Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 284 of 290
Found at i:97926259 original size:143 final size:141
Alignment explanation
Indices: 97925967--97926468 Score: 797
Period size: 143 Copynumber: 3.5 Consensus size: 141
97925957 CCCTTCGGGA
* * * * * * * *
97925967 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
97926032 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
97926097 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
97926110 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
97926175 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
97926240 TCGGCTATTAGGC
129 TCGGCCATTAGGC
97926253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
97926318 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
97926383 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
97926396 CTTATCACATATATACACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
97926461 ATTCACAT
66 TTTCACAT
97926469 CACAATTATC
Statistics
Matches: 338, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
141 61 0.18
143 190 0.56
145 87 0.26
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:97926349 original size:190 final size:190
Alignment explanation
Indices: 97925967--97926468 Score: 862
Period size: 190 Copynumber: 2.6 Consensus size: 190
97925957 CCCTTCGGGA
* * * * * * *
97925967 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-CTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC-ATCACATATATACA
97926031 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
97926096 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
128 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
97926159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
*
97926224 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
97926289 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
97926349 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
* * *
97926414 TTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
97926469 CACAATTATC
Statistics
Matches: 296, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
190 203 0.69
192 92 0.31
193 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:97926505 original size:94 final size:93
Alignment explanation
Indices: 97925967--97926468 Score: 637
Period size: 96 Copynumber: 5.3 Consensus size: 93
97925957 CCCTTCGGGA
* * * * ** * * * *
97925967 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACA-ATATACAC
97926032 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
* * *
97926061 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCAC--A-ATAT
* *
97926126 ACACTTTCACATTCATCACATTGGCCATTCGGC
61 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
97926159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TCATCACATATATACA
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCAT-ATCACA-ATATACA
*
97926223 CTTTCACATTCATCACATCGGCTATTAGGC
64 CTTTCACATTCATCACATCGGCCATTAGGC
* * *
97926253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCAC--A-ATATAC
* *
97926318 ACTTTCACATTCATCACATTGGCCATTCGGC
63 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
97926349 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACA-ATATACAC
*
97926414 TTTCACATTCTTCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
97926443 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACATTCACAT
97926469 CACAATTATC
Statistics
Matches: 379, Mismatches: 21, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
94 157 0.41
95 2 0.01
96 175 0.46
98 45 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (93 bp):
CTTATCACATATATACACATTCACATTCATCACATCAGCCATTAGGCCATATCACAATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:97931533 original size:30 final size:30
Alignment explanation
Indices: 97931481--97931548 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
97931471 GTCTGTCTCA
* *
97931481 GCCGTATGCGACACACGATCATGGTATATG
1 GCCGTGTGTGACACACGATCATGGTATATG
* * *
97931511 GTCGTGTGTGACACATGGTCATGGTATATG
1 GCCGTGTGTGACACACGATCATGGTATATG
97931541 GCCGTGTG
1 GCCGTGTG
97931549 ACCCCTGATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (30 bp):
GCCGTGTGTGACACACGATCATGGTATATG
Found at i:97934625 original size:48 final size:48
Alignment explanation
Indices: 97934573--97934702 Score: 138
Period size: 47 Copynumber: 2.7 Consensus size: 48
97934563 CTTGTGAGAG
* *
97934573 CATGTCTAGGACATGGCATTGGCATCGTTATGAGATCCCATC-TAAGAC
1 CATGTCTGGGACATGGCATTGGCATCGATATGAGATCCCA-CATAAGAC
* * * * *
97934621 CATGTCCGGGACATGGCACTGGAAT-GACATGTGATCCCACATAAGAC
