTCGAAATTCCCACATCGATACAAGATCTCATCGGGCACCATCCAA
*
20913510 GGAGCTTTCCATTCAACATCTTCATCTTTGAGATTTTGAAGAATCGCTATCCATTTTTCCACGGT
521 GGAGCTTTCCATTCAACATCTTCATCTTTGAGATTTTGAAGAATCGCTATCCATCTTTCCACGGT
20913575 AATGTTGTCACGTCTCGGCATGGCTGCTAATTCCTTTAATGGAGAATAATTCTTGGAAAATACTC
586 AATGTTGTCACGTCTCGGCATGGCTGCTAATTCCTTTAATGGAGAATAATTCTTGGAAAATACTC
*
20913640 GGTAAGAGACTTTATCCACTTTCTA
651 GGTAAGAAACTTTATCCACTTTCTA
20913665 CTTGTTCTTCCCTTTCCTCAACTTTTCAGCTTCCAACTTGTGGATATCGACATCTAGTCCCAAAC
1 CTTGTTCTTCCCTTTCCTCAACTTTTCAGCTTCCAACTTGTGGATATCGACATCTAGTCCCAAAC
20913730 GCATCTTTTCCTCTTCTAGCTGCTCTATCTTCCTTTCCAATTCCAAACTTCGTTTTTCAAAGTCC
66 GCATCTTTTCCTCTTCTAGCTGCTCTATCTTCCTTTCCAATTCCAAACTTCGTTTTTCAAAGTCC
20913795 TGTTTGATGATCTCTAATTCTGATGGAACTATTTGCAAATGCTCCTCTATGGATCAAACGCAATC
131 TGTTTGATGATCTCTAATTCTGATGGAACTATTTGCAAATGCTCCTCTATGGATCAAACGCAATC
20913860 TTCTCTTGGCCCGAGGATATTATCATTAATCCTCTTACTTCGCCATCCATGATACTCGGGGGTCG
196 TTCTCTTGGCCCGAGGATATTATCATTAATCCTCTTACTTCGCCATCCATGATACTCGGGGGTCG
20913925 TCATCGCTCCCACAGTAAATCGTTTCATCCGATGAGTTTGCCTCCAAGCATTGGTCATCTCTCGA
261 TCATCGCTCCCACAGTAAATCGTTTCATCCGATGAGTTTGCCTCCAAGCATTGGTCATCTCTCGA
20913990 ATCTTCTTCTTGTAACCATCATCTTTATACGAAAACTCGCACTGAGCTAGTCCTTGGGTGGCAGG
326 ATCTTCTTCTTGTAACCATCATCTTTATACGAAAACTCGCACTGAGCTAGTCCTTGGGTGGCAGG
20914055 CACGAACTGTCTTGACCCATATTGTTTCAGTACCATCAATGGCGCATAGCCAACAGCTCCCCAAA
391 CACGAACTGTCTTGACCCATATTGTTTCAGTACCATCAATGGCGCATAGCCAACAGCTCCCCAAA
20914120 TCCCAAGTAAAGGGACCCAGTCGAAATTCCCACATCGATACAAGATCTCATCGGGCACCATCCAA
456 TCCCAAGTAAAGGGACCCAGTCGAAATTCCCACATCGATACAAGATCTCATCGGGCACCATCCAA
20914185 GGAGCTTTCCATTCAACATCTTCATCTTTGAGATTTTGAAGAATCGCTATCCATCTTTCCACGGT
521 GGAGCTTTCCATTCAACATCTTCATCTTTGAGATTTTGAAGAATCGCTATCCATCTTTCCACGGT
*
20914250 AATGTTGTCACGTCTCGGCATGGCTGCTAATTCCTTTAATGGAGAATAATTCTTGGAGAATACTC
586 AATGTTGTCACGTCTCGGCATGGCTGCTAATTCCTTTAATGGAGAATAATTCTTGGAAAATACTC
20914315 GGTAAGAAACTTTATCCACTTTCTA
651 GGTAAGAAACTTTATCCACTTTCTA
20914340 GAAGTGACTG
Statistics
Matches: 670, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
675 670 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (675 bp):
CTTGTTCTTCCCTTTCCTCAACTTTTCAGCTTCCAACTTGTGGATATCGACATCTAGTCCCAAAC
GCATCTTTTCCTCTTCTAGCTGCTCTATCTTCCTTTCCAATTCCAAACTTCGTTTTTCAAAGTCC
TGTTTGATGATCTCTAATTCTGATGGAACTATTTGCAAATGCTCCTCTATGGATCAAACGCAATC
TTCTCTTGGCCCGAGGATATTATCATTAATCCTCTTACTTCGCCATCCATGATACTCGGGGGTCG
TCATCGCTCCCACAGTAAATCGTTTCATCCGATGAGTTTGCCTCCAAGCATTGGTCATCTCTCGA
ATCTTCTTCTTGTAACCATCATCTTTATACGAAAACTCGCACTGAGCTAGTCCTTGGGTGGCAGG
CACGAACTGTCTTGACCCATATTGTTTCAGTACCATCAATGGCGCATAGCCAACAGCTCCCCAAA
TCCCAAGTAAAGGGACCCAGTCGAAATTCCCACATCGATACAAGATCTCATCGGGCACCATCCAA
GGAGCTTTCCATTCAACATCTTCATCTTTGAGATTTTGAAGAATCGCTATCCATCTTTCCACGGT
AATGTTGTCACGTCTCGGCATGGCTGCTAATTCCTTTAATGGAGAATAATTCTTGGAAAATACTC
GGTAAGAAACTTTATCCACTTTCTA
Found at i:20917754 original size:14 final size:15
Alignment explanation
Indices: 20917722--20917757 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
20917712 TTTTATAAAA
*
20917722 TTGGGCTTGGGTGTT
1 TTGGGCTTCGGTGTT
20917737 TTGGGCTTCGGT-TT
1 TTGGGCTTCGGTGTT
20917751 TTGGGCT
1 TTGGGCT
20917758 GTATTTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.00, C:0.11, G:0.42, T:0.47
Consensus pattern (15 bp):
TTGGGCTTCGGTGTT
Found at i:20918157 original size:23 final size:20
Alignment explanation
Indices: 20918130--20918182 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
20918120 TTTAAAAAGA
20918130 ACAATATTAAGGTTTATTTATT
1 ACAATATTAA-GTTTA-TTATT
* *
20918152 GACAATAATAATTTTATTATT
1 -ACAATATTAAGTTTATTATT
*
20918173 AAAATATTAA
1 ACAATATTAA
20918183 TGTAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 4 0.15
23 9 0.35
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (20 bp):
ACAATATTAAGTTTATTATT
Found at i:20918499 original size:13 final size:13
Alignment explanation
Indices: 20918477--20918506 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20918467 AAAAATAAAA
20918477 AAAATATTATTTT
1 AAAATATTATTTT
*
20918490 AAAATTTTATTTT
1 AAAATATTATTTT
20918503 AAAA
1 AAAA
20918507 ATCACATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAAATATTATTTT
Found at i:20918642 original size:10 final size:10
Alignment explanation
Indices: 20918629--20918705 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
20918619 TATTAAAATT
20918629 AAAATTAATA
1 AAAATTAATA
*
20918639 AAAAATAATTA
1 AAAATTAA-TA
20918650 TAAGAAGTT-ATA
1 -AA-AA-TTAATA
* *
20918662 AAAACTAATT
1 AAAATTAATA
20918672 AAAATTAATA
1 AAAATTAATA
20918682 AAATATT--TA
1 AAA-ATTAATA
*
20918691 AAAATTATTA
1 AAAATTAATA
20918701 AAAAT
1 AAAAT
20918706 CACGCTTGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.06
9 6 0.11
10 29 0.55
11 7 0.13
12 4 0.08
13 3 0.06
14 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAATTAATA
Found at i:20923462 original size:8 final size:9
Alignment explanation
Indices: 20923439--20923465 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
20923429 ATTTCCCTTG
20923439 GATTTTTGT
1 GATTTTTGT
20923448 GATTTTTGT
1 GATTTTTGT
20923457 GATTTTTGT
1 GATTTTTGT
20923466 CTTAAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.67
Consensus pattern (9 bp):
GATTTTTGT
Found at i:20923996 original size:46 final size:46
Alignment explanation
Indices: 20923904--20924003 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
20923894 GGCGGTTTAT
* * *
20923904 CCACAT-T-TTTGTCTGGTAGCTTAATTGCAATTATAGTGGCTTGA
1 CCACATATATTTGTCTGGCAGCTTAACTGCAATTACAGTGGCTTGA
*
20923948 CCACATATATTTGTTCTGGCAGCTTACCTGCAA-TACAGTGG-TTCGA
1 CCACATATATTTG-TCTGGCAGCTTAACTGCAATTACAGTGGCTT-GA
*
20923994 CCACACATAT
1 CCACATATAT
20924004 ATTATGATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
44 6 0.13
45 3 0.06
46 22 0.47
47 16 0.34
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (46 bp):
CCACATATATTTGTCTGGCAGCTTAACTGCAATTACAGTGGCTTGA
Found at i:20926458 original size:23 final size:23
Alignment explanation
Indices: 20926423--20926498 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
20926413 AATGTTGTTG
*
20926423 ATCAATGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTTAGCTACAT
*
20926446 TTCAGTGGTAGC--TACGACTACAT
1 ATCAGTGGTAGCTTTA-G-CTACAT
* **
20926469 ATCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTTAGCTACAT
20926492 ATCAGTG
1 ATCAGTG
20926499 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 39 0.91
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTTAGCTACAT
Found at i:20933607 original size:18 final size:17
Alignment explanation
Indices: 20933579--20933622 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
20933569 TATATTTTTA
20933579 TGAATTGTGAATT-ATAT
1 TGAA-TGTGAATTAATAT
20933596 GTGATATGTGAATTAATAT
1 -TGA-ATGTGAATTAATAT
20933615 TGAATGTG
1 TGAATGTG
20933623 GAAGGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TGAATGTGAATTAATAT
Found at i:20933874 original size:23 final size:23
Alignment explanation
Indices: 20933841--20933916 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
20933831 AGTGTTGTTG
20933841 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * ** *
20933864 TTGAGTGGTAGCTAGGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
20933887 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20933910 ATCAGTG
1 ATCAGTG
20933917 TGGCACTTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20935653 original size:23 final size:23
Alignment explanation
Indices: 20935627--20935702 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
20935617 ATAAGTGTCA
* *
20935627 CACTGATATATAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20935650 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20935673 CACTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
20935696 CACTGAT
1 CACTGAT
20935703 CAATAACACT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20938556 original size:16 final size:16
Alignment explanation
Indices: 20938523--20938563 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20938513 CGTGGTTAAA
