Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 71 of 433
Found at i:20584372 original size:40 final size:38
Alignment explanation
Indices: 20584323--20584429 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 38
20584313 ATCACGATTT
*
20584323 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
20584363 GCACGAATGCCTTCGGGTCTTAG-CCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
20584402 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
20584430 TTATAATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.02
38 4 0.07
39 28 0.47
40 26 0.44
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:20584413 original size:39 final size:39
Alignment explanation
Indices: 20584323--20584472 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
20584313 ATCACGATTT
*
20584323 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
20584363 GCACGAATGCCTTCGGGTCTTAG-CCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
20584402 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
20584442 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
20584473 TCAATTCAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 28 0.31
40 55 0.62
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:20589252 original size:39 final size:40
Alignment explanation
Indices: 20589150--20589337 Score: 276
Period size: 39 Copynumber: 4.8 Consensus size: 40
20589140 GGATATAGCT
* * *
20589150 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
20589190 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
20589230 ACT-GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
20589269 ACTCGCACAAATGCCTTC-GGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
20589308 A-TCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
20589338 TTATCATCGA
Statistics
Matches: 136, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 16 0.12
39 68 0.50
40 50 0.37
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:20589257 original size:79 final size:78
Alignment explanation
Indices: 20589152--20589341 Score: 269
Period size: 79 Copynumber: 2.4 Consensus size: 78
20589142 ATATAGCTAC
* * *
20589152 TCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTTAG
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGACTTAG
* * *
20589217 CCCGGATTTGGTAA
65 CCCAGAATTAGTAA
*
20589231 -CTGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTAACTCGCACAAATGCCTTCGGACTTA
1 TC-GCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGACTTA
20589294 GCCCAGAATTAGTAA
64 GCCCAGAATTAGTAA
20589309 TCGCACAAATGCCTTCGGGACTTAGCCC-GTTAT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
20589342 CATCGAATAT
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
77 2 0.02
78 48 0.48
79 49 0.49
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGC
CCAGAATTAGTAA
Found at i:20595868 original size:40 final size:40
Alignment explanation
Indices: 20595831--20596025 Score: 263
Period size: 40 Copynumber: 4.9 Consensus size: 40
20595821 GGATATAGCT
* * *
20595831 ACTCGCTCAAATGCCTTAGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
20595871 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
20595911 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
20595951 ACTCGCACAAATGCCTTCGGGACTTAGCCCAG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
20595991 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
20596026 CATTCGAATA
Statistics
Matches: 141, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 137 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:20595952 original size:80 final size:80
Alignment explanation
Indices: 20595831--20596021 Score: 294
Period size: 80 Copynumber: 2.4 Consensus size: 80
20595821 GGATATAGCT
* * * * *
20595831 ACTCGCTCAAATGCCTTAGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
* * *
20595896 AGCCCGGATTTGGTA
66 AGCCCAGAATTAGTA
20595911 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACT
20595975 TAGCCCAGAATTAGTA
65 TAGCCCAGAATTAGTA
20595991 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
20596022 TTATCATTCG
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 101 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCAGAATTAGTA
Found at i:20597712 original size:40 final size:40
Alignment explanation
Indices: 20597638--20597783 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
20597628 CCGCACCAAG
* * * * * *
20597638 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
20597678 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
20597718 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
20597758 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
20597784 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:20597798 original size:40 final size:40
Alignment explanation
Indices: 20597670--20597821 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
20597660 ATCACGATTT
* * * * *
20597670 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
20597710 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
20597750 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
20597790 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
20597822 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:20605814 original size:46 final size:46
Alignment explanation
Indices: 20605663--20605886 Score: 204
Period size: 47 Copynumber: 4.8 Consensus size: 46
20605653 ATTTGTGTGT
**
20605663 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGG-CACAAGATGA
* *
20605709 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-CAAGATGA
20605757 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-ACAAGATGA
* * * * * *****
20605803 TAG-TCAATGTAAGACCCTGTCTGGGATATGGTATCGATTTGAGAT-A
1 GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACAAGATGA
* *
20605849 TGAGCCAGTGTAAAACCATGTCTGGGACATGTCATCGG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGG
20605887 ATACTTACCC
Statistics
Matches: 144, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 40 0.28
47 73 0.51
48 30 0.21
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCACAAGATGA
Found at i:20605824 original size:94 final size:93
Alignment explanation
Indices: 20605662--20605886 Score: 267
Period size: 94 Copynumber: 2.4 Consensus size: 93
20605652 CATTTGTGTG
** *
20605662 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACCAT
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAATGTAAGACCAT
20605727 GTCTGGGACATGGCATCGGCA-TTAAGACGA
66 GTCTGGGACATGGCATC-G-ATTTAAGA-GA
* * *
20605757 -GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGATAG-TCAATGTAAGACCC
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCT-AATGTAAGACCA
* * * *
20605820 TGTCTGGGATATGGTATCGATTTGAGATA
65 TGTCTGGGACATGGCATCGATTTAAGAGA
* *
20605849 TGAGCCAGTGTAAAACCATGTCTGGGACATGTCATCGG
1 TGAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGG
20605887 ATACTTACCC
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
92 2 0.02
93 19 0.17
94 86 0.76
95 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (93 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCTAATGTAAGACCAT
GTCTGGGACATGGCATCGATTTAAGAGA
Found at i:20606886 original size:41 final size:41
Alignment explanation
Indices: 20606823--20606901 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
20606813 AGGTTTTTGC
20606823 ACATGGGCCAGAACACGAGCGTGT-CATGGCCGTGTGAGGG
1 ACATGGGCCAGAACACGAGCGTGTGCATGGCCGTGTGAGGG
* **
20606863 ACATGGGCCA-ATGACACGGGCGTGTGTTTGGCCGTGTGA
1 ACATGGGCCAGA--ACACGAGCGTGTGCATGGCCGTGTGA
20606902 AAACCCCTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 10 0.30
41 11 0.33
42 11 0.33
ACGTcount: A:0.20, C:0.22, G:0.39, T:0.19
Consensus pattern (41 bp):
ACATGGGCCAGAACACGAGCGTGTGCATGGCCGTGTGAGGG
Found at i:20611658 original size:24 final size:25
Alignment explanation
Indices: 20611603--20611671 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
20611593 AAGACATGGT
*
20611603 CGGTAAGCTCTTAATGAGCTGATAAA
1 CGGTAAGCTC-TATTGAGCTGATAAA
* *
20611629 CAGTAAGCTCTATTAAGCTGA-AAA
1 CGGTAAGCTCTATTGAGCTGATAAA
*
20611653 CGGTAAGCTTTATTGAGCT
1 CGGTAAGCTCTATTGAGCT
20611672 AAATAGTAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 19 0.51
25 9 0.24
26 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CGGTAAGCTCTATTGAGCTGATAAA
Found at i:20611694 original size:46 final size:44
Alignment explanation
Indices: 20611625--20611732 Score: 108
Period size: 46 Copynumber: 2.4 Consensus size: 44
20611615 AATGAGCTGA
* ** * *
20611625 TAAACAGTAAGCTCTATTAAGCTGAAAACGGTAAGCTTTATTGAGC
1 TAAATAGTAAGCTCT-TTAAGCTG-AAACGGTAAGCTCCAGTAAGC
* **
20611671 TAAATAGTAAGCTCTTTCGAGCTGAATTGGTAAGCTCCAGTAAGC
1 TAAATAGTAAGCTCTTT-AAGCTGAAACGGTAAGCTCCAGTAAGC
20611716 TAAAATAGTAAGCTCTT
1 T-AAATAGTAAGCTCTT
20611733 ATGAGCTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
45 18 0.35
46 34 0.65
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
TAAATAGTAAGCTCTTTAAGCTGAAACGGTAAGCTCCAGTAAGC
Found at i:20611739 original size:23 final size:24
Alignment explanation
Indices: 20611605--20611740 Score: 95
Period size: 23 Copynumber: 5.8 Consensus size: 24
20611595 GACATGGTCG
* *
20611605 GTAAGCTCTTAATGAGCTGATAAACA
1 GTAAGCTCTTATTGAGCT-A-AAATA
* **
20611631 GTAAGCTC-TATTAAGCTGAAAACG
1 GTAAGCTCTTATTGAGCT-AAAATA
20611655 GTAAGCT-TTATTGAGCT-AAATA
1 GTAAGCTCTTATTGAGCTAAAATA
* * * *
20611677 GTAAGCTCTT-TCGAGCTGAATTG
1 GTAAGCTCTTATTGAGCTAAAATA
* * *
20611700 GTAAGCTC-CAGTAAGCTAAAATA
1 GTAAGCTCTTATTGAGCTAAAATA
20611723 GTAAGCTCTTA-TGAGCTA
1 GTAAGCTCTTATTGAGCTA
20611741 TGGTGAGTCT
Statistics
Matches: 87, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
22 16 0.18
23 34 0.39
24 20 0.23
25 9 0.10
26 8 0.09
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (24 bp):
GTAAGCTCTTATTGAGCTAAAATA
Found at i:20613702 original size:293 final size:292
Alignment explanation
Indices: 20612975--20614191 Score: 1697
Period size: 293 Copynumber: 4.2 Consensus size: 292
20612965 AAACAGGCTG
* *
20612975 TTACATTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTAAAATTAAAAG
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAG
* * * * * *
