Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 64 of 322
Found at i:20414596 original size:13 final size:13
Alignment explanation
Indices: 20414578--20414603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20414568 GAAGCAATCA
20414578 CACACGGGCGTGT
1 CACACGGGCGTGT
20414591 CACACGGGCGTGT
1 CACACGGGCGTGT
20414604 TCCTGCGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:20416992 original size:40 final size:39
Alignment explanation
Indices: 20416932--20417020 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 39
20416922 TTCGATATCA
* *
20416932 CACACTTAGTGCCTCATATAGCTAAAGCTATTCCAACTCG
1 CACACTTAGTGCCTCATATAGCCAAAGCTATTCCAA-TAG
* **
20416972 CACACTTAGTG-CT-ATTTATAGCCGAAGCTATTTGAATAG
1 CACACTTAGTGCCTCA--TATAGCCAAAGCTATTCCAATAG
20417011 CACACTTAGT
1 CACACTTAGT
20417021 ACCGAACATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
38 1 0.02
39 14 0.33
40 27 0.64
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (39 bp):
CACACTTAGTGCCTCATATAGCCAAAGCTATTCCAATAG
Found at i:20423718 original size:49 final size:48
Alignment explanation
Indices: 20423615--20423839 Score: 235
Period size: 49 Copynumber: 4.6 Consensus size: 48
20423605 TGATATGCGT
* * * *
20423615 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATG-AA
*
20423663 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGA-A
*
20423712 GCTAGTGTAAGACTTGTCTGGGACATGGCATC-AGCCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATATATG-AA
* * *
20423761 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATATGTG-A
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAA
* * **
20423808 GCCAGTGTAAGACCATGTTTGAAACATGGCAT
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCAT
20423840 TGGCATCGTA
Statistics
Matches: 152, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
47 13 0.09
48 43 0.28
49 93 0.61
50 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAA
Found at i:20423783 original size:98 final size:97
Alignment explanation
Indices: 20423615--20423795 Score: 292
Period size: 98 Copynumber: 1.9 Consensus size: 97
20423605 TGATATGCGT
* *
20423615 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATGAAAGCTAGTGTAAGACCTGT
20423680 CTGGGACATGGCATCGACACCGATAGATGAGA
66 CTGGGACATGGCATCGACACCGATAGATGAGA
* * *
20423712 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCTCGATATATGAAAG-TCAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCAAGATATGAAAGCT-AGTGTAAGACCT
20423776 GTCTGGGACATGGCATCGAC
64 GTCTGGGACATGGCATCGAC
20423796 TTAGATATGT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
97 26 0.34
98 51 0.66
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (97 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATGAAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCGACACCGATAGATGAGA
Found at i:20441680 original size:43 final size:43
Alignment explanation
Indices: 20441632--20441785 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 43
20441622 AATGCCATAA
* * ** *
20441632 CCCAGATATGGTTTTACATGTTTTCATATACCGATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
* * *
20441675 CCCAGACGTGGTCTTACAGGAAATCATATAACGATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
* * * *
20441718 CCTAGACATGGTCTTACATGTAATCACAATAA-AATTCCAATGT
1 CCCAGACATGGTCTTACATGTAATCA-TATAACGATGCCAATGT
* *
20441761 TCCATACATGGTCTTACATGTAATC
1 CCCAGACATGGTCTTACATGTAATC
20441786 TCATCTCGAT
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 88 0.96
44 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
Found at i:20449169 original size:39 final size:39
Alignment explanation
Indices: 20449115--20449193 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
20449105 ATCTGGAAAG
* *
20449115 ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAATGTGAT
1 ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
20449154 ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
1 ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
20449193 A
1 A
20449194 AATTAGCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.05, G:0.23, T:0.19
Consensus pattern (39 bp):
ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
Found at i:20450789 original size:42 final size:42
Alignment explanation
Indices: 20450733--20450840 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 42
20450723 GATGCCACTA
* * *
20450733 TCCCAGACAAGGTCTTACAC-AAAATCATATA-CAATGCTAATG
1 TCCCAGACATGGTCTTACACGAAAAT-AGA-AGCAATGCTAAAG
20450775 TCCCAGACATGGTCTTACACGTAAAATAGAAGTCAATGCTAAAG
1 TCCCAGACATGGTCTTACACG-AAAATAGAAG-CAATGCTAAAG
**
20450819 TCCCAGATGTGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
20450841 TAACACATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.35
43 3 0.05
44 34 0.60
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAATAGAAGCAATGCTAAAG
Found at i:20454992 original size:27 final size:27
Alignment explanation
Indices: 20454962--20455021 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
20454952 TATGTCAGTC
*
20454962 ATTTTACACTATAAAG-GTATTTCGATA
1 ATTTTAAACTA-AAAGTGTATTTCGATA
* *
20454989 ATTTAAAACTACAAGTGTATTTCGATA
1 ATTTTAAACTAAAAGTGTATTTCGATA
20455016 ATTTTA
1 ATTTTA
20455022 TAAATCGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (27 bp):
ATTTTAAACTAAAAGTGTATTTCGATA
Found at i:20455038 original size:27 final size:27
Alignment explanation
Indices: 20454977--20455234 Score: 294
Period size: 27 Copynumber: 9.6 Consensus size: 27
20454967 ACACTATAAA
*
20454977 GGTATTTCGATAA-TTTA-AAACTACAAG
1 GGTATTTCGATAATTTTACAAA-T-CGAG
* * *
20455004 TGTATTTCGATAATTTTATAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
20455031 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
20455058 GGTATTTCGATAGTTTTACAAA-CTGAG
1 GGTATTTCGATAATTTTACAAATC-GAG
* *
20455085 GGTGTTTTGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
20455112 GGTATTTCAATAATTTTACAAA-CTGAG
1 GGTATTTCGATAATTTTACAAATC-GAG
20455139 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
20455166 GATATTTCGATAATTTTACAAATC-AG
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
20455192 GGTACTTCGGTAATTTTACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
*
20455219 GGTGTTTC-AGTAATTT
1 GGTATTTCGA-TAATTT
20455235 CTTTTTATTA
Statistics
Matches: 197, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
26 25 0.13
27 162 0.82
28 7 0.04
29 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:20462108 original size:93 final size:94
Alignment explanation
Indices: 20461938--20462119 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 94
20461928 TAGTAATGCA
*
20461938 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATGTCTG
1 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATATCTG
20462003 GGACATGACATTGGCATCGATATGATCCC
66 GGACATGACATTGGCATCGATATGATCCC
* * *
20462032 ATGTAAG-ACATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATTTG
1 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATATCTG
* *
20462096 GGATATGGCATTGGCATCGATATG
66 GGACATGACATTGGCATCGATATG
20462120 TGATTTCGTG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 75 0.91
94 7 0.09
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (94 bp):
ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATATCTG
GGACATGACATTGGCATCGATATGATCCC
Found at i:20462121 original size:48 final size:48
Alignment explanation
Indices: 20461938--20462154 Score: 296
Period size: 48 Copynumber: 4.6 Consensus size: 48
20461928 TAGTAATGCA
* * *
20461938 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
*
20461986 ATGTAAGACCATGTCTGGGACATGACATTGGCATCGATA--TGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
20462032 ATGTAAGA-CATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* * * **
20462079 ATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATGTGATTTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* * **
20462127 GTGTAAGGCCATGTCTATGACATGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCAT
20462155 CGATATAAGA
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 29 0.19
46 14 0.09
47 15 0.10
48 91 0.61
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
Found at i:20462170 original size:42 final size:42
Alignment explanation
Indices: 20462107--20462197 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
20462097 GATATGGCAT
** * * *
20462107 TGGCATCGATATGTGATTTCGTGTAAGGCCAT-GTCTATGAC-A
1 TGGCATCGATATAAGACTTCGTCTAAGACCATAGT-TA-GACTA
20462149 TGGCATCGATATAAGACTTCGTCTAAGACCATAGTTAGACTA
1 TGGCATCGATATAAGACTTCGTCTAAGACCATAGTTAGACTA
20462191 TGGCATC
1 TGGCATC
20462198 AAGTAAACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.07
42 37 0.88
43 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATAAGACTTCGTCTAAGACCATAGTTAGACTA
Found at i:20468564 original size:46 final size:45
Alignment explanation
Indices: 20468497--20468671 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
20468487 TGTAACCCGC
* *
20468497 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* * *
20468543 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTAGCAT
* ** * * * *
20468589 ACATATCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
20468636 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
20468672 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:20468636 original size:93 final size:93
Alignment explanation
Indices: 20468505--20468676 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
20468495 GCCCATAAGT
* * *
20468505 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20468570 CGAGCTCAGATGCCTAGTTACATATCTC
66 CGAGCTCAGATGCCTAGTTACATATCTC
* * *
20468598 GAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
20468663 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
20468677 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATATCTC
Found at i:20468691 original size:46 final size:46
Alignment explanation
Indices: 20468548--20468691 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
20468538 CGCATCCATA
* * * * *
20468548 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTA-CAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATCCT
* * *
20468593 ATCTCGAACTCGGACTCAACTCAACGAGTTTGGA----CATTTGCATCCAT
1 A-GT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--ATCC-T
*
20468640 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATCCT
20468687 AGTGA
1 AGTGA
20468692 CATGTCAGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.04
45 2 0.03
46 35 0.45
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATCCT
Found at i:20471194 original size:48 final size:48
Alignment explanation
Indices: 20471138--20471399 Score: 382
Period size: 48 Copynumber: 5.5 Consensus size: 48
20471128 GTATGACATC
* * ** *
20471138 TAAGACCATATCTAGGACATGGCATTGACATCGATATAAGATCCAATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
20471186 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCGATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
*