*
20938523 TATTATTATTATTCTT
1 TATTATTATTATTATT
20938539 TATTATTATT-TCTATT
1 TATTATTATTAT-TATT
20938555 TATT-TTATT
1 TATTATTATT
20938564 GTTCGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:20950954 original size:87 final size:87
Alignment explanation
Indices: 20950852--20951027 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
20950842 AGAGAAGTCG
* *
20950852 GATCATGACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAATGAGACTTTTCTTT
1 GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
20950917 TAAACTAAGAGAAAATGCCCTA
66 TAAACTAAGAGAAAATGCCCTA
* *
20950939 GATCATAACAGCTAACACAAATGCCGAATCACATTGTCGATGGTGAATAAAGGGGACTTTTCTTT
1 GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
20951004 TAAACTAAGAGAAAATGCCCTA
66 TAAACTAAGAGAAAATGCCCTA
20951026 GA
1 GA
20951028 CAAATATGAC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (87 bp):
GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
TAAACTAAGAGAAAATGCCCTA
Found at i:20951150 original size:16 final size:16
Alignment explanation
Indices: 20951124--20951163 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
20951114 GGTTTGGGTG
*
20951124 GATTATTTCGAGTT-T
1 GATTTTTTCGAGTTAT
20951139 GAGTTTTTTCGAGTTAT
1 GA-TTTTTTCGAGTTAT
20951156 GATTTTTT
1 GATTTTTT
20951164 TAGGTTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (16 bp):
GATTTTTTCGAGTTAT
Found at i:20959301 original size:6 final size:6
Alignment explanation
Indices: 20959290--20959319 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
20959280 TAGAAACATA
20959290 AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
20959320 TTAGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:20977692 original size:46 final size:45
Alignment explanation
Indices: 20977640--20977727 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 45
20977630 GACTCCATGG
20977640 ATTTTGA-AA-TTATA-TATTTTAACATGATTTTTAATATTTTTTAATA
1 ATTTTGATAATTTATACTATTTTAA-AT--TTTTTAA-ATTTTTTAATA
20977686 ATTTTGATAATTTATATCTATTTTAAATTTTTTAAATTTTTT
1 ATTTTGATAATTTATA-CTATTTTAAATTTTTTAAATTTTTT
20977728 TAGAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
46 14 0.37
47 9 0.24
48 5 0.13
49 2 0.05
50 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (45 bp):
ATTTTGATAATTTATACTATTTTAAATTTTTTAAATTTTTTAATA
Found at i:20978638 original size:28 final size:28
Alignment explanation
Indices: 20978585--20978640 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
20978575 GGCATAAGTG
* * *
20978585 TATATATTATGAATTTTTAAAGTTAAAA
1 TATATATTATGAATATTAAAAATTAAAA
20978613 TATATATTAT-AATATTAAAATATTAAAA
1 TATATATTATGAATATTAAAA-ATTAAAA
20978641 GTTAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATATTATGAATATTAAAAATTAAAA
Found at i:20978664 original size:5 final size:5
Alignment explanation
Indices: 20978656--20978684 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20978646 AAGTTAAGTA
20978656 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
20978685 ATAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:20979461 original size:24 final size:24
Alignment explanation
Indices: 20979434--20979480 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20979424 ATTGAAATGG
20979434 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGACTGAATTT
20979458 ATTGAATTTATATTGACTGAATT
1 ATTGAATTTATATTGACTGAATT
20979481 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (24 bp):
ATTGAATTTATATTGACTGAATTT
Found at i:20980057 original size:31 final size:33
Alignment explanation
Indices: 20980022--20980089 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
20980012 CAAATGATGA
* *
20980022 GAATTGAGTATGGAATGAATGATGT-ATT-TAT
1 GAATTGAATATGGAATGAATAATGTCATTGTAT
* *
20980053 GAATTGAATATTGAATGACTAATGTCATTGTAT
1 GAATTGAATATGGAATGAATAATGTCATTGTAT
20980086 GAAT
1 GAAT
20980090 AAATGTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 21 0.68
32 3 0.10
33 7 0.23
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (33 bp):
GAATTGAATATGGAATGAATAATGTCATTGTAT
Found at i:20981265 original size:26 final size:26
Alignment explanation
Indices: 20981229--20981281 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
20981219 AGTATTTACT
*
20981229 TAAAGAGGCTATATGATTGAGGGTGG
1 TAAAGAGGCTATATGATTGAAGGTGG
20981255 TAAAGAGGCTATATGATTGAAGGTGG
1 TAAAGAGGCTATATGATTGAAGGTGG
20981281 T
1 T
20981282 GAATGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (26 bp):
TAAAGAGGCTATATGATTGAAGGTGG
Found at i:20981815 original size:6 final size:6
Alignment explanation
Indices: 20981801--20981833 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
20981791 CTTAAAACAC
20981801 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAA
20981834 CACTTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:20981966 original size:21 final size:21
Alignment explanation
Indices: 20981933--20982002 Score: 99
Period size: 20 Copynumber: 3.4 Consensus size: 21
20981923 GTTTCTTTTG
*
20981933 AATCGATTTTTTGTTGTCTTA
1 AATCGATTCTTTGTTGTCTTA
*
20981954 AATTGATTCTTTGTTGT-TTA
1 AATCGATTCTTTGTTGTCTTA
20981974 AATCGATTCTTTGTTG-CTTA
1 AATCGATTCTTTGTTGTCTTA
*
20981994 ACTCGATTC
1 AATCGATTC
20982003 AAACGTCAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.53
Consensus pattern (21 bp):
AATCGATTCTTTGTTGTCTTA
Found at i:20992400 original size:30 final size:30
Alignment explanation
Indices: 20992364--20992425 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
20992354 AAATTATGAG
20992364 TTAGTGGGAAGAGATGGAACAAACATTGAC
1 TTAGTGGGAAGAGATGGAACAAACATTGAC
20992394 TTAGTGGGAAGAGATGGAACAAACATTGAC
1 TTAGTGGGAAGAGATGGAACAAACATTGAC
20992424 TT
1 TT
20992426 CTTTTTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (30 bp):
TTAGTGGGAAGAGATGGAACAAACATTGAC
Found at i:20995506 original size:79 final size:79
Alignment explanation
Indices: 20995412--20995571 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
20995402 AAATGAACTT
20995412 TAAAGTAAGTATTATAAAAAAGAAATCAAAATAAGTAAAACTTAAAATAACATACTTGTATTAGT
1 TAAAGTAAGTATTATAAAAAAGAAATCAAAATAAGTAAAACTTAAAATAACATACTTGTATTAGT
*
20995477 CAAAATAGGCAATA
66 CAAAATAGACAATA
*
20995491 TAAAGTAAGTATTATAAAAAGGAAATCAAAATAAGTAAAACTTAAAATAACATACTTGTATTAGT
1 TAAAGTAAGTATTATAAAAAAGAAATCAAAATAAGTAAAACTTAAAATAACATACTTGTATTAGT
20995556 CAAAATAGACAATA
66 CAAAATAGACAATA
20995570 TA
1 TA
20995572 TATGAAATGA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (79 bp):
TAAAGTAAGTATTATAAAAAAGAAATCAAAATAAGTAAAACTTAAAATAACATACTTGTATTAGT
CAAAATAGACAATA
Found at i:20997185 original size:13 final size:13
Alignment explanation
Indices: 20997169--20997210 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
20997159 AAATGGACTA
*
20997169 TTTTTTATTTGTT
1 TTTTTTATTTATT
20997182 TTTTTTATTATATT
1 TTTTTTATT-TATT
20997196 TTTGTTTATTTATT
1 TTT-TTTATTTATT
20997210 T
1 T
20997211 CTGATTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:20998981 original size:48 final size:48
Alignment explanation
Indices: 20998905--20999061 Score: 219
Period size: 48 Copynumber: 3.3 Consensus size: 48
20998895 TGATGATAAG
* *
20998905 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATACTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
* * * *
20998953 ATTCTGTCTAAATTAGTGCTTAAATGCTGTCCATTTTTTGGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
*
20999001 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTA-CA-AATCA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTTTAGCATACT-A
20999049 ATGCTGTCCAAAT
1 ATGCTGTCCAAAT
20999062 GTTGTTACTG
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.02
48 89 0.92
49 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
Found at i:20999032 original size:23 final size:23
Alignment explanation
Indices: 20998905--20999033 Score: 82
Period size: 23 Copynumber: 5.4 Consensus size: 23
20998895 TGATGATAAG
*
20998905 ATGCTGTCCAAATTGGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** *