20613040 TAAGCTAGCATCAATTTGCACTTCAATCATCTATGATAATAGAATCTTTTTGGGTTGCTTTTGTC
66 TAATCTAGCATCAATTTGCACTTCAATCATCTATTATAATAGAATCTATTTGGCTTTCTTGTGTC
** * * * * * * *
20613105 CCTACCTACACTTTTTTAGAAGGTTTTCCCCTCTTCTTTCGAACAACATTAGAGCGTTGCTGCAT
131 CCTATTTGCAC-TTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATAGCATTAGAGTGTTGTTACAT
20613170 -A--T--C----T-T---AGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTT
195 AATTTCCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTT
* * * *
20613222 GATATTGAGATGTATCAAATTATTCAATATTCC
260 GATATTGGGATGTATCAGATTATCCAATCTTCC
* * *
20613255 TTACAATAGTAATGTTTCAAAGATTTGTTAAGTTATTGCCTACATCATGGTTTTGAAATTAAAAG
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAG
* *
20613320 TAATCTAGCATCAATTTGCACTTCAATCATCTATTATAAAAAAAATCTATTTGGCTTTCTTGTGT
66 TAATCTAGCATCAATTTGCACTTCAATCATCTATTAT-AATAGAATCTATTTGGCTTTCTTGTGT
*
20613385 CCCTATTTGCACTTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATAGCATTAGAGTGTTGTTGCAT
130 CCCTATTTGCACTTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATAGCATTAGAGTGTTGTTACAT
* * * *
20613450 AATTTTCCTTGTTGTCACAGCCTTTTTCCCCTTCCACTTCAATCTAGGGCCTTTTCATGAATTTT
195 AATTTCCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTT
20613515 GATATTGGGATGTATCAGATTATCCAATCTTCC
260 GATATTGGGATGTATCAGATTATCCAATCTTCC
* * *
20613548 TTACAGTAGTAATGTTTCAAAGATTTCTTGAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAC
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAG
* * * * * * *
20613613 TAAGCTAGCATCAATTTGCACTTCAATAATATATTATAATAGAATCCATCTAGCTTGCTTGTGTC
66 TAATCTAGCATCAATTTGCACTTCAATCATCTATTATAATAGAATCTATTTGGCTTTCTTGTGTC
* * * * * ** *
20613678 CCTATCTACACTTGTTTAGAAGGTTTTCCCCTCTTCTATCGAACAATATTAGAGTGTTGTTTCAT
131 CCTATTTGCACTT-TTTAGAAGGTTTTCCCCTTTTCTTTCGAATAGCATTAGAGTGTTGTTACAT
* *
20613743 AATTTGCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATTTAGGGCCTTTCCATGAATGTT
195 AATTTCCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTT
*
20613808 GATATTGGGATGTATCAGATTATTCAATCTTCC
260 GATATTGGGATGTATCAGATTATCCAATCTTCC
* *
20613841 TTATAGTAGTAATTTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAG
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAG
*
20613906 TAATCTAGCATCAATTTGCATTTCAATCATCTATTATAATAGAATCTATTTGGCTTTCTTGTGTC
66 TAATCTAGCATCAATTTGCACTTCAATCATCTATTATAATAGAATCTATTTGGCTTTCTTGTGTC
* * *
20613971 CCTATTTGCACTTATTTATAAGGTTTTCCCCTTATT-TTTTGAATAGCATCAGAGTGTTGTTACA
131 CCTATTTGCACTT-TTTAGAAGGTTTTCCCCTT-TTCTTTCGAATAGCATTAGAGTGTTGTTACA
* * * *
20614035 TAATTTCCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATTTAGGGCCTTTCCATGAATTT
194 TAATTTCCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGT
* *
20614100 TGATATTGGGATATATCAGATTGTCCAATCTTCC
259 TGATATTGGGATGTATCAGATTATCCAATCTTCC
* *
20614134 TCATAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAA
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAA
20614192 ATTGGTGGAC
Statistics
Matches: 831, Mismatches: 90, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
280 144 0.17
281 31 0.04
283 1 0.00
285 1 0.00
289 1 0.00
290 1 0.00
292 33 0.04
293 617 0.74
294 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (292 bp):
TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAG
TAATCTAGCATCAATTTGCACTTCAATCATCTATTATAATAGAATCTATTTGGCTTTCTTGTGTC
CCTATTTGCACTTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATAGCATTAGAGTGTTGTTACATA
ATTTCCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTTG
ATATTGGGATGTATCAGATTATCCAATCTTCC
Found at i:20614086 original size:586 final size:573
Alignment explanation
Indices: 20612975--20614191 Score: 1880
Period size: 586 Copynumber: 2.1 Consensus size: 573
20612965 AAACAGGCTG
* * *
20612975 TTACATTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTAAAATTAAAAG
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAC
* * ** * * * *
20613040 TAAGCTAGCATCAATTTGCACTTCAATCATCTATGATAATAGAATCTTTTTGGGTTGCTTTTGTC
66 TAAGCTAGCATCAATTTGCACTTCAATAATATATGATAATAGAATCCATCTAGCTTGCTTGTGTC
* *
20613105 CCTACCTACACTTTTTTAGAAGGTTTTCCCCTCTTCTTTCGAACAACATTAGAGCGTTGCTGCAT
131 CCTACCTACACTTGTTTAGAAGGTTTTCCCCTCTTCTATCGAACAACATTAGAGCGTTGCTGCAT
20613170 ATCTTAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTTGATATTGAGATGT
196 ATCTTAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTTGATATTGAGATGT
*
20613235 ATCAAATTATTCAATATTCCTTACAATAGTAATGTTTCAAAGATTTGTTAAGTTATTGCCTACAT
261 ATCAAATTATTCAATATTCCTTACAATAGTAATGTTTCAAAGATTTGTTAAGTTATTGCCCACAT
20613300 CATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGCACTTCAATCATCTATTATAAAAAAAA
326 CATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGCACTTCAATCATCTATTATAAAAAAAA
20613365 TCTATTTGGCTTTCTTGTGTCCCTATTTGCACTTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATA
391 TCTATTTGGCTTTCTTGTGTCCCTATTTGCACTTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATA
* * * *
20613430 GCATTAGAGTGTTGTTGCATAATTTTCCTTGTTGTCACAGCCTTTTTCCCCTTCCACTTCAATCT
456 GCATCAGAGTGTTGTTACATAATTTCCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCT
* *
20613495 AGGGCCTTTTCATGAATTTTGATATTGGGATGTATCAGATTATCCAATCTTCC
521 AGGGCCTTTCCATGAATTTTGATATTGGGATATATCAGATTATCCAATCTTCC
* *
20613548 TTACAGTAGTAATGTTTCAAAGATTTCTTGAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAC
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAC
*
20613613 TAAGCTAGCATCAATTTGCACTTCAATAATATATTATAATAGAATCCATCTAGCTTGCTTGTGTC
66 TAAGCTAGCATCAATTTGCACTTCAATAATATATGATAATAGAATCCATCTAGCTTGCTTGTGTC
* * * * *
20613678 CCTATCTACACTTGTTTAGAAGGTTTTCCCCTCTTCTATCGAACAATATTAGAGTGTTGTTTCAT
131 CCTACCTACACTTGTTTAGAAGGTTTTCCCCTCTTCTATCGAACAACATTAGAGCGTTGCTGCAT
*
20613743 AATTTGCCTTGTTGTCACAGCCTTTTTCCCCTCCCACTTCAATTTAGGGCCTTTCCATGAATGTT
196 -A--T--C----T-T---AGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTT
* * * * * *
20613808 GATATTGGGATGTATCAGATTATTCAATCTTCCTTATAGTAGTAATTTTTCAAAGATTTGTTAAG
248 GATATTGAGATGTATCAAATTATTCAATATTCCTTACAATAGTAATGTTTCAAAGATTTGTTAAG
* *
20613873 TTCTTGCCCACATCATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGCATTTCAATCATCT
313 TTATTGCCCACATCATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGCACTTCAATCATCT
* * *
20613938 ATTAT-AATAGAATCTATTTGGCTTTCTTGTGTCCCTATTTGCACTTATTTATAAGGTTTTCCCC
378 ATTATAAAAAAAATCTATTTGGCTTTCTTGTGTCCCTATTTGCACTT-TTTAGAAGGTTTTCCCC
*
20614002 TTATT-TTTTGAATAGCATCAGAGTGTTGTTACATAATTTCCCTTGTTGTCACAACCTTTTTCCC
442 TT-TTCTTTCGAATAGCATCAGAGTGTTGTTACATAATTTCCCTTGTTGTCACAACCTTTTTCCC
* *
20614066 CTTCCACTTCAATTTAGGGCCTTTCCATGAATTTTGATATTGGGATATATCAGATTGTCCAATCT
506 CTTCCACTTCAATCTAGGGCCTTTCCATGAATTTTGATATTGGGATATATCAGATTATCCAATCT
20614131 TCC
571 TCC
* *
20614134 TCATAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAA
1 TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAA
20614192 ATTGGTGGAC
Statistics
Matches: 582, Mismatches: 47, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
573 174 0.30
574 1 0.00
576 1 0.00
578 1 0.00
582 1 0.00
583 1 0.00
585 39 0.07
586 362 0.62
587 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (573 bp):
TTACAGTAGTAATGTTTCAAAGATTTGTTAAGTTCTTGCCCACATCATGGTTTTGAAATTAAAAC
TAAGCTAGCATCAATTTGCACTTCAATAATATATGATAATAGAATCCATCTAGCTTGCTTGTGTC
CCTACCTACACTTGTTTAGAAGGTTTTCCCCTCTTCTATCGAACAACATTAGAGCGTTGCTGCAT
ATCTTAGCCTTTTTCCCCTCCCACTTCAATCTAGGGCCTTTCCATGAATGTTGATATTGAGATGT
ATCAAATTATTCAATATTCCTTACAATAGTAATGTTTCAAAGATTTGTTAAGTTATTGCCCACAT
CATGGTTTTGAAATTAAAAGTAATCTAGCATCAATTTGCACTTCAATCATCTATTATAAAAAAAA
TCTATTTGGCTTTCTTGTGTCCCTATTTGCACTTTTTAGAAGGTTTTCCCCTTTTCTTTCGAATA
GCATCAGAGTGTTGTTACATAATTTCCCTTGTTGTCACAACCTTTTTCCCCTTCCACTTCAATCT
AGGGCCTTTCCATGAATTTTGATATTGGGATATATCAGATTATCCAATCTTCC
Found at i:20617545 original size:46 final size:46
Alignment explanation
Indices: 20617416--20617628 Score: 157
Period size: 46 Copynumber: 4.5 Consensus size: 46
20617406 GTGTCAATGC
* * * *
20617416 CATGTCCCAGACATGGTCTTACAAATGGCTTATATCTCAAGTCGATG
1 CATGTCCCAGACATAGTCTTAC-ACTGGCTTACATCTCGAGTCGATG
* * ***
20617463 CCATGTCACTGACATAGTCTTACACCAAC-TATCATCTCGTAGTCGATG
1 -CATGTCCCAGACATAGTCTTACACTGGCTTA-CATCTCG-AGTCGATG
* *
20617511 CATGTCCCAGACGT-GTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATAGTCTTACACTGGCTTACATCTCGA-GTCGATG
* * *
20617557 CATGTCCCAGCCAT-GTCTTACACTAGCTGT-CATCTC-AATGCAGATG
1 CATGTCCCAGACATAGTCTTACACTGGCT-TACATCTCGAGT-C-GATG
* * *
20617603 CCATTTCCCAAACATGGTCTTACACT
1 -CATGTCCCAGACATAGTCTTACACT
20617629 AGCTCTCATA
Statistics
Matches: 132, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.02
46 60 0.45
47 32 0.24
48 37 0.28
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATAGTCTTACACTGGCTTACATCTCGAGTCGATG
Found at i:20621699 original size:24 final size:24
Alignment explanation
Indices: 20621672--20621722 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
20621662 GAACACTCGA
*
20621672 TTTTTTTTACTTTAGCCATTCTAC
1 TTTTTATTACTTTAGCCATTCTAC
20621696 TTTTTATTACTTTAGCCATTCTAC
1 TTTTTATTACTTTAGCCATTCTAC
20621720 TTT
1 TTT
20621723 ATTTGCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTTATTACTTTAGCCATTCTAC
Found at i:20629355 original size:37 final size:37
Alignment explanation
Indices: 20629313--20629393 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
20629303 CGGGGTTTTA
* *
20629313 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
20629350 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
20629387 ACCCGGA
1 ACCCGGA
20629394 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:20629667 original size:48 final size:48
Alignment explanation
Indices: 20629552--20629677 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 48
20629542 TATTGCACAA
* ** *
20629552 TAGCCATTCGGCTTTACCAAATATACATCCCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
20629600 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* * *
20629648 TAGCCATTCAGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
20629678 ATTTACCTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:20630972 original size:2 final size:2
Alignment explanation
Indices: 20630965--20630992 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20630955 ACCTTCGGCA