20471234 TAAGACCATGTCTAGGACATGACATTGGCATCGATATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
20471282 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* * **
20471330 TAAGACCATATCT-GGTATATGGCATTGGCATCGATATGTGATTTCATG
1 TAAGACCATGTCTAGG-ACATGGCATTGGCATCGATATGTGATCCCATG
20471378 TAAGACCATGTCTAGGACATGG
1 TAAGACCATGTCTAGGACATGG
20471400 AATCGATATG
Statistics
Matches: 193, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 2 0.01
48 189 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:20487034 original size:6 final size:6
Alignment explanation
Indices: 20487023--20487057 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
20487013 TCATGGTTTA
20487023 AATATT AATATT AATATT AATATT AATATT AATAT
1 AATATT AATATT AATATT AATATT AATATT AATAT
20487058 ATTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:20488959 original size:94 final size:94
Alignment explanation
Indices: 20488794--20489009 Score: 272
Period size: 94 Copynumber: 2.3 Consensus size: 94
20488784 GATTTGTACA
* ** * * * *
20488794 CCAGTGTAAGACATGTCTGAGACATGTTTTGGCCACATTATGAGAGCCAGTGTAAGACTATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATTAGCCACACTATGAGAGCCAGTGTAAAACCATGTCT
* *
20488859 GGGACATGGCATCAGCATC-CAGACGAGGG
66 GCGACATGGCATCAGCA-CAAAGACGAGGG
* * * *
20488888 CTAGTGTAAGACATGTTTGGGACATGCATTAGCCATACTATGATAGCCAGTGTAAAACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATTAGCCACACTATGAGAGCCAGTGTAAAACCATGTCT
* * *
20488953 GCGACATGGCATCGGCACAAAGATGAGTG
66 GCGACATGGCATCAGCACAAAGACGAGGG
20488982 CCAGTGTAAGACATGTCTGGGACATGCA
1 CCAGTGTAAGACATGTCTGGGACATGCA
20489010 ACAGCCTCGA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
93 1 0.01
94 102 0.99
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCATTAGCCACACTATGAGAGCCAGTGTAAAACCATGTCT
GCGACATGGCATCAGCACAAAGACGAGGG
Found at i:20488997 original size:47 final size:47
Alignment explanation
Indices: 20488794--20489152 Score: 184
Period size: 47 Copynumber: 7.7 Consensus size: 47
20488784 GATTTGTACA
* ** ** ** *
20488794 CCAGTGTAAGACATGTCTGAGACAT-GTTTTGGCCACATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGTG
* * *
20488840 CCAGTGTAAGACTATGTCTGGGACATGGCATCAG-CATCCAGACGAGGG
1 CCAGTGTAAGAC-ATGTCTGGGACATGGCATCAGCCA-CAAGATGAGTG
* * * * **
20488888 CTAGTGTAAGACATGTTTGGGACAT-GCATTAGCCATACTATGA-TAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGT-G
* * *
20488934 CCAGTGTAAAACCATGTCTGCGACATGGCATC-GGCACAAAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCAC-AAGATGAGTG
* *
20488982 CCAGTGTAAGACATGTCTGGGACAT-GCAACAGCCTCGAA-A-GAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCAC-AAGATGAG-T-G
* * * * * * * *
20489029 CTAGTGTAAGACGTGTCTGGGACA-CGCATCGGCTA-AGGGT-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGTG
* * * * * * *
20489073 CTAGTGTAAGACATGTTTAGGACAT-GCATCAGCACGCGTATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGC-CAC-AAGATGAGTG
* *
20489121 CCAGTGTAATACCATGTCTAGGACATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATC
20489153 GGCACTATAT
Statistics
Matches: 233, Mismatches: 58, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
44 29 0.12
45 5 0.02
46 38 0.16
47 91 0.39
48 51 0.22
49 14 0.06
50 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGTG
Found at i:20489046 original size:94 final size:93
Alignment explanation
Indices: 20488838--20489157 Score: 267
Period size: 94 Copynumber: 3.4 Consensus size: 93
20488828 ACATTATGAG
* * * *
20488838 AGCCAGTGTAAGACTATGTCTGGGACATGGCATCAGCATC-CAGACGAGGGCTAGTGTAAGACAT
1 AGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCA-CAAAGATGAGTGCTAGTGTAAGACAT
* * *
20488902 GTTTGGGACATGCATTAGCCATACTATGAT
64 GTTTGGGACATGCATCAGCCATACAAAGAT
* * *
20488932 AGCCAGTGTAAAACCATGTCTGCGACATGGCATCGGCACAAAGATGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACAAAGATGAGTGCTAGTGTAAGACATG
* *
20488997 TCTGGGACATGCAACAGCC-T-CGAAAGAGAT
65 TTTGGGACATGCATCAGCCATAC--AA-AGAT
* * * * * * *
20489027 AGCTAGTGTAAGACGTGTCTGGGACA-CGCATCGGC-TAAGGGT-TGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACAAAGATGAGTGCTAGTGTAAGACATGT
* * * * *
20489089 TTAGGACATGCATCAGCACGCGTA-TATGAG
66 TTGGGACATGCATCAG--C-CATACAAAGAT
* *
20489119 AGCCAGTGTAATACCATGTCTAGGACATGGCATCGGCAC
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC
20489158 TATATCCCAT
Statistics
Matches: 179, Mismatches: 34, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
91 31 0.17
92 18 0.10
93 23 0.13
94 91 0.51
95 16 0.09
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACAAAGATGAGTGCTAGTGTAAGACATGT
TTGGGACATGCATCAGCCATACAAAGAT
Found at i:20496195 original size:48 final size:48
Alignment explanation
Indices: 20495969--20496210 Score: 297
Period size: 48 Copynumber: 5.0 Consensus size: 48
20495959 TGAGTATTGT
* * * *
20495969 GATCCCGTATAAGACCATATATAGGATATGGCATCAGCATCGAGATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* *
20496017 GATCCCGTACAAGACCATATCTGGGATATGGCATCGGCATCGATAAGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* ** *
20496065 GATCACGTATAAGACCACGTCTGGGACATGGCATCGGCATC-AGTATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGA-TATGA
* * *
20496113 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* * * * * *
20496161 GGTCCCGTATAAGACCATATTTGGGACATGGCATTGACATCGTTATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
20496209 GA
1 GA
20496211 CTTCGTGTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 163 0.99
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (48 bp):
GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
Found at i:20496233 original size:48 final size:48
Alignment explanation
Indices: 20495969--20496292 Score: 224
Period size: 48 Copynumber: 6.9 Consensus size: 48
20495959 TGAGTATTGT
* * * * * ** *
20495969 GATCCCGTATAAGACCATA-TATAGGATATGGCATCAGCATCGAGATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
** * * * *
20496017 GATCCCGTACAAGACCATA-TCTGGGATATGGCATCGGCATCGATAAGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* * *
20496065 GATCACGTATAAGACCAC-GTCTGGGACATGGCATCGGCATCAGTATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATC-GTATGA
* * *
20496113 GATCCCATGTAAGACCATA-TCTGGGATATGGCATTGGCATCGATATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* * * * *
20496161 GGTCCCGTATAAGACCATA-TTTGGGACATGGCATTGACATCGTTATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* * *
20496209 GA-CTTCGTGTAAGACCACAGT-TGGG-C-T---ATTGGCATCGATGTGT
1 GATC-CCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* *
20496252 GATCCCATGTAAGACCAC-GTCTGGGACATGGCTTTGGCATC
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATC
20496293 CTATTCTGTG
Statistics
Matches: 228, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.01
43 30 0.13
44 2 0.01
45 1 0.00
46 1 0.00
47 3 0.01
48 187 0.82
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (48 bp):
GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCGTATGA
Found at i:20500176 original size:43 final size:43
Alignment explanation
Indices: 20500056--20500202 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
20500046 GCTATTAAAT
* * * * ** * *
20500056 ATGGCACTGAGTGTACGAGAATATAATAGCCATGGCTGAATAA
1 ATGGCACTAAGTGTGCGATAATATTATAGCTTTGGATAAATAA
* * *
20500099 ATGGCACTATGTGTGCGAT-ATCGA-TATAAG-TTTGGTTTAATGAA
1 ATGGCACTAAGTGTGCGATAAT--ATTAT-AGCTTTGGATAAAT-AA
20500143 ATGGCACT-AGTGTGCGATAATATTATAGCTTTGGATAAATAA
1 ATGGCACTAAGTGTGCGATAATATTATAGCTTTGGATAAATAA
*
20500185 TTGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
20500203 GTTTAAAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
42 14 0.17
43 54 0.65
44 15 0.18
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (43 bp):
ATGGCACTAAGTGTGCGATAATATTATAGCTTTGGATAAATAA
Found at i:20505398 original size:48 final size:48
Alignment explanation
Indices: 20505346--20505577 Score: 257
Period size: 48 Copynumber: 4.8 Consensus size: 48
20505336 ATGAGTATCA
*
20505346 AGATCCCGTATAAGACCATATCTGGGATATGGCATTAGCATCAATATG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * * * * * *
20505394 AGATCCCGTGTAAGACCATATATAGGATATGACATCGGTATCAATAAG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * * * * * *
20505442 AGATCCCATATAAGACCACATTTGGGACATGGCATCGACATCAGTATG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * *
20505490 AGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * * * *
20505538 AGGTCCCGTATAAGACCATGTTTGGGACATGGCATCGGCA
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCA
20505578 CCGTTATGAA
Statistics
Matches: 150, Mismatches: 34, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (48 bp):
AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
Found at i:20505490 original size:96 final size:97
Alignment explanation
Indices: 20505346--20505574 Score: 300
Period size: 96 Copynumber: 2.4 Consensus size: 97
20505336 ATGAGTATCA
* * * *
20505346 AGATCCCGTATAAGACCATATCTGGGATATGGCAT-TAGCATCAATATGAGATCCCGTGTAAGAC
1 AGATCCCGTATAAGACCATATTTGGGACATGGCATCGAGCATCAATATGAGATCCCATGTAAGAC
*
20505410 CATATATAGGATATGACATCGGTATCAATAAG
66 CATATATAGGATATGACATCGGCATCAATAAG
* * *
20505442 AGATCCCATATAAGACCACATTTGGGACATGGCATCGA-CATCAGTATGAGATCCCATGTAAGAC
1 AGATCCCGTATAAGACCATATTTGGGACATGGCATCGAGCATCAATATGAGATCCCATGTAAGAC
* * * * * *
20505506 CATATCTGGGATATGGCATTGGCATCGATATG
66 CATATATAGGATATGACATCGGCATCAATAAG
* *
20505538 AGGTCCCGTATAAGACCATGTTTGGGACATGGCATCG
1 AGATCCCGTATAAGACCATATTTGGGACATGGCATCG
20505575 GCACCGTTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
96 113 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (97 bp):
AGATCCCGTATAAGACCATATTTGGGACATGGCATCGAGCATCAATATGAGATCCCATGTAAGAC
CATATATAGGATATGACATCGGCATCAATAAG
Found at i:20505670 original size:48 final size:48
Alignment explanation
Indices: 20505346--20505670 Score: 209
Period size: 48 Copynumber: 6.9 Consensus size: 48
20505336 ATGAGTATCA
* * * * * * *
20505346 AGATCCCGTATAAGACCATATCTGGGATATGGCATTAGCATCAATATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* * * * * * * * * *
20505394 AGATCCCGTGTAAGACCATATATAGGATATGACATCGGTATCAATAAG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* ** * *
20505442 AGATCCCATATAAGACCACATTTGGGACATGGCATCGACATC-AGTATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGA-TATG
* * *
20505490 AGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* * * * * *
20505538 AGGTCCCGTATAAGACCATGTTTGGGACATGGCATCGGCACCGTTATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* * * * *
20505586 A-AACTTCGTGTAAGA-C-TG--T-AG-C-TGCGCTATTGGCATCGATGTG
1 AGATC-CCATGTAAGACCATGTTTGGGACATG-GC-ATTGGCATCGATATG
* *
20505629 TGATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATC
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATC
20505671 CTATTATGTG
Statistics
Matches: 216, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 20 0.09
44 4 0.02
45 2 0.01
46 2 0.01
47 4 0.02
48 173 0.80
49 4 0.02
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (48 bp):
AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