20998928 TTGCTGTCC-ATTTTTTAGCATACTA
1 ATGCTGTCCAAATTAGT-GCTTA--A
* *
20998953 ATTCTGTCTAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* ** *
20998976 ATGCTGTCC-ATTTTTTGGCATATTA
1 ATGCTGTCCAAATTAGT-GC-T-TAA
20999001 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
20999024 ATGCTGTCCA
1 ATGCTGTCCA
20999034 TTTTTTTACA
Statistics
Matches: 76, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
22 8 0.11
23 34 0.45
24 2 0.03
25 24 0.32
26 8 0.11
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:21002210 original size:16 final size:17
Alignment explanation
Indices: 21002189--21002221 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21002179 AAAACTAAAA
21002189 AAATA-TTACACTTTCC
1 AAATATTTACACTTTCC
*
21002205 AAATATTTACATTTTCC
1 AAATATTTACACTTTCC
21002222 TATTTTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTACACTTTCC
Found at i:21012264 original size:3 final size:3
Alignment explanation
Indices: 21012256--21012297 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
21012246 GAGTATTTGT
* * *
21012256 CTG CTG CTG CTG CTG CTG TTG CTG TTG CTG TTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
21012298 AATCTGGAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.26, G:0.33, T:0.40
Consensus pattern (3 bp):
CTG
Found at i:21012273 original size:12 final size:12
Alignment explanation
Indices: 21012256--21012297 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
21012246 GAGTATTTGT
*
21012256 CTGCTGCTGCTG
1 CTGCTGTTGCTG
21012268 CTGCTGTTGCTG
1 CTGCTGTTGCTG
*
21012280 TTGCTGTTGCTG
1 CTGCTGTTGCTG
21012292 CTGCTG
1 CTGCTG
21012298 AATCTGGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.33, T:0.40
Consensus pattern (12 bp):
CTGCTGTTGCTG
Found at i:21017256 original size:6 final size:6
Alignment explanation
Indices: 21017245--21017288 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
21017235 CAAACATACA
21017245 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC AC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC AC
21017289 ATAACCGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTCAC
Found at i:21022698 original size:16 final size:17
Alignment explanation
Indices: 21022669--21022706 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
21022659 TCTATTTAAC
* *
21022669 ATAAAAATATACAACAA
1 ATAAAAATAAACAAAAA
21022686 ATAAAAA-AAACAAAAA
1 ATAAAAATAAACAAAAA
21022702 ATAAA
1 ATAAA
21022707 TTTTTTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAATAAACAAAAA
Found at i:21022831 original size:11 final size:11
Alignment explanation
Indices: 21022815--21022848 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
21022805 TTCCCCCCTC
21022815 CCTTCTCTCTT
1 CCTTCTCTCTT
21022826 CCTTCTCTCTT
1 CCTTCTCTCTT
*
21022837 CCCTCTCTCTT
1 CCTTCTCTCTT
21022848 C
1 C
21022849 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:21023653 original size:38 final size:37
Alignment explanation
Indices: 21023569--21023663 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
21023559 TATACGTACT
*
21023569 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
21023607 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
21023643 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
21023664 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:21033032 original size:18 final size:18
Alignment explanation
Indices: 21033009--21033043 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21032999 TAAGGCTAAT
21033009 AAAAGAATCTAATCCTGC
1 AAAAGAATCTAATCCTGC
21033027 AAAAGAATCTAATCCTG
1 AAAAGAATCTAATCCTG
21033044 GATTTAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAAGAATCTAATCCTGC
Found at i:21039082 original size:21 final size:21
Alignment explanation
Indices: 21039056--21039096 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21039046 AGACGAGCAA
* *
21039056 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
21039077 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
21039097 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:21046313 original size:21 final size:21
Alignment explanation
Indices: 21046287--21046360 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
21046277 GGTTTTAGAG
21046287 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
** *** ***
21046308 TTAGGGTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
21046329 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
*
21046350 TTTGGGTTTTG
1 TTAGGGTTTTG
21046361 GGTTTTAAGA
Statistics
Matches: 36, Mismatches: 17, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:21046499 original size:35 final size:33
Alignment explanation
Indices: 21046382--21046511 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 33
21046372 TTTTAAAAAA
* *
21046382 TAAATTAGGATTTAGTGTTCTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGTG---TTTTTAAAAAATTAAT
* *
21046418 TAAATTAGGGTTTAAG-GGTTTTAAATAAATAAAT
1 TAAATTAGGGTTT-AGTGTTTTTAAA-AAATTAAT
*
21046452 AAAATTAGGGTTTAGTGTTTTTAAGAAAATTTAAT
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAA-TTAAT
21046487 TAAATTAGGGTTTAGT-TTTTTAAAA
1 TAAATTAGGGTTTAGTGTTTTTAAAA
21046512 TAATATTGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
33 10 0.12
34 36 0.44
35 20 0.25
36 13 0.16
37 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
Found at i:21046716 original size:125 final size:126
Alignment explanation
Indices: 21046572--21046812 Score: 344
Period size: 125 Copynumber: 1.9 Consensus size: 126
21046562 GATTTTATTT
* * *
21046572 TTTTTTCTACAGTAATTCCT-AAAATATAATTTTGAGAATACGGCTCTGAACAAATAGTGTGAAA
1 TTTTTTCTACAGTAATTCCTGAAAA-ATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAA
*
21046636 AACACTTCAAACAGGATGCACTGTCAGCAAAATT-ATTGAAAAAAGCTCCCACATTGACTCTC
65 AACACTTCAAACAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACATTGACTCTC
** **
21046698 TTTTTT-TACAGTTGTTCCTGAAAAATAATTTTGAGAAGACGTTTCCGAACAAATAGTGTCAAAA
1 TTTTTTCTACAGTAATTCCTGAAAAATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAA
** *
21046762 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCAC
66 ACACTTCAAACAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCAC
21046813 GTCGACGCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
125 91 0.89
126 11 0.11
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (126 bp):
TTTTTTCTACAGTAATTCCTGAAAAATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAA
ACACTTCAAACAGGATGCACTATCAGCAAAATTGATGAAAAAAGCTCCCACATTGACTCTC
Found at i:21046840 original size:125 final size:126
Alignment explanation
Indices: 21046575--21046842 Score: 335
Period size: 125 Copynumber: 2.1 Consensus size: 126
21046565 TTTATTTTTT
* * * * *
21046575 TTTCTACAGTAATTCCT-AAAATATAATTTTGAGAATACGGCTCTGAACAAATAGTGTGAAAAAC
1 TTTCTACACTAGTTCCTGAAAATATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAAAC
* * * *
21046639 ACTTCAAACAGGATGCACTGTCAGCAAAATTATTGAAAAAAGCTCCCACATTGACTCTCTT
66 ACTTCAAACAGGATGCACTATCAGCAAAATTATTGAAAAAAGCTCCCACATCGACGCTCTC
* * * ** *
21046700 TTTTTACAGTTGTTCCTGAAAA-ATAATTTTGAGAAGACGTTTCCGAACAAATAGTGTCAAAAAT
1 TTTCTACACTAGTTCCTGAAAATATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAAAC
* * *
21046764 GCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTCGACGCTCTC
66 ACTTCAAACAGGATGCACTATCAGCAAAATT-ATTGAAAAAAGCTCCCACATCGACGCTCTC
*
21046825 TTTCTATACTAGTTCCTG
1 TTTCTACACTAGTTCCTG
21046843 TTTGGCCTTA
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
125 116 0.96
126 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (126 bp):
TTTCTACACTAGTTCCTGAAAATATAATTTTGAGAAGACGGCTCCGAACAAATAGTGTCAAAAAC
ACTTCAAACAGGATGCACTATCAGCAAAATTATTGAAAAAAGCTCCCACATCGACGCTCTC
Found at i:21049953 original size:24 final size:23
Alignment explanation
Indices: 21049897--21049953 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
21049887 AAGAACTTCT
*
21049897 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
21049920 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
21049945 ATCTTTATT