20630965 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
20630993 GTTAATGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20633065 original size:40 final size:40
Alignment explanation
Indices: 20633005--20633168 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
20632995 CGGGATTTAA
* ** *
20633005 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
20633045 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
20633085 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
20633125 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
20633165 CCGG
1 CCGG
20633169 GTATCATTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:20633152 original size:80 final size:80
Alignment explanation
Indices: 20632991--20633168 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
20632981 GAATCACGTA
* * * * **
20632991 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
20633055 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
20633070 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
20633134 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
20633150 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
20633169 GTATCATTCA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:20637983 original size:29 final size:28
Alignment explanation
Indices: 20637897--20637997 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 28
20637887 TACTCAATCA
* *
20637897 CGCACACTTAGTGCCAT-GATTCAAGCC
1 CGCACACTTAGTGCCATACATTCAAGCT
* * * *
20637924 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
*
20637953 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
20637982 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
20637998 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 41 0.69
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:20644193 original size:46 final size:46
Alignment explanation
Indices: 20644143--20644318 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
20644133 TGGTTGAGCA
20644143 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20644189 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20644234 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20644282 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20644319 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20644299 original size:93 final size:93
Alignment explanation
Indices: 20644140--20644311 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
20644130 GGATGGTTGA
* *
20644140 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20644205 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
20644233 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20644298 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
20644312 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20645715 original size:24 final size:24
Alignment explanation
Indices: 20645683--20645729 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
20645673 ACCTGTTGTT
20645683 GCTGCAAATAATTTTGAACTGAAC
1 GCTGCAAATAATTTTGAACTGAAC
*
20645707 GCTGCAAATAATTTTGAATTGAA
1 GCTGCAAATAATTTTGAACTGAA
20645730 ACGTAACACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (24 bp):
GCTGCAAATAATTTTGAACTGAAC
Found at i:20646271 original size:25 final size:25
Alignment explanation
Indices: 20646242--20646295 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
20646232 TTGAAGAGAT
*
20646242 GTCACTGAATAGCTATCAGTGGCAA
1 GTCACTGAATAACTATCAGTGGCAA
20646267 GTCACTGAATAACTATCAGTGGCAA
1 GTCACTGAATAACTATCAGTGGCAA
20646292 GTCA
1 GTCA
20646296 TGAGAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
GTCACTGAATAACTATCAGTGGCAA
Found at i:20648763 original size:24 final size:25
Alignment explanation
Indices: 20648736--20648786 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
20648726 CTTTTTCTTA
* *
20648736 TTTTTTCTTTCCT-TCTTTTTTCCC
1 TTTTTTCTTCCCTATCTTTTCTCCC
20648760 TTTTTTCTTCCCTCATCTTTTCTCCC
1 TTTTTTCTTCCCT-ATCTTTTCTCCC
20648786 T
1 T
20648787 ATTTCTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
26 11 0.48
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTTTCTTCCCTATCTTTTCTCCC
Found at i:20650441 original size:46 final size:46
Alignment explanation
Indices: 20650389--20650559 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
20650379 AACCCGCCCC
* *
20650389 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
20650435 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
20650483 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
20650528 TAGGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
20650560 AATGCTCAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:20650501 original size:93 final size:93
Alignment explanation
Indices: 20650394--20650564 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
20650384 GCCCCTAAGT
* *
20650394 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20650459 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
20650487 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20650552 CGAGTTCGAATGC
66 CGAGTTCGAATGC
20650565 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:20655136 original size:30 final size:30
Alignment explanation
Indices: 20655102--20655159 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
20655092 TAGGCACTTT
20655102 CACACAGGT-GATCCACACACCCGTGTGTGA
1 CACACAGGTAGA-CCACACACCCGTGTGTGA
* *
20655132 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACAGGTAGACCACACACCCGTGTGT
20655160 CATGGCCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (30 bp):
CACACAGGTAGACCACACACCCGTGTGTGA
Found at i:20655837 original size:489 final size:490
Alignment explanation
Indices: 20654903--20655841 Score: 1589
Period size: 489 Copynumber: 1.9 Consensus size: 490
20654893 TTTGATATAC
20654903 CTTAATATATACATATTTTTACCCCATCGTTGGCATATTTATGAATGATTTTTCCTTGGTTTTAG
1 CTTAATATATACATATTTTTACCCCATCGTTGGCATATTTATGAATGATTTTTCCTTGGTTTTAG
*
20654968 TGAATTCGATGCTCCTAATTCTTTAATTTCATGTTTTATACTCAGGAGAGTTTAGGATAGAAAAA
66 TGAATTCGATGCTCCTAATTCTTTAATTTCATGTTTTATACTCAGGAGAGCTTAGGATAGAAAAA
*
20655033 ATAGCAAGAAACGGGCCAAAAACGGATAAATTAGGCCTAAATCAGTATTTCACACGGCCTAGGCA
131 AGAGCAAGAAACGGGCCAAAAACGGATAAATTAGGCCTAAATCAGTATTTCACACGGCCTAGGCA
*
20655098 CTTTCACACAGGTGATCCACACACCCGTGTGTGACACACGGGTAGACCACACGCCCGTGTGTCAT
196 CTTTCACACAGGTGATCCACACACCCGTGTGTGACACACGAGTAGACCACACGCCCGTGTGTCAT
* * *
20655163 GGCCATGTCGACTAAGAACCAATTCAGTATTGCACACGGCTTGAGCACCTTCACACGGGCGTGGC
261 GGCCATGTCGACTAAGAACCAACTCAGTATTGCACACGGCCTGAGCACCTTCACACGAGCGTGGC
* *
20655228 ACACGACCGTGTCTCTTCGAGCCCAAGCCTAGTTCTATTCGAAAAAGGGCACTTTTGAGGGTTTT
326 ACACGACCGTGTCTCTCCGAGCCCAAGCCTAGTTCTATTCGAAAAAGGGCACTTTTGAAGGTTTT
*
20655293 AAAGCATTCTAAATCCTATATAAACACCCTAGAAGAGGATTAGAGGAGACACACAGAGTTCATAA
391 AAAGCATTCTAAAGCCTATATAAACACCCTAGAAGAGGATTAGAGGAGACACACAGAGTTCATAA
20655358 CTTTGCTCGAGCTTCATTCTCGACATATGATAAAT
456 CTTTGCTCGAGCTTCATTCTCGACATATGATAAAT
*
20655393 CTTAATATATACATA-TTTTACCCCATAC-TTGGCATATTTATGAATGTTTTTTCCTTGGTTTTA
1 CTTAATATATACATATTTTTACCCCAT-CGTTGGCATATTTATGAATGATTTTTCCTTGGTTTTA
*
20655456 GTGAATTTGATGCTCCTAATTCTTTAATTTCATGTTTTATACTCAGGAGAGCTTAGGATA-ACAA
65 GTGAATTCGATGCTCCTAATTCTTTAATTTCATGTTTTATACTCAGGAGAGCTTAGGATAGA-AA
* * * *
20655520 AAAGAGCAAGAAACGGGCCAAAAATGGATAAATTGGGCCTAAATTAGTATTTCACACTGCCTAGG
129 AAAGAGCAAGAAACGGGCCAAAAACGGATAAATTAGGCCTAAATCAGTATTTCACACGGCCTAGG
* *
20655585 CACTTTCACACAGGTGATCTACACACCCGTGTGTGACACACGAGTAGACCACACGTCCGTGTGTC
194 CACTTTCACACAGGTGATCCACACACCCGTGTGTGACACACGAGTAGACCACACGCCCGTGTGTC
* *
20655650 ATGGCCGTGTCGACTAAGAACCAACTCAGTATTGCACACGGCCTGAGCACCTTTACACGAGCGTG
259 ATGGCCATGTCGACTAAGAACCAACTCAGTATTGCACACGGCCTGAGCACCTTCACACGAGCGTG
** * * *
20655715 GTTCACGGTCC-TGTCTCTCCTAGCCCAAGCCTAGTTCTATTCGGAAAAGGGCACTTTTGAAGGT
324 GCACAC-GACCGTGTCTCTCCGAGCCCAAGCCTAGTTCTATTCGAAAAAGGGCACTTTTGAAGGT
* *
20655779 TTTGAAGCATTCTAAAGCCTATATAAATACCCTAGAAGAGGATTAGAGGAGACACACAGAGTT
388 TTTAAAGCATTCTAAAGCCTATATAAACACCCTAGAAGAGGATTAGAGGAGACACACAGAGTT
20655842 GGAGGCAGAA
Statistics
Matches: 420, Mismatches: 26, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
488 1 0.00
489 400 0.95
490 19 0.05
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (490 bp):
CTTAATATATACATATTTTTACCCCATCGTTGGCATATTTATGAATGATTTTTCCTTGGTTTTAG
TGAATTCGATGCTCCTAATTCTTTAATTTCATGTTTTATACTCAGGAGAGCTTAGGATAGAAAAA
AGAGCAAGAAACGGGCCAAAAACGGATAAATTAGGCCTAAATCAGTATTTCACACGGCCTAGGCA
CTTTCACACAGGTGATCCACACACCCGTGTGTGACACACGAGTAGACCACACGCCCGTGTGTCAT
GGCCATGTCGACTAAGAACCAACTCAGTATTGCACACGGCCTGAGCACCTTCACACGAGCGTGGC
ACACGACCGTGTCTCTCCGAGCCCAAGCCTAGTTCTATTCGAAAAAGGGCACTTTTGAAGGTTTT
AAAGCATTCTAAAGCCTATATAAACACCCTAGAAGAGGATTAGAGGAGACACACAGAGTTCATAA
CTTTGCTCGAGCTTCATTCTCGACATATGATAAAT
Found at i:20658853 original size:22 final size:22
Alignment explanation
Indices: 20658828--20658872 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20658818 AATTCGTTAA
20658828 AGACTAAATTTCTTGTCCAATG
1 AGACTAAATTTCTTGTCCAATG
20658850 AGACTAAATTTCTTGTCCAATG
1 AGACTAAATTTCTTGTCCAATG
20658872 A
1 A
20658873 ATTCTAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (22 bp):
AGACTAAATTTCTTGTCCAATG
Found at i:20661166 original size:15 final size:15
Alignment explanation
Indices: 20661146--20661202 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
20661136 TGCTACATTA
20661146 ATAAATAAATAAAAT
1 ATAAATAAATAAAAT
*
20661161 ATAAATTCAA-AAAAT
1 ATAAA-TAAATAAAAT
* * *
20661176 TTAAAAAAATAAAAG
1 ATAAATAAATAAAAT
20661191 ATTAAATAAATA
1 A-TAAATAAATA
20661203 CAATGACTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 2 0.06
15 18 0.56
16 12 0.38
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAAATAAATAAAAT
Found at i:20667722 original size:19 final size:19
Alignment explanation
Indices: 20667698--20667752 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
20667688 CTAATAAGGA
20667698 TAATAATAATAATAAATAG
1 TAATAATAATAATAAATAG
* *
20667717 TAATAATAATATATTATTAG
1 TAATAATAATA-ATAAATAG
*
20667737 TAATAGAAAATAATAA
1 TAATA-ATAATAATAA
20667753 TGATAAAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 11 0.37
20 14 0.47
