Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 68 of 310
Found at i:21766927 original size:24 final size:24
Alignment explanation
Indices: 21766895--21767115 Score: 76
Period size: 24 Copynumber: 9.3 Consensus size: 24
21766885 AATCTAACCC
21766895 TATATATTTATCATTATTATTATA
1 TATATATTTATCATTATTATTATA
* * *
21766919 TATATATTT-TACATTGTTATTTGTTT
1 TATATATTTAT-CATTATTA-TT-ATA
* * * * * *
21766945 TATTTTTTTAAACCTTATTTTTATG
1 TATATATTT-ATCATTATTATTATA
* *
21766970 T-TATA-TAATTATT-TTATTATA
1 TATATATTTATCATTATTATTATA
* *
21766991 TAT-TATTCATTATTATTTATTATA
1 TATATATTTATCATTA-TTATTATA
* *
21767015 TAT-TATTTTTCA-TA-AATTAT-
1 TATATATTTATCATTATTATTATA
21767035 TAT-TATTGTA-CATTATTATTTATA
1 TATATATT-TATCATTATTA-TTATA
21767059 TATTATTATATTAT-ATGT-TTATTA-A
1 TA-TA-TAT-TTATCAT-TATTATTATA
*
21767084 TTATATATTATAT-ATTATTTTTATA
1 -TATATATT-TATCATTATTATTATA
21767109 TATATAT
1 TATATAT
21767116 ACTTTTATAT
Statistics
Matches: 146, Mismatches: 27, Indels: 48
0.66 0.12 0.22
Matches are distributed among these distances:
20 9 0.06
21 17 0.12
22 12 0.08
23 10 0.07
24 57 0.39
25 9 0.06
26 15 0.10
27 15 0.10
28 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATATTTATCATTATTATTATA
Found at i:21767013 original size:27 final size:27
Alignment explanation
Indices: 21766983--21767175 Score: 93
Period size: 27 Copynumber: 7.1 Consensus size: 27
21766973 TATAATTATT
21766983 TTATTATATATTATTCATTATTATTTA
1 TTATTATATATTATTCATTATTATTTA
*
21767010 TTA-TATATTATTTTTCA-TA--A---A
1 TTATTATA-TATTATTCATTATTATTTA
* *
21767031 TTATTAT-TATTGTACATTATTATTTA
1 TTATTATATATTATTCATTATTATTTA
** *
21767057 TATATTATTATATTATATGTTTATTAATTA
1 T-TATTA-TATATTAT-TCATTATTATTTA
* *
21767087 TATATTATATATTATT-TTTA-TATATA
1 T-TATTATATATTATTCATTATTATTTA
* * *
21767113 TATACTTTTATATTATACATTATAATTATA
1 T-TA-TTATATATTATTCATTATTATT-TA
* *
21767143 TTA-TATGTTATTATGTCATTTTTATATTA
1 TTATTAT-ATATTAT-TCATTATTAT-TTA
21767172 TTAT
1 TTAT
21767176 ACATTTTTAT
Statistics
Matches: 126, Mismatches: 20, Indels: 37
0.69 0.11 0.20
Matches are distributed among these distances:
20 7 0.06
21 6 0.05
22 3 0.02
23 1 0.01
24 1 0.01
26 16 0.13
27 32 0.25
28 11 0.09
29 29 0.23
30 20 0.16
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTATATATTATTCATTATTATTTA
Found at i:21767050 original size:30 final size:30
Alignment explanation
Indices: 21766999--21767102 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
21766989 TATATTATTC
*
21766999 ATTATTATTTATTATATATTATT-TTTCATAA
1 ATTATTA-TTATTATACATTATTATTT-ATAA
* *
21767030 ATTATTATTATTGTACATTATTATTTATAT
1 ATTATTATTATTATACATTATTATTTATAA
** * *
21767060 ATTATTA-TATTATATGTTTATTAATTATAT
1 ATTATTATTATTATA-CATTATTATTTATAA
21767090 ATTATATATTATT
1 ATTAT-TATTATT
21767103 TTTATATATA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.10
30 40 0.65
31 12 0.19
32 4 0.06
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTATTATTATTATACATTATTATTTATAA
Found at i:21767065 original size:54 final size:53
Alignment explanation
Indices: 21766966--21767111 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 53
21766956 ACCTTATTTT
21766966 TATG-TTATATAATTATT-TTATTATATATTATTCA-TTAT-TATTTATTATA-TA
1 TATGTTTATA-AATTATTATTATTATATATTATT-ATTTATATA-TTATTATATTA
* * *
21767017 TTATTTTTCATAAATTATTATTATTGTACATTATTATTTATATATTATTATATTA
1 -TATGTTT-ATAAATTATTATTATTATATATTATTATTTATATATTATTATATTA
*
21767072 TATGTTTATTAATTA-TA-TATTATATATTATT-TTTATATAT
1 TATGTTTATAAATTATTATTATTATATATTATTATTTATATAT
21767112 ATATACTTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
50 9 0.11
51 12 0.15
52 5 0.06
53 17 0.21
54 34 0.42
55 4 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (53 bp):
TATGTTTATAAATTATTATTATTATATATTATTATTTATATATTATTATATTA
Found at i:21767090 original size:22 final size:20
Alignment explanation
Indices: 21766978--21767176 Score: 89
Period size: 21 Copynumber: 9.9 Consensus size: 20
21766968 TGTTATATAA
21766978 TTATT-TTAT-TA-TATATT
1 TTATTATTATATATTATATT
* *
21766995 ATTCATTATTATTTATTATATA
1 -TT-ATTATTATATATTATATT
21767017 TTATT-TT-TCATA--A-ATT
1 TTATTATTAT-ATATTATATT
* *
21767033 ATTATTATTGTACATTAT-TAT
1 -TTATTATTATATATTATAT-T
21767054 TTATATATTATTATATTATATGT
1 TTAT-TATTA-TATATTATAT-T
*
21767077 TTATTAATTATATATTATATA
1 TTATT-ATTATATATTATATT
*
21767098 TTATTTTTATATATATATACTT
1 TTATTATTATATAT-TATA-TT
* *
21767120 TTA-TATTATACATTATA-A
1 TTATTATTATATATTATATT
* *
21767138 TTA-TATTATATGTTATTATG
1 TTATTATTATATATTA-TATT
* *
21767158 TCATTTTTATATTATTATA
1 TTATTATTATA-TATTATA
21767177 CATTTTTATC
Statistics
Matches: 140, Mismatches: 19, Indels: 41
0.70 0.09 0.20
Matches are distributed among these distances:
16 2 0.01
17 6 0.04
18 20 0.14
19 10 0.07
20 27 0.19
21 34 0.24
22 31 0.22
23 10 0.07
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATTATTATATATTATATT
Found at i:21767095 original size:37 final size:37
Alignment explanation
Indices: 21767046--21767155 Score: 104
Period size: 37 Copynumber: 3.0 Consensus size: 37
21767036 ATTATTGTAC
21767046 ATTAT-TATTTATATATTATTATATTATATGTTTATTA
1 ATTATATA-TTATATATTATTATATTATATGTTTATTA
* *
21767083 ATTATATATTATATATTATT-T-TTATATATATA-TA
1 ATTATATATTATATATTATTATATTATATGTTTATTA
* * *
21767117 CTTTTATATTATACATTATAATTATATTATATG-TTATTA
1 ATTATATATTAT--A-TATTATTATATTATATGTTTATTA
21767156 TGTCATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
34 12 0.20
35 9 0.15
36 2 0.03
37 23 0.39
38 5 0.08
39 8 0.14
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (37 bp):
ATTATATATTATATATTATTATATTATATGTTTATTA
Found at i:21767113 original size:54 final size:55
Alignment explanation
Indices: 21766975--21767156 Score: 137
Period size: 54 Copynumber: 3.3 Consensus size: 55
21766965 TTATGTTATA
* *
21766975 TAATTAT-T-TTATTATATATTATTCAT-TAT-TATTTATTATA-TATTATTTTTCAT
1 TAATTATATATTATTATATATTATT-ATATATATA-TTATTATATTA-TATGTTTAAT
* * * *
21767028 AAATTAT-TATTATTGTACATTATTATTTATATATTATTATATTATATGTTT-AT
1 TAATTATATATTATTATATATTATTATATATATATTATTATATTATATGTTTAAT
* * **
21767081 TAATTATATATTA-TATATTATTTTTATATATATATACTTTTATATTATACATTATAAT
1 TAATTATATATTATTATA-TATTATTATATATATAT--TATTATATTATATGTT-TAAT
*
21767139 TATATTATATGTTATTAT
1 TA-ATTATATATTATTAT
21767157 GTCATTTTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
53 20 0.19
54 49 0.47
55 4 0.04
56 13 0.12
57 1 0.01
58 4 0.04
59 10 0.10
60 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.60
Consensus pattern (55 bp):
TAATTATATATTATTATATATTATTATATATATATTATTATATTATATGTTTAAT
Found at i:21767192 original size:14 final size:14
Alignment explanation
Indices: 21767167--21767200 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21767157 GTCATTTTTA
21767167 TATTAT-TATACAT
1 TATTATCTATACAT
*
21767180 TTTTATCTATACAT
1 TATTATCTATACAT
21767194 TATTATC
1 TATTATC
21767201 ATTAAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTATCTATACAT
Found at i:21767196 original size:132 final size:132
Alignment explanation
Indices: 21766989--21767247 Score: 301
Period size: 132 Copynumber: 2.0 Consensus size: 132
21766979 TATTTTATTA
* * * *
21766989 TATATTATTCATTATTATTTATTATATATTATTTTTCATAAATTATTATTATTGTACATTATTAT
1 TATATTATACATTATAATTTATTATATATTATTTGTCATAAATTATTATTATTATACATTATTAT
* * * * * *
21767054 TTATATATTATTAT-ATTATATGTTTATTAATTATATATTATATA-TTATTTTTATATATATATA
66 CTATACATTATTATCATTAAAGGTTT-TAAACT-TATATTATATATTTATTTTTATATATATATA
21767117 CTTT
129 CTTT
* ** *
21767121 TATATTATACATTATAATTATATTATATGTTATTATGTCAT-TTTTA-TATTATTATACATTTTT
1 TATATTATACATTATAATT-TATTATATATTATT-TGTCATAAATTATTATTATTATACATTATT
* * *
21767184 ATCTATACATTATTATCATTAAAGGTTTTAAACTTGTATTATATATTTATTTTTTTATTTATAT
64 ATCTATACATTATTATCATTAAAGGTTTTAAACTTATATTATATATTTATTTTTATATATATAT
21767248 GTTAATAATT
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
131 10 0.09
132 66 0.62
133 25 0.24
134 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (132 bp):
TATATTATACATTATAATTTATTATATATTATTTGTCATAAATTATTATTATTATACATTATTAT
CTATACATTATTATCATTAAAGGTTTTAAACTTATATTATATATTTATTTTTATATATATATACT
TT
Found at i:21770617 original size:19 final size:16
Alignment explanation
Indices: 21770587--21770634 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 16
21770577 ACAAGTAGGC
*
21770587 AAGAAAAATAAATAGAT
1 AAGAAAACTAAATA-AT
21770604 AAATGAAAACTAAATAAT
1 -AA-GAAAACTAAATAAT
21770622 AAGAAAAC-AAATA
1 AAGAAAACTAAATA
21770635 TAGGTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.18
16 6 0.21
17 2 0.07
18 4 0.14
19 11 0.39
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.17
Consensus pattern (16 bp):
AAGAAAACTAAATAAT
Found at i:21770654 original size:3 final size:3
Alignment explanation
Indices: 21770646--21771023 Score: 140
Period size: 3 Copynumber: 126.0 Consensus size: 3
21770636 AGGTGAAAGT
* * * * * * **
21770646 ATA ATA ATA CTA ATA GT- ACA ATA GTA ATA ACA ATA ATA AAA AGG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
21770693 ATA ATA AT- TTA TTAA ATA GTA A-A AGA AATA ATA GTA ATA GTA ATTA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA ATA ATA ATA A-TA
* *
21770739 A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GAAA ATA AGGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA A-TA ATA
* ** * *
21770785 ATA ATA ATA ACA ACC AT- ATT ATAA ATA ATAA ATA A-A ATCA ATA ATC
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA AT-A ATA ATA
* * * * * * **
21770831 ATA ATC ATA A-A ATA CA-A GTA ATA GTA ATG ATA ATG GTA ATA ACG
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
21770875 ATA ATAA ATA ATA GCA GTA GATA ATGA A-A ATA ATA ATA GTA ATA ATA
1 ATA AT-A ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * *
21770922 ATA ATGA A-A ATA GTGA A-A ATA ATA ATA GTA AT- ATA ATA GTA ATA
1 ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
21770966 ATA GTA ATG ATA ATA A-A TATA AGTA ACA GTA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA A-TA ATA ATA ATA ATA ATA ATA ATA
21771011 A-A A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA
21771024 TATTAAATTA
Statistics
Matches: 274, Mismatches: 70, Indels: 62
0.67 0.17 0.15
Matches are distributed among these distances:
2 26 0.09
3 214 0.78
4 34 0.12
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:21770915 original size:22 final size:21
Alignment explanation
Indices: 21770880--21770920 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21770870 TAACGATAAT
*
21770880 AAATAATAGCAGTAGATAATGA
1 AAATAATAACAGTA-ATAATGA
*
21770902 AAATAATAATAGTAATAAT
1 AAATAATAACAGTAATAAT
21770921 AATAATGAAA
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:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (21 bp):
AAATAATAACAGTAATAATGA
Found at i:21771510 original size:27 final size:25
Alignment explanation
Indices: 21771451--21771510 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 25