1 AT-TTTATT
21049954 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 13 0.45
26 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:21050974 original size:7 final size:7
Alignment explanation
Indices: 21050964--21050995 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
21050954 TTATATACAT
21050964 AATACTA
1 AATACTA
21050971 AATACTA
1 AATACTA
21050978 AATACTA
1 AATACTA
21050985 AATACTA
1 AATACTA
21050992 AATA
1 AATA
21050996 TGAAACGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21054181 original size:43 final size:43
Alignment explanation
Indices: 21054134--21054285 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 43
21054124 TCCCAAACGT
*
21054134 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAG
* * * * *
21054177 GGTCTTACA-CAAATCAAATA-CGATGCCAATGTCCTAGACAT
1 GGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAG
* *
21054218 GGTCTTACACG-TATACACA-ATTCGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATGAAAT-CACATA-TCGATGCC-ACTGTCCCAGACAG
21054260 TGGTCTTACATGAAAAT-ACATATCGA
1 -GGTCTTACATG-AAATCACATATCGA
21054286 AATNNNNNNN
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
41 30 0.35
42 11 0.13
43 41 0.48
44 2 0.02
45 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGAAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:21054216 original size:41 final size:41
Alignment explanation
Indices: 21054115--21054269 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 41
21054105 GGCTCGTACA
* * ** *
21054115 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACA-CAAATCAAATA-CG
*
21054158 ATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATACG
* * ** *
21054199 ATGCCAATGTCCTAGACATGGTCTTACACGTATACACAATTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAAT-CA-AATACG
*
21054242 ATGCCAACGTCCCAGAC-GTGGTCTTACA
1 ATGCCAATGTCCCAGACAG-GGTCTTACA
21054270 TGAAAATACA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 30 0.32
42 10 0.11
43 52 0.56
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATACG
Found at i:21054256 original size:84 final size:84
Alignment explanation
Indices: 21054115--21054269 Score: 201
Period size: 84 Copynumber: 1.8 Consensus size: 84
21054105 GGCTCGTACA
* *
21054115 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGAC-GTGG
21054179 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* * *
21054199 ATGCCAATGTCCTAGACATGGTCTTACACGT-ATACACA-ATTCGATGCCAAC-GTCCCAGACGT
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAT-CACATA-TCGATGCC-ACTGTCCCAGACGT
21054261 GGTCTTACA
63 GGTCTTACA
21054270 TGAAAATACA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
83 4 0.06
84 56 0.90
85 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:21058780 original size:21 final size:21
Alignment explanation
Indices: 21058754--21058797 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
21058744 AAATAATTAA
* *
21058754 TTAAAGAGAACTTTGAGATAT
1 TTAAAGAGAAATTTGAGAGAT
21058775 TTAAAGAGAAATTTGAGAGAT
1 TTAAAGAGAAATTTGAGAGAT
21058796 TT
1 TT
21058798 GATAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.34
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAGAT
Found at i:21058799 original size:30 final size:30
Alignment explanation
Indices: 21058765--21058823 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
21058755 TAAAGAGAAC
*
21058765 TTTGAGATATTTAAAGAGAAATTTGAGAGA
1 TTTGAGAAATTTAAAGAGAAATTTGAGAGA
* *
21058795 TTTGATAAATTTAAGGAGAAATTTGAGAG
1 TTTGAGAAATTTAAAGAGAAATTTGAGAG
21058824 TTTTTTGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (30 bp):
TTTGAGAAATTTAAAGAGAAATTTGAGAGA
Found at i:21059690 original size:20 final size:19
Alignment explanation
Indices: 21059667--21059725 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
21059657 ACTAAAATTG
21059667 ATTAAAGTTAGATTAAGTTA
1 ATTAAA-TTAGATTAAGTTA
* *
21059687 ATTAAATCATGATTATGTTA
1 ATTAAATTA-GATTAAGTTA
*
21059707 ATTAAATTAGTTTAA-TTA
1 ATTAAATTAGATTAAGTTA
21059725 A
1 A
21059726 ACTTTAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 23 0.70
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTAAATTAGATTAAGTTA
Found at i:21060395 original size:17 final size:17
Alignment explanation
Indices: 21060373--21060405 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21060363 AATTAATCGG
21060373 GAAAAAACTAAAATTGC
1 GAAAAAACTAAAATTGC
21060390 GAAAAAACTAAAATTG
1 GAAAAAACTAAAATTG
21060406 TGAATTAGTC
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:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
GAAAAAACTAAAATTGC
Found at i:21064332 original size:12 final size:13
Alignment explanation
Indices: 21064287--21064333 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
21064277 GAATTTCAAA
21064287 TAATATTATTAATT
1 TAATATTA-TAATT
*
21064301 TAATATATACAATCT
1 TAATAT-TATAAT-T
21064316 TAATATTA-AATT
1 TAATATTATAATT
21064328 TAATAT
1 TAATAT
21064334 GTATTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 11 0.37
15 9 0.30
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATATTATAATT
Found at i:21065357 original size:5 final size:5
Alignment explanation
Indices: 21065347--21065380 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
21065337 ACAATTTCAC
* *
21065347 TCGAT TCGAT TCGAT TCGAT TCGAC TCGAC TCGA
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGA
21065381 ATTTCATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (5 bp):
TCGAT
Found at i:21065633 original size:28 final size:28
Alignment explanation
Indices: 21065602--21065671 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21065592 AAAAATAAAA
21065602 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
* *
21065630 ATTTACGAAAATATTACAATTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
21065658 ATTTACCAAAATAT
1 ATTTACCAAAATAT
21065672 ATCAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:21065781 original size:27 final size:28
Alignment explanation
Indices: 21065742--21065817 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
21065732 TACTAGTCAC
*
21065742 GCCAATGGAATTGGCGGCACCAAAT-GT
1 GCCAATGCAATTGGCGGCACCAAATGGT
*
21065769 GCCAATGCCATTGGCGGCACC-AATGGT
1 GCCAATGCAATTGGCGGCACCAAATGGT
*
21065796 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
21065818 CTCGTATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.14
27 36 0.86
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (28 bp):
GCCAATGCAATTGGCGGCACCAAATGGT
Found at i:21065986 original size:19 final size:21
Alignment explanation
Indices: 21065948--21065986 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
21065938 AATAATTGAT
*
21065948 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
21065969 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
21065987 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:21066040 original size:3 final size:3
Alignment explanation
Indices: 21066032--21066056 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21066022 AAAATAAAAG
21066032 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21066057 GTTGTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21066061 original size:3 final size:3
Alignment explanation
Indices: 21066055--21066098 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21066045 ATTATTATTA
21066055 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
21066099 AGTATGAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21071767 original size:34 final size:36
Alignment explanation
Indices: 21071729--21071863 Score: 116
Period size: 37 Copynumber: 3.6 Consensus size: 36
21071719 TTTTTTTTCC
21071729 TTCCTTCCCTCTTCTTC-TTCTTT-TTTTTTCTCTT
1 TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTCTCTT
21071763 TTCCTTTCCCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCT
1 TTCC-TTCCC--TC-TT-CTTCTTTCTTTCTTTTTTC-TCT-T
*
21071806 TCTCCTT--TTCTTCTTCTTTCTTTCCTTTTTTCTCTT
1 T-TCCTTCCCTCTTCTTCTTTCTTT-CTTTTTTCTCTT
* * *
21071842 CTCCTTTCCTTTTCTTTCTTTC
1 TTCCTTCCCTCTTC-TTCTTTC