21 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TAATAATAATAATAAATAG
Found at i:20667879 original size:3 final size:3
Alignment explanation
Indices: 20667861--20667960 Score: 64
Period size: 3 Copynumber: 33.7 Consensus size: 3
20667851 TTAATACTGG
* * *
20667861 TAA TAA T-A TAA AAA TAA TAA -AA GAA TAA TAA TATG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
20667905 TAG TAA TAA -AA AAA TAA CAG TAA CAA CAA TAA TAA TAAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
20667949 TAA TAAA TAA TA
1 TAA T-AA TAA TA
20667961 TTAAAAAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
2 8 0.11
3 60 0.79
4 8 0.11
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:20667902 original size:13 final size:12
Alignment explanation
Indices: 20667860--20667913 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
20667850 GTTAATACTG
20667860 GTAATAAT-ATA
1 GTAATAATAATA
** *
20667871 AAAATAATAAAA
1 GTAATAATAATA
20667883 G-AATAATAATA
1 GTAATAATAATA
20667894 TGTAATAATAATA
1 -GTAATAATAATA
20667907 GTAATAA
1 GTAATAA
20667914 AAAAATAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 15 0.43
12 10 0.29
13 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
GTAATAATAATA
Found at i:20667965 original size:22 final size:21
Alignment explanation
Indices: 20667932--20667972 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20667922 CAGTAACAAC
20667932 AATAATAATAAATAAAATAATA
1 AATAATAATAAA-AAAATAATA
*
20667954 AATAATATTAAAAAAATAA
1 AATAATAATAAAAAAATAA
20667973 GAATGTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAATAATAAAAAAATAATA
Found at i:20669333 original size:45 final size:45
Alignment explanation
Indices: 20669259--20669561 Score: 163
Period size: 45 Copynumber: 6.7 Consensus size: 45
20669249 GTAGCTTTAA
* * *
20669259 TCTGTTCCACTGCCACTTCAGGGAAATAAGATTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAG
* *
20669304 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGTTG-TAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T--TTGCTATCTTCAG
* * * *
20669351 CCTGCTCCACTACAACTTTAGGGAGATAACG-TTTG-T-T-TTGA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAA-GATTTGCTATCTTCAG
* * * * ** *
20669392 TCTGCTCTACTACAACTTTAGAGAGATAAGATCTATAATTTATCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-T--GCTATCTTCAG
* * * * * *
20669441 TCTGTTCCATTACTACTTCATGGAAATAAGATTCT-CTATCTTC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCTATCTTCAG
* * * * * * * *
20669485 ATCTACTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAG
** *
20669531 TCTGCTCCACTGTTACTTCATGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
20669562 CTTGTGTCTT
Statistics
Matches: 205, Mismatches: 37, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
40 1 0.00
41 27 0.13
42 4 0.02
43 1 0.00
44 5 0.02
45 96 0.47
46 4 0.02
47 34 0.17
48 9 0.04
49 24 0.12
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAG
Found at i:20669726 original size:131 final size:131
Alignment explanation
Indices: 20669552--20669787 Score: 328
Period size: 131 Copynumber: 1.8 Consensus size: 131
20669542 GTTACTTCAT
* * * * * *
20669552 GGAGATAAGACTTGTGTCTTAAATCTACTTCTCTACTATCTCGGGAAGATAAGATTCACCGTTTT
1 GGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTT
** *
20669617 CAATCTGCTTTACTACTGCTTAGGAAAATAAGATCTGTGATCTTCAGCCTTCTCCACTACTGCTA
66 CAATCTGCTCCACTACTACTTAGGAAAATAAGATCTGTGATCTTCAGCCTTCTCCACTACTGCTA
20669682 G
131 G
* * * *
20669683 GGAGATAAGGCTAGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCATCTT
1 GGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTT
* * *
20669748 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGA
66 CAATCTGCTCCACTACTACTTAGGAAAATAAGATCTGTGA
20669788 ATTCATCAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
131 89 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (131 bp):
GGAGATAAGACTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACCATCTT
CAATCTGCTCCACTACTACTTAGGAAAATAAGATCTGTGATCTTCAGCCTTCTCCACTACTGCTA
G
Found at i:20674453 original size:20 final size:20
Alignment explanation
Indices: 20674428--20674470 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
20674418 ATTTGTATGG
*
20674428 TAAAGAATATTTGCTCAGGA
1 TAAAGAATATTTGCTCAGAA
*
20674448 TAAAGAATATTTGTTCAGAA
1 TAAAGAATATTTGCTCAGAA
20674468 TAA
1 TAA
20674471 GACATAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (20 bp):
TAAAGAATATTTGCTCAGAA
Found at i:20678029 original size:19 final size:20
Alignment explanation
Indices: 20678005--20678051 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
20677995 TTGTGAAATT
* *
20678005 TAATGCACATG-ATGCGATG
1 TAATGCAAATGCATGAGATG
20678024 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
20678044 -AATGCAAA
1 TAATGCAAA
20678052 ACTAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:20686127 original size:30 final size:30
Alignment explanation
Indices: 20686091--20686151 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
20686081 ACGTGGAAGT
20686091 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
1 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
20686121 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
1 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
20686151 A
1 A
20686152 CGTCATAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (30 bp):
AAGGGTCGAGTGATGCATAAGCTTCTTGGG
Found at i:20694621 original size:8 final size:9
Alignment explanation
Indices: 20694611--20694695 Score: 54
Period size: 8 Copynumber: 9.6 Consensus size: 9
20694601 AAAATTTGAA
20694611 AAAATATA-
1 AAAATATAT
20694619 AAAAT-TAT
1 AAAATATAT
* *
20694627 TAAATCT-T
1 AAAATATAT
*
20694635 AAAAAATAT
1 AAAATATAT
20694644 GAAAATTGATAT
1 -AAAA-T-ATAT
20694656 AAAAT-TAT
1 AAAATATAT
*
20694664 AAAAAAATAT
1 -AAAATATAT
20694674 AAAAT-TAT
1 AAAATATAT
*
20694682 AAAATATAA
1 AAAATATAT
20694691 AAAAT
1 AAAAT
20694696 CTAATAAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
7 2 0.03
8 25 0.42
9 17 0.28
10 8 0.13
11 4 0.07
12 4 0.07
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:20694638 original size:26 final size:25
Alignment explanation
Indices: 20694602--20694710 Score: 103
Period size: 26 Copynumber: 4.1 Consensus size: 25
20694592 AAATTTTTGA
20694602 AAATTTGAAAAAATATAAAAATTATT
1 AAATTT-AAAAAATATAAAAATTATT
*
20694628 AAATCTTAAAAAATATGAAAATTGATAT
1 AAAT-TTAAAAAATATAAAAATT-AT-T
*
20694656 AAAATTATAAAAAA-ATATAAAATTATA
1 -AAATT-TAAAAAATATA-AAAATTATT
* *
20694683 AAATATAAAAAATCTAATAAATTATT
1 AAATTTAAAAAATATAA-AAATTATT
20694709 AA
1 AA
20694711 TAAAACATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
25 8 0.12
26 34 0.49
27 4 0.06
28 6 0.09
29 17 0.25
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (25 bp):
AAATTTAAAAAATATAAAAATTATT
Found at i:20694734 original size:21 final size:23
Alignment explanation
Indices: 20694701--20694747 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
20694691 AAAATCTAAT
20694701 AAATTATTAATAAAACATATTTA
1 AAATTATTAATAAAACATATTTA
*
20694724 AAATT-TT-ATAAAACCTATTTA
1 AAATTATTAATAAAACATATTTA
20694745 AAA
1 AAA
20694748 ACTATACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTATTAATAAAACATATTTA
Found at i:20694772 original size:9 final size:9
Alignment explanation
Indices: 20694609--20694823 Score: 82
Period size: 9 Copynumber: 22.6 Consensus size: 9
20694599 TGAAAATTTG
*
20694609 AAAAAATAT
1 AAAAATTAT
20694618 AAAAATTAT
1 AAAAATTAT
*
20694627 -TAAATCT-T
1 AAAAAT-TAT
*
20694635 AAAAAATAT
1 AAAAATTAT
*
20694644 GAAAATTGAT
1 AAAAATT-AT
20694654 ATAAAATTAT
1 A-AAAATTAT
*
20694664 AAAAA-AAT
1 AAAAATTAT
20694672 ATAAAATTAT
1 A-AAAATTAT
20694682 -AAAA-TAT
1 AAAAATTAT
20694689 AAAAAATCTAAT
1 -AAAAAT-T-AT
*
20694701 AAATTATTAAT
1 AAA-AATT-AT
*
20694712 AAAACATATTT
1 AAAA-AT-TAT
*
20694723 AAAATTTTAT
1 AAAA-ATTAT
20694733 AAAACCTATT-T
1 AAAA---ATTAT
*
20694744 AAAAACTAT
1 AAAAATTAT
* *
20694753 ACAAATCAT
1 AAAAATTAT
20694762 AAAAATTAT
1 AAAAATTAT
*
20694771 AAAAAATAT
1 AAAAATTAT
* *
20694780 TAAAAGTAT
1 AAAAATTAT
*
20694789 GAAAATTGAT
1 AAAAATT-AT
*
20694799 ATAAATTTAT
1 A-AAAATTAT
20694809 AAAAATTATT
1 AAAAATTA-T
20694819 AAAAA
1 AAAAA
20694824 AACATAAGGA
Statistics
Matches: 155, Mismatches: 30, Indels: 41
0.69 0.13 0.18
Matches are distributed among these distances:
7 3 0.02
8 15 0.10
9 70 0.45
10 24 0.15
11 35 0.23
12 8 0.05
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:20695370 original size:4 final size:4
Alignment explanation
Indices: 20695361--20695387 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20695351 GTGCTGAGTT
20695361 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
20695388 TTGCATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:20702005 original size:2 final size:2
Alignment explanation
Indices: 20701998--20702035 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20701988 TTATTATAAC
20701998 AT 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 AT
20702036 CATTAATGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20703643 original size:3 final size:3
Alignment explanation
Indices: 20703637--20703830 Score: 191
Period size: 3 Copynumber: 64.7 Consensus size: 3
20703627 ATTTTAATAA
* * *
20703637 TAT TAT TAT TAGT AAT TAAT T-T TAA TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TA-T TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * **
20703683 TAT TAT TAT TAT TAC TAT TAT CTTT TAT TAT TAT TCC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
20703729 TAA CA- TAT TAT TAT TCT TAT TCT TAT T-T T-T TA- TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
20703773 TAT TAGCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TA--T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20703820 TAT TAT TAT TA
1 TAT TAT TAT TA
20703831 CTACTATTTT
Statistics
Matches: 157, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
2 9 0.06
3 138 0.88
4 7 0.04
5 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:20703655 original size:28 final size:28
Alignment explanation
Indices: 20703621--20703675 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
20703611 ATCATTAAAT
20703621 TAATTAATTTTAATAATATTATTATTAG