21771441 AAAAGACAGA
21771451 TTTTCTTAAAAAAAATTCATTTTCAC
1 TTTT-TTAAAAAAAATTCATTTTCAC
* *
21771477 TTGTTTTAAAAAAAACTTCCTTTTTCCC
1 TT-TTTTAAAAAAAA-TT-CATTTTCAC
21771505 TTTTTT
1 TTTTTT
21771511 CTTCTCTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 12 0.41
27 8 0.28
28 9 0.31
ACGTcount: A:0.30, C:0.17, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTTTTAAAAAAAATTCATTTTCAC
Found at i:21778858 original size:6 final size:6
Alignment explanation
Indices: 21778832--21778882 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
21778822 TTAGTCTAAG
* * *
21778832 AAAATA ACAATA AACACA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
21778880 AAA
1 AAA
21778883 CAAATAAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:21782970 original size:28 final size:28
Alignment explanation
Indices: 21782937--21783084 Score: 228
Period size: 28 Copynumber: 5.3 Consensus size: 28
21782927 CAAAATTTCA
*
21782937 CACACTAAGTGCCATA-TCAAATGTCTCA
1 CACACTAAGTGCCATATTC-AATGTCTCG
21782965 CACACTAAGTGCCATATTCAATGTCTCG
1 CACACTAAGTGCCATATTCAATGTCTCG
21782993 CACACTAAGTGCCATATTCAATGTCTCG
1 CACACTAAGTGCCATATTCAATGTCTCG
* *
21783021 CACACTAAGTGCCATACTCAATGTCTTG
1 CACACTAAGTGCCATATTCAATGTCTCG
*
21783049 TACACTAAGTGCCATACTT-AATGTCTCG
1 CACACTAAGTGCCATA-TTCAATGTCTCG
21783077 CACACTAA
1 CACACTAA
21783085 ATGCTAAACA
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
28 108 0.97
29 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CACACTAAGTGCCATATTCAATGTCTCG
Found at i:21796369 original size:21 final size:21
Alignment explanation
Indices: 21796343--21796386 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
21796333 AGACGAGCAA
* *
21796343 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
21796364 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
21796385 TA
1 TA
21796387 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:21811866 original size:84 final size:83
Alignment explanation
Indices: 21811703--21811869 Score: 325
Period size: 84 Copynumber: 2.0 Consensus size: 83
21811693 CAGTAGGGTT
21811703 CGAACCCAGATGAAGTTCTGACCATCTATCAGAGAAAAAAAACGAATGTATCTTGTAGGATTCCC
1 CGAACCCAGATGAAGTTCTGACCATCTATCAGAGAAAAAAAACGAATGTATCTTGTAGGATTCCC
21811768 AAAAAATTCTTCAATTTC
66 AAAAAATTCTTCAATTTC
21811786 CGAACCCAGATGAAGTTCTGACCATCTATCAGAGAAAAAAGAACGAATGTATCTTGTAGGATTCC
1 CGAACCCAGATGAAGTTCTGACCATCTATCAGAGAAAAAA-AACGAATGTATCTTGTAGGATTCC
21811851 CAAAAAATTCTTCAATTTC
65 CAAAAAATTCTTCAATTTC
21811870 TTCCGGAAGT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 40 0.48
84 43 0.52
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (83 bp):
CGAACCCAGATGAAGTTCTGACCATCTATCAGAGAAAAAAAACGAATGTATCTTGTAGGATTCCC
AAAAAATTCTTCAATTTC
Found at i:21815592 original size:42 final size:43
Alignment explanation
Indices: 21815480--21815636 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
21815470 TGTGTTTTTG
** * * *
21815480 TGTAAGACCACGTCTGATACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGA-TTACA
* * * * *
21815524 TGTAAGACTACGTCTAGGACGTTGGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
21815566 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTACA
21815609 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
21815637 TGTACGAACT
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 39 0.41
44 27 0.28
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:21822122 original size:66 final size:66
Alignment explanation
Indices: 21821963--21822107 Score: 193
Period size: 66 Copynumber: 2.2 Consensus size: 66
21821953 GTTAGTAGCC
* * * *
21821963 TCACACGACCTAGCACATGGGTGTGTGACTTGGCCGTGTAACATAAGTCAGTATACCCTCCAGTT
1 TCACACGGCCTAGCACATGGGTGTGTGGCTTGGCCGTGTAACACAAGTCAGTATACCATCCAGTT
21822028 T
66 T
* * * * *
21822029 TCAAATGGCCTAGCACATCGGTGTGTGGCTTGGCCGTGTATCACAAGTCAGTATACTCAT-CATT
1 TCACACGGCCTAGCACATGGGTGTGTGGCTTGGCCGTGTAACACAAGTCAGTATAC-CATCCAGT
21822093 TT
65 TT
21822095 TCACACGGCCTAG
1 TCACACGGCCTAG
21822108 TGCATGGGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
66 65 0.97
67 2 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (66 bp):
TCACACGGCCTAGCACATGGGTGTGTGGCTTGGCCGTGTAACACAAGTCAGTATACCATCCAGTT
T
Found at i:21823792 original size:21 final size:21
Alignment explanation
Indices: 21823750--21823858 Score: 105
Period size: 21 Copynumber: 5.3 Consensus size: 21
21823740 CATCGTTTTT
*
21823750 AGAAGCCC-TAA-GGCTGAAC
1 AGAAGCCCATAAGGGCTAAAC
* *
21823769 AGAAGCACATAAGTGCTAAAC
1 AGAAGCCCATAAGGGCTAAAC
* * *
21823790 AGAAACCCATAAGGGTTGAAC
1 AGAAGCCCATAAGGGCTAAAC
* * *
21823811 AGAAGCTCATAAGAGCTTAAC
1 AGAAGCCCATAAGGGCTAAAC
* *
21823832 AGAAACCCATAAGGGTTAAAC
1 AGAAGCCCATAAGGGCTAAAC
21823853 AGAAGC
1 AGAAGC
21823859 TCAAAAGAGC
Statistics
Matches: 69, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
19 7 0.10
20 3 0.04
21 59 0.86
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (21 bp):
AGAAGCCCATAAGGGCTAAAC
Found at i:21823810 original size:42 final size:42
Alignment explanation
Indices: 21823764--21823919 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
21823754 GCCCTAAGGC
* *
21823764 TGAACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
*
21823806 TGAACAGAAGCTCATAAGAGCTTAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * *
21823848 TAAACAGAAGCTCAAAAGAGCTGAAC-GAAAACCCATTAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAG-AAACCCATAAGGGT
* * * *
21823890 TAAAC-GAAAACTCATATGAGTTAAACAGAA
1 TGAACAG-AAGCTCATAAGAGCTAAACAGAA
21823920 GCTCATGAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 96 0.97
43 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:21823924 original size:21 final size:21
Alignment explanation
Indices: 21823766--21823941 Score: 106
Period size: 21 Copynumber: 8.4 Consensus size: 21
21823756 CCTAAGGCTG
* * * *
21823766 AACAGAAGCACATAAGTGCTA
1 AACAGAAACTCATAAGAGTTA
* * *
21823787 AACAGAAACCCATAAGGGTTG
1 AACAGAAACTCATAAGAGTTA
*
21823808 AACAGAAGCTCATAAGAGCTT-
1 AACAGAAACTCATAAGAG-TTA
* *
21823829 AACAGAAACCCATAAGGGTTA
1 AACAGAAACTCATAAGAGTTA
* * * *
21823850 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAACTCATAAGAGTTA
* * *
21823871 AAC-GAAAACCCATTAGGGTTA
1 AACAG-AAACTCATAAGAGTTA
*
21823892 AAC-GAAAACTCATATGAGTTA
1 AACAG-AAACTCATAAGAGTTA
* * *
21823913 AACAGAAGCTCATGAGAGCTA
1 AACAGAAACTCATAAGAGTTA
*
21823934 AACGGAAA
1 AACAGAAA
21823942 GTCAACACGA
Statistics
Matches: 117, Mismatches: 34, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
20 3 0.03
21 111 0.95
22 3 0.03
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGTTA
Found at i:21831156 original size:35 final size:33
Alignment explanation
Indices: 21831109--21831197 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
21831099 TCGATATAAT
* * *
21831109 CGACTAGCGCTGGGCACAATCTTTGTCAGTTTGTC
1 CGACTAGTGCTGGGCACAATC--CGTCAGTTTATC
* *
21831144 TGACTAGTGCTGGGCACAAAACCGTCAGTTTATC
1 CGACTAGTGCTGGGCAC-AATCCGTCAGTTTATC
21831178 CGACTAGTGCTGGGCACAAT
1 CGACTAGTGCTGGGCACAAT
21831198 TACTGTTTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 2 0.04
34 26 0.57
35 15 0.33
36 3 0.07
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (33 bp):
CGACTAGTGCTGGGCACAATCCGTCAGTTTATC
Found at i:21832302 original size:66 final size:66
Alignment explanation
Indices: 21832123--21832313 Score: 161
Period size: 66 Copynumber: 2.9 Consensus size: 66
21832113 GTTAGTAACC
* * * * * * * * * *
21832123 TCACACGGCCTAGCACACGGGCGTGTGACTTGGCCATGTGACATAAGTCAATATA-C-CCTCCAG
1 TCACACGGCCTAGCACACGGACATATGGCTTGGCCGTGTAACACAAGTCAGTA-AGCTCAT-CAT
21832186 TTT
64 TTT
* * * * ** * *
21832189 TCACAGGGCCTAGCACACGGCCGTATGGCTTGGTCGTGTGTCACAAGTTAGTATGCTCATCATTT
1 TCACACGGCCTAGCACACGGACATATGGCTTGGCCGTGTAACACAAGTCAGTAAGCTCATCATTT
21832254 T
66 T
* * *
21832255 TCTCACGGCCTAGCACACGGACATGTGGCTTGGCCGTGTAACCCAAGTCAGTAAGCTCA
1 TCACACGGCCTAGCACACGGACATATGGCTTGGCCGTGTAACACAAGTCAGTAAGCTCA
21832314 CTAGTTTGGG
Statistics
Matches: 99, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
66 97 0.98
67 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGACATATGGCTTGGCCGTGTAACACAAGTCAGTAAGCTCATCATTT
T
Found at i:21836893 original size:15 final size:15
Alignment explanation
Indices: 21836873--21836904 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21836863 CTAGGTATAC
21836873 AAAGGGTAGTTTTCT
1 AAAGGGTAGTTTTCT
21836888 AAAGGGTAGTTTTCT
1 AAAGGGTAGTTTTCT
21836903 AA
1 AA
21836905 CTCTGCTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (15 bp):
AAAGGGTAGTTTTCT
Found at i:21841545 original size:43 final size:45
Alignment explanation
Indices: 21841433--21841559 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 45
21841423 ATACGATAGG
*
21841433 TACCTATACAATGGCCCGAAGCCAACTCAAGGTAACTTCGCTTGGAA
1 TACCTATACCATGGCCCGAAGCCAACTCAAGGTAACTTCGC-T-GAA
*
21841480 TACTTATACCATGGCCCGAAGCCAACTCAAGGT-ACTCTC-C-GAA
1 TACCTATACCATGGCCCGAAGCCAACTCAAGGTAACT-TCGCTGAA
* *
21841523 TGCCTATACCATGGCCCGAAGCCAACTCAAGGCAACT
1 TACCTATACCATGGCCCGAAGCCAACTCAAGGTAACT
21841560 CACACTGAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
43 33 0.45
44 3 0.04
46 4 0.05
47 33 0.45
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (45 bp):
TACCTATACCATGGCCCGAAGCCAACTCAAGGTAACTTCGCTGAA
Found at i:21844260 original size:34 final size:35
Alignment explanation
Indices: 21844217--21844294 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
21844207 TTTTAGGGTT
* * *
21844217 TTTA-GGTTTAGGGTTTTGTTGAAATAATTTAA-G
1 TTTAGGGTTTAGAGTTTTGTTAAAATAAGTTAAGG
*
21844250 TTTAGGGTTTAGATTTTTGTTAAAATAAGTTAAGG
1 TTTAGGGTTTAGAGTTTTGTTAAAATAAGTTAAGG
21844285 TTTAGGGTTT
1 TTTAGGGTTT
21844295 TAGTGGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 4 0.10
34 24 0.62
35 11 0.28
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (35 bp):
TTTAGGGTTTAGAGTTTTGTTAAAATAAGTTAAGG
Found at i:21844295 original size:28 final size:32
Alignment explanation
Indices: 21844220--21844295 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 32
21844210 TAGGGTTTTT
21844220 AGGTTTAGGGTTTTGTTGAAATAATTTAAGTTTA
1 AGGTTTAGGGTTTTGTT-AAATAA-TTAAGTTTA
* **
21844254 GGGTTTAGATTTTTGTT-AA-AA-TAAG-TTA
1 AGGTTTAGGGTTTTGTTAAATAATTAAGTTTA
21844282 AGGTTTAGGGTTTT
1 AGGTTTAGGGTTTT
21844296 AGTGGATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 14 0.39
29 4 0.11
31 2 0.06
32 2 0.06
34 14 0.39
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (32 bp):
AGGTTTAGGGTTTTGTTAAATAATTAAGTTTA
Found at i:21844377 original size:34 final size:34
Alignment explanation
Indices: 21844311--21844433 Score: 133
Period size: 34 Copynumber: 3.6 Consensus size: 34
21844301 ATTTTAAAAA
* *
21844311 TAAATTAAGATTTACTGTTATTTTATAA-AAATTAAT
1 TAAATTAAGGTTTA-TGGT-TTTTA-AATAAATTAAT
*
21844347 TAAATTAAGGTTTATGGTTTTTAAATAAATTAAG