Found at i:20509044 original size:22 final size:22
Alignment explanation
Indices: 20509016--20509091 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
20509006 ACATGTATAT
20509016 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
20509038 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
20509060 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
20509085 ATGTGAT
1 ATGTGAT
20509092 GAACGTGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:20509128 original size:47 final size:47
Alignment explanation
Indices: 20508850--20509114 Score: 343
Period size: 47 Copynumber: 5.6 Consensus size: 47
20508840 TTAGGATTTT
* ** * * *
20508850 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
20508897 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * * *
20508944 ATGTGATGAGTGTAAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
20508991 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
20509038 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
20509085 ATGTGATGAACGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGTATATATGTG
20509115 GGGAAGCCGA
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
46 1 0.01
47 193 0.99
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:20509168 original size:46 final size:46
Alignment explanation
Indices: 20509108--20509198 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
20509098 GAAAGTGTAT
* * * *
20509108 ATATGTGGGGAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
20509154 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
20509199 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:20532962 original size:42 final size:42
Alignment explanation
Indices: 20532916--20532995 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
20532906 ACAACATAGC
*
20532916 ATCATATACGATGCTGATGTCCCAGACAAGGTCTTACATGAA
1 ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACATGAA
* * *
20532958 ATCATATATGATGCCGATGTGCCAGACATGGTCTTACA
1 ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACA
20532996 CGTAAATCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACATGAA
Found at i:20533582 original size:28 final size:28
Alignment explanation
Indices: 20533529--20533582 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
20533519 ATAACTTTCA
**
20533529 CTTATTTCACATTTTAACCCTCTAATTT
1 CTTATTTCACAAATTAACCCTCTAATTT
*
20533557 CTTATTTTCACAAATTAGCCCT-TAAT
1 CTTA-TTTCACAAATTAACCCTCTAAT
20533583 AATCAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (28 bp):
CTTATTTCACAAATTAACCCTCTAATTT
Found at i:20536852 original size:80 final size:80
Alignment explanation
Indices: 20536734--20536919 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
20536724 AGTAACTCAT
* * * *
20536734 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAGCTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
20536798 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
20536813 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
20536877 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
20536894 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
20536920 CAGGATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:20536879 original size:40 final size:40
Alignment explanation
Indices: 20536736--20536919 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
20536726 TAACTCATAC
* * *
20536736 AATGCCTTCGGGACTTAACCCGGATTTTAA-AGCTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20536776 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20536816 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
20536856 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20536897 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20536920 CAGGATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20555433 original size:27 final size:27
Alignment explanation
Indices: 20554563--20555578 Score: 266
Period size: 27 Copynumber: 37.7 Consensus size: 27
20554553 TTAGTTTACC
* * *
20554563 AAATTACCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554590 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554617 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554644 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554671 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554698 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554725 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554752 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554779 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554806 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554833 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554860 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554887 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554914 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554941 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554968 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20554995 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555022 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555049 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555076 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555103 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555130 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555157 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555184 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555211 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555238 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555265 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555292 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555319 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
20555346 AAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* *
20555373 AAATTACCAAAATA-CCCTCGATTAGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
20555400 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
20555427 AACTTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
20555454 AAATTACCGAAATACCCCT-GATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * *
20555481 AAATTACCGAAATACCTCCGA-TTTGCA
1 AAATTACCAAAATACC-CCTAGTTTGTA
*** *
20555508 AAATTATTGAAATACCCCGA-TTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
20555534 AAATTACTAAAATA-CCTTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
20555561 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
20555579 CGATTTACAA
Statistics
Matches: 960, Mismatches: 22, Indels: 13
0.96 0.02 0.01
Matches are distributed among these distances:
25 2 0.00
26 22 0.02
27 927 0.97
28 9 0.01
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:20555455 original size:54 final size:55
Alignment explanation
Indices: 20554563--20555578 Score: 661
Period size: 54 Copynumber: 18.8 Consensus size: 55
20554553 TTAGTTTACC
* * * * * * *
20554563 AAATTACCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554617 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554671 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554725 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554779 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554833 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554887 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554941 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20554995 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20555049 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20555103 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20555157 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20555211 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20555265 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * * * * *
20555319 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* *
20555373 AAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAG-TTTGTA
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* *
20555427 AACTTACCAAAATACCCCTAG-TTTGTAAAATTACCGAAATACCCCT-GATTTGTA
1 AAATTACCAAAATA-CCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * ***
20555481 AAATTACCGAAATA-CCTCCGATTTGCAAAATTATTGAAATACCCC--GATTTGTA
1 AAATTACCAAAATACCCT-AGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
* * * * *
20555534 AAATTACTAAAATACCTTCGACTTGTAAAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCC
20555579 CGATTTACAA
Statistics
Matches: 930, Mismatches: 26, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
52 3 0.00
53 43 0.05
54 874 0.94
55 10 0.01
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (55 bp):
AAATTACCAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCTAGATTTGTA
Found at i:20555482 original size:81 final size:79
Alignment explanation
Indices: 20554563--20555593 Score: 984
Period size: 81 Copynumber: 12.7 Consensus size: 79
20554553 TTAGTTTACC
* * * * *
20554563 AAATTACCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20554628 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20554644 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20554709 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20554725 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20554790 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20554806 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20554871 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20554887 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20554952 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20554968 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20555033 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20555049 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20555114 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20555130 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20555195 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20555211 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20555276 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * * * *
20555292 AAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAAATACCCTCGATTAGCAAAATTTCCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCC-CGATTTGCAAAATTACCAAA
* *
20555357 ATACCCTCGATTAGCA
65 ATACCC-CGATTTGTA
* * * *
20555373 AAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAGTTTGTAAACTTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCGA-TTTGCAAAATTACCAAA
*
20555438 ATACCCCTAGTTTGTA
65 ATACCCCGA-TTTGTA
* * ***
20555454 AAATTACCGAAATACCC-CTGATTTGTAAAATTACCGAAATACCTCCGATTTGCAAAATTATTGA
1 AAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACC-CCGATTTGCAAAATTACCAA
20555518 AATACCCCGATTTGTA
64 AATACCCCGATTTGTA
* * * * *
20555534 AAATTACTAAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACAAAATTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATA-CCCCGATTTGCAAAATTA
20555594 TCGAAACACC
Statistics