1 TAATTAATTTTAATAATATTATTATTAG
*
20703649 TAATTAATTTTAATATTATTATTATTA
1 TAATTAATTTTAATAATATTATTATTA
20703676 TTATTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
TAATTAATTTTAATAATATTATTATTAG
Found at i:20704115 original size:26 final size:27
Alignment explanation
Indices: 20704031--20704126 Score: 101
Period size: 26 Copynumber: 3.6 Consensus size: 27
20704021 TATAAATTTG
*
20704031 TACTTGTTTTAAATCTC-TTCATATAT
1 TACTTGTTTTAAATTTCTTTCATATAT
* * *
20704057 TATTTATTTTAAATTAT-TTTTAT-TAT
1 TACTTGTTTTAAATT-TCTTTCATATAT
*
20704083 CACTTGTTTTAAATTTCTTTCATATAT
1 TACTTGTTTTAAATTTCTTTCATATAT
20704110 TA-TTGTTTTAAAATTTC
1 TACTTGTTTT-AAATTTC
20704127 ATATTGTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.02
26 39 0.70
27 16 0.29
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.59
Consensus pattern (27 bp):
TACTTGTTTTAAATTTCTTTCATATAT
Found at i:20709253 original size:25 final size:27
Alignment explanation
Indices: 20709206--20709256 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
20709196 AAACTAAATT
*
20709206 ATAATTATTTTTAAATGTGTAATTATC
1 ATAATTATTTTTAAATGTATAATTATC
20709233 ATAATT-TTTTTAAAT-TATAATTAT
1 ATAATTATTTTTAAATGTATAATTAT
20709257 TTTTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 9 0.39
27 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATAATTATTTTTAAATGTATAATTATC
Found at i:20709254 original size:16 final size:18
Alignment explanation
Indices: 20709233--20709274 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
20709223 TGTAATTATC
20709233 ATAATT-TTTTTAAAT-T
1 ATAATTATTTTTAAATGT
20709249 ATAATTATTTTTAAATGT
1 ATAATTATTTTTAAATGT
20709267 ATAATTAT
1 ATAATTAT
20709275 GACAACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATAATTATTTTTAAATGT
Found at i:20710488 original size:26 final size:26
Alignment explanation
Indices: 20710434--20710491 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
20710424 CAACATTTAC
*
20710434 AATAAT-GTAAATATTATTAAAATCA
1 AATAATAGTAAATATTATCAAAATCA
*
20710459 AATAATAGTAAA-ATTATCAAATATCT
1 AATAATAGTAAATATTATCAAA-ATCA
20710485 AATAATA
1 AATAATA
20710492 ATAACTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (26 bp):
AATAATAGTAAATATTATCAAAATCA
Found at i:20714282 original size:21 final size:21
Alignment explanation
Indices: 20714257--20714321 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
20714247 AAGGTTAACT
*
20714257 AAAGCACACAAGTGTTAAACA
1 AAAGCACACAAGTGCTAAACA
* *
20714278 AAAGCCCA-AAG-GCT-AACT
1 AAAGCACACAAGTGCTAAACA
*
20714296 GAAGCACACAAGTGCTAAACA
1 AAAGCACACAAGTGCTAAACA
*
20714317 GAAGC
1 AAAGC
20714322 CTGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.26
19 5 0.14
20 6 0.17
21 15 0.43
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (21 bp):
AAAGCACACAAGTGCTAAACA
Found at i:20714295 original size:39 final size:39
Alignment explanation
Indices: 20714201--20714339 Score: 143
Period size: 39 Copynumber: 3.6 Consensus size: 39
20714191 TCGTGATTTG
* * * * *
20714201 AAGCCCAAAGTCTAGCTGAAGCACATAAGTGCCAAACGA
1 AAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACAA
** * * * *
20714240 AAGATCGAAGGTTAACTAAAGCACACAAGTGTTAAACAA
1 AAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACAA
*
20714279 AAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACAG
1 AAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACAA
** *
20714318 AAGCCTGAAGGCTAATTGAAGC
1 AAGCCCAAAGGCTAACTGAAGC
20714340 TCATCAGAGC
Statistics
Matches: 79, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.14
Consensus pattern (39 bp):
AAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACAA
Found at i:20716906 original size:40 final size:40
Alignment explanation
Indices: 20716851--20716954 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
20716841 AAAATCGAAT
* * *
20716851 AGATCGAGTATTAGCGGCATTTTTATGAAAGTGCCGCTAA
1 AGATCGAGCATTAGCGGCATTTTTAAGAAAGCGCCGCTAA
* *
20716891 AGATCGAGCATTAGCGGCTTTTTTAAGGAAGCGCCGCTAA
1 AGATCGAGCATTAGCGGCATTTTTAAGAAAGCGCCGCTAA
* * *
20716931 AGGTTGA-CCTATAGCGGCATTTTT
1 AGATCGAGCAT-TAGCGGCATTTTT
20716955 TTAAAAACGA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (40 bp):
AGATCGAGCATTAGCGGCATTTTTAAGAAAGCGCCGCTAA
Found at i:20717098 original size:113 final size:113
Alignment explanation
Indices: 20716952--20717160 Score: 300
Period size: 113 Copynumber: 1.8 Consensus size: 113
20716942 TAGCGGCATT
*
20716952 TTTTTAAAAACGACGCTAAAAGATTAAAGAGAACGACATCGT-T-TTTCTGAGCTTCAGTGGCAT
1 TTTTTAAAAACGACGCTAAAAGATTAAACAGAACGACATCGTCTGTTT-TGAGCTTCAGTGGCAT
20717015 TAGCGGCGCTACC-C-GAAAAACGCAGCAATAGATCCAACATTAGAGGCG
65 TAGCGGCGCTACCTCAG-AAAACGCAGCAATAGATCCAACATTAGAGGCG
* *
20717063 TTTTTAACAAAGCGCCGCTAAAAGATTAAACAGAACGACGTCGTCTGTTTTGAGCTTCAGTGGCA
1 TTTTTAA-AAA-CGACGCTAAAAGATTAAACAGAACGACATCGTCTGTTTTGAGCTTCAGTGGCA
* * *
20717128 TTAGTGGCGCTTCCTCAGAAAACGCCGCAATAG
64 TTAGCGGCGCTACCTCAGAAAACGCAGCAATAG
20717161 TTTGGGTTCT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
111 7 0.08
112 3 0.03
113 29 0.34
114 28 0.33
115 18 0.21
116 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (113 bp):
TTTTTAAAAACGACGCTAAAAGATTAAACAGAACGACATCGTCTGTTTTGAGCTTCAGTGGCATT
AGCGGCGCTACCTCAGAAAACGCAGCAATAGATCCAACATTAGAGGCG
Found at i:20717801 original size:21 final size:21
Alignment explanation
Indices: 20717777--20717836 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
20717767 TTTATAGTCA
*
20717777 TAAATCATAAACTATAAACCT
1 TAAATCCTAAACTATAAACCT
*
20717798 TAAACCCTAAA-TATTAAACCT
1 TAAATCCTAAACTA-TAAACCT
* *
20717819 TGAATCCTAAACCATAAA
1 TAAATCCTAAACTATAAA
20717837 ACCCTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAATCCTAAACTATAAACCT
Found at i:20717972 original size:21 final size:21
Alignment explanation
Indices: 20717938--20718002 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
20717928 TTATAAAACG
*
20717938 TCTTAAAACTATAAACCTTAAA
1 TCTT-AAACCATAAACCTTAAA
*
20717960 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCTTAAA
**
20717981 TCCAAAACCATAAAACCTTAAA
1 TCTTAAACCAT-AAACCTTAAA
20718003 CTATAGACAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTTAAACCATAAACCTTAAA
Found at i:20718363 original size:3 final size:3
Alignment explanation
Indices: 20718355--20718439 Score: 170
Period size: 3 Copynumber: 28.3 Consensus size: 3
20718345 ATTAATAGTA
20718355 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20718403 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20718440 GAGAAAAAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20718672 original size:72 final size:74
Alignment explanation
Indices: 20718538--20718716 Score: 199
Period size: 72 Copynumber: 2.4 Consensus size: 74
20718528 TGAAGCTTTG
*
20718538 TTATTAGTGGCGCTTTTA-AAAAATGCCACAAAACATCTATTAAGAGAATGTAAAACGGCATCG-
1 TTATTAGTGGCGCTTTTATAAACA-GCCACAAAACATCTA-TAAGAGAATGTAAAACGGCATCGT
*
20718601 TTTACATCATT
64 TTTACAGCATT
* * * *
20718612 CTTATTAGTGGCGCTTCTATAAACA-CCGCAAAACATCTA-AAGAG-ATTTCAAAACGTCATCGT
1 -TTATTAGTGGCGCTTTTATAAACAGCCACAAAACATCTATAAGAGAATGT-AAAACGGCATCGT
* *
20718674 TTTATAGCCTT
64 TTTACAGCATT
*
20718685 TTATTAGTGGCGCTTTTATAAAC-GCTACAAAA
1 TTATTAGTGGCGCTTTTATAAACAGCCACAAAA
20718717 GATGTGAAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
71 3 0.03
72 44 0.49
73 8 0.09
74 13 0.15
75 17 0.19
76 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (74 bp):
TTATTAGTGGCGCTTTTATAAACAGCCACAAAACATCTATAAGAGAATGTAAAACGGCATCGTTT
TACAGCATT
Found at i:20721593 original size:2 final size:2
Alignment explanation
Indices: 20721586--20721617 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20721576 CTAAAAGACA
20721586 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
20721618 TACCTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20726490 original size:40 final size:40
Alignment explanation
Indices: 20726400--20726619 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
20726390 ACCCAAGTAT
* * * *
20726400 CTTCGGGATTTAG-CCGGATATAATCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
20726438 CTTC-GGATCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
20726478 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
20726518 CTTCAGGTCCTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
20726558 CTTC-AGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
20726598 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
20726620 CATTCGAATA
Statistics
Matches: 150, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
37 3 0.02
38 8 0.05
39 18 0.12
40 115 0.77
41 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:20734534 original size:40 final size:40
Alignment explanation
Indices: 20734451--20734670 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
20734441 ACCCAAGTAT
* *
20734451 CTTCGGGAT-TTAG-CCGGATATAATCACT--CACACAAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACA-AATGC
* * *
20734489 CTTCGGGTCTTAGCCCGGATATGGTTACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
20734529 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
20734569 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
20734609 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
20734649 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
20734671 CATTCGAATA
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 13 0.08
40 126 0.81
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:20736680 original size:31 final size:31
Alignment explanation
Indices: 20736644--20736704 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
20736634 TATATTTTTT
20736644 ATGCTATATTTGCTATTTTTGGTTGGATTTC
1 ATGCTATATTTGCTATTTTTGGTTGGATTTC
*
20736675 ATGCTATATTTGCTGTTTTTGGTTGGATTT
1 ATGCTATATTTGCTATTTTTGGTTGGATTT
20736705 AATGTAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.08, G:0.21, T:0.56
Consensus pattern (31 bp):
ATGCTATATTTGCTATTTTTGGTTGGATTTC
Found at i:20739198 original size:39 final size:39
Alignment explanation
Indices: 20739136--20739275 Score: 163
Period size: 39 Copynumber: 3.6 Consensus size: 39
20739126 ATCGTGATTT
* * * * **
20739136 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACA
* * * *