1 TAAATTAAGGTTTATGGTTTTTAAATAAATTAAT
* *
21844381 TAAATTAGGGTTTAAAGG-TTTTAAATAAATTAAT
1 TAAATTAAGGTTT-ATGGTTTTTAAATAAATTAAT
* *
21844415 TAAATTAGGGTTTAGGGTT
1 TAAATTAAGGTTTATGGTT
21844434 AAAATTAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
33 5 0.06
34 53 0.69
35 6 0.08
36 13 0.17
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.44
Consensus pattern (34 bp):
TAAATTAAGGTTTATGGTTTTTAAATAAATTAAT
Found at i:21844750 original size:126 final size:126
Alignment explanation
Indices: 21844510--21844762 Score: 328
Period size: 126 Copynumber: 2.0 Consensus size: 126
21844500 CTTTTTTTAC
* * * * * *
21844510 CCTGCAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGTAT
1 CCTGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGAT
** * ** * *
21844575 GCCCTGTATGGAAAATTACTGAAAAAAGCTCCCACGTGGACGGTATTTTTCTACAGTAGTT
66 GCAATGTATGCAAAATTACAAAAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTT
* *
21844636 CCTGAAAAAATAATTTTGAAAAGACGTTTTTGAACAACTAGTGTCAAAAACGCTTCAAGAAGGAT
1 CCTGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGAT
* * *
21844701 GCAATGTCA-GCAAAATTTCAAAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAGTAGTT
66 GCAATGT-ATGCAAAATTACAAAAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTT
21844762 C
1 C
21844763 ATGTTTGGCC
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
126 107 0.99
127 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (126 bp):
CCTGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGAT
GCAATGTATGCAAAATTACAAAAAAAAGCTCCCACATGGACGCTATTTTTCTACAGTAGTT
Found at i:21848991 original size:45 final size:44
Alignment explanation
Indices: 21848924--21849053 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 44
21848914 TTATTTATAG
* * *
21848924 CTTCAGTCTGTTCCATTGCAACTTCAGGGAAATAAGATTTGCT-A
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGA
* * *
21848968 TCTTCAGTCTGCTCCACTACAACTTCAGTGAGATAAGACTTGTGA
1 -CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGA
** * *
21849013 CTTCAACCTGCTGCACTGCAACTTCAGGGAGATAAGGTTTG
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
21849054 AAATTTTCAG
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 35 0.49
45 36 0.51
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGA
Found at i:21849035 original size:44 final size:45
Alignment explanation
Indices: 21848935--21849048 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
21848925 TTCAGTCTGT
* * * **
21848935 TCCATTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAACCTGC
* *
21848980 TCCACTACAACTTCAGTGAGATAAGACTTG-TGA-CTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCT-ATCTTCAACCTGC
*
21849024 TGCACTGCAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
21849049 GTTTGAAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 32 0.55
45 26 0.45
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAACCTGC
Found at i:21849213 original size:44 final size:43
Alignment explanation
Indices: 21849038--21849393 Score: 174
Period size: 44 Copynumber: 8.1 Consensus size: 43
21849028 CTGCAACTTC
* * * *
21849038 AGGGAGATAAGGTTTGAAATTTTCAGCCTGTTACCCTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTTAGCCTGTT-CCCTACTGCTT
* * * *
21849082 AGGGTGATAAGATATGTAATTTTCAGCCTATTACCCTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTTAGCCTGTT-CCCTACTGCTT
* * * * * * * * *
21849126 AGGGGGTTAAG-GC--TCATCGTCTTCGATCTGCTCCACTATTGCTT
1 AGGGAGATAAGATCTGTAAT--TTTTAG-CCTGTTCC-CTACTGCTT
21849170 AGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTTAGCCTGTT-CCCTACTGCTT
* * * * *
21849214 AGGGGGTTAAG-GCT-TACCATTTTTGATG--TGCTCGCTACTGCTT
1 AGGGAGATAAGATCTGTA--ATTTTT-A-GCCTGTTCCCTACTGCTT
* **
21849257 AGGGAGACAAGATCTGTAATTTCCAGCCTGTTGCCCTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTTAGCCTGTT-CCCTACTGCTT
* * * * * * **
21849301 AGGGGGTTAAGGT-T-CACCATCTTT-GATCTACTCCGCTACTGCTT
1 AGGGAGATAAGATCTGTA--ATTTTTAG-CCTGTTCC-CTACTGCTT
* *
21849345 AGGGAGACAAGATCTGTAATTTCTAGCCTGTTGCCCTACTGCTT
1 AGGGAGATAAGATCTGTAATTTTTAGCCTGTT-CCCTACTGCTT
21849389 AGGGA
1 AGGGA
21849394 TTTAAGGCCT
Statistics
Matches: 227, Mismatches: 60, Indels: 50
0.67 0.18 0.15
Matches are distributed among these distances:
41 4 0.02
42 4 0.02
43 36 0.16
44 164 0.72
45 14 0.06
46 2 0.01
47 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (43 bp):
AGGGAGATAAGATCTGTAATTTTTAGCCTGTTCCCTACTGCTT
Found at i:21849287 original size:87 final size:86
Alignment explanation
Indices: 21849065--21849826 Score: 812
Period size: 87 Copynumber: 8.7 Consensus size: 86
21849055 AATTTTCAGC
* * *
21849065 CTGTTACCCTACTGCTTAGGGTGATAAGATATGTAATTTTCAGCCTATTACCCTACTGCTTAGGG
1 CTGTT-CCCTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTACCCTACTGCTTAGGG
* * *
21849130 GGTTAAGGCTCATCGTCTTCGAT
64 GTTTAAGGCCCATCATCTTCGAT
* * *
21849153 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTCC-CTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTACCCTACTGCTTAGGG
* ** * * *
21849218 GGTTAAGGCTTACCATTTTTGAT
64 GTTTAAGGCCCATCATCTTCGAT
* * * * *
21849241 GTGCTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTGCCCTACTGCTTAGGGG
1 CTGTTCCCTACTGCTTAGGGAGATAAGATCTGTAATTT-CAGCCTGTTACCCTACTGCTTAGGGG
* ** * *
21849306 GTTAAGGTTCACCATCTTTGAT
65 TTTAAGGCCCATCATCTTCGAT
** * *
21849328 CTACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAGCCTGTTGCCCTACTGCTTAGGG
1 CTGTTCC-CTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTACCCTACTGCTTAGGG
* * *
21849393 ATTTAAGGCCTATCACCTTCGAT
64 GTTTAAGGCCCATCATCTTCGAT
* * * * * *
21849416 CTGTTTCCTACTACTTAGGGGGTTAAGATCTGTAAATTT-ATCCTGTTACCCTACTACTTAGGGG
1 CTGTTCCCTACTGCTTAGGGAGATAAGATCTGT-AATTTCAGCCTGTTACCCTACTGCTTAGGGG
* *
21849480 TTTAAGGCCCATCACCTTCGGT
65 TTTAAGGCCCATCATCTTCGAT
* * *
21849502 CTATTTCCCTACTGCTTAAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
1 CT-GTTCCCTACTGCTT-AGGGAGATAAGATCTGTAATTTCAGCCTGTTACCCTACTGCTTAGGG
*
21849566 GTTTAAGGCCCATCACCTTCGAT
64 GTTTAAGGCCCATCATCTTCGAT
* * * *
21849589 CTGTTTCCCTACTGCTTAGGGGGTTAAGATATGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTG-TTCCCTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTGTTACCCTACTGCTTAGGGG
* * *
21849654 TTTACGGCCCATCATCTTTGGT
65 TTTAAGGCCCATCATCTTCGAT
* * * * *
21849676 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGG
1 CTG-TTCCCTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTGTTACCCTACTGCTTAGGGG
* *
21849741 TTTAAGGCCCATCACCTTCGGT
65 TTTAAGGCCCATCATCTTCGAT
* * * *
21849763 CTATTTCCCTACTGCTTAAGGG-GTTAAGATCTGTAAATTCAG-CTGTTACCCCACTGCTTAGGG
1 CT-GTTCCCTACTGCTT-AGGGAGATAAGATCTGTAATTTCAGCCTGTTACCCTACTGCTTAGGG
21849826 G
64 G
21849827 GTAAGGCTTG
Statistics
Matches: 595, Mismatches: 67, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
86 74 0.12
87 355 0.60
88 166 0.28
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (86 bp):
CTGTTCCCTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTGTTACCCTACTGCTTAGGGGT
TTAAGGCCCATCATCTTCGAT
Found at i:21849603 original size:261 final size:261
Alignment explanation
Indices: 21849065--21849833 Score: 933
Period size: 261 Copynumber: 2.9 Consensus size: 261
21849055 AATTTTCAGC
* * *
21849065 CTGTTACCCTACTGCTTAGGGTGATAAGATATGTAATTT-TCAGCCTATTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATATGTAATTTCT-AGCCTGTTACCCTACTGCTTAGG
* * * * * * *
21849129 GGGTTAAGG-CTCATCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTT
65 GGTTTAAGGCCT-ATCATCTTCGATCTGTTTC-CTATTGCTTAGGGGGTTAAGATCTGTAA-ATT
* ** * ** * * * ** *
21849193 TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACCATTTTTGATGT-GCTCGCTACTGCTT
127 TAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGGTCTATTTCCCTACTGCTT
** * * ** *
21849257 -AGGGAGACAAGATCTGTAATTTCCAGCCTGTTGCCCTACTGCTTAGGGGGTTAAGGTTCACCAT
192 AAGGG-GTTAAGATCTGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCACCAC
*
21849321 CTTTGAT
255 CTTCGAT
** * * *
21849328 CT-ACTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAGCCTGTTGCCCTACTGCTTAGG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATATGTAATTTCTAGCCTGTTACCCTACTGCTTAGG
* * * * *
21849392 GATTTAAGGCCTATCACCTTCGATCTGTTTCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAT
65 GGTTTAAGGCCTATCATCTTCGATCTGTTTCCTATTGCTTAGGGGGTTAAGATCTGTAAATTTAG
*
21849457 CCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCACCTTCGGTCTATTTCCCTACTGCTTAAG
130 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGGTCTATTTCCCTACTGCTTAAG
* *
21849522 GGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCG
195 GGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCACCACCTTCG
21849587 AT
260 AT
* * *
21849589 CTGTTTCCCTACTGCTTAGGGGGTTAAGATATGTAAATTC-AGCCTGTTACCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATATGTAATTTCTAGCCTGTTACCCTACTGCTTAGGG
* * * * *
21849653 GTTTACGGCCCATCATCTTTGGTCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATTCAG
66 GTTTAAGGCCTATCATCTTCGATCTGTTT-CCTATTGCTTAGGGGGTTAAGATCTGTAAATTTAG
*
21849718 CTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGGTCTATTTCCCTACTGCTTAAG
130 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGGTCTATTTCCCTACTGCTTAAG
*
21849783 GGGTTAAGATCTGTAAATTCAG-CTGTTACCCCACTGCTTAGGGGG-TAAGGC
195 GGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
21849834 TTGTGAATTT
Statistics
Matches: 434, Mismatches: 65, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
259 6 0.01
260 67 0.15
261 227 0.52
262 54 0.12
263 77 0.18
264 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (261 bp):
CTGTTTCCCTACTGCTTAGGGAGATAAGATATGTAATTTCTAGCCTGTTACCCTACTGCTTAGGG
GTTTAAGGCCTATCATCTTCGATCTGTTTCCTATTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGGTCTATTTCCCTACTGCTTAAGG
GGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCACCACCTTCGA
T
Found at i:21849790 original size:44 final size:44
Alignment explanation
Indices: 21849372--21849787 Score: 274
Period size: 43 Copynumber: 9.5 Consensus size: 44
21849362 AATTTCTAGC
* * * * *
21849372 CTGTTGCCCTACTGCTTAGGGATTTAAGGCCTATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
* * ** ** * **
21849416 CTGTTT-CCTACTACTTAGGGGGTTAAGATCTGT-AAATT-TAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
* * *
21849457 CCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCACCTTCGGT
1 -CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
* ** ** * * *
21849502 CTATTTCCCTACTGCTTAAGGGG-TTAAGATCTGT-AAATTCAGC
1 CTGTTTCCCTACTGCTT-AGGGGTTTAAGGCCCATCAACTTCGGT
* * *
21849545 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
* ** * * * *
21849589 CTGTTTCCCTACTGCTTAGGGGGTTAA-G-ATATGTAAATTCAGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCAT-CAACTTCGGT
* * * *
21849632 CTGTTACCCTACTGCTTAGGGGTTTACGGCCCATCATCTTTGGT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