21071864 CTCTCCTTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
34 4 0.05
35 10 0.12
36 1 0.01
37 20 0.24
38 19 0.23
39 6 0.07
40 6 0.07
41 7 0.08
42 3 0.04
43 4 0.05
44 3 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (36 bp):
TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTCTCTT
Found at i:21071783 original size:49 final size:44
Alignment explanation
Indices: 21071729--21071902 Score: 128
Period size: 44 Copynumber: 3.9 Consensus size: 44
21071719 TTTTTTTTCC
* * *
21071729 TTCCTTCCCTC-TTCTTCTTCTTTTTTTTTCTCTTTTCCTTTCCCT
1 TTCCTTCCTTCTTTC-T-TTCTTTTTTCTTCTCTTCTCCTTTCCCT
* *
21071774 TTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-TC-
1 TTCCTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTCCCT
* * * *
21071816 TT-CTTCTTTCTTTCCTT-TTTTCTCTTCTCCTT-TCCTTTTCTTTCT
1 TTCCTTCCTTCTTTCTTTCTTTTTTCTTCT-CTTCTCC-TTTC--CCT
*
21071861 TTCCTCTCCTTTCTTTCTTTCTTTCTTTCTT-TCCTCTCCTTT
1 TTCCT-TCC-TTCTTTCTTTCTTT-TTTCTTCTCTTCTCCTTT
21071903 GTTTCTTTCT
Statistics
Matches: 103, Mismatches: 13, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
40 13 0.13
41 18 0.17
42 2 0.02
43 1 0.01
44 24 0.23
45 12 0.12
46 5 0.05
47 2 0.02
48 14 0.14
49 7 0.07
50 5 0.05
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (44 bp):
TTCCTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTCCCT
Found at i:21071789 original size:4 final size:4
Alignment explanation
Indices: 21071772--21071915 Score: 100
Period size: 4 Copynumber: 34.2 Consensus size: 4
21071762 TTTCCTTTCC
*
21071772 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
*
21071818 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT
* * *
21071863 CCTCTC CTTT CTTT CTTT CTTT CTTT CTTT CCTCTC CTTT GTTT CTTT
1 -CT-TT CTTT CTTT CTTT CTTT CTTT CTTT -CT-TT CTTT CTTT CTTT
21071911 CTTT C
1 CTTT C
21071916 CCTCCTTCTG
Statistics
Matches: 114, Mismatches: 10, Indels: 32
0.73 0.06 0.21
Matches are distributed among these distances:
3 12 0.11
4 70 0.61
5 24 0.21
6 8 0.07
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:21071795 original size:26 final size:26
Alignment explanation
Indices: 21071766--21071912 Score: 95
Period size: 30 Copynumber: 5.2 Consensus size: 26
21071756 TTCTCTTTTC
*
21071766 CTTTCCCTTTCTTTCCTTCTTTCTTT
1 CTTTCTCTTTCTTTCCTTCTTTCTTT
*
21071792 CTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTT
1 C-TTTCTCTT-TCTT-TCC--TTC-T-TTCTTT
*
21071825 CTTTC-CTTT-TTTCTCTTC-TCCTTT
1 CTTTCTCTTTCTTTC-CTTCTTTCTTT
21071849 CCTTT-TCTTTCTTTCCTCTCCTTTCTTT
1 -CTTTCTCTTTCTTTCCT-T-CTTTCTTT
*
21071877 CTTTCTTTCTTTCTTTCCTCTCCTTTGTTT
1 CTTTC--TCTTTCTTTCCT-T-CTTTCTTT
21071907 CTTTCT
1 CTTTCT
21071913 TTCCCTCCTT
Statistics
Matches: 98, Mismatches: 6, Indels: 32
0.72 0.04 0.24
Matches are distributed among these distances:
24 5 0.05
25 10 0.10
26 6 0.06
27 14 0.14
28 12 0.12
29 6 0.06
30 28 0.29
31 6 0.06
32 4 0.04
33 7 0.07
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.67
Consensus pattern (26 bp):
CTTTCTCTTTCTTTCCTTCTTTCTTT
Found at i:21071839 original size:30 final size:30
Alignment explanation
Indices: 21071786--21071915 Score: 121
Period size: 30 Copynumber: 4.4 Consensus size: 30
21071776 CTTTCCTTCT
*
21071786 TTCTTTCTTT-TTTCTTCTCTTCTCCTTTTC
1 TTCTTTCTTTCTTTCTT-TCCTCTCCTTTTC
* *
21071816 TTC-TTCTTTCTTTCCTTT--T-TTCTCTTC
1 TTCTTTCTTTCTTT-CTTTCCTCTCCTTTTC
*
21071843 TCCTTTCCTTTTCTTTCTTTCCTCTCC-TTTC
1 TTCTTT-C-TTTCTTTCTTTCCTCTCCTTTTC
21071874 TTTCTTTCTTTCTTTCTTTCCTCTCCTTTGT-
1 -TTCTTTCTTTCTTTCTTTCCTCTCCTTT-TC
21071905 TTCTTTCTTTC
1 TTCTTTCTTTC
21071916 CCTCCTTCTG
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
27 8 0.10
28 3 0.04
29 11 0.13
30 43 0.52
31 10 0.12
32 8 0.10
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.68
Consensus pattern (30 bp):
TTCTTTCTTTCTTTCTTTCCTCTCCTTTTC
Found at i:21071847 original size:79 final size:78
Alignment explanation
Indices: 21071738--21071895 Score: 207
Period size: 79 Copynumber: 2.0 Consensus size: 78
21071728 CTTCCTTCCC
*
21071738 TCTTCTTCTTCTTTTTTTTTCTCTTTTCCTTTCC-CTTTCTTTCCT-T-CTTTCTTTCTTT-TTT
1 TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTCTTTCTTTCCTCTCCTTTCTTTCTTTCTTT
21071799 CTTCTCTTCTCCTTT
66 CTT-TCTT-TCCTTT
21071814 TCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTTCTTTCTTTCCTCTCCTTTCTTTCT
1 TCTTCTTC-TTCTTT--TTTTTTCTCTTCTCCTTTCC---TCTTTCTTTCCTCTCCTTTCTTTCT
21071879 TTCTTTCTTTCTTTCCT
60 TTCTTTCTTTCTTTCCT
21071896 CTCCTTTGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
76 8 0.11
77 6 0.08
79 19 0.27
83 11 0.15
84 5 0.07
85 16 0.23
86 6 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (78 bp):
TCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTCTTTCTTTCCTCTCCTTTCTTTCTTTCTTT
CTTTCTTTCCTTT
Found at i:21071864 original size:34 final size:36
Alignment explanation
Indices: 21071771--21071895 Score: 131
Period size: 35 Copynumber: 3.6 Consensus size: 36
21071761 TTTTCCTTTC
* *
21071771 CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCT
1 CCTTTCCTT-CTTCTTTCTTTC-CTTTTCTTCTCTTCT
*
21071809 CCTTTTCTTCTTCTTTCTTTCCTTTT-TTCTCTTCT
1 CCTTTCCTTCTTCTTTCTTTCCTTTTCTTCTCTTCT
* *
21071844 CCTTTCCTT-TTCTTTCTTTCCTCTCCTT-TCTT-T
1 CCTTTCCTTCTTCTTTCTTTCCTTTTCTTCTCTTCT
21071877 -CTTT-C-T-TTCTTTCTTTCCT
1 CCTTTCCTTCTTCTTTCTTTCCT
21071896 CTCCTTTGTT
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
30 14 0.17
31 1 0.01
32 4 0.05
33 1 0.01
34 18 0.22
35 19 0.24
36 4 0.05
37 12 0.15
38 7 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (36 bp):
CCTTTCCTTCTTCTTTCTTTCCTTTTCTTCTCTTCT
Found at i:21071913 original size:26 final size:25
Alignment explanation
Indices: 21071771--21071923 Score: 111
Period size: 26 Copynumber: 6.0 Consensus size: 25
21071761 TTTTCCTTTC
* *
21071771 CCTTTCTTTCCTTCTTTCT-TTCTT
1 CCTTTCTTTCTTTCTTTCTCTCCTT
* *
21071795 -TTTTCTTCTCTTCTCCTTT-TCTTCTT
1 CCTTTCTT-TCTT-T-CTTTCTCTCCTT
*
21071821 -CTTTCTTTCCTTT-TTTCTCTTC-T
1 CCTTTCTTT-CTTTCTTTCTCTCCTT
21071844 CCTTTCCTTTTCTTTCTTTCCTCTCCTT
1 CCTTT-C-TTTCTTTCTTT-CTCTCCTT
* *
21071872 TCTTTCTTTCTTTCTTTCTTTCCTCT
1 CCTTTCTTTCTTTCTTTCTCTCCT-T
* *
21071898 CCTTTGTTTCTTTCTTTCCCTCCTT
1 CCTTTCTTTCTTTCTTTCTCTCCTT
21071923 C
1 C
21071924 TGCCCCCACC
Statistics
Matches: 106, Mismatches: 10, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
23 10 0.09
24 12 0.11
25 17 0.16
26 56 0.53
27 6 0.06
28 5 0.05
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.65
Consensus pattern (25 bp):
CCTTTCTTTCTTTCTTTCTCTCCTT
Found at i:21071995 original size:27 final size:27
Alignment explanation
Indices: 21071957--21072021 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
21071947 TAATACTAAC
21071957 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
21071984 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
21072011 TGGTGCCGCCA
1 TGGTGCCGCCA
21072022 GTACCATGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.14, C:0.29, G:0.31, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:21072130 original size:27 final size:28
Alignment explanation
Indices: 21072099--21072173 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
21072089 TTTTGGTTTT
21072099 TTTATATATTTTGGTAAAT-AAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
21072126 TTTATATATTTTGGTAAATAAAAAAAAAG
1 TTTATATATTTTGGTAAAT-AAAAAAAAG
*
21072155 TTGTA-ATATTTTGATAAAT
1 TT-TATATATTTTGGTAAAT
21072174 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 19 0.43
29 23 0.52
30 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:21074104 original size:10 final size:11
Alignment explanation
Indices: 21074078--21074103 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21074068 TTTAAAAATA
21074078 AAAAATATTTT
1 AAAAATATTTT
21074089 AAAAATATTTT
1 AAAAATATTTT
21074100 AAAA
1 AAAA
21074104 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:21080149 original size:18 final size:20
Alignment explanation
Indices: 21080112--21080154 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