20739175 GAAGCCTGAAGGTTAACTAAAGCACAGAAGTGTTAAACA
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACA
*
20739214 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACA
* *
20739253 GAAGCCCAAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
20739276 TTATCAGAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACA
Found at i:20739257 original size:21 final size:21
Alignment explanation
Indices: 20739194--20739257 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
20739184 AGGTTAACTA
* *
20739194 AAGCACAGAAGTGTTAAACAG
1 AAGCACACAAGTGCTAAACAG
*
20739215 AAGC-C-CGAAG-GCT-AACTG
1 AAGCACAC-AAGTGCTAAACAG
20739233 AAGCACACAAGTGCTAAACAG
1 AAGCACACAAGTGCTAAACAG
20739254 AAGC
1 AAGC
20739258 CCAAAGGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 8 0.24
21 12 0.35
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (21 bp):
AAGCACACAAGTGCTAAACAG
Found at i:20750071 original size:24 final size:25
Alignment explanation
Indices: 20750044--20750100 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
20750034 AAGCTCTTCT
*
20750044 GAGCTGAATAACAGGAAGCT-ATGA
1 GAGCTGAATAACAGGAAGCTCATAA
*
20750068 GAGCTGAATAACTGGAAGCTCATAA
1 GAGCTGAATAACAGGAAGCTCATAA
20750093 GAGCTGAA
1 GAGCTGAA
20750101 ATTGGTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (25 bp):
GAGCTGAATAACAGGAAGCTCATAA
Found at i:20758686 original size:47 final size:47
Alignment explanation
Indices: 20758601--20758723 Score: 117
Period size: 47 Copynumber: 2.6 Consensus size: 47
20758591 GACGTAAGCC
* ** *
20758601 AGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGCATCAACTACGAGAT-ATGAGCT
*
20758647 AGTGTAAGACCATGTCTGGGACATGACATCAACT-TGAGATATGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCAACTACGAGATATGAGCT
* * * *
20758694 AGTATAATACCGTGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
20758724 GACACCTTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
46 11 0.17
47 46 0.72
48 7 0.11
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAACTACGAGATATGAGCT
Found at i:20761811 original size:31 final size:31
Alignment explanation
Indices: 20761770--20761833 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
20761760 CCTTTTCATA
*
20761770 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
20761801 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
20761832 TT
1 TT
20761834 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:20762079 original size:24 final size:24
Alignment explanation
Indices: 20762027--20762216 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
20762017 GCTTTATCAT
*
20762027 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
20762052 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
20762076 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
20762099 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
20762123 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
20762147 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
20762171 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
20762194 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
20762217 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:20762103 original size:47 final size:48
Alignment explanation
Indices: 20762026--20762217 Score: 291
Period size: 47 Copynumber: 4.0 Consensus size: 48
20762016 TGCTTTATCA
* *
20762026 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
20762075 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
20762122 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
20762170 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
20762217 T
1 T
20762218 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 70 0.53
48 50 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:20762127 original size:71 final size:72
Alignment explanation
Indices: 20762027--20762217 Score: 289
Period size: 71 Copynumber: 2.7 Consensus size: 72
20762017 GCTTTATCAT
* *
20762027 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
20762091 GCCC-TTTA
64 GCCCTTTTA
* * *
20762099 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
20762164 CCTTTTG
66 CCTTTTA
20762171 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
20762218 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 33 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:20762289 original size:9 final size:9
Alignment explanation
Indices: 20762275--20762331 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
20762265 ATCTCGTGTG
20762275 CATATCATA
1 CATATCATA
*
20762284 CATATCATGTG
1 CATATCA--TA
20762295 CATATCATA
1 CATATCATA
* *
20762304 CATGTCATGTG
1 CATATCA--TA
20762315 CATATCATA
1 CATATCATA
20762324 CATATCAT
1 CATATCAT
20762332 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:20762294 original size:20 final size:20
Alignment explanation
Indices: 20762271--20762333 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
20762261 GAACATCTCG
20762271 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
20762291 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
20762311 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20762331 TGT
1 TGT
20762334 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:20762416 original size:25 final size:25
Alignment explanation
Indices: 20762370--20762417 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
20762360 ATATATAAAC
* * * *
20762370 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
20762395 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
20762418 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:20763613 original size:27 final size:26
Alignment explanation
Indices: 20763577--20763654 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
20763567 GGGCATATTC
20763577 GTCATTTTACCATAAAGGGGTATTACG
1 GTCATTTTACC-TAAAGGGGTATTACG
* *
20763604 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTAAAGGGG-TATTACG
*
20763631 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCTAA-AGGGGTATT
20763655 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTAAAGGGGTATTACG
Found at i:20763725 original size:27 final size:27
Alignment explanation
Indices: 20763699--20763897 Score: 143
Period size: 27 Copynumber: 7.3 Consensus size: 27
20763689 ATCTACAAAC
*
20763699 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
20763726 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
20763755 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
20763782 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ***
20763809 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
20763835 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* *** *
20763863 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
20763890 CAAGGGTA
1 CAAGGGTA
20763898 AAATAGTAAT
Statistics
Matches: 134, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
26 1 0.01
27 107 0.80
28 8 0.06
29 17 0.13
30 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:20763880 original size:54 final size:55
Alignment explanation
Indices: 20763778--20763935 Score: 142
Period size: 54 Copynumber: 2.9 Consensus size: 55
20763768 GTAACTTTGT
* * * * *** *
20763778 AAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTC-AC
1 AAATCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTCTAC
* **
20763832 AAA-CTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAA-TTCTGT
1 AAATC-AAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTCTAC
*** * *
20763886 AAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACTGTAATT
1 AAATCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATT
20763936 CTGTAAATCG
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
53 4 0.05
54 77 0.93
55 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (55 bp):
AAATCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTTCTAC
Found at i:20763898 original size:27 final size:27
Alignment explanation
Indices: 20763848--20764052 Score: 265
Period size: 27 Copynumber: 7.6 Consensus size: 27
20763838 AGGGTATTTT
*
20763848 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
20763875 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
20763902 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
20763929 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
20763956 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
20763983 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
20764010 GGTAATTATGTAAATCG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
20764036 -GATAATTCTGTAAATCG
1 AG-TAATTCTGTAAATCG
20764053 GAGGTACTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
25 1 0.01
26 25 0.16
27 133 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:20764084 original size:27 final size:27
Alignment explanation
Indices: 20764047--20764153 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
20764037 ATAATTCTGT
* *
20764047 AAATCGGAGGTACTTT-GGTAATTTTAC
1 AAATCGAAGGTA-TTTCAGTAATTTTAC
*
20764074 AAGTCGAAGGTATTTCAGTAATTTTAC
1 AAATCGAAGGTATTTCAGTAATTTTAC
* *
20764101 AAATCGAGGGTATTTCAGTATTTTTAC
1 AAATCGAAGGTATTTCAGTAATTTTAC
* *
20764128 AAA-CTAATGGTATTTCGGTAATTTTA
1 AAATCGAA-GGTATTTCAGTAATTTTA
20764154 GTAAACTAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.07
27 63 0.93
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AAATCGAAGGTATTTCAGTAATTTTAC
Found at i:20764167 original size:27 final size:27
Alignment explanation
Indices: 20764083--20764168 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
20764073 CAAGTCGAAG
* **
20764083 GTATTTCAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AATA
* *
20764110 GTATTTCAGTATTTTTACAAACTAATG
1 GTATTTCAGTAATTTTACAAACTAATA
* *
20764137 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGTAATTTTA-CAAACTAATA
20764164 GTATT
1 GTATT
20764169 CTAAACATGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 42 0.84
28 8 0.16
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAATA
Found at i:20768830 original size:2 final size:2
Alignment explanation
Indices: 20768823--20768847 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20768813 TCAGCTATGT