Matches: 915, Mismatches: 29, Indels: 13
0.96 0.03 0.01
Matches are distributed among these distances:
80 59 0.06
81 853 0.93
82 3 0.00
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (79 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCGATTTGCAAAATTACCAAAA
TACCCCGATTTGTA
Found at i:20555593 original size:27 final size:27
Alignment explanation
Indices: 20554563--20555416 Score: 1672
Period size: 27 Copynumber: 31.6 Consensus size: 27
20554553 TTAGTTTACC
*
20554563 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554590 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554617 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554644 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554671 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554698 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554725 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554752 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554779 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554806 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554833 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554860 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554887 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554914 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554941 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554968 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20554995 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555022 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555049 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555076 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555103 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555130 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555157 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555184 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555211 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555238 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555265 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555292 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555319 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20555346 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
* *
20555373 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTTCCAAAATACCCTCGATTAGCA
*
20555400 AAATTACCAAAATACCC
1 AAATTTCCAAAATACCC
20555417 CTAGTTTGTA
Statistics
Matches: 824, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 824 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (27 bp):
AAATTTCCAAAATACCCTCGATTAGCA
Found at i:20555636 original size:27 final size:27
Alignment explanation
Indices: 20555587--20555808 Score: 223
Period size: 27 Copynumber: 8.3 Consensus size: 27
20555577 CCCGATTTAC
*
20555587 AAAATTATCGAAACACCCCTATAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
*
20555614 AAAATTATCGAAATACCCTTATAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
* *
20555641 AGAATTATCAAAATACCCCTATAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
* ** *
20555668 AGAATTATTTAAATACCCC-GTAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
* * * *
20555694 AGAATTACCGAAATACCCCTGTAGGAT
1 AAAATTATCGAAATACCCCTATAGGGT
* * *
20555721 AGAATTATCGAAATACCCTTGTAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
*
20555748 AGAAA-TACCGAAATACCCCTATAGGGT
1 A-AAATTATCGAAATACCCCTATAGGGT
** * * * *
20555775 AAAATTCCCGAGATACCCTTGTGGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
20555802 AAAATTA
1 AAAATTA
20555809 CCATTTTGCC
Statistics
Matches: 167, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.15
27 140 0.84
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCTATAGGGT
Found at i:20555647 original size:54 final size:54
Alignment explanation
Indices: 20555589--20555810 Score: 275
Period size: 54 Copynumber: 4.1 Consensus size: 54
20555579 CGATTTACAA
* * *
20555589 AATTATCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
* * * ** *
20555643 AATTATCAAAATACCCCTATAGGGTAGAATTATTTAAATACCC-CGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
* * *
20555696 AATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
* ** * * *
20555750 AAATACCGAAATACCCCTATAGGGTAAAATTCCCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
20555804 AATTACC
1 AATTACC
20555811 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 45 0.31
54 98 0.69
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
Found at i:20555687 original size:107 final size:107
Alignment explanation
Indices: 20555587--20555780 Score: 289
Period size: 107 Copynumber: 1.8 Consensus size: 107
20555577 CCCGATTTAC
* * * *
20555587 AAAATTATCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAGAATTATCAA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
*
20555652 AATACCCCTATAGGGTAGAATTATTTAAATACCCCGTAGGGT
66 AATACCCCTATAGGGTAAAATTATTTAAATACCCCGTAGGGT
* * * * * *
20555694 AGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
20555759 AATACCCCTATAGGGTAAAATT
66 AATACCCCTATAGGGTAAAATT
20555781 CCCGAGATAC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 76 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (107 bp):
AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
AATACCCCTATAGGGTAAAATTATTTAAATACCCCGTAGGGT
Found at i:20555711 original size:80 final size:81
Alignment explanation
Indices: 20555595--20555808 Score: 259
Period size: 80 Copynumber: 2.7 Consensus size: 81
20555585 ACAAAATTAT
* * *
20555595 CGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAGAATTATCAAAATACCCC
1 CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCC
* *
20555660 TATAGGGTAGAATTAT
66 TATAGGGTAGAAATAC
** * * * * * *
20555676 TTAAATACCCC-GTAGGGTAGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCT
1 CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCC
*
20555740 TGTAGGGTAGAAATAC
66 TATAGGGTAGAAATAC
* * * *
20555756 CGAAATACCCCTATAGGGTAAAATTCCCGAGATACCCTTGTGGGGTAAAATTA
1 CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTA
20555809 CCATTTTGCC
Statistics
Matches: 108, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
80 67 0.62
81 41 0.38
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
CGAAATACCCCTATAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTATCAAAATACCCC
TATAGGGTAGAAATAC
Found at i:20555791 original size:107 final size:108
Alignment explanation
Indices: 20555587--20555810 Score: 279
Period size: 107 Copynumber: 2.1 Consensus size: 108
20555577 CCCGATTTAC
* * * *
20555587 AAAATTATCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAGAATTATCAA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
* ***
20555652 AATACCCCTATAGGGTAGAATTATTTAAATACCC-CGTAGGGT
66 AATACCCCTATAGGGTAAAATTACCGAAATACCCTCGTAGGGT
* * * * * *
20555694 AGAATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
* * * *
20555759 AATACCCCTATAGGGTAAAATTCCCGAGATACCCTTGTGGGGT
66 AATACCCCTATAGGGTAAAATTACCGAAATACCCTCGTAGGGT
20555802 AAAATTACC
1 AAAATTACC
20555811 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
107 83 0.86
108 14 0.14
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (108 bp):
AAAATTACCGAAACACCCCTATAGGATAAAATTATCGAAATACCCTTATAGGGTAGAAATACCAA
AATACCCCTATAGGGTAAAATTACCGAAATACCCTCGTAGGGT
Found at i:20562558 original size:27 final size:27
Alignment explanation
Indices: 20561598--20562547 Score: 1690
Period size: 27 Copynumber: 35.2 Consensus size: 27
20561588 TTAGTTTACC
*
20561598 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561625 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561652 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561679 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561706 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561733 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561760 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561787 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561814 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561841 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561868 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561895 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561922 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561949 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20561976 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562003 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562030 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562057 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562084 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562111 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562138 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562165 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562192 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562219 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562246 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562273 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562300 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562327 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562354 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
20562381 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTTCCAAAATACCCTCGATTAGCA
* *
20562408 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTTCCAAAATACCCTCGATTAGCA
* * * *
20562435 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTTCCAAAATACCCTCGA-TTAGCA
* * * *
20562462 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTTCCAAAATACCCTC-GATTAGCA
* * * *
20562489 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTTCCAAAATACCCTCGATTAGCA
* * *
20562516 AAATTACCGAAATA-CCTCCGATTTGCA
1 AAATTTCCAAAATACCCT-CGATTAGCA
20562543 AAATT
1 AAATT
20562548 ACTGAAATAC
Statistics
Matches: 909, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
26 5 0.01
27 903 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (27 bp):
AAATTTCCAAAATACCCTCGATTAGCA
Found at i:20562602 original size:27 final size:27
Alignment explanation
Indices: 20562407--20562631 Score: 183
Period size: 27 Copynumber: 8.4 Consensus size: 27
20562397 CTCGATTAGC
* * *
20562407 AAAATTACCAAAATACC-CTCGATTAGT
1 AAAATTACCGAAATACCTC-CAATTTGT
* *
20562434 AAAATTACCAAAATACC-CCTAGTTTGT
1 AAAATTACCGAAATACCTCC-AATTTGT
* **
20562461 AAAATTACCAAAATACC-CCTGGTTTGT
1 AAAATTACCGAAATACCTCC-AATTTGT
*
20562488 AAAATTACCGAAATACC-CTCGATTTGT
1 AAAATTACCGAAATACCTC-CAATTTGT
* *
20562515 AAAATTACCGAAATACCTCCGATTTGC
1 AAAATTACCGAAATACCTCCAATTTGT
*
20562542 AAAATTACTGAAATACC-CCAATTTGT
1 AAAATTACCGAAATACCTCCAATTTGT
** * *
20562568 AAAATTACTAAAATACCTTCAACTTGT
1 AAAATTACCGAAATACCTCCAATTTGT
* * **
20562595 AAAATTACC-AAAGTACCCCCGATTTAC
1 AAAATTACCGAAA-TACCTCCAATTTGT
20562622 AAAATTACCG
1 AAAATTACCG
20562632 TTTTACCCTC
Statistics