21080102 ACTACTTCCA
*
21080112 ATTAATTAGTTCATTCTTCT
1 ATTAGTTAGTTCATTCTTCT
21080132 ATTAGTTAGTT-A-TCTTCT
1 ATTAGTTAGTTCATTCTTCT
21080150 ATTAG
1 ATTAG
21080155 GTAGCTACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 1 0.05
20 10 0.45
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTAGTTAGTTCATTCTTCT
Found at i:21086785 original size:20 final size:20
Alignment explanation
Indices: 21086748--21086787 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21086738 CGTAAAATGA
* *
21086748 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAACGATTTACT
*
21086768 TTTCTGTAAAACGATTTACT
1 TTTCTGGAAAACGATTTACT
21086788 GGAATTTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAACGATTTACT
Found at i:21087460 original size:18 final size:18
Alignment explanation
Indices: 21087439--21087477 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
21087429 GTTGTATCTT
21087439 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
21087457 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
21087475 TAA
1 TAA
21087478 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:21089145 original size:12 final size:12
Alignment explanation
Indices: 21089128--21089184 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
21089118 AAACCAAATC
21089128 AAGGGAGAACGA
1 AAGGGAGAACGA
21089140 AAGGGAGAACGA
1 AAGGGAGAACGA
*
21089152 AA--AAG-A-G-
1 AAGGGAGAACGA
21089159 AAGGGAGAACGA
1 AAGGGAGAACGA
*
21089171 ACGGGAGAACGA
1 AAGGGAGAACGA
21089183 AA
1 AA
21089185 CCAGATCGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.06
8 1 0.03
9 3 0.08
10 3 0.08
11 1 0.03
12 26 0.72
ACGTcount: A:0.53, C:0.09, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:21089905 original size:62 final size:59
Alignment explanation
Indices: 21089797--21089913 Score: 173
Period size: 62 Copynumber: 1.9 Consensus size: 59
21089787 ATCAATTTAA
* *
21089797 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
21089856 TATTAAAATAATAGAATATTTATCTACAAGATAAATATT-GAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA--T-CAAGATAAATATTAG-ATTAAATTTAATATTAA
21089914 GAAAATTACT
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
59 20 0.38
61 2 0.04
62 30 0.58
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
Found at i:21089996 original size:18 final size:18
Alignment explanation
Indices: 21089947--21089998 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
21089937 AATAAAATAC
21089947 TATTAAGATAAATATTAAA
1 TATTAAGAT-AATATTAAA
**
21089966 T-TTAATTTAATATTAAA
1 TATTAAGATAATATTAAA
21089983 TTATTAA-ATAATATTA
1 -TATTAAGATAATATTA
21089999 TTTTTTGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 9 0.32
18 14 0.50
19 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTAAGATAATATTAAA
Found at i:21092941 original size:7 final size:7
Alignment explanation
Indices: 21092929--21092953 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21092919 TATCAGTTAT
21092929 ATACATA
1 ATACATA
21092936 ATACATA
1 ATACATA
21092943 ATACATA
1 ATACATA
21092950 ATAC
1 ATAC
21092954 TAAATACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:21094051 original size:10 final size:10
Alignment explanation
Indices: 21094032--21094079 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
21094022 GCCATTGATG
*
21094032 AAAATATAAA
1 AAAATTTAAA
21094042 AAAATTTAAA
1 AAAATTTAAA
* *
21094052 ATTATTTTAAA
1 A-AAATTTAAA
*
21094063 AAAATATAAA
1 AAAATTTAAA
21094073 AAAATTT
1 AAAATTT
21094080 GAAATTGTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:21094067 original size:31 final size:30
Alignment explanation
Indices: 21094032--21094097 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
21094022 GCCATTGATG
*
21094032 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATT-GTTTAAA
*
21094063 AAAATATAAAAAAATTTGAAATTGTTTAAA
1 AAAATATAAAAAAATTTAAAATTGTTTAAA
21094093 AAAAT
1 AAAAT
21094098 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTGTTTAAA
Found at i:21094079 original size:21 final size:21
Alignment explanation
Indices: 21094038--21094079 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21094028 GATGAAAATA
* **
21094038 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATATAAAAAAATTT
21094059 TAAAAAAATATAAAAAAATTT
1 TAAAAAAATATAAAAAAATTT
21094080 GAAATTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATATAAAAAAATTT
Found at i:21094156 original size:22 final size:21
Alignment explanation
Indices: 21094131--21094181 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
21094121 TAATATGGAT
*
21094131 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
21094153 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
21094175 TTGAGAG
1 TTGAGAG
21094182 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:21112465 original size:29 final size:29
Alignment explanation
Indices: 21112354--21112480 Score: 105
Period size: 29 Copynumber: 4.4 Consensus size: 29
21112344 GGTTTGCATG
** *
21112354 GCATATAGGCTTGCATGAACCTAGGGATC
1 GCATATAGGCTTGCATGTTCCTAGGGTTC
** *
21112383 GCATATAGGCTCACAAGTTCCTAGGGTTC
1 GCATATAGGCTTGCATGTTCCTAGGGTTC
* * * *
21112412 GCACATA-GATT-CATATTTTCTTAGGGTTC
1 GCATATAGGCTTGC--ATGTTCCTAGGGTTC
* *
21112441 GCATGTAGGCTTGCATGTTCCTAGGTTTC
1 GCATATAGGCTTGCATGTTCCTAGGGTTC
*
21112470 ACATATAGGCT
1 GCATATAGGCT
21112481 CGCCTAATTC
Statistics
Matches: 74, Mismatches: 20, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
27 1 0.01
28 2 0.03
29 67 0.91
30 3 0.04
31 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (29 bp):
GCATATAGGCTTGCATGTTCCTAGGGTTC
Found at i:21112493 original size:29 final size:29
Alignment explanation
Indices: 21112461--21112566 Score: 122
Period size: 29 Copynumber: 3.5 Consensus size: 29
21112451 TTGCATGTTC
*
21112461 CTAGGTTTCACATATAGGCTCGCCTAATT
1 CTAGGGTTCACATATAGGCTCGCCTAATT
* * *
21112490 CTAGGGGTCACATACATATAGGCTCACCTAATC
1 CTA-GGGT-TC--ACATATAGGCTCGCCTAATT
* *
21112523 CTAGGGTCCACATATAGGCTCGCATAATT
1 CTAGGGTTCACATATAGGCTCGCCTAATT
21112552 CTAGGGTTCACATAT
1 CTAGGGTTCACATAT
21112567 CATGGTTCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
29 34 0.53
30 3 0.05
31 2 0.03
32 4 0.06
33 21 0.33
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (29 bp):
CTAGGGTTCACATATAGGCTCGCCTAATT
Found at i:21112512 original size:33 final size:33
Alignment explanation
Indices: 21112470--21112565 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
21112460 CCTAGGTTTC
21112470 ACATATAGGCTCGCCTAATTCTAGGGGTCACAT
1 ACATATAGGCTCGCCTAATTCTAGGGGTCACAT
* *
21112503 ACATATAGGCTCACCTAATCCTA-GGGTC-C--
1 ACATATAGGCTCGCCTAATTCTAGGGGTCACAT
* *
21112532 ACATATAGGCTCGCATAATTCTAGGGTTCACAT
1 ACATATAGGCTCGCCTAATTCTAGGGGTCACAT
21112565 A
1 A
21112566 TCATGGTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 20 0.38
30 4 0.08
31 2 0.04
32 5 0.09
33 22 0.42
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (33 bp):
ACATATAGGCTCGCCTAATTCTAGGGGTCACAT
Found at i:21120082 original size:18 final size:17
Alignment explanation
Indices: 21120058--21120092 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21120048 TTTTCAATAA
21120058 TTAT-TTTTTAAAAAAT
1 TTATATTTTTAAAAAAT
*
21120074 TTATATTTTTAAATAAT
1 TTATATTTTTAAAAAAT
21120091 TT
1 TT
21120093 TTATATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATTTTTAAAAAAT
Found at i:21123632 original size:11 final size:11
Alignment explanation
Indices: 21123616--21123661 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
21123606 TCTTTTAAAT
21123616 AGGAATTTGAG
1 AGGAATTTGAG
21123627 AGGAATTTGAG
1 AGGAATTTGAG
21123638 A-GAATATT-AG
1 AGGAAT-TTGAG
*
21123648 AGAGAAATTGAG
1 AG-GAATTTGAG
21123660 AG
1 AG
21123662 AAAGGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:21123660 original size:10 final size:10
Alignment explanation
Indices: 21123622--21123664 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
21123612 AAATAGGAAT
*
21123622 TTGAGAGGAAT
1 TTGAGA-GAAA