20768823 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20768848 TGAAATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20769679 original size:75 final size:75
Alignment explanation
Indices: 20769600--20769852 Score: 322
Period size: 75 Copynumber: 3.4 Consensus size: 75
20769590 GGATTTTAAC
* * *
20769600 CGGGCTAAGCCCGCAGGCCTT-GTG-TGAGATATATATCCGGGCTAATTCCCGAAGGCATTCGTG
1 CGGGCTAAGCCCGAAGGCATTCGTGCTG-G-TATATATCCGGGCTAAGTCCCGAAGGCATTCGTG
20769663 CTGGTGTTATAT
64 CTGGTGTTATAT
*
20769675 CGGGCTAAGTCCGAAGGCATTCGTGCTGGTATTATAT-CGGGCTAAGTCCCGAAGGCATTCGTGC
1 CGGGCTAAGCCCGAAGGCATTCGTGCTGGTA-TATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
20769739 TGGTGTT-TAT
65 TGGTGTTATAT
*
20769749 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT-TATACCGGGCTAAGT-CCGAAGGCATTCGT
1 -CGGGCTAAG-CCCGAAGGCATTCGTGCTGGTATATAT-CCGGGCTAAGTCCCGAAGGCATTCGT
20769812 GCTGGTGTTATAT
63 GCTGGTGTTATAT
* *
20769825 CTGGGCTAAGTCCTGAAGGC-TTTGTGCT
1 C-GGGCTAAG-CCCGAAGGCATTCGTGCT
20769853 ATTACATCGG
Statistics
Matches: 161, Mismatches: 8, Indels: 18
0.86 0.04 0.10
Matches are distributed among these distances:
74 6 0.04
75 94 0.58
76 59 0.37
77 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.29
Consensus pattern (75 bp):
CGGGCTAAGCCCGAAGGCATTCGTGCTGGTATATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT
GGTGTTATAT
Found at i:20769736 original size:38 final size:38
Alignment explanation
Indices: 20769631--20769852 Score: 344
Period size: 38 Copynumber: 5.9 Consensus size: 38
20769621 GTGTGAGATA
*
20769631 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATAT-CGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20769670 TATATCGGGCTAAGT-CCGAAGGCATTCGTGCTGGTAT
1 TATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
20769707 TATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
20769745 T-TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATAT-CGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20769783 TATACCGGGCTAAGT-CCGAAGGCATTCGTGCTGGTGT
1 TATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
20769820 TATATCTGGGCTAAGTCCTGAAGGC-TTTGTGCT
1 TATATC-GGGCTAAGTCCCGAAGGCATTCGTGCT
20769853 ATTACATCGG
Statistics
Matches: 171, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
37 66 0.39
38 91 0.53
39 14 0.08
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (38 bp):
TATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:20769852 original size:113 final size:113
Alignment explanation
Indices: 20769633--20769852 Score: 379
Period size: 113 Copynumber: 1.9 Consensus size: 113
20769623 GTGAGATATA
* *
20769633 TATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGTTATATCGGGCTAAGTCCGAAGGCATTCG
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATACCGGGCTAAGTCCGAAGGCATTCG
20769698 TGCTGGTATTATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
66 TGCTGGTATTATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
20769746 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATACCGGGCTAAGTCCGAAGGCATTCG
1 TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATACCGGGCTAAGTCCGAAGGCATTCG
* * *
20769811 TGCTGGTGTTATATCTGGGCTAAGTCCTGAAGGC-TTTGTGCT
66 TGCTGGTATTATATC-GGGCTAAGTCCCGAAGGCATTCGTGCT
20769853 ATTACATCGG
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
113 84 0.83
114 17 0.17
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (113 bp):
TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATACCGGGCTAAGTCCGAAGGCATTCG
TGCTGGTATTATATCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
Found at i:20775170 original size:2 final size:2
Alignment explanation
Indices: 20775165--20775198 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20775155 TATATATATA
20775165 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
20775199 AACGATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:20775296 original size:39 final size:39
Alignment explanation
Indices: 20775252--20775545 Score: 491
Period size: 39 Copynumber: 7.5 Consensus size: 39
20775242 GTGTGAGATA
*
20775252 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
20775291 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
20775330 TATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
20775369 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
20775408 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20775447 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * *
20775486 TATATCCGGGCTAAGTCCTGAAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20775524 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
20775546 CATGCTTTGT
Statistics
Matches: 241, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
38 21 0.09
39 213 0.88
40 7 0.03
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:20780829 original size:100 final size:100
Alignment explanation
Indices: 20780656--20780842 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 100
20780646 TATTGTGAGG
* *
20780656 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
20780721 AAGTGCAGGCTACTATGCGTACTCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACTCGAAAACTGTGA
*
20780756 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
20780821 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
20780843 CAGATAGCTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCGAAAACTGTGA
Found at i:20780843 original size:49 final size:49
Alignment explanation
Indices: 20780661--20780848 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
20780651 TGAGGTCACG
* *
20780661 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * * * *
20780710 TGTGTAGTGCTAAGTGCAGGCTACTATGCGTACTC-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAGATAA-T-TGGTCGCA
* *
20780761 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
20780810 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
20780849 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 75 0.64
50 4 0.03
51 38 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:20783865 original size:15 final size:15
Alignment explanation
Indices: 20783845--20783901 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
20783835 GTATCTTGGG
20783845 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
20783860 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
20783875 TTT-TTTTTATCTTGAA
1 TTTCTTTAT-TC-TGGA
20783891 TTTCTTTATTC
1 TTTCTTTATTC
20783902 AGTTTTCTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 4 0.12
15 19 0.56
16 7 0.21
17 4 0.12
ACGTcount: A:0.12, C:0.12, G:0.11, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:20783916 original size:31 final size:30
Alignment explanation
Indices: 20783859--20783918 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
20783849 TTTATTCTGG
*
20783859 ATTTCTTTATTCTGGGTTTTTTTTATCTTGA
1 ATTTCTTTATTC-GAGTTTTTTTTATCTTGA
20783890 ATTTCTTTATTC-AGTTTTCTTGTTATCTT
1 ATTTCTTTATTCGAGTTTT-TT-TTATCTT
20783919 TATTCCGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 2 0.08
31 19 0.73
ACGTcount: A:0.13, C:0.12, G:0.10, T:0.65
Consensus pattern (30 bp):
ATTTCTTTATTCGAGTTTTTTTTATCTTGA
Found at i:20786589 original size:20 final size:20
Alignment explanation
Indices: 20786564--20786610 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
20786554 GGCAGGCTCG
20786564 AACACGGCCTAAAGTAATCA
1 AACACGGCCTAAAGTAATCA
*
20786584 AACACGGCCTAAAGTAATCG
1 AACACGGCCTAAAGTAATCA
20786604 AACACGG
1 AACACGG
20786611 GCGTGTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (20 bp):
AACACGGCCTAAAGTAATCA
Found at i:20795367 original size:25 final size:25
Alignment explanation
Indices: 20795339--20795407 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
20795329 TCTTCTGAGT
*
20795339 TGAATAACGGGAAGCTCATGCAAGC
1 TGAAGAACGGGAAGCTCATGCAAGC
* *
20795364 TGAAGAATGGGAAGCTCATGCGAGC
1 TGAAGAACGGGAAGCTCATGCAAGC
* *
20795389 CGAAGAACAGGAAGCTCAT
1 TGAAGAACGGGAAGCTCAT
20795408 AAGAGCTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.14
Consensus pattern (25 bp):
TGAAGAACGGGAAGCTCATGCAAGC
Found at i:20802519 original size:21 final size:22
Alignment explanation
Indices: 20802495--20802535 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20802485 ATATTTATTC
20802495 TTAGT-TCTTAATTTTCTTTTT
1 TTAGTGTCTTAATTTTCTTTTT
* *
20802516 TTAGTGTTTTCATTTTCTTT
1 TTAGTGTCTTAATTTTCTTT
20802536 AATTTCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (22 bp):
TTAGTGTCTTAATTTTCTTTTT
Found at i:20803024 original size:4 final size:4
Alignment explanation
Indices: 20803012--20803070 Score: 91
Period size: 4 Copynumber: 14.8 Consensus size: 4
20803002 GTATGTGTAT
* * *
20803012 GTAA ATAA GTAA GTAT GTAA GTAA GTAA GTAT GTAA GTAA GTAA GTAA
1 GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA GTAA
20803060 GTAA GTAA GTA
1 GTAA GTAA GTA
20803071 TGTATGTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (4 bp):
GTAA
Found at i:20803031 original size:8 final size:8
Alignment explanation
Indices: 20803008--20803126 Score: 121
Period size: 8 Copynumber: 14.9 Consensus size: 8
20802998 TCATGTATGT
20803008 GTATGTAA
1 GTATGTAA
* *
20803016 ATAAGTAA
1 GTATGTAA
20803024 GTATGTAA
1 GTATGTAA
*
20803032 GTAAGTAA
1 GTATGTAA
20803040 GTATGTAA
1 GTATGTAA
*
20803048 GTAAGTAA
1 GTATGTAA
*
20803056 GTAAGTAA
1 GTATGTAA
* *
20803064 GTAAGTAT
1 GTATGTAA
*
20803072 GTATGTAT
1 GTATGTAA
*
20803080 GTATGTAT
1 GTATGTAA
*
20803088 GTATGTAT
1 GTATGTAA
*
20803096 GTATGTAT
1 GTATGTAA
*
20803104 GTATGTAT
1 GTATGTAA
*
20803112 GTATGTAT
1 GTATGTAA
20803120 GTATGTA
1 GTATGTA
20803127 TGTAACACCC
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 102 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (8 bp):
GTATGTAA
Found at i:20803075 original size:4 final size:4
Alignment explanation
Indices: 20803024--20803130 Score: 133
Period size: 4 Copynumber: 26.8 Consensus size: 4
20803014 AAATAAGTAA
* * * * * * * * *
20803024 GTAT GTAA GTAA GTAA GTAT GTAA GTAA GTAA GTAA GTAA GTAA GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
20803072 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
20803120 GTAT GTAT GTA
1 GTAT GTAT GTA
20803131 ACACCCCAAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (4 bp):