Matches: 172, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
26 27 0.16
27 143 0.83
28 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATTACCGAAATACCTCCAATTTGT
Found at i:20563080 original size:33 final size:32
Alignment explanation
Indices: 20563031--20563094 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
20563021 CTCGTTGCAA
* *
20563031 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
20563064 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
20563095 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:20581058 original size:29 final size:29
Alignment explanation
Indices: 20581025--20581098 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
20581015 GTTGTGAGAT
* *
20581025 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
20581054 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
20581083 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20581099 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:20583312 original size:40 final size:39
Alignment explanation
Indices: 20583144--20583308 Score: 206
Period size: 40 Copynumber: 4.1 Consensus size: 39
20583134 CGGGCTTTAA
* **
20583144 CCGGATATAGCCACTCGTTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
20583184 CCAGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
* *
20583224 CCGGATATAGTGACTCGCACAAATGCCTTTGGCACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
20583264 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
20583304 CCGGA
1 CCGGA
20583309 ATTATCATCC
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.02
40 106 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20585826 original size:10 final size:10
Alignment explanation
Indices: 20585811--20585872 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
20585801 TTTGAACCAT
*
20585811 TACCAATTCG
1 TACCAATTCA
*
20585821 TACCAAATACCA
1 TACC-AAT-TCA
*
20585833 TACCATTTCA
1 TACCAATTCA
20585843 TACCAATTCCA
1 TACCAATT-CA
* *
20585854 TACCATTTCG
1 TACCAATTCA
20585864 TACCAATTC
1 TACCAATTC
20585873 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:20585856 original size:21 final size:21
Alignment explanation
Indices: 20585811--20585873 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
20585801 TTTGAACCAT
* *
20585811 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
20585833 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
20585854 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
20585874 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:20589116 original size:79 final size:79
Alignment explanation
Indices: 20588985--20589145 Score: 313
Period size: 79 Copynumber: 2.0 Consensus size: 79
20588975 TCATGTGAAC
20588985 ACACATAAATTCAGCACAATGTGAACACATTTAAGTTATGTGATATCTATGACATATTAATAACA
1 ACACATAAATTCAGCACAATGTGAACACATTTAAGTTATGTGATATCTATGACATATTAATAACA
20589050 AATATTAATATAAG
66 AATATTAATATAAG
*
20589064 ACACATAAATTCAGCATAATGTGAACACATTTAAGTTATGTGATATCTATGACATATTAATAACA
1 ACACATAAATTCAGCACAATGTGAACACATTTAAGTTATGTGATATCTATGACATATTAATAACA
20589129 AATATTAATATAAG
66 AATATTAATATAAG
20589143 ACA
1 ACA
20589146 AGTTTAATGC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (79 bp):
ACACATAAATTCAGCACAATGTGAACACATTTAAGTTATGTGATATCTATGACATATTAATAACA
AATATTAATATAAG
Found at i:20589302 original size:30 final size:30
Alignment explanation
Indices: 20589216--20589313 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
20589206 TTAAACTAAA
* *
20589216 ATGAGCTAAGCTTTAGCTCATGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCATGAGCTGAAG
* * * * * *
20589246 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCATGAGCTGAAG
* * * *
20589276 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCATGAGCTGAAG
20589306 ATGAGCTA
1 ATGAGCTA
20589314 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCATGAGCTGAAG
Found at i:20594946 original size:16 final size:16
Alignment explanation
Indices: 20594927--20594957 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20594917 ATAAATAATA
20594927 ATAAAATAATTATTTT
1 ATAAAATAATTATTTT
20594943 ATAAAATAATTATTT
1 ATAAAATAATTATTT
20594958 CTATCTCAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAAAATAATTATTTT
Found at i:20598492 original size:10 final size:11
Alignment explanation
Indices: 20598476--20598524 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
20598466 TATACAAGTT
20598476 AAAAAAAATTC-
1 AAAAAAAA-TCG
20598487 AAAAAAAATCG
1 AAAAAAAATCG
20598498 AAAAAAAAT--
1 AAAAAAAATCG
20598507 -AAAAAAATCG
1 AAAAAAAATCG
20598517 AAAAAAAA
1 AAAAAAAA
20598525 GTGATTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:20598501 original size:19 final size:19
Alignment explanation
Indices: 20598488--20598524 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20598478 AAAAAATTCA
20598488 AAAAAAATCGAAAAAAAAT
1 AAAAAAATCGAAAAAAAAT
20598507 AAAAAAATCGAAAAAAAA
1 AAAAAAATCGAAAAAAAA
20598525 GTGATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAAAATCGAAAAAAAAT
Found at i:20600706 original size:17 final size:17
Alignment explanation
Indices: 20600664--20600706 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
20600654 AGCACTTAAG
*
20600664 CCATTCATGCATTTTAT
1 CCATTCATGCATTTGAT
*
20600681 -CATCCCATGCATTTGAT
1 CCAT-TCATGCATTTGAT
20600698 CCATTCATG
1 CCATTCATG
20600707 GACCAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 3 0.14
17 15 0.71
18 3 0.14
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (17 bp):
CCATTCATGCATTTGAT
Found at i:20601137 original size:30 final size:30
Alignment explanation
Indices: 20601103--20601185 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 30
20601093 TAAACTAAAA
20601103 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
* * * * * *
20601133 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATGAGCTAAAGT
* *
20601163 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGCTTTAGCTCATGAG
20601186 TTGAAAGTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 34 0.87
31 3 0.08
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
Found at i:20603416 original size:12 final size:12
Alignment explanation
Indices: 20603401--20603431 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20603391 TTCTTTTTGC
*
20603401 TTTTCAACGGCT
1 TTTTCAAAGGCT
20603413 TTTTCAAAGGCT
1 TTTTCAAAGGCT
20603425 TTTTCAA
1 TTTTCAA
20603432 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:20603489 original size:5 final size:5
Alignment explanation
Indices: 20603479--20603535 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
20603469 CTCTTTCCTC
*
20603479 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
20603526 TCTTT TCTTT
1 TCTTT TCTTT
20603536 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:20603499 original size:15 final size:14
Alignment explanation
Indices: 20603479--20603542 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
20603469 CTCTTTCCTC
20603479 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
20603494 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
20603509 TCTTTTGCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
*
20603526 TCTTTTCTTTATTT
1 TCTTTTCTTTTTTT
20603540 TCT
1 TCT
20603543 CTTTACAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.24
15 9 0.21
16 15 0.36
17 8 0.19
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:20603511 original size:25 final size:25
Alignment explanation
Indices: 20603483--20603531 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
20603473 TTCCTCTCTT
20603483 TTCTTTT-TATTTCTTTTTCTTTTTC
1 TTCTTTTCTATTTC-TTTTCTTTTTC
*
20603508 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTATTTCTTTTCTTTT
20603532 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTATTTCTTTTCTTTTTC
Found at i:20603545 original size:21 final size:20
Alignment explanation
Indices: 20603477--20603546 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
20603467 GCCTCTTTCC
20603477 TCTCTTTTCTTTT-TATTTCTT
1 TCTCTTTTCTTTTCT-TTT-TT
* *
20603498 TTTCTTTT-TCTTCTTTTGCTT
1 TCTCTTTTCTTTTCTTTT--TT
*
20603519 TTTCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTTCTTT-TTT
20603540 TCTCTTT
1 TCTCTTT
20603547 ACAAGAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.15
21 27 0.66
22 7 0.17
23 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (20 bp):
TCTCTTTTCTTTTCTTTTTT
Found at i:20604482 original size:11 final size:12
Alignment explanation
Indices: 20604455--20604510 Score: 78
Period size: 12 Copynumber: 4.7 Consensus size: 12
20604445 CATTAAACAC
20604455 TTTTTTTTC-AGA
1 TTTTTTTTCGA-A
20604467 TTTTTTTTCGAA
1 TTTTTTTTCGAA
**
20604479 TTTTTTTTTAAA
1 TTTTTTTTCGAA
20604491 TTTTTTTTCGAA
1 TTTTTTTTCGAA
20604503 TTTTTTTT
1 TTTTTTTT
20604511 GACTTGTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
12 38 0.97
13 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:20604493 original size:24 final size:24
Alignment explanation
Indices: 20604455--20604510 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
20604445 CATTAAACAC
*
20604455 TTTTTTTTCAGATTTTTTTTCGAA
1 TTTTTTTTCAAATTTTTTTTCGAA
*
20604479 TTTTTTTTTAAATTTTTTTTCGAA
1 TTTTTTTTCAAATTTTTTTTCGAA
20604503 TTTTTTTT
1 TTTTTTTT
20604511 GACTTGTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (24 bp):
TTTTTTTTCAAATTTTTTTTCGAA
Found at i:20609007 original size:19 final size:19
Alignment explanation
Indices: 20608983--20609022 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20608973 AGCTCCCATG
20608983 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
* *
20609002 TAGCTCGAGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
20609021 TA
1 TA
20609023 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:20615382 original size:19 final size:19
Alignment explanation
Indices: 20615358--20615397 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20615348 AGCTCCCATG
20615358 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
20615377 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
20615396 TA
1 TA
20615398 TCAGTGATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:20615644 original size:295 final size:295
Alignment explanation
Indices: 20615107--20615696 Score: 1144
Period size: 295 Copynumber: 2.0 Consensus size: 295
20615097 AGGGGGAGGA
* *
20615107 TGATACAATCACGGCTTCCCATAACTCAAGTCTAAGCCGAGATCTGATGGTGCTACCTCAAGGGT
1 TGATACAATCACGGCTTCCCATAACTCAAGTCCAAGCCGAGATCCGATGGTGCTACCTCAAGGGT
20615172 CGATCACAAGGGCTCGTGCAAAACAATTTAAAGAAGCCGTTATAGCTTTAGTTCAGCATGTGTGG
66 CGATCACAAGGGCTCGTGCAAAACAATTTAAAGAAGCCGTTATAGCTTTAGTTCAGCATGTGTGG
20615237 GATGATGTCAATGCTAGACCTATCGAACCAGTTAGTGGCCATTTTGGAAATCCATGCCGAACTTT
131 GATGATGTCAATGCTAGACCTATCGAACCAGTTAGTGGCCATTTTGGAAATCCATGCCGAACTTT
20615302 TCTACATGTTCAGTTCAACTCACCGAGCTCACATTCAGTTCAAGTTAGCTCCCATGTAGCTCCAC
196 TCTACATGTTCAGTTCAACTCACCGAGCTCACATTCAGTTCAAGTTAGCTCCCATGTAGCTCCAC
20615367 ACCAGCTCATTAGCTCGGGACCAGCTCATTATCAG
261 ACCAGCTCATTAGCTCGGGACCAGCTCATTATCAG