* * ** ** * *
21849676 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGT-AAATTCAG-
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
* *
21849718 CTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGGT
1 C-TGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
*
21849763 CTATTTCCCTACTGCTTAAGGGGTT
1 CTGTTTCCCTACTGCTT-AGGGGTT
21849788 AAGATCTGTA
Statistics
Matches: 271, Mismatches: 87, Indels: 27
0.70 0.23 0.07
Matches are distributed among these distances:
41 2 0.01
42 16 0.06
43 129 0.48
44 108 0.40
45 16 0.06
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCAACTTCGGT
Found at i:21856912 original size:38 final size:38
Alignment explanation
Indices: 21856861--21856933 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
21856851 CTTGTGTGGT
21856861 CACCTCGCTCCATCGTTGGGCATATTGCCTAAAGCGAC
1 CACCTCGCTCCATCGTTGGGCATATTGCCTAAAGCGAC
21856899 CACCTCGCTCCATCGTTGGGCATATTGCCTAAAGC
1 CACCTCGCTCCATCGTTGGGCATATTGCCTAAAGC
21856934 TTTCATTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.21, T:0.25
Consensus pattern (38 bp):
CACCTCGCTCCATCGTTGGGCATATTGCCTAAAGCGAC
Found at i:21857910 original size:9 final size:9
Alignment explanation
Indices: 21857892--21857924 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
21857882 TGCAATGCTG
21857892 ATGC-ATGA
1 ATGCAATGA
21857900 ATGCAATGA
1 ATGCAATGA
21857909 ATGCAAATGA
1 ATGC-AATGA
21857919 ATGCAA
1 ATGCAA
21857925 AAAAGACGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.17
9 10 0.43
10 9 0.39
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (9 bp):
ATGCAATGA
Found at i:21857919 original size:10 final size:10
Alignment explanation
Indices: 21857896--21857925 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21857886 ATGCTGATGC
21857896 ATGAATGC-A
1 ATGAATGCAA
21857905 ATGAATGCAA
1 ATGAATGCAA
21857915 ATGAATGCAA
1 ATGAATGCAA
21857925 A
1 A
21857926 AAAGACGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (10 bp):
ATGAATGCAA
Found at i:21869340 original size:23 final size:23
Alignment explanation
Indices: 21869310--21869355 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21869300 GGGCACAATA
21869310 TCTCGAACTTCCAAATACCGGAT
1 TCTCGAACTTCCAAATACCGGAT
21869333 TCTCGAACTTCCAAATACCGGAT
1 TCTCGAACTTCCAAATACCGGAT
21869356 ATTGACTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (23 bp):
TCTCGAACTTCCAAATACCGGAT
Found at i:21869859 original size:3 final size:3
Alignment explanation
Indices: 21869851--21870072 Score: 80
Period size: 3 Copynumber: 73.7 Consensus size: 3
21869841 GGTGAAAACG
* * * * ** * *
21869851 ATA ATA ATA ATA ATA ATG TTG ATA ATA ATA ATA GTA GGA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
21869899 ATA ATG CTA ATG ATA ATA ATA A-A AGTA ATA ATA AGA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * * *
21869944 TTA GTA TTA ATA ATA ATG ATA ATA GTA ATA GA-A AAA ATA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
21869988 ATA ATA ATA GTA ATA A-A GGTGA A-A ATA ATA GTA ATA ATA ATG GTA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* *
21870033 A-A TATAA ATA GTA ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA -AT-A ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA AT
21870073 CTAAAGTTTG
Statistics
Matches: 160, Mismatches: 44, Indels: 30
0.68 0.19 0.13
Matches are distributed among these distances:
2 10 0.06
3 139 0.87
4 9 0.06
5 2 0.01
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:21870350 original size:3 final size:3
Alignment explanation
Indices: 21870233--21870332 Score: 84
Period size: 3 Copynumber: 34.3 Consensus size: 3
21870223 AAAAGAAAAT
* *
21870233 ATA ATA ATA ATA GTA ATA AT- ATA ATA GTA ATA ATA A-A A-A AGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * *
21870275 ATA ATA AT- ATA TTA GATA ATA ATA ATA ATA ATA GTG ATA TTA GTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21870320 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
21870333 CAACATAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
2 9 0.12
3 67 0.86
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21872746 original size:21 final size:22
Alignment explanation
Indices: 21872704--21872746 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21872694 TAAACGAATT
* *
21872704 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
21872726 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
21872747 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:21872796 original size:21 final size:21
Alignment explanation
Indices: 21872750--21872799 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21872740 TAAATAATTA
* * *
21872750 CATGTAAAGCACTATTTTCGG
1 CATGCAAAGAACTATTTTAGG
21872771 CATGCAAAGAACTATTTTAGG
1 CATGCAAAGAACTATTTTAGG
*
21872792 TATGCAAA
1 CATGCAAA
21872800 ATAACTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (21 bp):
CATGCAAAGAACTATTTTAGG
Found at i:21875703 original size:36 final size:36
Alignment explanation
Indices: 21875663--21875736 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
21875653 AATTAAAGCG
21875663 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
21875699 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
21875735 TT
1 TT
21875737 ACTTATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (36 bp):
TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
Found at i:21876288 original size:46 final size:46
Alignment explanation
Indices: 21876232--21876325 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
21876222 TATATATAAT
21876232 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
1 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
21876278 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
1 ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
21876324 AT
1 AT
21876326 GCATTAATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.31
Consensus pattern (46 bp):
ATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
Found at i:21876374 original size:57 final size:53
Alignment explanation
Indices: 21876271--21876381 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 53
21876261 AATGGAATAT
* **
21876271 ATGCATAATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATGCATA
1 ATGCATAATAATATATGCATGACTTAAATGAAGCAAAACAGAATATATGCATA
*
21876324 ATGCATTAATATATATATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCAT
1 ATGCA-TAATA-ATATAT--GCATGACTTAAATGAAGCAAAACA-GA-ATATATGCAT
21876382 TAATATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
53 5 0.10
54 5 0.10
55 6 0.12
57 21 0.44
58 1 0.02
59 10 0.21
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (53 bp):
ATGCATAATAATATATGCATGACTTAAATGAAGCAAAACAGAATATATGCATA
Found at i:21876391 original size:36 final size:36
Alignment explanation
Indices: 21876351--21876423 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
21876341 TGCGCATGAC
* *
21876351 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
21876387 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
21876423 T
1 T
21876424 ATATATATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:21876558 original size:43 final size:41
Alignment explanation
Indices: 21876467--21876603 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 41
21876457 GCTAATTATG
** **
21876467 GTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATG
1 GTATATATATGC-ATTATGCATGACTTAAATGAAGCAAAACA
*
21876509 GAATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACA
1 GTATATATATGCATTAT--GCATGACTTAAATGAAGCAAAACA
* *
21876552 TTATATATATGCATTA---AT-A-TTAAATGAAGCTAAACA
1 GTATATATATGCATTATGCATGACTTAAATGAAGCAAAACA
*
21876588 GTATACATATGCATTA
1 GTATATATATGCATTA
21876604 ATATATATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
36 30 0.36
37 1 0.01
38 2 0.02
41 5 0.06
42 11 0.13
43 34 0.41
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (41 bp):
GTATATATATGCATTATGCATGACTTAAATGAAGCAAAACA
Found at i:21876575 original size:36 final size:36
Alignment explanation
Indices: 21876535--21876607 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
21876525 TGCGCATGAC
* *
21876535 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
21876571 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
21876607 T
1 T
21876608 ATATATATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:21876662 original size:45 final size:45
Alignment explanation
Indices: 21876607--21876697 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
21876597 TGCATTAATA
* **
21876607 TATATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
21876652 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
21876697 T
1 T
21876698 TAATTTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (45 bp):
TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
Found at i:21876796 original size:16 final size:16
Alignment explanation
Indices: 21876775--21876806 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21876765 ACAAGACAGG
*
21876775 CAGAAACATGGAAACT
1 CAGAAACATAGAAACT
21876791 CAGAAACATAGAAACT
1 CAGAAACATAGAAACT
21876807 TTGATTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
CAGAAACATAGAAACT
Found at i:21877202 original size:21 final size:21
Alignment explanation
Indices: 21877150--21877190 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21877140 ACAACTGACG
21877150 TTGGTTGTGGCTTGTGGAACC
1 TTGGTTGTGGCTTGTGGAACC
*
21877171 TTGTTTGTGGCTTGTGGAAC
1 TTGGTTGTGGCTTGTGGAAC
21877191 TGTGGTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.37, T:0.41
Consensus pattern (21 bp):
TTGGTTGTGGCTTGTGGAACC
Found at i:21877354 original size:36 final size:36
Alignment explanation
Indices: 21877307--21877378 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
21877297 TAAAGAAGAA
21877307 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
21877343 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
21877379 GCAGAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.03, G:0.50, T:0.17
Consensus pattern (36 bp):
AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
Found at i:21880804 original size:18 final size:18
Alignment explanation
Indices: 21880776--21880856 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
21880766 ATAAATGAAA
21880776 AAAATATTAAATAATATTC
1 AAAA-ATTAAATAATATTC
*
21880795 AAAAATTAAA-ATTAATT-
1 AAAAATTAAATAAT-ATTC
* **
21880812 -AAAATTACATAA-ATAA
1 AAAAATTAAATAATATTC
21880828 AAAATATTAAATAATATTC
1 AAAA-ATTAAATAATATTC
*
21880847 AAATATTAAA
1 AAAAATTAAA
21880857 ATTAACCCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
15 2 0.04
16 8 0.17
17 6 0.12
18 23 0.48
19 9 0.19
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATTAAATAATATTC
Found at i:21880828 original size:24 final size:24
Alignment explanation