1 CATGTCTGGGACATGGCATTGGCATCGATATGAGATCCCACATAAGAC
* * * *
97934668 CATATTTGGGATATGACATTGGCATCGATATGAGA
1 CATGTCTGGGACATGGCATTGGCATCGATATGAGA
97934703 CATCATGTAA
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
46 1 0.02
47 35 0.55
48 28 0.44
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATTGGCATCGATATGAGATCCCACATAAGAC
Found at i:97939704 original size:48 final size:47
Alignment explanation
Indices: 97939516--97939772 Score: 293
Period size: 48 Copynumber: 5.4 Consensus size: 47
97939506 ATTCAGAATA
* * * *
97939516 CAGACATGGTCTTACACTAGCTCATAAATCAAGTCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCCCACATATCAAGCCGATGCCATGTCC
* * * *
97939563 CAGACATGGTCTTACGCTGGCTCTCACATATCTATGCCGATGCTATGTCC
1 CAGACATGGTCTTACACTAGC-C-CACATATC-AAGCCGATGCCATGTCC
* * *
97939613 CAGACATGGTCTTACACTA--ACACATCTCATAGCCAATGCCATGTCC
1 CAGACATGGTCTTACACTAGCCCACATATCA-AGCCGATGCCATGTCC
* *
97939659 CAAACATGGTCTTACACTAGCCCACATATCGAGGCCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCCCACATATC-AAGCCGATGCCATGTCC
* * * *
97939707 CAGACATGATCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCCCACATATCAA-GCCGATGCCATGTCC
97939755 CAGACATGGTCTTACACT
1 CAGACATGGTCTTACACT
97939773 GGATCTCATA
Statistics
Matches: 175, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 38 0.22
47 20 0.11
48 78 0.45
49 7 0.04
50 31 0.18
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (47 bp):
CAGACATGGTCTTACACTAGCCCACATATCAAGCCGATGCCATGTCC
Found at i:97939750 original size:96 final size:96
Alignment explanation
Indices: 97939516--97939832 Score: 342
Period size: 96 Copynumber: 3.3 Consensus size: 96
97939506 ATTCAGAATA
* * * ** * *
97939516 CAGACATGGTCTTACACTAGCTCATAAATCA-AGTCGATGCCATGTCCCAGACATGGTCTTACGC
1 CAGACATGATCTTACACTAGCACACATCTCATAGCCGATGCCATGTCCCAGACATGGTCTTACAC
* *
97939580 TGGCTCTCACATATCTATGCCGATGCTATGTCC
66 TGGC-C-CACATATCTAGGCCGATGCCATGTCC
* * *
97939613 CAGACATGGTCTTACACTA--ACACATCTCATAGCCAATGCCATGTCCCAAACATGGTCTTACAC
1 CAGACATGATCTTACACTAGCACACATCTCATAGCCGATGCCATGTCCCAGACATGGTCTTACAC
* *
97939676 TAGCCCACATATCGAGGCCGATGCCATGTCC
66 TGGCCCACATATCTAGGCCGATGCCATGTCC
* * *
97939707 CAGACATGATCTTACACTAGCCCTCGTCTCA-ATGCCGATGCCATGTCCCAGACATGGTCTTACA
1 CAGACATGATCTTACACTAGCACACATCTCATA-GCCGATGCCATGTCCCAGACATGGTCTTACA
** * * *
97939771 CTGGATCTCATAAT-TTGGCCAATG-CATGTCC
65 CTGGCCCACAT-ATCTAGGCCGATGCCATGTCC
*
97939802 CAGACAT-ATCTTACACTAGCACACATGTCAT
1 CAGACATGATCTTACACTAGCACACATCTCAT
97939833 CCAAATGACA
Statistics
Matches: 185, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
94 60 0.32
95 22 0.12
96 82 0.44
97 21 0.11
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (96 bp):
CAGACATGATCTTACACTAGCACACATCTCATAGCCGATGCCATGTCCCAGACATGGTCTTACAC
TGGCCCACATATCTAGGCCGATGCCATGTCC
Found at i:97939814 original size:142 final size:144
Alignment explanation
Indices: 97939519--97939827 Score: 351
Period size: 142 Copynumber: 2.2 Consensus size: 144
97939509 CAGAATACAG
* * * * * * * * *
97939519 ACATGGTCTTACACTAGCTCATAAATC-AAGTCGATGCCATGTCCCAGACATGGTCTTACGCTGG
1 ACATGATCTTACACTAGCACACATATCGAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
* * *
97939583 CTCTCACATATCTATGCCGATGCTATGTCCCAGACATGGTCTTACACTAACACATCTCATAGCCA
66 CTCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCATAGCCA
97939648 ATGCCATGTCCCAA
131 ATGCCATGTCCCAA
* *
97939662 ACATGGTCTTACACTAGCCCACATATCGAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
1 ACATGATCTTACACTAGCACACATATCGAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
* * * * * * *
97939727 C-C-CTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAAT-TTGG
66 CTCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT--AACACAT-ATCATAG
*
97939789 CCAATG-CATGTCCCAG
128 CCAATGCCATGTCCCAA
97939805 ACAT-ATCTTACACTAGCACACAT
1 ACATGATCTTACACTAGCACACAT
97939828 GTCATCCAAA
Statistics
Matches: 141, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
142 56 0.40
143 38 0.27
144 46 0.33
145 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (144 bp):
ACATGATCTTACACTAGCACACATATCGAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
CTCTCACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCATAGCCA
ATGCCATGTCCCAA
Found at i:97941952 original size:68 final size:68
Alignment explanation
Indices: 97941803--97941960 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
97941793 CTAGCCGATT
* * * *
97941803 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
97941868 TTTA
65 TATA
* * *
97941872 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACAT-AC-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