21123633 TTGAGAGAATA
1 TTGAGAGAA-A
21123644 TTAGAGAGAAA
1 TT-GAGAGAAA
21123655 TTGAGAGAAA
1 TTGAGAGAAA
21123665 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:21124747 original size:22 final size:23
Alignment explanation
Indices: 21124703--21124747 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
21124693 ATTTCTTGAA
* **
21124703 TTTTTGAATTATTTTATTTTATT
1 TTTTTAAATTATTTTATAATATT
21124726 TTTTTAAATT-TTTTATAATATT
1 TTTTTAAATTATTTTATAATATT
21124748 AAATTATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTAAATTATTTTATAATATT
Found at i:21128217 original size:17 final size:17
Alignment explanation
Indices: 21128187--21128220 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21128177 AGTGTGATAT
*
21128187 AACTCTAACAAGCTTCC
1 AACTCGAACAAGCTTCC
*
21128204 AACTCGAACGAGCTTCC
1 AACTCGAACAAGCTTCC
21128221 GAATCAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.21
Consensus pattern (17 bp):
AACTCGAACAAGCTTCC
Found at i:21128973 original size:16 final size:16
Alignment explanation
Indices: 21128952--21128985 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21128942 AAATTACTCA
*
21128952 ACGAGTTTACGTAGAT
1 ACGAGTTTACGTACAT
21128968 ACGAGTTTACGTACAT
1 ACGAGTTTACGTACAT
21128984 AC
1 AC
21128986 TTACACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (16 bp):
ACGAGTTTACGTACAT
Found at i:21129150 original size:226 final size:226
Alignment explanation
Indices: 21128756--21129175 Score: 768
Period size: 226 Copynumber: 1.9 Consensus size: 226
21128746 AACAAATCAT
*
21128756 ATACTTACACAATTTAATTACACAAACTTACCTCAACGAGTGTACGTAGGTACGAAGGCGACTAA
1 ATACTTACACAATTTAATTACACAAACTTACCTCAACGAGTGTACGTAGATACGAAGGCGACTAA
* *
21128821 TCTGATATTTTTCCTTTTCCCCGATCTAACTCCGTATGAGGTCTAACCGGATCTATACGAATGAA
66 TCCGATATTTTTCCTTTTCCCCGATCTAACTCCGTACGAGGTCTAACCGGATCTATACGAATGAA
*
21128886 TTTAACTCAATTCAACATAATTAATATTCAATTTAGTCCAACACACATTTTTGGAAAAATTACTC
131 TTTAACTCAATTCAACATAATTAATATTCAATTTAGTCCAACAAACATTTTTGGAAAAATTACTC
21128951 AACGAGTTTACGTAGATACGAGTTTACGTAC
196 AACGAGTTTACGTAGATACGAGTTTACGTAC
*
21128982 ATACTTACACAATTTAATTACACAAACTTACCTCAACGAGTGTATGTAGATACGAAGGCGACTAA
1 ATACTTACACAATTTAATTACACAAACTTACCTCAACGAGTGTACGTAGATACGAAGGCGACTAA
*
21129047 TCCGATATTTTTCCTTTTCCCCGATCTAACTCTGTACGAGGTCTAACCGGATCTATACGAATGAA
66 TCCGATATTTTTCCTTTTCCCCGATCTAACTCCGTACGAGGTCTAACCGGATCTATACGAATGAA
* *
21129112 TTTAACTCAATTTAACATAATTCATATTCAATTTAGTCCAACAAACATTTTTGGAAAAATTACT
131 TTTAACTCAATTCAACATAATTAATATTCAATTTAGTCCAACAAACATTTTTGGAAAAATTACT
21129176 ATTTCCCCTA
Statistics
Matches: 186, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
226 186 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (226 bp):
ATACTTACACAATTTAATTACACAAACTTACCTCAACGAGTGTACGTAGATACGAAGGCGACTAA
TCCGATATTTTTCCTTTTCCCCGATCTAACTCCGTACGAGGTCTAACCGGATCTATACGAATGAA
TTTAACTCAATTCAACATAATTAATATTCAATTTAGTCCAACAAACATTTTTGGAAAAATTACTC
AACGAGTTTACGTAGATACGAGTTTACGTAC
Found at i:21133556 original size:33 final size:33
Alignment explanation
Indices: 21133513--21133584 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
21133503 TTTTTGGGAA
*
21133513 TTTTGGCTAAGGCATTTTCACTGTCAAATCAAT
1 TTTTGACTAAGGCATTTTCACTGTCAAATCAAT
21133546 TTTTGACTAAGGCATTTTCACTGTCAAATCAAT
1 TTTTGACTAAGGCATTTTCACTGTCAAATCAAT
21133579 TTTTGA
1 TTTTGA
21133585 AAAAGTGCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (33 bp):
TTTTGACTAAGGCATTTTCACTGTCAAATCAAT
Found at i:21135448 original size:26 final size:26
Alignment explanation
Indices: 21135419--21135469 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
21135409 GTTTCCAAGA
*
21135419 GAGTGGTTCAAGGGAGG-GGTCCAATG
1 GAGTGGTCCAAGGG-GGTGGTCCAATG
21135445 GAGTGGTCCAAGGGGGTGGTCCAAT
1 GAGTGGTCCAAGGGGGTGGTCCAAT
21135470 ATGGTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.22, C:0.14, G:0.45, T:0.20
Consensus pattern (26 bp):
GAGTGGTCCAAGGGGGTGGTCCAATG
Found at i:21138450 original size:22 final size:22
Alignment explanation
Indices: 21138425--21138467 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21138415 TGAATAAACA
* *
21138425 AAAAAAAACTTTATTTCTGTAG
1 AAAAAAAACTTAATATCTGTAG
*
21138447 AAAATAAACTTAATATCTGTA
1 AAAAAAAACTTAATATCTGTA
21138468 AACTGAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (22 bp):
AAAAAAAACTTAATATCTGTAG
Found at i:21141926 original size:15 final size:15
Alignment explanation
Indices: 21141903--21141949 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
21141893 AAAATCATTG
* *
21141903 ATATGCATATAATAT
1 ATATACATACAATAT
21141918 ATATACATACAATAT
1 ATATACATACAATAT
*
21141933 ATATACACACAAT-T
1 ATATACATACAATAT
21141947 ATA
1 ATA
21141950 ATAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (15 bp):
ATATACATACAATAT
Found at i:21151509 original size:6 final size:6
Alignment explanation
Indices: 21151498--21151523 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21151488 TTGGTGAAAA
21151498 CTGATG CTGATG CTGATG CTGATG CT
1 CTGATG CTGATG CTGATG CTGATG CT
21151524 TCTGTGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (6 bp):
CTGATG
Found at i:21153432 original size:17 final size:16
Alignment explanation
Indices: 21153394--21153425 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
21153384 ATCTAAATGA
21153394 ATAAAAGAAAAGAAAC
1 ATAAAAGAAAAGAAAC
21153410 ATAAAAGTAAAAGAAA
1 ATAAAAG-AAAAGAAA
21153426 ATGAAAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAAAGAAAAGAAAC
Found at i:21160384 original size:18 final size:17
Alignment explanation
Indices: 21160357--21160390 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21160347 ATACATATAT
*
21160357 GCATGTTTTTTTTAATC
1 GCATGTTTTTTATAATC
21160374 GCATAGTTTTTTATAAT
1 GCAT-GTTTTTTATAAT
21160391 ATATACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.56
Consensus pattern (17 bp):
GCATGTTTTTTATAATC
Found at i:21162813 original size:44 final size:44
Alignment explanation
Indices: 21162706--21163145 Score: 155
Period size: 44 Copynumber: 9.6 Consensus size: 44
21162696 TTCGGTCTAT
* * * * **
21162706 TCCACTGTAATCTCAGGAAGATAAGA-CC-TGA-TGTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTTAATCCGC
* **
21162747 TCAACTGTAA-CTTCAGAAAGATAAGATCCTTTACTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTTAATCCGC
* * ** * *
21162791 TCCACTGTAATCTCAGGGAGATAGGATTAC-TGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGA-TCCTTTACTTTAATCCGC
* * * * **
21162835 TCCGCTGTAATCTCAGGGAGGTAAGATTTCTGGCTTCAATCTGATGTGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGA--TC---CTT-TA-CT--T-TAATCCGC
* * * *
21162889 TCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTTAATCCGC
* * *
21162933 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTTAATCAGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTTAATCCGC
* * * * * *
21162977 TACGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTAATGCGATC
1 TCCACTGTAATCTCAGGGAGATAAGA--TC---CTTTACTTTAATCCG--C
* * * *
21163028 TACTCTACTATAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCAC
1 T-C-C-ACTGTAATC-TCAGGGAGATAAGATCCTTTACTTTAATCCGC
* * * *
21163075 TCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTTAATCCGC
**
21163119 TCTGCTGTAATCTCAGGGAGATAAGAT
1 TCCACTGTAATCTCAGGGAGATAAGAT
21163146 TTCTGGCTTC
Statistics
Matches: 293, Mismatches: 70, Indels: 69
0.68 0.16 0.16
Matches are distributed among these distances:
40 1 0.00
41 22 0.08
42 4 0.01
43 6 0.02
44 168 0.57
45 9 0.03
46 2 0.01
47 3 0.01
48 2 0.01
49 19 0.06
50 1 0.00
51 5 0.02
52 4 0.01
53 4 0.01
54 43 0.15
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTTAATCCGC
Found at i:21162989 original size:142 final size:141
Alignment explanation
Indices: 21162733--21163244 Score: 843
Period size: 142 Copynumber: 3.6 Consensus size: 141
21162723 AAGATAAGAC
* * * *
21162733 CTGATGTGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
21162798 TAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGGTAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT-CGCTGTAATCTCAGGGAGATAAGATT