Indices: 21880734--21880829 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 24
21880724 ACTGTTATAA
*
21880734 AAAATTATA-AAATACAAATTAATT
1 AAAATTACATAAATA-AAATTAATT
**
21880758 AAAATTACATAAATGAAAAAAATATT
1 AAAATTACATAAAT-AAAATTA-ATT
* *
21880784 AAATAATATTCAAAAATTAAAATTAATT
1 -AA-AAT-TACATAAA-TAAAATTAATT
21880812 AAAATTACATAAATAAAA
1 AAAATTACATAAATAAAA
21880830 AATATTAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
24 13 0.23
25 14 0.25
26 7 0.12
27 4 0.07
28 6 0.11
29 11 0.20
30 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (24 bp):
AAAATTACATAAATAAAATTAATT
Found at i:21880836 original size:24 final size:24
Alignment explanation
Indices: 21880755--21880838 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 24
21880745 ATACAAATTA
21880755 ATTAAAATTACATAAATGAAAAAAAT
1 ATTAAAATTACATAAAT--AAAAAAT
* * * *
21880781 ATTAAATAATATTCAAAAATTAAAATT
1 ATT-AA-AAT-TACATAAATAAAAAAT
21880808 AATTAAAATTACATAAATAAAAAAT
1 -ATTAAAATTACATAAATAAAAAAT
21880833 ATTAAA
1 ATTAAA
21880839 TAATATTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
24 6 0.13
25 12 0.26
26 6 0.13
27 9 0.20
28 6 0.13
29 7 0.15
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (24 bp):
ATTAAAATTACATAAATAAAAAAT
Found at i:21880855 original size:52 final size:53
Alignment explanation
Indices: 21880749--21880861 Score: 201
Period size: 52 Copynumber: 2.1 Consensus size: 53
21880739 TATAAAATAC
21880749 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAAT-AAAAAAATATTAAATAATATTCAAAAATTA
*
21880803 AAATTAATTAAAATTACATAAAT-AAAAAATATTAAATAATATTCAAATATTA
1 AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCAAAAATTA
21880855 AAATTAA
1 AAATTAA
21880862 CCCTTATCAT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 35 0.60
54 23 0.40
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (53 bp):
AAATTAATTAAAATTACATAAATAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:21881050 original size:21 final size:21
Alignment explanation
Indices: 21881017--21881066 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
21881007 TAAAGAGAGT
* *
21881017 TTTGAGAAATTTAATGAAAAA
1 TTTGAGAGATTTAAGGAAAAA
* *
21881038 TTTGAGAGCTTTAAGGAGAAA
1 TTTGAGAGATTTAAGGAAAAA
*
21881059 TTTTAGAG
1 TTTGAGAG
21881067 TTTTTTTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.34
Consensus pattern (21 bp):
TTTGAGAGATTTAAGGAAAAA
Found at i:21881430 original size:156 final size:157
Alignment explanation
Indices: 21881145--21881459 Score: 578
Period size: 156 Copynumber: 2.0 Consensus size: 157
21881135 ATTGGACCCC
21881145 CCAACGGTCAAAAAAATTAGCCGTTGGGTTAAAAACACTGAGCAAAGCGCGCCCTTAGGGGAGCG
1 CCAACGGTCAAAAAAATTAGCCGTTGGGTTAAAAACACTGAGCAAAGCGCGCCCTTAGGGGAGCG
* *
21881210 TTTTTGCCACATCAGCAAAGCGAGTCTACGTTAGCGCATTTTATGCTAACATGGCAAAAACGCTC
66 TTTTCGCCACATCAGCAAAGCGAGTCTACGTTAGCGCATTTTATGCTAACATGACAAAAACGCTC
21881275 CCTAATGGCGCGATTTGCTGAAAATTT
131 CCTAATGGCGCGATTTGCTGAAAATTT
*
21881302 CCAACGGTCAAAAAAATTAGCCGTTGGGTTAAAAACACTGAGCAAAGTGCGCCCTTA-GGGAGCG
1 CCAACGGTCAAAAAAATTAGCCGTTGGGTTAAAAACACTGAGCAAAGCGCGCCCTTAGGGGAGCG
* *
21881366 TTTTCGCCACATTAGCAAAGCGAGTCTACGTTAGCGCGTTTTATGCTAACATGACAAAAACGCTC
66 TTTTCGCCACATCAGCAAAGCGAGTCTACGTTAGCGCATTTTATGCTAACATGACAAAAACGCTC
21881431 CCTAATGGCGCGATTTGCTGAAAATTT
131 CCTAATGGCGCGATTTGCTGAAAATTT
21881458 CC
1 CC
21881460 CCCTAAAACA
Statistics
Matches: 153, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 97 0.63
157 56 0.37
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (157 bp):
CCAACGGTCAAAAAAATTAGCCGTTGGGTTAAAAACACTGAGCAAAGCGCGCCCTTAGGGGAGCG
TTTTCGCCACATCAGCAAAGCGAGTCTACGTTAGCGCATTTTATGCTAACATGACAAAAACGCTC
CCTAATGGCGCGATTTGCTGAAAATTT
Found at i:21882322 original size:30 final size:30
Alignment explanation
Indices: 21882256--21882315 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21882246 CTCTTCTTGC
*
21882256 TCTTTTTAGAAAATACATAAAATATAACTT
1 TCTTTTTAGAAAATACATAAAAGATAACTT
21882286 TCTTTTTAGAAAATACATAAAAGATAACTT
1 TCTTTTTAGAAAATACATAAAAGATAACTT
21882316 GTTTTTTGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (30 bp):
TCTTTTTAGAAAATACATAAAAGATAACTT
Found at i:21886616 original size:19 final size:19
Alignment explanation
Indices: 21886592--21886629 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21886582 ATAGCTTAGT
21886592 GCTAATTTTTCATTTAAGC
1 GCTAATTTTTCATTTAAGC
21886611 GCTAATTTTTCATTTAAGC
1 GCTAATTTTTCATTTAAGC
21886630 CTTACTTAAA
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:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (19 bp):
GCTAATTTTTCATTTAAGC
Found at i:21886891 original size:3 final size:3
Alignment explanation
Indices: 21886883--21886907 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21886873 TATAAAAAGC
21886883 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
21886908 GATAAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21888374 original size:153 final size:150
Alignment explanation
Indices: 21888025--21888407 Score: 495
Period size: 153 Copynumber: 2.5 Consensus size: 150
21888015 GGTTGCTATT
* *
21888025 TAGCCCCAGCCACAATGACAACCATTGAATTGTCAGACCATGTCCATCTGTCAAGAGAGGCTGCT
1 TAGCCTCAGCCACAATGACAACCATTGAATTGACAGACCATGTCCATCTGTCAAGAGAGGCTGCT
* * **
21888090 TCAACATCTGCATTATTAATGCCAAGTGATGAAGATGTGAAACCGGTTGCTATAATTCCTTTCGC
66 TCAACGTCTGCATTATCAACACCAAGTGATGAAGATGTGAAACCGGTTGCTATAATTCCTTTCGC
*
21888155 CAAAGATAATGATACAGGAG
131 CAAAGATAATGAAACAGGAG
* * *
21888175 TAGCCTCAGCCGCAATGACAACCATTGAATTGACAGATCATTTCCATCTGTCAAGAGAGGCTGCT
1 TAGCCTCAGCCACAATGACAACCATTGAATTGACAGACCATGTCCATCTGTCAAGAGAGGCTGCT
* * * *
21888240 TCAATGTCTGCATTATCCACACCAAGTGAT-ATAGATACTGTGGAACCGGTTGCTATAGTTCC-T
66 TCAACGTCTGCATTATCAACACCAAGTGATGA-AG--A-TGTGAAACCGGTTGCTATAATTCCTT
* *
21888303 TC-CTATGAAGATGATGAAACAGGAG
127 TCGCCA--AAGATAATGAAACAGGAG
* ** *
21888328 TAG-CTGCAGCCACAATGACAACCATTAAATCAACAGGCCATGTCCATCTGTCAAGAGAGGCTGC
1 TAGCCT-CAGCCACAATGACAACCATTGAATTGACAGACCATGTCCATCTGTCAAGAGAGGCTGC
21888392 TTCAACGTCTGCATTA
65 TTCAACGTCTGCATTA
21888408 CCTTCCACCG
Statistics
Matches: 202, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
149 1 0.00
150 86 0.43
151 2 0.01
152 6 0.03
153 107 0.53
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (150 bp):
TAGCCTCAGCCACAATGACAACCATTGAATTGACAGACCATGTCCATCTGTCAAGAGAGGCTGCT
TCAACGTCTGCATTATCAACACCAAGTGATGAAGATGTGAAACCGGTTGCTATAATTCCTTTCGC
CAAAGATAATGAAACAGGAG
Found at i:21892184 original size:15 final size:15
Alignment explanation
Indices: 21892160--21892193 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21892150 GATTTTTTTG
* *
21892160 ACATTCTAATTCCTT
1 ACATTATAATTCCAT
21892175 ACATTATAATTCCAT
1 ACATTATAATTCCAT
21892190 ACAT
1 ACAT
21892194 AGACATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (15 bp):
ACATTATAATTCCAT
Found at i:21892675 original size:16 final size:16
Alignment explanation
Indices: 21892654--21892684 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21892644 TTATTGCTTT
21892654 GCTACTATAAAATATC
1 GCTACTATAAAATATC
21892670 GCTACTATAAAATAT
1 GCTACTATAAAATAT
21892685 AGAATACCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (16 bp):
GCTACTATAAAATATC
Found at i:21892861 original size:17 final size:17
Alignment explanation
Indices: 21892812--21892863 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
21892802 ATAAAAAATG
*
21892812 ATTTTCTTT-TTCATTGT
1 ATTTTCTTTATTC-TTTT
21892829 ATTTT-TTTAGTCTCTTTT
1 ATTTTCTTTA-T-TCTTTT
21892847 ATTTTCTTTATTCTTTT
1 ATTTTCTTTATTCTTTT
21892864 CTCAACTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 3 0.10
17 11 0.37
18 10 0.33
19 6 0.20
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (17 bp):
ATTTTCTTTATTCTTTT
Found at i:21898644 original size:14 final size:14
Alignment explanation
Indices: 21898625--21898661 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
21898615 AAAATGAGGG
21898625 GAAATGGAATGAGT
1 GAAATGGAATGAGT
21898639 GAAATGGAATGAGT
1 GAAATGGAATGAGT
21898653 GAAATGGAA
1 GAAATGGAA
21898662 GTAATTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (14 bp):
GAAATGGAATGAGT
Found at i:21904668 original size:15 final size:15
Alignment explanation
Indices: 21904648--21904678 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21904638 AATAGCACTC
21904648 ATCGTAGATGATAAA
1 ATCGTAGATGATAAA
21904663 ATCGTAGATGATAAA
1 ATCGTAGATGATAAA
21904678 A
1 A
21904679 GGACAAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (15 bp):
ATCGTAGATGATAAA
Found at i:21906333 original size:14 final size:14
Alignment explanation
Indices: 21906295--21906340 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
21906285 TTAAATCTAT
21906295 TATTTTTGTATCTG
1 TATTTTTGTATCTG
**
21906309 TA-TACTGTATCTG
1 TATTTTTGTATCTG
*
21906322 TATTTTTGTATCTA
1 TATTTTTGTATCTG
21906336 TATTT
1 TATTT
21906341 GGGGTGAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.61
Consensus pattern (14 bp):
TATTTTTGTATCTG
Found at i:21908485 original size:19 final size:20
Alignment explanation
Indices: 21908450--21908489 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21908440 ATAACTTATT
21908450 ATTTATAAAAATAATATATA
1 ATTTATAAAAATAATATATA
*
21908470 ATTTTTAAAAAT-ATATATA
1 ATTTATAAAAATAATATATA
21908489 A
1 A
21908490 CTAATTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTATAAAAATAATATATA
Found at i:21908645 original size:18 final size:16
Alignment explanation
Indices: 21908614--21908657 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
21908604 ATGTCACATC
* *
21908614 AATAAATATTTTAAAA
1 AATAAAAATATTAAAA
21908630 ATTATAAAAATATTAAAA
1 A--ATAAAAATATTAAAA
21908648 AATAAAAATA
1 AATAAAAATA
21908658 AATCAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAAAATATTAAAA
Found at i:21909754 original size:24 final size:24
Alignment explanation
Indices: 21909722--21909772 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
21909712 AAGTCTGTCA
* **
21909722 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATCTAGGAGCAGATAAG
21909746 GGATAGGATCTAGGAGCAGATAAG
1 GGATAGGATCTAGGAGCAGATAAG
21909770 GGA
1 GGA
21909773 GGAAATCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (24 bp):
GGATAGGATCTAGGAGCAGATAAG
Found at i:21911229 original size:27 final size:27
Alignment explanation
Indices: 21911189--21911300 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
21911179 AGGAAGCGTC
*
21911189 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
21911216 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
21911243 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* ** *
21911271 CTGGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
21911297 CTGG
1 CTGG
21911301 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.66
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:21911295 original size:54 final size:54