* *
20615402 TGATACCATCACGGCTTCCCATAAGTCAAGTCCAAGCCGAGATCCGATGGTGCTACCTCAAGGGT
1 TGATACAATCACGGCTTCCCATAACTCAAGTCCAAGCCGAGATCCGATGGTGCTACCTCAAGGGT
20615467 CGATCACAAGGGCTCGTGCAAAACAATTTAAAGAAGCCGTTATAGCTTTAGTTCAGCATGTGTGG
66 CGATCACAAGGGCTCGTGCAAAACAATTTAAAGAAGCCGTTATAGCTTTAGTTCAGCATGTGTGG
20615532 GATGATGTCAATGCTAGACCTATCGAACCAGTTAGTGGCCATTTTGGAAATCCATGCCGAACTTT
131 GATGATGTCAATGCTAGACCTATCGAACCAGTTAGTGGCCATTTTGGAAATCCATGCCGAACTTT
20615597 TCTACATGTTCAGTTCAACTCACCGAGCTCACATTCAGTTCAAGTTAGCTCCCATGTAGCTCCAC
196 TCTACATGTTCAGTTCAACTCACCGAGCTCACATTCAGTTCAAGTTAGCTCCCATGTAGCTCCAC
20615662 ACCAGCTCATTAGCTCGGGACCAGCTCATTATCAG
261 ACCAGCTCATTAGCTCGGGACCAGCTCATTATCAG
20615697 CTCACGAGTT
Statistics
Matches: 291, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
295 291 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (295 bp):
TGATACAATCACGGCTTCCCATAACTCAAGTCCAAGCCGAGATCCGATGGTGCTACCTCAAGGGT
CGATCACAAGGGCTCGTGCAAAACAATTTAAAGAAGCCGTTATAGCTTTAGTTCAGCATGTGTGG
GATGATGTCAATGCTAGACCTATCGAACCAGTTAGTGGCCATTTTGGAAATCCATGCCGAACTTT
TCTACATGTTCAGTTCAACTCACCGAGCTCACATTCAGTTCAAGTTAGCTCCCATGTAGCTCCAC
ACCAGCTCATTAGCTCGGGACCAGCTCATTATCAG
Found at i:20615677 original size:19 final size:19
Alignment explanation
Indices: 20615653--20615692 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20615643 AGCTCCCATG
20615653 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
20615672 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
20615691 TA
1 TA
20615693 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:20617575 original size:40 final size:40
Alignment explanation
Indices: 20617489--20617706 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
20617479 AAGCCAAGTA
* * *
20617489 CCTTCGGGA-TTTGACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
20617527 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20617567 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
20617607 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
20617647 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
20617688 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
20617707 TTATCATCCA
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 10 0.06
39 18 0.11
40 105 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:20626025 original size:79 final size:81
Alignment explanation
Indices: 20625916--20626098 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
20625906 TACTCGTTCA
* *
20625916 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
20625979 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
20625996 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
20626059 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
20626075 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20626099 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:20626098 original size:40 final size:40
Alignment explanation
Indices: 20625895--20626098 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20625885 CGGAATTTAA
** *
20625895 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20625935 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20625975 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20626014 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20626054 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20626094 CCGGA
1 CCGGA
20626099 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20632017 original size:43 final size:43
Alignment explanation
Indices: 20631955--20632046 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
20631945 GGCGTTTTCT
* * *
20631955 CACAAACGCCACTATAGAACATCACCTTTAGT-AGCGCTTTTAC
1 CACAAACACCACTAAAGAACATCACCATTAGTGA-CGCTTTTAC
* *
20631998 CACAAACACCACTAAAGAACATGATCATTAGTGACGCTTTTAC
1 CACAAACACCACTAAAGAACATCACCATTAGTGACGCTTTTAC
*
20632041 TACAAA
1 CACAAA
20632047 TGTCGCCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (43 bp):
CACAAACACCACTAAAGAACATCACCATTAGTGACGCTTTTAC
Found at i:20632698 original size:9 final size:9
Alignment explanation
Indices: 20632684--20632712 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
20632674 TAAAATCCTA
20632684 AATTAAAAT
1 AATTAAAAT
20632693 AATTAAAAT
1 AATTAAAAT
20632702 AATTAAAAT
1 AATTAAAAT
20632711 AA
1 AA
20632713 ATTCAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATTAAAAT
Found at i:20635238 original size:48 final size:47
Alignment explanation
Indices: 20635149--20635245 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 47
20635139 CAGAATATGG
* *
20635149 CCTATTCTAATTATTTTTTCAAATTTTCGGCTCCCTCTCCCTCTTTC
1 CCTATTCTAATTATTTTTTCAAATTTTCAGCTCCCTATCCCTCTTTC
* * *
20635196 CCTATTCTGATTATTTTTTTCAAATTTTTAGCTCTCTATCCCTCTTTC
1 CCTATTCTAATTA-TTTTTTCAAATTTTCAGCTCCCTATCCCTCTTTC
20635244 CC
1 CC
20635246 CGAAAACTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 12 0.27
48 32 0.73
ACGTcount: A:0.15, C:0.30, G:0.04, T:0.51
Consensus pattern (47 bp):
CCTATTCTAATTATTTTTTCAAATTTTCAGCTCCCTATCCCTCTTTC
Found at i:20637071 original size:40 final size:40
Alignment explanation
Indices: 20637001--20637219 Score: 316
Period size: 40 Copynumber: 5.4 Consensus size: 40
20636991 AAACCAAGTA
* * *
20637001 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
20637040 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20637080 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
20637120 CCTTTGAGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
20637160 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
*
20637203 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
20637220 AGTTATCATC
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 113 0.69
42 2 0.01
43 34 0.21
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:20645029 original size:11 final size:11
Alignment explanation
Indices: 20645013--20645040 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
20645003 GAGTTGGATC
20645013 GTATTCATGAT
1 GTATTCATGAT
20645024 GTATTCATGAT
1 GTATTCATGAT
20645035 GTATTC
1 GTATTC
20645041 CACATCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (11 bp):
GTATTCATGAT
Found at i:20645809 original size:49 final size:49
Alignment explanation
Indices: 20645755--20645853 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 49
20645745 AAATTTTCGA
*
20645755 CTCCCTCTCCCTCTTTCCCC-AAAATTCTGCTGG-AAACTCTCCTCTTTC
1 CTCCCTCTCCCTCTTTCCCCTAAAATTCTGATGGCAAAC-CTCCTCTTTC
* *
20645803 CNTCCCTTTCCCTCTTTCCCCTAAAATTTTGATGGCAAACCTCCTCTTTC
1 C-TCCCTCTCCCTCTTTCCCCTAAAATTCTGATGGCAAACCTCCTCTTTC
20645853 C
1 C
20645854 CTCTTATTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
48 1 0.02
49 18 0.40
50 22 0.49
51 4 0.09
ACGTcount: A:0.15, C:0.41, G:0.06, T:0.36
Consensus pattern (49 bp):
CTCCCTCTCCCTCTTTCCCCTAAAATTCTGATGGCAAACCTCCTCTTTC
Found at i:20650735 original size:34 final size:34
Alignment explanation
Indices: 20650697--20650764 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
20650687 TACTTACAAG
*
20650697 ACCAACACGGGAGACTCGATATTCCACAAACTTA
1 ACCAACACGGAAGACTCGATATTCCACAAACTTA
* *
20650731 ACCAACATGGAAGACTCGGTATTCCACAAACTTA
1 ACCAACACGGAAGACTCGATATTCCACAAACTTA
20650765 CTTTTCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (34 bp):
ACCAACACGGAAGACTCGATATTCCACAAACTTA
Found at i:20654601 original size:29 final size:29
Alignment explanation
Indices: 20654559--20654617 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
20654549 GCTTCAAGTA
20654559 ATACCTGTACCATCTCAAAAGGAATTTAC
1 ATACCTGTACCATCTCAAAAGGAATTTAC
*
20654588 ATACCTGTACCATCTCGAAAGGAATTTAC
1 ATACCTGTACCATCTCAAAAGGAATTTAC
20654617 A
1 A
20654618 CATAATCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (29 bp):
ATACCTGTACCATCTCAAAAGGAATTTAC
Found at i:20657809 original size:28 final size:27
Alignment explanation
Indices: 20657752--20657903 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
20657742 TAAATTGTGC
*
20657752 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
20657779 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
20657807 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
20657834 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
20657862 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
20657889 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20657904 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:20657817 original size:55 final size:55
Alignment explanation
Indices: 20657752--20657903 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
20657742 TAAATTGTGC
*
20657752 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
20657807 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
20657862 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
20657904 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:20667644 original size:18 final size:19
Alignment explanation
Indices: 20667621--20667670 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
20667611 TAAGCAACTT
20667621 TGGTATCGATAAAAA-ATA
1 TGGTATCGATAAAAACATA
20667639 TGGTATCGATAAAAATCATA
1 TGGTATCGATAAAAA-CATA
20667659 TGGATATCGATA
1 TGG-TATCGATA
20667671 CTTTTTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.52
20 6 0.21
21 8 0.28
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
TGGTATCGATAAAAACATA
Found at i:20674954 original size:48 final size:48
Alignment explanation
Indices: 20674878--20675186 Score: 325
Period size: 48 Copynumber: 6.4 Consensus size: 48
20674868 GGGTAAATTA
* *
20674878 CCGAGGCCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
* * *
20674926 CCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCAGATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
* *
20674974 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
* * * * * * * * * *
20675022 CTGATTCCATGTCCTAAACATGGTCTTACACTAGCTCTCTTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
* * * ** *
20675070 TCGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCCCATAAC-ATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGA-GG
* * * * *
20675118 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCCCAT-TATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGT-CGAGG
*
20675166 CCGATGCCATGTCCAAGACAT
1 CCGATGCCATGTCCCAGACAT
20675187 TGTAACACCC
Statistics
Matches: 214, Mismatches: 44, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.00
48 213 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
Found at i:20675144 original size:144 final size:144
Alignment explanation
Indices: 20674884--20675154 Score: 364
Period size: 144 Copynumber: 1.9 Consensus size: 144
20674874 ATTACCGAGG
* * * *
20674884 CCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCAGACATAG
1 CCATGTCCTAAACATGGTCTTACACTAGCTCACATCTCAAGGCCGATGCCATGTCCCAGACATAG
* ** * *
20674949 TCTTACACTAGCTCAGATGTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA
66 TCTTACACTAGCTCACATAACGACGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATA
20675014 CGTCGAGGCTGATT