GTAT
Found at i:20803986 original size:37 final size:37
Alignment explanation
Indices: 20803927--20804035 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
20803917 AGCTCAGATG
* *
20803927 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
20803964 AAATCTCCACACGTGGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
20804001 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
20804036 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:20804234 original size:48 final size:48
Alignment explanation
Indices: 20804176--20804369 Score: 325
Period size: 48 Copynumber: 4.0 Consensus size: 48
20804166 ATATACACAC
* * * * *
20804176 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACGTATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
20804224 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
20804272 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
20804320 ATCCCATACATATTTCACATTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
20804368 AT
1 AT
20804370 ATTTATCTTG
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 139 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:20806835 original size:4 final size:4
Alignment explanation
Indices: 20806826--20806865 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
20806816 GGCTGTCACA
20806826 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
20806866 GAATAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:20807698 original size:16 final size:16
Alignment explanation
Indices: 20807673--20807710 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
20807663 CCAGGAACAT
*
20807673 AAAGAATTTTTCGGGA
1 AAAGATTTTTTCGGGA
*
20807689 AAAGATTTTTTTGGGA
1 AAAGATTTTTTCGGGA
20807705 AAAGAT
1 AAAGAT
20807711 GAAAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (16 bp):
AAAGATTTTTTCGGGA
Found at i:20811263 original size:23 final size:23
Alignment explanation
Indices: 20811237--20811284 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20811227 ATTAAATGAT
20811237 TTCTCCAGCACAAAACCTCCTAA
1 TTCTCCAGCACAAAACCTCCTAA
** *
20811260 TTCTCCTTCTCAAAACCTCCTAA
1 TTCTCCAGCACAAAACCTCCTAA
20811283 TT
1 TT
20811285 TTCTTTCGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.02, T:0.31
Consensus pattern (23 bp):
TTCTCCAGCACAAAACCTCCTAA
Found at i:20813941 original size:79 final size:79
Alignment explanation
Indices: 20813847--20814059 Score: 336
Period size: 79 Copynumber: 2.7 Consensus size: 79
20813837 CAATTATACT
* *
20813847 TAAGGATACAAAAGATCATAAAATCAACTTATATATTCATGGATTGCATATATCAATATATAATC
1 TAAGGATACAAAAGATCATAAAGTCAACTCATATATTCATGGATTGCATATATCAATATATAATC
20813912 AATTATCCTTAATA
66 AATTATCCTTAATA
* *
20813926 TAAGGATACAAAAGATCATAAAGTCAACTCATATATTTATGGATTGCATATCTCAATATATAATC
1 TAAGGATACAAAAGATCATAAAGTCAACTCATATATTCATGGATTGCATATATCAATATATAATC
*
20813991 AATTGTCCTTAATA
66 AATTATCCTTAATA
* * *
20814005 TAAGGATACAATAGATCATAAAGTTAGCTCATATATTCATGGATTGTACATATAT
1 TAAGGATACAAAAGATCATAAAGTCAACTCATATATTCATGGATTG--CATATAT
20814060 TCATGGATTG
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 116 0.95
81 6 0.05
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (79 bp):
TAAGGATACAAAAGATCATAAAGTCAACTCATATATTCATGGATTGCATATATCAATATATAATC
AATTATCCTTAATA
Found at i:20814058 original size:19 final size:19
Alignment explanation
Indices: 20814034--20814071 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20814024 AAAGTTAGCT
20814034 CATATATTCATGGATTGTA
1 CATATATTCATGGATTGTA
20814053 CATATATTCATGGATTGTA
1 CATATATTCATGGATTGTA
20814072 TATCTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (19 bp):
CATATATTCATGGATTGTA
Found at i:20815620 original size:16 final size:15
Alignment explanation
Indices: 20815594--20815625 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
20815584 ACTAGATCAG
20815594 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
20815609 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
20815625 C
1 C
20815626 GGTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:20816126 original size:54 final size:53
Alignment explanation
Indices: 20816044--20816149 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 53
20816034 AAGCGTCCTG
*
20816044 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTCTA
* * *
20816098 GTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTTCT
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCT
20816150 GGCAGCCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 10 0.21
54 38 0.79
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCTA
Found at i:20816148 original size:26 final size:26
Alignment explanation
Indices: 20816041--20816151 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
20816031 AGGAAGCGTC
* *
20816041 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
20816068 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
20816095 CTAGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
20816122 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
20816148 CTGG
1 CTGG
20816152 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:20819430 original size:23 final size:18
Alignment explanation
Indices: 20819376--20819467 Score: 132
Period size: 18 Copynumber: 5.1 Consensus size: 18
20819366 CCCATTTCAA
*
20819376 TAACATTAATCAGTGCAG
1 TAACAGTAATCAGTGCAG
20819394 TAACAGTAATCAGTGCAG
1 TAACAGTAATCAGTGCAG
* *
20819412 TAACCA-TGATCAATGCAG
1 TAA-CAGTAATCAGTGCAG
*
20819430 TAACAGTAATCAGTACAG
1 TAACAGTAATCAGTGCAG
20819448 TAACAGTAATCAGTGCAG
1 TAACAGTAATCAGTGCAG
20819466 TA
1 TA
20819468 TGCAAGCAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
17 2 0.03
18 61 0.94
19 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (18 bp):
TAACAGTAATCAGTGCAG
Found at i:20819829 original size:27 final size:27
Alignment explanation
Indices: 20819787--20819944 Score: 167
Period size: 27 Copynumber: 5.8 Consensus size: 27
20819777 GAACAAATCT
* * *
20819787 GTCATTTTACCTTACAAGGGTATTACA
1 GTCATTTTACCCTATAAGGGTATTTCA
*
20819814 GTCATTTTACCCTACAAGGGTATTTTCA
1 GTCATTTTACCCTATAAGGGTA-TTTCA
* *
20819842 GTCATTTTACCTTAT-GGAGGTATTTC-
1 GTCATTTTACCCTATAAG-GGTATTTCA
* *
20819868 GATCATTTTACCCTATGAGGGTATTTCG
1 G-TCATTTTACCCTATAAGGGTATTTCA
* *
20819896 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCA
* *
20819923 GTCATTTTATCCTATAAAGGTA
1 GTCATTTTACCCTATAAGGGTA
20819945 AAACAGTCAT
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.01
27 92 0.79
28 23 0.20
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCA
Found at i:20819850 original size:55 final size:52
Alignment explanation
Indices: 20819787--20819936 Score: 156
Period size: 55 Copynumber: 2.8 Consensus size: 52
20819777 GAACAAATCT
*
20819787 GTCATTTTACCTTACAAGGGTATTACAGTCATTTTACCCTACAAGGGTATTTTCA
1 GTCATTTTACCTTA-AAGGGTATTTC-GTCATTTTACCCTACAAGGGTA-TTTCA
** ** *
20819842 GTCATTTTACCTTATGGAGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCTTAAAG-GGTATTTCG-TCATTTTACCCTACAAGGGTATTTCA
* * *
20819896 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCCTA
1 GTCATTTTACCTTA-AAGGGTATTTC-GTCATTTTACCCTA
20819937 TAAAGGTAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
54 39 0.48
55 42 0.52
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (52 bp):
GTCATTTTACCTTAAAGGGTATTTCGTCATTTTACCCTACAAGGGTATTTCA
Found at i:20819954 original size:54 final size:54
Alignment explanation
Indices: 20819840--20819956 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 54
20819830 AGGGTATTTT
* * * ***
20819840 CAGTCATTTTACCTTATGGAGGTATTTCGATCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCCTATAAAGGTAAAA
* * *
20819894 CGGTCATTTTACCCTAT-GAGGGTATTTCGGTCATTTTATCCTATAAAGGTAAAA
1 CAGTCATTTTACCCTATGGA-GGTATTTCGATCATTTTACCCTATAAAGGTAAAA
20819948 CAGTCATTT
1 CAGTCATTT
20819957 CAACACATTG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCCTATAAAGGTAAAA
Found at i:20822853 original size:37 final size:37
Alignment explanation
Indices: 20822800--20822874 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
20822790 TCAATTTGAT
*
20822800 CCCTAATGTAGTAAAGTTAACAAATAAGCCAAACTAA
1 CCCTAATGTAGCAAAGTTAACAAATAAGCCAAACTAA
*
20822837 CCCTAATGTAGCAAAGTTAACAAATAAGTCAAACTAA
1 CCCTAATGTAGCAAAGTTAACAAATAAGCCAAACTAA
20822874 C
1 C
20822875 TTGATAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (37 bp):
CCCTAATGTAGCAAAGTTAACAAATAAGCCAAACTAA
Found at i:20824565 original size:18 final size:20
Alignment explanation
Indices: 20824523--20824566 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
20824513 TAGAAAATGA
*
20824523 TTTCTGAAAAATAATTTATT
1 TTTCTGAAAAATAATTTACT
*
20824543 TTTCTG-AAAATGA-TTACT
1 TTTCTGAAAAATAATTTACT
20824561 TTTCTG
1 TTTCTG
20824567 TTGTTTGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:20826213 original size:28 final size:28
Alignment explanation
Indices: 20826180--20826240 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
20826170 CAAGGAAGAA
*
20826180 CAAACCCGAAAGTGGAACTCAAAGAGGG
1 CAAACCCGAAAGTGGAACTCAAAGAGAG
20826208 CAAACCCGAAAGTGGAACTCAAAGAGAG
1 CAAACCCGAAAGTGGAACTCAAAGAGAG
20826236 CAAAC
1 CAAAC
20826241 TGAAAACCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.46, C:0.23, G:0.25, T:0.07
Consensus pattern (28 bp):
CAAACCCGAAAGTGGAACTCAAAGAGAG
Found at i:20833001 original size:30 final size:30
Alignment explanation
Indices: 20832965--20833022 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
20832955 CTTGTAAAAC
20832965 TTGATTGGAATTTAAGTTAATGGATTGGAA
1 TTGATTGGAATTTAAGTTAATGGATTGGAA
*
20832995 TTGATTGGAATTTAGGTTAATGGATTGG
1 TTGATTGGAATTTAAGTTAATGGATTGG
20833023 GGCCACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (30 bp):
TTGATTGGAATTTAAGTTAATGGATTGGAA
Found at i:20836197 original size:23 final size:24
Alignment explanation
Indices: 20836167--20836212 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20836157 AGAACTTTTA
* *
20836167 ATCAGGAA-GCTCACGAAGAGCCT
1 ATCAGGAATACTCACAAAGAGCCT
20836190 ATCAGGAATACTCACAAAGAGCC
1 ATCAGGAATACTCACAAAGAGCC
20836213 ATGTAACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (24 bp):
ATCAGGAATACTCACAAAGAGCCT
Done.