Alignment explanation
Indices: 21911189--21911300 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
21911179 AGGAAGCGTC
* * *
21911189 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * *
21911243 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
21911297 CTGG
1 CTGG
21911301 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:21912384 original size:11 final size:10
Alignment explanation
Indices: 21912356--21912389 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21912346 AGCCTGTAAG
21912356 TATTCTGAAT
1 TATTCTGAAT
*
21912366 TTTTCTGAAT
1 TATTCTGAAT
21912376 ATATTCTGAAT
1 -TATTCTGAAT
21912387 TAT
1 TAT
21912390 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:21929705 original size:24 final size:24
Alignment explanation
Indices: 21929670--21929720 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
21929660 AAGTCTGTCA
* **
21929670 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAAGAGCAGATAAG
*
21929694 GGATAGGTTTTAAGAGCAGATAAG
1 GGATAGGATTTAAGAGCAGATAAG
21929718 GGA
1 GGA
21929721 GGAAATCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.25
Consensus pattern (24 bp):
GGATAGGATTTAAGAGCAGATAAG
Found at i:21931421 original size:18 final size:17
Alignment explanation
Indices: 21931389--21931430 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
21931379 TTTTTAAGTT
21931389 TGTAA-TTTTTATATTA
1 TGTAATTTTTTATATTA
*
21931405 TGTTATTTTTATATATTA
1 TGTAATTTTT-TATATTA
21931423 TGTAATTT
1 TGTAATTT
21931431 ATAACATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 4 0.18
18 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:21933586 original size:40 final size:41
Alignment explanation
Indices: 21933542--21933628 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 41
21933532 TCAAATACAT
21933542 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
* * * * * *
21933582 TTAAAATAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
*
21933623 ATAAAA
1 TTAAAA
21933629 ATTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 24 0.62
41 15 0.38
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.24
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATA
Found at i:21936633 original size:40 final size:40
Alignment explanation
Indices: 21936589--21936746 Score: 210
Period size: 40 Copynumber: 4.0 Consensus size: 40
21936579 AAGTGCTACT
* *
21936589 AGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * *
21936629 AGGGGTATCGAA-TACTAATAGGGGCACGTATGTGCAAAC
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * *
21936668 AGTGGTACCGAAGTACAAATAGGGGCACGTATATGCAATT
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
* * *
21936708 AGGGGTACCGAAGTATAAATAGGGGCATGTATGTACAAT
1 AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAT
21936747 AATTCAATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 33 0.33
40 68 0.67
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATC
Found at i:21936730 original size:20 final size:20
Alignment explanation
Indices: 21936671--21936732 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
21936661 TGCAAACAGT
*
21936671 GGTACCGAAGTACAAATAGG
1 GGTACCGAAGTATAAATAGG
* * *
21936691 GGCA-CGTA-TATGCAATTAGG
1 GGTACCGAAGTAT--AAATAGG
21936711 GGTACCGAAGTATAAATAGG
1 GGTACCGAAGTATAAATAGG
21936731 GG
1 GG
21936733 CATGTATGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
18 2 0.06
19 3 0.10
20 20 0.65
21 3 0.10
22 3 0.10
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.19
Consensus pattern (20 bp):
GGTACCGAAGTATAAATAGG
Found at i:21944613 original size:26 final size:26
Alignment explanation
Indices: 21944582--21944637 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
21944572 TGAAATGCCC
21944582 ATCATGGAACATTTACCTAAACC-ATT
1 ATCATGGAACATTTACCT-AACCTATT
21944608 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCTATT
21944634 ATCA
1 ATCA
21944638 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCTATT
Found at i:21948695 original size:32 final size:32
Alignment explanation
Indices: 21948659--21948723 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
21948649 TGTATGCATT
21948659 TTAGCATTTTAATAGTTAATCGATGATGGGCA
1 TTAGCATTTTAATAGTTAATCGATGATGGGCA
*
21948691 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATCGATGATGGGCA
21948723 T
1 T
21948724 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATCGATGATGGGCA
Found at i:21955012 original size:103 final size:103
Alignment explanation
Indices: 21954833--21955042 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 103
21954823 CTAATTGTCA
*
21954833 TGTTCTATCTTTTGTAGGTTGCTAGTGTTGAAGAAATGCTTTTTCCAGAAGCATACATTTTACTC
1 TGTTCTATCTTTTGTAGGTTACTAGTGTTGAAGAAATGCTTTTTCCAGAAGCATACATTTTACTC
21954898 CATACTACACAGACTATAGTTTTAAATTGTAATAGAAT
66 CATACTACACAGACTATAGTTTTAAATTGTAATAGAAT
* *
21954936 TGTTCTATCTTTTGTAGGTTACTAGTGTTGAAGAATTGCTTTTTCCAGAAGCATACATTTTGCTC
1 TGTTCTATCTTTTGTAGGTTACTAGTGTTGAAGAAATGCTTTTTCCAGAAGCATACATTTTACTC
* *
21955001 TATACTACACAGACTATAGTTTTGAATTGTAATAGAAT
66 CATACTACACAGACTATAGTTTTAAATTGTAATAGAAT
21955039 TGTT
1 TGTT
21955043 GTCTTGTAAA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (103 bp):
TGTTCTATCTTTTGTAGGTTACTAGTGTTGAAGAAATGCTTTTTCCAGAAGCATACATTTTACTC
CATACTACACAGACTATAGTTTTAAATTGTAATAGAAT
Found at i:21955628 original size:17 final size:17
Alignment explanation
Indices: 21955606--21955640 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21955596 TTATTAAGTG
21955606 TAACGGAAAGTCTAATT
1 TAACGGAAAGTCTAATT
21955623 TAACGGAAAGTCTAATT
1 TAACGGAAAGTCTAATT
21955640 T
1 T
21955641 GACTATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
TAACGGAAAGTCTAATT
Found at i:21955778 original size:22 final size:20
Alignment explanation
Indices: 21955732--21955779 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
21955722 GAAAATGCAT
* *
21955732 CAAAAGTTATGAGGAAATAT
1 CAAAAATTATGAGGAAATAC
*
21955752 AAAAAATTATGAGAGAGAATAC
1 CAAAAATTATGAG-GA-AATAC
21955774 CAAAAA
1 CAAAAA
21955780 ACAAAAGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 11 0.50
21 2 0.09
22 9 0.41
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAAATTATGAGGAAATAC
Found at i:21957133 original size:3 final size:3
Alignment explanation
Indices: 21957125--21957194 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
21957115 AATGATACTG
21957125 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21957173 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
21957195 GCAAAATGAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21957929 original size:20 final size:19
Alignment explanation
Indices: 21957852--21957929 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 19
21957842 GATAGTAATT
21957852 ATATATATAATAATAGAATA
1 ATATATATAAT-ATAGAATA
*
21957872 ATAAATAT-A-ATAGCAATA
1 ATATATATAATATAG-AATA
* *
21957890 ATGATAAAATAATGTA-AATA
1 AT-AT-ATATAATATAGAATA
*
21957910 ATATATATGATATAGCAATA
1 ATATATATAATATAG-AATA
21957930 GCACTAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
17 4 0.09
18 13 0.30
19 4 0.09
20 20 0.45
21 1 0.02
22 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
ATATATATAATATAGAATA
Found at i:21959121 original size:14 final size:14
Alignment explanation
Indices: 21959102--21959146 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
21959092 TTTATGTAAA
21959102 TGGGTTTTAGGGAT
1 TGGGTTTTAGGGAT
* *
21959116 TGGGTTATA---AA
1 TGGGTTTTAGGGAT
21959127 TGGGTTTTAGGGAT
1 TGGGTTTTAGGGAT
21959141 TGGGTT
1 TGGGTT
21959147 ATAAATAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 9 0.38
14 15 0.62
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (14 bp):
TGGGTTTTAGGGAT
Found at i:21959126 original size:25 final size:25
Alignment explanation
Indices: 21959098--21959152 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
21959088 GGGTTTTATG
21959098 TAAATGGGTTTTAGGGATTGGGTTA
1 TAAATGGGTTTTAGGGATTGGGTTA
21959123 TAAATGGGTTTTAGGGATTGGGTTA
1 TAAATGGGTTTTAGGGATTGGGTTA
21959148 TAAAT
1 TAAAT
21959153 AGGTGTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (25 bp):
TAAATGGGTTTTAGGGATTGGGTTA
Found at i:21960108 original size:75 final size:74
Alignment explanation
Indices: 21959915--21960154 Score: 317
Period size: 75 Copynumber: 3.3 Consensus size: 74
21959905 AAAATACAAA
* * *
21959915 TTGAAAA-AAAAATTAAAAATACCTCAGTATATCCTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
21959979 TTGA--TTT
66 TTGATTTTT
* * * * *
21959986 TTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCCCAACTCATCTCTCGCAATGTAA
1 TTGA-AAACAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
21960051 GTTGATTTTT
65 GTTGATTTTT
* * * *
21960061 TTGAAAAGCAGAAATTAAAAATACCCCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
21960126 GTTGATTTTT
65 GTTGATTTTT
*
21960136 TTG-AAACATAAATTAAAAA
1 TTGAAAACAGAAATTAAAAA
21960155 ACACAAACTG
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
71 4 0.03
72 3 0.02
73 65 0.45
74 6 0.04
75 68 0.47
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTAAAAATACCTCAGTGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTTTT
Found at i:21966377 original size:44 final size:44
Alignment explanation
Indices: 21965945--21966351 Score: 643
Period size: 44 Copynumber: 9.2 Consensus size: 44
21965935 GGTGAATCCT
*
21965945 GCAGATTTGGCATCTCTGTATTGGCGGGGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * * * *
21965989 GCATATTTAGCATCTCAGAATTAGCGGAGAGCAGGTCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
21966033 GCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
21966077 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGGTCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * * *
21966121 GCAGATTTGGCATCTCTGAATTGACGAAGAGCAGGTTGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
21966165 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
21966209 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
21966253 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
21966297 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
21966341 GCAGATTTGGC
1 GCAGATTTGGC
21966352 GTCTTTATAT
Statistics
Matches: 329, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 329 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:21979952 original size:499 final size:499
Alignment explanation
Indices: 21979014--21980011 Score: 1996
Period size: 499 Copynumber: 2.0 Consensus size: 499
21979004 TAGAGGCTAA
21979014 GAAAATCTTGGAAGAAGTCCACGAAGGTGTCTGTGGGACACACGCTAATGGCTTTACAATGGCCA
1 GAAAATCTTGGAAGAAGTCCACGAAGGTGTCTGTGGGACACACGCTAATGGCTTTACAATGGCCA
21979079 GGCAAATTATGAGATTCGGGTACTATGGGTCCACCATGGAGGTGACTGTGTCAACTACGCTAAGA
66 GGCAAATTATGAGATTCGGGTACTATGGGTCCACCATGGAGGTGACTGTGTCAACTACGCTAAGA
21979144 GATGCCATAAGTGCCAAATCTACGGAGACAAAATTCATGTGCCTCCTTCACCGCTGCATGTAATG