21162863 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* *
21162875 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
21162940 TAATCTCAGGGAGATAGGATTACTAGCTTTAATCAGCTACGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT-CGCTGTAATCTCAGGGAGATAAGATT
21163005 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* * *
21163017 CTAATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
21163082 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTC-GCTGTAATCTCAGGGAGATAAGATT
21163147 TCTGGCTTCAAT
130 TCTGGCTTCAAT
21163159 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC----TTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
21163220 TAATCTCAGGGAGATGGGATTACTA
66 TAATCTCAGGGAGATAGGATTACTA
21163245 ATTTCGTAGA
Statistics
Matches: 349, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
138 41 0.12
141 1 0.00
142 307 0.88
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (141 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAAT
Found at i:21171514 original size:19 final size:18
Alignment explanation
Indices: 21171471--21171514 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
21171461 TTAATAATCT
* *
21171471 TGAATGCATATGATGACA
1 TGAATGCAGATGATGAAA
21171489 TGTAATGCAGATGCATGAAA
1 TG-AATGCAGATG-ATGAAA
21171509 TGAATG
1 TGAATG
21171515 AAAAAAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.59
20 7 0.32
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (18 bp):
TGAATGCAGATGATGAAA
Found at i:21177609 original size:23 final size:23
Alignment explanation
Indices: 21177583--21177655 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
21177573 GTTATTGATT
* *
21177583 AGTGGTAGCTTCGGCTACGTTTC
1 AGTGGTAGCTTCGGCTACATATC
*
21177606 AGTGGTAGCTTCGGCTACATAAC
1 AGTGGTAGCTTCGGCTACATATC
21177629 AGTGGTAGCTTCGGCTACATATC
1 AGTGGTAGCTTCGGCTACATATC
21177652 AGTG
1 AGTG
21177656 TTGCACTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATC
Found at i:21184018 original size:87 final size:87
Alignment explanation
Indices: 21183872--21184045 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 87
21183862 TTAAATGACT
*
21183872 TAATTGAATTATTGCATGAAATTGGAAGTGTTTATGTGGAAATTAGATCATAAATTAGTGTTATG
1 TAATTGAATTATTGCATGAAATTGGAAGTGTTTATGTGGAAATTAGACCATAAATTAGTGTTATG
*
21183937 GATACAAAAGGGTAATTCTAGA
66 GACACAAAAGGGTAATTCTAGA
21183959 TAATTGAATTATTGCATGAAATTGGAAGTGTTTATGTGGAAATTAGACCATAAATTAGTGTTATG
1 TAATTGAATTATTGCATGAAATTGGAAGTGTTTATGTGGAAATTAGACCATAAATTAGTGTTATG
21184024 GACACAAAAGGGTAATTCTAGA
66 GACACAAAAGGGTAATTCTAGA
21184046 AAAATATCTA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (87 bp):
TAATTGAATTATTGCATGAAATTGGAAGTGTTTATGTGGAAATTAGACCATAAATTAGTGTTATG
GACACAAAAGGGTAATTCTAGA
Found at i:21184648 original size:28 final size:28
Alignment explanation
Indices: 21184612--21185043 Score: 780
Period size: 28 Copynumber: 15.5 Consensus size: 28
21184602 TTATGTTTTG
21184612 GTAT-TGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184639 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184667 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184695 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184723 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184751 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184779 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184807 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184835 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184863 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184891 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21184919 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
** * *
21184947 GTATGTGTAAATGTGTAAATTATGTTTT
1 GTATGTGTAAATGTGTAAATGGTATTAT
*
21184975 GGTATTATGT--ATGTGTAAATGGTATTAT
1 -GTA-TGTGTAAATGTGTAAATGGTATTAT
21185003 GTATGTGTAAATGTGTAAATGGTATTAT
1 GTATGTGTAAATGTGTAAATGGTATTAT
21185031 GTATGTGTAAATG
1 GTATGTGTAAATG
21185044 GTAGCTAATA
Statistics
Matches: 390, Mismatches: 10, Indels: 9
0.95 0.02 0.02
Matches are distributed among these distances:
26 4 0.01
27 7 0.02
28 372 0.95
29 3 0.01
30 4 0.01
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.44
Consensus pattern (28 bp):
GTATGTGTAAATGTGTAAATGGTATTAT
Found at i:21193700 original size:23 final size:23
Alignment explanation
Indices: 21193653--21193703 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
21193643 ACCTACTTTC
* ***
21193653 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGAAATA
21193676 TTACAGTAGTAATTTTCGAAATA
1 TTACAGTAGTAATTTTCGAAATA
21193699 TTACA
1 TTACA
21193704 ATTTCTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAAATA
Found at i:21198050 original size:30 final size:30
Alignment explanation
Indices: 21198015--21198071 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
21198005 GCACTGAGTC
21198015 ATTTTACTTTTTTATTTAAAAATCTTGAAA
1 ATTTTACTTTTTTATTTAAAAATCTTGAAA
21198045 ATTTTACTTTTTTATTTAAAAATCTTG
1 ATTTTACTTTTTTATTTAAAAATCTTG
21198072 TTCCATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (30 bp):
ATTTTACTTTTTTATTTAAAAATCTTGAAA
Found at i:21208059 original size:20 final size:20
Alignment explanation
Indices: 21208020--21208059 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21208010 TCATTATTGA
*
21208020 TTTTATTATTTTAAATATTT
1 TTTTATTATTTTAAAGATTT
21208040 TTTTATTA-TTTATAAGATTT
1 TTTTATTATTTTA-AAGATTT
21208060 ATCTCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTATTATTTTAAAGATTT
Found at i:21212047 original size:12 final size:12
Alignment explanation
Indices: 21212030--21212058 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21212020 ACAATTAGCA
21212030 CATTCAAATATT
1 CATTCAAATATT
21212042 CATTCAAATATT
1 CATTCAAATATT
21212054 -ATTCA
1 CATTCA
21212059 CCATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:21222046 original size:18 final size:19
Alignment explanation
Indices: 21222025--21222062 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21222015 TTTAAATAAT
21222025 TTTTGAGT-AAATTAAATA
1 TTTTGAGTCAAATTAAATA
* *
21222043 TTTTGGGTCAAATTAGATA
1 TTTTGAGTCAAATTAAATA
21222062 T
1 T
21222063 GAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.45
Consensus pattern (19 bp):
TTTTGAGTCAAATTAAATA
Found at i:21226983 original size:24 final size:27
Alignment explanation
Indices: 21226919--21226972 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
21226909 CAACCATTTG
21226919 AGCACGATCTAAAAGTAAAGAAGATTA
1 AGCACGATCTAAAAGTAAAGAAGATTA
21226946 AGCACGATCTAAAAGTAAAGAAGATTA
1 AGCACGATCTAAAAGTAAAGAAGATTA
21226973 CTCGTGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (27 bp):
AGCACGATCTAAAAGTAAAGAAGATTA
Found at i:21230952 original size:17 final size:17
Alignment explanation
Indices: 21230930--21230962 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21230920 ATAGAAAGTC
21230930 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
21230947 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
21230963 AAATCTGAGA
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:0.42, C:0.06, G:0.27, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:21233357 original size:18 final size:18
Alignment explanation
Indices: 21233331--21233365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21233321 TAAATGGAAA
*
21233331 AACTTCTATAGAGAGGTC
1 AACTCCTATAGAGAGGTC
*
21233349 AACTCCTATGGAGAGGT
1 AACTCCTATAGAGAGGT
21233366 GGGCTGGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (18 bp):
AACTCCTATAGAGAGGTC
Found at i:21235518 original size:17 final size:17
Alignment explanation
Indices: 21235475--21235520 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
21235465 AAAGTCAAAT
21235475 ATATGGGTATCAGAAAG
1 ATATGGGTATCAGAAAG
** *
21235492 ATATATGTATTAGAAAG
1 ATATGGGTATCAGAAAG
21235509 ATATGGGTATCA
1 ATATGGGTATCA
21235521 AAATCTGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.30
Consensus pattern (17 bp):
ATATGGGTATCAGAAAG
Done.