131 CGTCGAGGCTGATT
* * * * *
20675028 CCATGTCCTAAACATGGTCTTACACTAGCTCTCTTCTCAATGTCGATGCCATGTCCCAGACATGG
1 CCATGTCCTAAACATGGTCTTACACTAGCTCACATCTCAAGGCCGATGCCATGTCCCAGACATAG
* * * *
20675093 TCTTACTCTGGCTCCCATAAC-ATCGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
66 TCTTACACTAGCTCACATAACGA-CGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
20675155 CCATTATGTG
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 107 0.99
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (144 bp):
CCATGTCCTAAACATGGTCTTACACTAGCTCACATCTCAAGGCCGATGCCATGTCCCAGACATAG
TCTTACACTAGCTCACATAACGACGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATA
CGTCGAGGCTGATT
Found at i:20675842 original size:7 final size:7
Alignment explanation
Indices: 20675830--20675891 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
20675820 TCACTTAAAT
20675830 GGTTTAG
1 GGTTTAG
20675837 GGTTTAG
1 GGTTTAG
20675844 GGTTTAG
1 GGTTTAG
*
20675851 GATTTAG
1 GGTTTAG
*
20675858 GATTTTAG
1 G-GTTTAG
20675866 GGTTTAG
1 GGTTTAG
*
20675873 GTTTTAG
1 GGTTTAG
*
20675880 GGTTTAT
1 GGTTTAG
20675887 GGTTT
1 GGTTT
20675892 CGTGTAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
7 42 0.88
8 6 0.12
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:20675866 original size:22 final size:22
Alignment explanation
Indices: 20675839--20675880 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20675829 TGGTTTAGGG
20675839 TTTAGGGTTTAGGATTTAGGAT
1 TTTAGGGTTTAGGATTTAGGAT
*
20675861 TTTAGGGTTTAGGTTTTAGG
1 TTTAGGGTTTAGGATTTAGG
20675881 GTTTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
TTTAGGGTTTAGGATTTAGGAT
Found at i:20676265 original size:13 final size:13
Alignment explanation
Indices: 20676247--20676271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20676237 CCGAACATAG
20676247 ATAGCCAAACATC
1 ATAGCCAAACATC
20676260 ATAGCCAAACAT
1 ATAGCCAAACAT
20676272 TTCGTCATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAGCCAAACATC
Found at i:20678089 original size:48 final size:48
Alignment explanation
Indices: 20678036--20678132 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
20678026 TATGAAAATT
20678036 CCCAAATAAAACTACTTATAAATTAAAAATCCAATGAGGAAGTAAGAG
1 CCCAAATAAAACTACTTATAAATTAAAAATCCAATGAGGAAGTAAGAG
20678084 CCCAAATAAAACTACTTATAAATTAAAAATCCAATGAGGAAGTAAGAG
1 CCCAAATAAAACTACTTATAAATTAAAAATCCAATGAGGAAGTAAGAG
20678132 C
1 C
20678133 GGTTGTGTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (48 bp):
CCCAAATAAAACTACTTATAAATTAAAAATCCAATGAGGAAGTAAGAG
Found at i:20678396 original size:18 final size:18
Alignment explanation
Indices: 20678371--20678438 Score: 82
Period size: 18 Copynumber: 3.8 Consensus size: 18
20678361 CTTGGCCCAT
20678371 TGCAGTAACAGTAAATAG
1 TGCAGTAACAGTAAATAG
* ** *
20678389 TACAGTAATGGTAATTAG
1 TGCAGTAACAGTAAATAG
*
20678407 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAATAG
*
20678425 TGCAATAACAGTAA
1 TGCAGTAACAGTAA
20678439 GCAGTTTGCA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAG
Found at i:20678443 original size:18 final size:18
Alignment explanation
Indices: 20678405--20678443 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
20678395 AATGGTAATT
*
20678405 AGTGCAGTAACAGTAAAC
1 AGTGCAATAACAGTAAAC
*
20678423 AGTGCAATAACAGTAAGC
1 AGTGCAATAACAGTAAAC
20678441 AGT
1 AGT
20678444 TTGCAAGTCC
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:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (18 bp):
AGTGCAATAACAGTAAAC
Found at i:20678773 original size:27 final size:27
Alignment explanation
Indices: 20678743--20678878 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
20678733 AAACATACAT
* *
20678743 CACATAGGGGCAAAACAGTCATCCTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
* *
20678770 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
* * *
20678797 CTCATAAGGGAAAAATC-GTCATTTTAC
1 CACATAAGGGCAAAA-CAGTCATTCTAC
** *
20678824 CACATAAGGGCAAAATTGTCATTCTAA
1 CACATAAGGGCAAAACAGTCATTCTAC
* *
20678851 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTCTAC
20678878 C
1 C
20678879 TTACAGGGTA
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTCTAC
Found at i:20678925 original size:27 final size:27
Alignment explanation
Indices: 20678869--20679378 Score: 515
Period size: 27 Copynumber: 18.9 Consensus size: 27
20678859 GGCAAAACAA
* * * **
20678869 TCATTTTACCTTACA-GGGTATTACAA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20678895 TCATTTTACCCTACAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
20678922 TCATTTTACCCTAT-GGAGGTATTTCGA
1 TCATTTTACCCTATAGG-GGTATTTCGG
* *
20678949 TCATTTTACCTTATAGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
20678976 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679003 TCATTTTATCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * * *
20679030 TCATTTTATCCTTTGGGGGTGTTTCAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
20679057 TCATTTTACCCTATGGGGGTGTTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679084 TCATTTTACCTTATAAGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679111 TCATTTTACCCTATGGGGGTGTTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679138 TCATTTTACCTTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679165 TCACTTTATCCTAT-GAGGGTGTTTCGG
1 TCATTTTACCCTATAG-GGGTATTTCGG
*
20679192 TCATTTTACCCTAT-GAGGGTGTTTCGG
1 TCATTTTACCCTATAG-GGGTATTTCGG
* *
20679219 TCATTTTACCCTATGGGGGTATTTCGT
1 TCATTTTACCCTATAGGGGTATTTCGG
*
20679246 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679273 TCATTTTACCCTATGGGGGTGTTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * *
20679300 TCATTTTATCCTATGGGGGTGTTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
20679327 TCATTTTATCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
20679354 TTATTTTACCTTATAGGGGTATTTC
1 TCATTTTACCCTATAGGGGTATTTC
20679379 AATCATTATT
Statistics
Matches: 426, Mismatches: 53, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
26 17 0.04
27 406 0.95
28 3 0.01
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGG
Found at i:20688042 original size:6 final size:6
Alignment explanation
Indices: 20688033--20688096 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
20688023 AAAGAGAATG
* * * * * *
20688033 AGAAAA AGAAAA ATGAAAT TGAAAA AGAAAG TGAAAA ACAAAA AGAGAA
1 AGAAAA AGAAAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
20688082 GGAAAA AGAAAA AGA
1 AGAAAA AGAAAA AGA
20688097 GATCGAGATC
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
6 39 0.91
7 4 0.09
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (6 bp):
AGAAAA
Found at i:20688075 original size:18 final size:18
Alignment explanation
Indices: 20688054--20688098 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
20688044 AATGAAATTG
20688054 AAAAAGA-AAGTGAAAAAC
1 AAAAAGAGAAG-GAAAAAC
*
20688072 AAAAAGAGAAGGAAAAAG
1 AAAAAGAGAAGGAAAAAC
20688090 AAAAAGAGA
1 AAAAAGAGA
20688099 TCGAGATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (18 bp):
AAAAAGAGAAGGAAAAAC
Found at i:20688473 original size:36 final size:36
Alignment explanation
Indices: 20688423--20688494 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
20688413 AAAGGTAAGT
* *
20688423 AAGGTATGAGTTTTGAAGTTTTTAAAACATATCAGC
1 AAGGTATGAATTTTGAAGTTTTTAAAACACATCAGC
20688459 AAGGTATGAATTTTGAAGTTTTTAAAACACATCAGC
1 AAGGTATGAATTTTGAAGTTTTTAAAACACATCAGC
20688495 CTCCTTCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (36 bp):
AAGGTATGAATTTTGAAGTTTTTAAAACACATCAGC
Found at i:20692271 original size:16 final size:17
Alignment explanation
Indices: 20692238--20692274 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
20692228 TATTATATGT
20692238 TTTATTATATTAACATG
1 TTTATTATATTAACATG
*
20692255 TTTATTAT-TTTACATG
1 TTTATTATATTAACATG
20692271 TTTA
1 TTTA
20692275 ACCTTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTATATTAACATG
Found at i:20693566 original size:37 final size:37
Alignment explanation
Indices: 20693500--20693649 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
20693490 CTTTAGCTCA
* * *
20693500 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
20693537 GACATAATCTCCACACGTAGTCATTGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
20693574 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
20693611 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
20693648 GA
1 GA
20693650 ATATATTTCC
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:20693915 original size:47 final size:47
Alignment explanation
Indices: 20693854--20694038 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
20693844 TACATATATT
* * * *
20693854 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
20693901 TCACATTGGCCATTCGGCCTTATCACAGATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
20693948 TCACATTGGCCATTTGGGCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
20693995 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
20694039 CACAATTATC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:20696699 original size:47 final size:47
Alignment explanation
Indices: 20696624--20696713 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
20696614 AAATTTTCAC
* *
20696624 GATAAGTTACCTTGATTTTGCTATGGGCCATGGTATAGGTACTCCAA
1 GATAAGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAA
*
20696671 GATAAGTTACCTTGATTTGGCTACGGGCCATGGTATGGGTACT
1 GATAAGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
20696714 TATCGATTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (47 bp):
GATAAGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAA
Found at i:20699821 original size:23 final size:22
Alignment explanation
Indices: 20699770--20699821 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
20699760 CCTCGTCTTT
*
20699770 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
20699792 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
20699815 TTCTTTT
1 TTCTTTT
20699822 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:20699836 original size:18 final size:18
Alignment explanation
Indices: 20699815--20699853 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20699805 TTTCTTCAAC
* *
20699815 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
20699833 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
20699851 TTC
1 TTC
20699854 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:20702211 original size:22 final size:23
Alignment explanation
Indices: 20702186--20702245 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
20702176 TGGGCTGAAT
20702186 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
20702208 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
20702230 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
20702246 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:20702213 original size:4 final size:4
Alignment explanation
Indices: 20702195--20702228 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
20702185 TATAAAAATT