131 GATGCCATAAGTGCCAAATCTACGGAGACAAAATTCATGTGCCTCCTTCACCGCTGCATGTAATG
21979209 GTTTCTCCATGGCCATTCTCTATGTGGGGCATGGATGTGATTGGACCAATATCGCTGAAAGCATC
196 GTTTCTCCATGGCCATTCTCTATGTGGGGCATGGATGTGATTGGACCAATATCGCTGAAAGCATC
21979274 CAATGGGCATCGTTTCATCTTTGTGGTTATCGACTATTTCACCAAATGGGTAGAAGCCGTTTCGT
261 CAATGGGCATCGTTTCATCTTTGTGGTTATCGACTATTTCACCAAATGGGTAGAAGCCGTTTCGT
21979339 ATGCTAGTGTGACAAAATCAGCAGTGAGCAAGTTTCTGAAAAAAGAGATCATATGTCAATATGGA
326 ATGCTAGTGTGACAAAATCAGCAGTGAGCAAGTTTCTGAAAAAAGAGATCATATGTCAATATGGA
21979404 ATGCCGGAGAGGATCATATCTGACAATGCATTAAACTTAAACAACAGTATGATAGCGGAAGTCTG
391 ATGCCGGAGAGGATCATATCTGACAATGCATTAAACTTAAACAACAGTATGATAGCGGAAGTCTG
21979469 CAGTCAATTCAAGATCAGACATCACAACTCGTCACCATATCGCC
456 CAGTCAATTCAAGATCAGACATCACAACTCGTCACCATATCGCC
21979513 GAAAATCTTGGAAGAAGTCCACGAAGGTGTCTGTGGGACACACGCTAATGGCTTTACAATGGCCA
1 GAAAATCTTGGAAGAAGTCCACGAAGGTGTCTGTGGGACACACGCTAATGGCTTTACAATGGCCA
21979578 GGCAAATTATGAGATTCGGGTACTATGGGTCCACCATGGAGGTGACTGTGTCAACTACGCTAAGA
66 GGCAAATTATGAGATTCGGGTACTATGGGTCCACCATGGAGGTGACTGTGTCAACTACGCTAAGA
21979643 GATGCCATAAGTGCCAAATCTACGGAGACAAAATTCATGTGCCTCCTTCACCGCTGCATGTAATG
131 GATGCCATAAGTGCCAAATCTACGGAGACAAAATTCATGTGCCTCCTTCACCGCTGCATGTAATG
21979708 GTTTCTCCATGGCCATTCTCTATGTGGGGCATGGATGTGATTGGACCAATATCGCTGAAAGCATC
196 GTTTCTCCATGGCCATTCTCTATGTGGGGCATGGATGTGATTGGACCAATATCGCTGAAAGCATC
21979773 CAATGGGCATCGTTTCATCTTTGTGGTTATCGACTATTTCACCAAATGGGTAGAAGCCGTTTCGT
261 CAATGGGCATCGTTTCATCTTTGTGGTTATCGACTATTTCACCAAATGGGTAGAAGCCGTTTCGT
21979838 ATGCTAGTGTGACAAAATCAGCAGTGAGCAAGTTTCTGAAAAAAGAGATCATATGTCAATATGGA
326 ATGCTAGTGTGACAAAATCAGCAGTGAGCAAGTTTCTGAAAAAAGAGATCATATGTCAATATGGA
21979903 ATGCCGGAGAGGATCATATCTGACAATGCATTAAACTTAAACAACAGTATGATAGCGGAAGTCTG
391 ATGCCGGAGAGGATCATATCTGACAATGCATTAAACTTAAACAACAGTATGATAGCGGAAGTCTG
21979968 CAGTCAATTCAAGATCAGACATCACAACTCGTCACCATATCGCC
456 CAGTCAATTCAAGATCAGACATCACAACTCGTCACCATATCGCC
21980012 CGAAGATGAA
Statistics
Matches: 499, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
499 499 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (499 bp):
GAAAATCTTGGAAGAAGTCCACGAAGGTGTCTGTGGGACACACGCTAATGGCTTTACAATGGCCA
GGCAAATTATGAGATTCGGGTACTATGGGTCCACCATGGAGGTGACTGTGTCAACTACGCTAAGA
GATGCCATAAGTGCCAAATCTACGGAGACAAAATTCATGTGCCTCCTTCACCGCTGCATGTAATG
GTTTCTCCATGGCCATTCTCTATGTGGGGCATGGATGTGATTGGACCAATATCGCTGAAAGCATC
CAATGGGCATCGTTTCATCTTTGTGGTTATCGACTATTTCACCAAATGGGTAGAAGCCGTTTCGT
ATGCTAGTGTGACAAAATCAGCAGTGAGCAAGTTTCTGAAAAAAGAGATCATATGTCAATATGGA
ATGCCGGAGAGGATCATATCTGACAATGCATTAAACTTAAACAACAGTATGATAGCGGAAGTCTG
CAGTCAATTCAAGATCAGACATCACAACTCGTCACCATATCGCC
Found at i:21981524 original size:44 final size:44
Alignment explanation
Indices: 21981461--21981883 Score: 535
Period size: 44 Copynumber: 9.6 Consensus size: 44
21981451 GCAGATTTGG
*
21981461 CTCTGTATTGGCGGGGAGCAGATCAAAGATAGCAGATTTGGCAT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
* * ** * *
21981505 CTCGGAATTGGCAAAGAGCAGGTCGAAGATAGCAGATTTGGCAT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
* * *
21981549 CTCTGTATTGGTGGAGAGCAGATCGAAA-ATAGCAGATTTAGCGT
1 CTCTGTATTGGCGGAGAGCAGATC-AAAGATAGCAGATTTGGCAT
* * *
21981593 CTCTGTATTGGCGGAGAGCAGGTCGAAGATAGCAGATTTGGTAT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
* * * *
21981637 CTCTGAATTGGCAGAGAGCAGGTCGAAGATAGCAGATTTGGCAT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
* * * * *
21981681 CTCTGTATTGGCGGAAAGTAGATCGAATATAGCAGATTTGGCGT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
21981725 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
*
21981769 CTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCAT
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
* ** *
21981813 CTCTATATTGGCAAAGAGCAGAT-AGAAGATAGCAGATTTGGCGT
1 CTCTGTATTGGCGGAGAGCAGATCA-AAGATAGCAGATTTGGCAT
* ** *
21981857 CTCTATATTGGCAAAGAGTAGATCAAA
1 CTCTGTATTGGCGGAGAGCAGATCAAA
21981884 AATAACAAGT
Statistics
Matches: 331, Mismatches: 44, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
43 2 0.01
44 326 0.98
45 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (44 bp):
CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCAT
Found at i:21981704 original size:132 final size:132
Alignment explanation
Indices: 21981461--21981883 Score: 632
Period size: 132 Copynumber: 3.2 Consensus size: 132
21981451 GCAGATTTGG
* * *
21981461 CTCTGTATTGGCGGGGAGCAGATCAAAGATAGCAGATTTGGCATCTCGGAATTGGCAAAGAGCAG
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGAATTGGCAGAGAGCAG
* * *
21981526 GTCGAAGATAGCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCGAAAATAGCAGATTTAGC
66 GTCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAAAGCAGATCGAAAATAGCAGATTTGGC
21981591 GT
131 GT
* * *
21981593 CTCTGTATTGGCGGAGAGCAGGTCGAAGATAGCAGATTTGGTATCTCTGAATTGGCAGAGAGCAG
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGAATTGGCAGAGAGCAG
* *
21981658 GTCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAAAGTAGATCGAATATAGCAGATTTGGC
66 GTCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAAAGCAGATCGAAAATAGCAGATTTGGC
21981723 GT
131 GT
* *
21981725 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAG
1 CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGAATTGGCAGAGAGCAG
* * * * *
21981790 ATCGAAGATAGCAGATTTGGCATCTCTATATTGGC-AAAGAGCAGATAGAAGATAGCAGATTTGG
66 GTCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAA-AGCAGATCGAAAATAGCAGATTTGG
21981854 CGT
130 CGT
* ** *
21981857 CTCTATATTGGCAAAGAGTAGATCAAA
1 CTCTGTATTGGCGGAGAGCAGATCAAA
21981884 AATAACAAGT
Statistics
Matches: 264, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
131 2 0.01
132 262 0.99
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (132 bp):
CTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGAATTGGCAGAGAGCAG
GTCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAAAGCAGATCGAAAATAGCAGATTTGGC
GT
Found at i:21985730 original size:3 final size:3
Alignment explanation
Indices: 21985722--21985747 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21985712 TGGTTTCGAA
21985722 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21985748 GCAAAATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21986478 original size:20 final size:19
Alignment explanation
Indices: 21986401--21986478 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 19
21986391 GATAGTAATT
21986401 ATATATATAATAATAGAATA
1 ATATATATAAT-ATAGAATA
*
21986421 ATAAATAT-A-ATAGCAATA
1 ATATATATAATATAG-AATA
* *
21986439 ATGATAAAATAATGTA-AATA
1 AT-AT-ATATAATATAGAATA
*
21986459 ATATATATGATATAGCAATA
1 ATATATATAATATAG-AATA
21986479 GCACTAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
17 4 0.09
18 13 0.30
19 4 0.09
20 20 0.45
21 1 0.02
22 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
ATATATATAATATAGAATA
Found at i:21986974 original size:8 final size:9
Alignment explanation
Indices: 21986957--21986984 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21986947 GTGAAGGGAG
21986957 AAAAGAAAA
1 AAAAGAAAA
21986966 AAAAGAAAA
1 AAAAGAAAA
21986975 AAAAGAAAA
1 AAAAGAAAA
21986984 A
1 A
21986985 GGGAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:21988004 original size:28 final size:28
Alignment explanation
Indices: 21987940--21988004 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
21987930 TGAAAACATA
*
21987940 TTATTTTTTATTTATTGTTAGTGAAATG
1 TTATTTTTTATTTATTGTTACTGAAATG
* * * *
21987968 ATATATTTTATTTTATTTTTACT-AAATT
1 TTATTTTTTA-TTTATTGTTACTGAAATG
21987996 TTATTTTTT
1 TTATTTTTT
21988005 CAAAATTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (28 bp):
TTATTTTTTATTTATTGTTACTGAAATG
Found at i:21988010 original size:16 final size:16
Alignment explanation
Indices: 21987977--21988012 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21987967 GATATATTTT
*
21987977 ATTTTATTTTTACTAA
1 ATTTTATTTTTACAAA
*
21987993 ATTTTATTTTTTCAAA
1 ATTTTATTTTTACAAA
21988009 ATTT
1 ATTT
21988013 AAAAAATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTATTTTTACAAA
Found at i:21988061 original size:18 final size:18
Alignment explanation
Indices: 21988023--21988061 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21988013 AAAAAATACT
**
21988023 AAATAAATATATTTTTTA
1 AAATAAATATATTTTCAA
21988041 AAATAAATATATTTTCAA
1 AAATAAATATATTTTCAA
21988059 AAA
1 AAA
21988062 CCAAACTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATAAATATATTTTCAA
Found at i:21990868 original size:49 final size:49
Alignment explanation
Indices: 21990815--21991162 Score: 297
Period size: 49 Copynumber: 7.1 Consensus size: 49
21990805 CAACAATTGC
* * * * * *
21990815 TTTCATTATCTACATATTCTACCATCCCCAGTGGCTCAAAAATAATAGT
1 TTTCACTATTTACATATTCTACCATCCCGAGTGGCTCGACAATGATAGT
* * * * * *
21990864 TTTCACTATTTGCATATTCTATCATCTCGAATGGCCCGACAATGATGGT
1 TTTCACTATTTACATATTCTACCATCCCGAGTGGCTCGACAATGATAGT
* * * *
21990913 TTCCACTATTTGCATAGTCTACCATCCCGAGTGAC-CGGACAATGATAGT
1 TTTCACTATTTACATATTCTACCATCCCGAGTGGCTC-GACAATGATAGT
** * * * *
21990962 TTTCACTATTTATGTATTCTACCATCCTGGGTGG-TCCGACAATAATGGT
1 TTTCACTATTTACATATTCTACCATCCCGAGTGGCT-CGACAATGATAGT
* * * *
21991011 TTTTACTATTTGCATATTCTACCATCCC-AGGTGGCTTGATAATGATAGT
1 TTTCACTATTTACATATTCTACCATCCCGA-GTGGCTCGACAATGATAGT
** * * * *
21991060 TTTCACTATTTACATATTCTACCATCTTGGGTGGCCCGACAATAATGGT
1 TTTCACTATTTACATATTCTACCATCCCGAGTGGCTCGACAATGATAGT
* ** * * * *
21991109 TTTCACTATTTGCATATTCTACCATCTTGAGTGGCCCAACAACGATGGT
1 TTTCACTATTTACATATTCTACCATCCCGAGTGGCTCGACAATGATAGT
21991158 TTTCA
1 TTTCA
21991163 ATCACTATAT
Statistics
Matches: 239, Mismatches: 54, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
48 1 0.00
49 236 0.99
50 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (49 bp):
TTTCACTATTTACATATTCTACCATCCCGAGTGGCTCGACAATGATAGT
Found at i:21991143 original size:98 final size:98
Alignment explanation
Indices: 21990781--21991134 Score: 408
Period size: 98 Copynumber: 3.6 Consensus size: 98
21990771 GAACTTGTAC
* * * * * * * * *
21990781 ATTCTACCATCACGGTTGGCCCGGCAACAATTGCTTTCATTATCTACATATTCTACCATCCCCAG
1 ATTCTACCATCTCGGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCCAG
* * *
21990846 TGGCTCAAAAATAATAGTTTTCACTATTTGCAT
66 TGGCTCGAAAATGATAGTTTTCACTATTTACAT
* ** * * * *
21990879 ATTCTATCATCTCGAATGGCCCGACAATGATGGTTTCCACTATTTGCATAGTCTACCATCCCGAG
1 ATTCTACCATCTCGGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCCAG
* * **
21990944 TGAC-CGGACAATGATAGTTTTCACTATTTATGT
66 TGGCTC-GAAAATGATAGTTTTCACTATTTACAT
* *
21990977 ATTCTACCATC-CTGGGTGGTCCGACAATAATGGTTTTTACTATTTGCATATTCTACCAT-CCCA
1 ATTCTACCATCTC-GGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCCA
* *
21991040 GGTGGCTTGATAATGATAGTTTTCACTATTTACAT
65 -GTGGCTCGAAAATGATAGTTTTCACTATTTACAT
*
21991075 ATTCTACCATCTTGGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATC
1 ATTCTACCATCTCGGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATC
21991135 TTGAGTGGCC
Statistics
Matches: 211, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
97 5 0.02
98 206 0.98
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (98 bp):
ATTCTACCATCTCGGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCCAG
TGGCTCGAAAATGATAGTTTTCACTATTTACAT
Found at i:21991157 original size:147 final size:147
Alignment explanation
Indices: 21990781--21991162 Score: 388
Period size: 147 Copynumber: 2.6 Consensus size: 147
21990771 GAACTTGTAC
* * * * * * * **
21990781 ATTCTACCATCACGGTTGGCCCGGCAACAATTGCTTTCATTATCTACATATTCTACCATCCCCAG
1 ATTCTACCATCACGGGTGGCCCGACAATAATAGTTTTCACTATTTACATATTCTACCATCCTGAG
* * * * * *
21990846 TGGCTCAAAAATAATAGTTTTCACTATTTGCATATTCTATCATCTCGAATGGCCCGACAATGATG
66 TGGCCCAACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCGAATGGCCCGACAATGATA
*
21990911 GTTTCCACTATTTGCAT
131 GTTTCCACTATTTACAT
* * * * * * ** *
21990928 AGTCTACCATCCCGAGTGACCGGACAATGATAGTTTTCACTATTTATGTATTCTACCATCCTGGG
1 ATTCTACCATCACGGGTGGCCCGACAATAATAGTTTTCACTATTTACATATTCTACCATCCTGAG
* * * * ** *
21990993 TGGTCCGACAATAATGGTTTTTACTATTTGCATATTCTACCATCCC-AGGTGGCTTGATAATGAT
66 TGGCCCAACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCGA-ATGGCCCGACAATGAT
*
21991057 AGTTTTCACTATTTACAT
130 AGTTTCCACTATTTACAT
** * * *
21991075 ATTCTACCATCTTGGGTGGCCCGACAATAATGGTTTTCACTATTTGCATATTCTACCATCTTGAG
1 ATTCTACCATCACGGGTGGCCCGACAATAATAGTTTTCACTATTTACATATTCTACCATCCTGAG
**
21991140 TGGCCCAACAACGATGGTTTTCA
66 TGGCCCAACAATAATGGTTTTCA
21991163 ATCACTATAT
Statistics
Matches: 183, Mismatches: 51, Indels: 2
0.78 0.22 0.01
Matches are distributed among these distances:
146 1 0.01
147 182 0.99
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (147 bp):
ATTCTACCATCACGGGTGGCCCGACAATAATAGTTTTCACTATTTACATATTCTACCATCCTGAG
TGGCCCAACAATAATGGTTTTCACTATTTGCATATTCTACCATCCCGAATGGCCCGACAATGATA
GTTTCCACTATTTACAT
Found at i:21996019 original size:18 final size:18
Alignment explanation
Indices: 21995998--21996032 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21995988 ACCTTTTGAA
21995998 AAATTTTATAAAATTTTG
1 AAATTTTATAAAATTTTG
* *
21996016 AAATTTTCTAATATTTT
1 AAATTTTATAAAATTTT
21996033 TATTCAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
AAATTTTATAAAATTTTG
Found at i:21998083 original size:19 final size:21
Alignment explanation
Indices: 21998030--21998086 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
21998020 TAATTTTTTA
* *
21998030 ATAATTATTAATA-ATTCCTC
1 ATAATTTTTAATATTTTCCTC
21998050 ATAATTTTTAATATTTTCC-C
1 ATAATTTTTAATATTTTCCTC
*
21998070 ATAA-TTTTAGTATTTTC
1 ATAATTTTTAATATTTTC
21998087 TCGTAAGGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.36
20 17 0.52
21 4 0.12
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAATTTTTAATATTTTCCTC
Found at i:21998232 original size:17 final size:18
Alignment explanation
Indices: 21998210--21998244 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
21998200 TATATACTAT
21998210 AAAATAAA-AAATTTTAA
1 AAAATAAAGAAATTTTAA
21998227 AAAATAAAGTAAATTTTA
1 AAAATAAAG-AAATTTTA
21998245 TAAGAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATAAAGAAATTTTAA
Found at i:21998301 original size:20 final size:21
Alignment explanation
Indices: 21998278--21998321 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
21998268 TCTCTTATAA
*
21998278 TTTTTGGTACT-TCATCATAT
1 TTTTTGGTACTCACATCATAT
21998298 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTCACATCATAT
21998319 TTT
1 TTT
21998322 GTGTTATTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTTTGGTACTCACATCATAT
Found at i:22000680 original size:22 final size:21
Alignment explanation
Indices: 22000652--22000694 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
22000642 AACACGTTAG
22000652 CAAATATATATATATAAATAAA
1 CAAATATATATATA-AAATAAA
*
22000674 CAAATATTTATATAAAATAAA
1 CAAATATATATATAAAATAAA
22000695 TAATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
CAAATATATATATAAAATAAA
Found at i:22000693 original size:21 final size:22
Alignment explanation
Indices: 22000652--22000707 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
22000642 AACACGTTAG
*
22000652 CAAATATATATATATAAATAAA
1 CAAATATTTATATATAAATAAA
22000674 CAAATATTTATATA-AAATAAA
1 CAAATATTTATATATAAATAAA
* *
22000695 TAATTATTTATAT
1 CAAATATTTATAT
22000708 TTAAGAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
CAAATATTTATATATAAATAAA
Found at i:22003078 original size:26 final size:25
Alignment explanation
Indices: 22003029--22003084 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
22003019 ATTGTTATTA
* ** *
22003029 AATTTTAATAAAATTATCATTAAAT
1 AATTTTAATAAAAATAAAAATAAAT
22003054 ATATTTTAATAAAAATAAAAATAAAT
1 A-ATTTTAATAAAAATAAAAATAAAT
22003080 AATTT
1 AATTT
22003085 AATCATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTTTAATAAAAATAAAAATAAAT
Found at i:22014973 original size:43 final size:43
Alignment explanation
Indices: 22014908--22015049 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 43
22014898 TATTTAAAAA
*
22014908 AAACGCCACTAAAGGT-TATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCT-TGACCTTTAGCGGCGCTTTTCCCAC
* *
22014951 AAACGCCGCTAAAGGTCTTGACCTTTAGCGACACTTTTTCCCAC
1 AAACGCCGCTAAAGGTCTTGACCTTTAGCGGCGC-TTTTCCCAC
** * * *
22014995 --A--CCGCTAAAGGTCACGACCTTTAGCGGCGCTTTACCTAA
1 AAACGCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCAC
22015034 AAACGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
22015050 AATGAAATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
39 6 0.07
40 25 0.30
41 1 0.01
42 1 0.01
43 40 0.48
44 10 0.12
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCTTGACCTTTAGCGGCGCTTTTCCCAC
Found at i:22015014 original size:40 final size:41
Alignment explanation
Indices: 22014916--22015020 Score: 124
Period size: 40 Copynumber: 2.5 Consensus size: 41
22014906 AAAAACGCCA
* * *
22014916 CTAAAGGTTATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
1 CTAAAGGTCATGACCTTTAGCGACACTTTTCCCAC-AAC-CCG
*
22014959 CTAAAGGTCTTGACCTTTAGCGACACTTTTTCCCAC-A-CCG
1 CTAAAGGTCATGACCTTTAGCGACAC-TTTTCCCACAACCCG
*
22014999 CTAAAGGTCACGACCTTTAGCG
1 CTAAAGGTCATGACCTTTAGCG
22015021 GCGCTTTACC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 23 0.42
42 1 0.02
43 22 0.40
44 9 0.16
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (41 bp):
CTAAAGGTCATGACCTTTAGCGACACTTTTCCCACAACCCG
Found at i:22015215 original size:30 final size:29
Alignment explanation
Indices: 22015146--22015216 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 29
22015136 ATATCCATGA
*
22015146 TATAAATATAAAATTTTCTATTAAAATTCAT
1 TATAAAAAT-AAATTTTCTATTAAAATT-AT
*
22015177 TATCAAAATAAATTTTCTATTAAAATT-T
1 TATAAAAATAAATTTTCTATTAAAATTAT
22015205 TAACTAAAAATA
1 T-A-TAAAAATA
22015217 TTGAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 1 0.03
30 25 0.71
31 7 0.20
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (29 bp):
TATAAAAATAAATTTTCTATTAAAATTAT
Found at i:22017062 original size:4 final size:4
Alignment explanation
Indices: 22017053--22017077 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22017043 CTGTATATTC
22017053 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
22017078 AACAGCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:22020177 original size:17 final size:17
Alignment explanation
Indices: 22020155--22020199 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
22020145 TAATTTTAAT
22020155 TTTTTTTATTTTTAACA
1 TTTTTTTATTTTTAACA
22020172 TTTTTTTATTTTTAACA
1 TTTTTTTATTTTTAACA
22020189 TTTTTTTATTT
1 TTTTTTTATTT
22020200 ATTTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTATTTTTAACA
Found at i:22020269 original size:8 final size:8
Alignment explanation
Indices: 22020258--22020375 Score: 68
Period size: 7 Copynumber: 14.9 Consensus size: 8
22020248 ATATTAAATA
22020258 TTAAATTT
1 TTAAATTT
*
22020266 TTAAGTTT
1 TTAAATTT
*
22020274 TT-TATTT
1 TTAAATTT
**
22020281 TTTTATTT
1 TTAAATTT
22020289 TTAAA-TT
1 TTAAATTT
22020296 TTAAA-TT
1 TTAAATTT
22020303 TTAAATTT
1 TTAAATTT
*
22020311 TT-TATTT
1 TTAAATTT
*
22020318 TT-TATTT
1 TTAAATTT
**
22020325 TTTTATTT
1 TTAAATTT
22020333 TTAAA-TT
1 TTAAATTT
*
22020340 TTAATTTTTT
1 TTAA--ATTT
22020350 TTGAATATTT
1 TT-AA-ATTT
22020360 TTATAATTT
1 TTA-AATTT
22020369 TTAAATT
1 TTAAATT
22020376 AACATATAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
7 38 0.41
8 33 0.36
9 8 0.09
10 11 0.12
11 2 0.02
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (8 bp):
TTAAATTT
Found at i:22020281 original size:14 final size:15
Alignment explanation
Indices: 22020258--22020375 Score: 94
Period size: 15 Copynumber: 7.5 Consensus size: 15
22020248 ATATTAAATA
*
22020258 TTAAATTTTTAAGTTT
1 TTAAATTTTTTA-TTT
* *
22020274 TTTATTTTTTTATTT
1 TTAAATTTTTTATTT
* *
22020289 TTAAA-TTTTAAATT
1 TTAAATTTTTTATTT
22020303 TTAAATTTTTTATTT
1 TTAAATTTTTTATTT
* *
22020318 TTTATTTTTTTATTT
1 TTAAATTTTTTATTT
*
22020333 TTAAATTTTAATTTTTT
1 TTAAATTTT--TTATTT
22020350 TTGAATATTTTTATAATTT
1 TT-AA-ATTTTT-T-ATTT
22020369 TTAAATT
1 TTAAATT
22020376 AACATATAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
14 12 0.15
15 33 0.41
16 9 0.11
17 11 0.14
18 5 0.06
19 10 0.12
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTAAATTTTTTATTT
Found at i:22020314 original size:37 final size:37
Alignment explanation
Indices: 22020251--22020375 Score: 130
Period size: 37 Copynumber: 3.4 Consensus size: 37
22020241 AATTAAAATA
* *
22020251 TTAAATATTAAATTTTTAAGTTTTTTATTTTTT-TATTT
1 TTAAATTTTAAA-TTTTAAATTTTTTATTTTTTAT-TTT
22020289 TTAAATTTTAAATTTTAAATTTTTTATTTTTTATTTT
1 TTAAATTTTAAATTTTAAATTTTTTATTTTTTATTTT
* * ***
22020326 TTTATTTTTAAATTTT-AATTTTTT-TTGAATATTTT
1 TTAAATTTTAAATTTTAAATTTTTTATTTTTTATTTT
*
22020361 TATAATTTTTAAATT
1 T-TAAATTTTAAATT
22020376 AACATATAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
35 9 0.12
36 20 0.26
37 36 0.47
38 12 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (37 bp):
TTAAATTTTAAATTTTAAATTTTTTATTTTTTATTTT
Found at i:22020334 original size:44 final size:45
Alignment explanation
Indices: 22020246--22020348 Score: 163
Period size: 44 Copynumber: 2.3 Consensus size: 45
22020236 ATATGAATTA
* *
22020246 AAATATTAAATATTAAATTTTTAAGTTTTTTATTTTTTTATTTTT
1 AAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTTTTATTTTT
*
22020291 AAATTTTAAATTTTAAATTTTTTA-TTTTTTATTTTTTTATTTTT
1 AAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTTTTATTTTT
*
22020335 AAATTTTAATTTTT
1 AAATTTTAAATTTT
22020349 TTTGAATATT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
44 33 0.61
45 21 0.39
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (45 bp):
AAATTTTAAATTTTAAATTTTTAAGTTTTTTATTTTTTTATTTTT
Done.