20702195 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
20702229 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:20704307 original size:29 final size:29
Alignment explanation
Indices: 20704258--20704317 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
20704248 TGCAGTAGAC
* *
20704258 AATCAATTGTGTTATTTACTTGCACAACT
1 AATCAATTGTGTCATTCACTTGCACAACT
20704287 AATCAATTGTGTCATTCACTTGCACAACT
1 AATCAATTGTGTCATTCACTTGCACAACT
20704316 AA
1 AA
20704318 CTTTCAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (29 bp):
AATCAATTGTGTCATTCACTTGCACAACT
Found at i:20705484 original size:26 final size:27
Alignment explanation
Indices: 20705427--20705487 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
20705417 ATCTCTTTCA
* *
20705427 AAAACCCAAAGTTTAGAAAAACTTTTG
1 AAAACCCAAAGTTTAGAAAAAATTTAG
*
20705454 AAAACCCAAATTTTAGAAAAAATTTAG
1 AAAACCCAAAGTTTAGAAAAAATTTAG
20705481 -AAACCCA
1 AAAACCCA
20705488 TTCCACAGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.23
Consensus pattern (27 bp):
AAAACCCAAAGTTTAGAAAAAATTTAG
Found at i:20706428 original size:27 final size:27
Alignment explanation
Indices: 20706367--20706443 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 27
20706357 CCAAAAATAG
* * * *
20706367 TGAATATGGCAAAGCCACCAGTATCAG
1 TGAATGTGGCATAGCCACCAGTAACAA
20706394 T-AATTGTGGCATAGCCACCAGTAACAA
1 TGAA-TGTGGCATAGCCACCAGTAACAA
* * *
20706421 TGAATGTGACATAGTCATCAGTA
1 TGAATGTGGCATAGCCACCAGTA
20706444 CAGTACTTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.05
27 37 0.90
28 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
TGAATGTGGCATAGCCACCAGTAACAA
Found at i:20706620 original size:27 final size:27
Alignment explanation
Indices: 20706588--20706731 Score: 198
Period size: 27 Copynumber: 5.3 Consensus size: 27
20706578 CATACTCATA
*
20706588 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
20706615 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
20706642 TCATTTTATCCTACAAGGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
20706669 TCAATGTACCCTACAGGGGCAATACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* **
20706696 TCATTTTACCCTACAGGAGCATTACAA
1 TCATTTTACCCTACAGGGGCATTACGG
20706723 TCATTTTAC
1 TCATTTTAC
20706732 TAATTTTGGG
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:20719836 original size:49 final size:49
Alignment explanation
Indices: 20719780--20719951 Score: 226
Period size: 49 Copynumber: 3.6 Consensus size: 49
20719770 TATTTGAATA
20719780 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
** * * *
20719829 AATGTGAAAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
20719878 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
20719925 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
20719952 TCCCGAAGGG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
47 48 0.46
48 1 0.01
49 56 0.53
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.27
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:20719891 original size:47 final size:47
Alignment explanation
Indices: 20719780--20719951 Score: 236
Period size: 47 Copynumber: 3.6 Consensus size: 47
20719770 TATTTGAATA
20719780 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
20719829 AATGTGAAAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTG--AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
20719878 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
20719925 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
20719952 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 58 0.53
49 45 0.41
51 6 0.06
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:20723160 original size:18 final size:18
Alignment explanation
Indices: 20723139--20723201 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
20723129 ATACTCACTC
20723139 TCTTTTTCAATTTTCTTT
1 TCTTTTTCAATTTTCTTT
** *
20723157 TCTTGATCGAATTCT-TTT
1 TCTTTTTC-AATTTTCTTT
20723175 TCTTTTTCAA-TTTCGTTTT
1 TCTTTTTCAATTTTC--TTT
20723194 TCTTTTTC
1 TCTTTTTC
20723202 TCATTCTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 15 0.43
19 16 0.46
ACGTcount: A:0.11, C:0.17, G:0.05, T:0.67
Consensus pattern (18 bp):
TCTTTTTCAATTTTCTTT
Found at i:20728426 original size:27 final size:27
Alignment explanation
Indices: 20728396--20728737 Score: 183
Period size: 27 Copynumber: 12.7 Consensus size: 27
20728386 CCTTAAATTG
*
20728396 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
****
20728423 TAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *****
20728450 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** *
20728477 TAGAATTACTATTTTACCCT-TATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * ***
20728503 CAGAATTACTATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * *
20728530 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
20728557 CAAAATTACCAAAATACTCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
20728583 GTAAAATTACCAAAATACCCTAG-TCTG
1 -TAAAATTACCAAAATACCCTCGATTTA
*** * *
20728610 TAAAATTGTTAAAATACCACTAG-TTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* *
20728637 TAAAATTACCAAAATACCACTAG-TTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* * * *
20728664 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
20728691 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* * *
20728718 CAAAGTTACAAAAATACCCT
1 TAAAATTACCAAAATACCCT
20728738 TGACTTTCTA
Statistics
Matches: 263, Mismatches: 45, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
26 44 0.17
27 219 0.83
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:20728525 original size:53 final size:54
Alignment explanation
Indices: 20728410--20728540 Score: 192
Period size: 53 Copynumber: 2.4 Consensus size: 54
20728400 ATTACCAAAG
** * *
20728410 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
* *
20728464 TACCCTCGATTTATAGAATTACTATTTTACCCT-TATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
*
20728517 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTATAAAATTACTA
20728541 AAATACCCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
53 39 0.57
54 30 0.43
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTACTATTT
Found at i:20728548 original size:53 final size:54
Alignment explanation
Indices: 20728410--20728565 Score: 161
Period size: 53 Copynumber: 2.9 Consensus size: 54
20728400 ATTACCAAAG
* ***** * * *
20728410 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACTATTT
* * ***
20728464 TACCCTCGATTTATAGAATTACTATTTTACCCTT-ATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACTATTT
* *
20728517 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTAC
20728566 CAAAATACTC
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.52
54 42 0.48
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACAGAATTACTATTT
Found at i:20728799 original size:27 final size:27
Alignment explanation
Indices: 20728748--20728799 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
20728738 TGACTTTCTA
*
20728748 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTAGTTTAC
*
20728775 AAAATTACT-GAAATACCTTTAGTTT
1 AAAATTA-TGGAAATACCATTAGTTT
20728800 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTAGTTTAC
Found at i:20728881 original size:27 final size:27
Alignment explanation
Indices: 20728862--20728945 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
20728852 AGGTAAAAAA
20728862 GACCGTAAAGCCCTTGTAGGGTAAAGT
1 GACCGTAAAGCCCTTGTAGGGTAAAGT
* *
20728889 GATCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCTTGTAGGGTAAAGT
* *
20728916 GACCGTAATA-CCCTTGTATGGTAAAAT
1 GACCGTAA-AGCCCTTGTAGGGTAAAGT
20728943 GAC
1 GAC
20728946 GAATATGCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (27 bp):
GACCGTAAAGCCCTTGTAGGGTAAAGT
Found at i:20728956 original size:27 final size:28
Alignment explanation
Indices: 20728862--20728957 Score: 112
Period size: 27 Copynumber: 3.6 Consensus size: 28
20728852 AGGTAAAAAA
20728862 GACCGTAA-AGCCCTTGTAGGGTAAAGT
1 GACCGTAATAGCCCTTGTAGGGTAAAGT
* *
20728889 GATCGTAA-AGCCCCTGTAGGGTAAAGT
1 GACCGTAATAGCCCTTGTAGGGTAAAGT
* *
20728916 GACCGTAATA-CCCTTGTATGGTAAAAT
1 GACCGTAATAGCCCTTGTAGGGTAAAGT
20728943 GA-CG-AATATGCCCTT
1 GACCGTAATA-GCCCTT
20728958 ATGTTCCGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
25 4 0.07
26 2 0.03
27 53 0.88
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (28 bp):
GACCGTAATAGCCCTTGTAGGGTAAAGT
Found at i:20729777 original size:26 final size:26
Alignment explanation
Indices: 20729748--20729922 Score: 248
Period size: 26 Copynumber: 6.8 Consensus size: 26
20729738 GAGGAAGTGC
* *
20729748 AAAAGGGCTTATGCCCCATTTTTTTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
20729774 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
20729800 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
20729826 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
20729852 -AAAGAGGCTTATGCCCCAGTTTATTG
1 AAAAG-GGCTTATGCCCCAGTTTATTG
**
20729878 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
20729903 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
20729923 ATTAAAGAGG
Statistics
Matches: 136, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
25 36 0.26
26 96 0.71
27 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:20730132 original size:42 final size:42
Alignment explanation
Indices: 20730067--20730158 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
20730057 TAGTCTCCCC
* * ** *
20730067 AAATAGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20730109 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
20730151 AAATGGGC
1 AAATGGGC
20730159 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:20730217 original size:31 final size:31
Alignment explanation
Indices: 20730182--20730255 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
20730172 CGTTTACAGT
20730182 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
20730213 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
20730244 AAAGGCTTCGGC
1 AAAGGCTTCGGC
20730256 GCAGTAACCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:20737387 original size:9 final size:9
Alignment explanation
Indices: 20737375--20737431 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
20737365 TTTGATAAAC
20737375 ATGATATGT
1 ATGATATGT
*
20737384 ATGATATGCAC
1 ATGATATG--T
*
20737395 ATGACATGT
1 ATGATATGT
*
20737404 ATGATATGCAC
1 ATGATATG--T
20737415 ATGATATGT
1 ATGATATGT
20737424 ATGATATG
1 ATGATATG
20737432 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:20737398 original size:20 final size:20
Alignment explanation
Indices: 20737373--20737435 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
20737363 ATTTTGATAA
20737373 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
20737393 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
20737413 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
20737433 ACA
1 ACA
20737436 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Done.