97941934 CTATATA
63 C-ATATA
97941941 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
97941961 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 7 0.09
71 25 0.34
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:97952817 original size:15 final size:15
Alignment explanation
Indices: 97952783--97952823 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
97952773 TAAAGATGAA
*
97952783 AAAGAAA-CCCAGAT
1 AAAGAAATCCAAGAT
97952797 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
*
97952812 AGAGAAATCCAA
1 AAAGAAATCCAA
97952824 AATACGATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:97954401 original size:27 final size:26
Alignment explanation
Indices: 97954357--97954407 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
97954347 CTAGCTACAA
*
97954357 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
97954384 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
97954408 AGCAGCCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:97961934 original size:33 final size:32
Alignment explanation
Indices: 97961885--97961948 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
97961875 CTCGCTGCAA
* *
97961885 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
97961918 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
97961949 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:97961962 original size:27 final size:26
Alignment explanation
Indices: 97961910--97961967 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
97961900 ACATATATAT
*
97961910 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
97961936 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
97961963 ATATC
1 ATATC
97961968 CGGCAACCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:97963655 original size:40 final size:40
Alignment explanation
Indices: 97963610--97963686 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
97963600 ATAGCTGAAT
97963610 ATACTTTTAATTTAAACTTATAATACATGCAGATAAATAG
1 ATACTTTTAATTTAAACTTATAATACATGCAGATAAATAG
97963650 ATACTTTTAATTTAAACTTATAATACATGCAGATAAA
1 ATACTTTTAATTTAAACTTATAATACATGCAGATAAA
97963687 CAGACTTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (40 bp):
ATACTTTTAATTTAAACTTATAATACATGCAGATAAATAG
Found at i:97965312 original size:42 final size:41
Alignment explanation
Indices: 97965202--97965364 Score: 213
Period size: 42 Copynumber: 3.9 Consensus size: 41
97965192 CTTGTATAAA
* * *
97965202 ACACCGGCA-AAGAGCCTGCTAGGTAATAAACCTGAT-TCAAC
1 ACACCGGCATAA-AGCCTGCTAGGCAATAAGCCTGATATC-AT
* *
97965243 ACACCGGCATAAAGCCTGCTAGACAATAAGTCTGATATCAT
1 ACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGATATCAT
*
97965284 ACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCTT
1 ACACCGGCAT-AAAGCCTGCTAGGCAATAAGCCTGATATCAT
*
97965326 ACACCGGCATCAAAGCCTGCAAGGCAATAAGCCTGATAT
1 ACACCGGCAT-AAAGCCTGCTAGGCAATAAGCCTGATAT
97965365 ATCACTGTTA
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
41 40 0.36
42 70 0.64
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (41 bp):
ACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGATATCAT
Found at i:97965313 original size:83 final size:83
Alignment explanation
Indices: 97965202--97965364 Score: 215
Period size: 83 Copynumber: 2.0 Consensus size: 83
97965192 CTTGTATAAA
* *
97965202 ACACCGGCAAAGAGCCTGCTAGGTAATAAACCTGAT-TCAACACACCGGCAT-AAAGCCTGCTAG
1 ACACCGGCAAAGAGCCTGCTAGGCAATAAACCTGATATC-ACACACCGGCATCAAAGCCTGCAAG
*
97965265 ACAATAAGTCTGATATCAT
65 ACAATAAGCCTGATATCAT
* **
97965284 ACACCGGCATCAA-AGCCTGCTAGGCAATAAGCCTGATATCTTACACCGGCATCAAAGCCTGCAA
1 ACACCGGCA--AAGAGCCTGCTAGGCAATAAACCTGATATCACACACCGGCATCAAAGCCTGCAA
*
97965348 GGCAATAAGCCTGATAT
64 GACAATAAGCCTGATAT
97965365 ATCACTGTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
82 9 0.13
83 32 0.46
84 29 0.41
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (83 bp):
ACACCGGCAAAGAGCCTGCTAGGCAATAAACCTGATATCACACACCGGCATCAAAGCCTGCAAGA
CAATAAGCCTGATATCAT
Found at i:97969252 original size:47 final size:47
Alignment explanation
Indices: 97969180--97969321 Score: 259
Period size: 47 Copynumber: 3.0 Consensus size: 47
97969170 GTTGAATTTA
97969180 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
97969226 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
97969273 AAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
97969320 AA
1 AA
97969322 AGAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 12 0.13
47 81 0.87
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:97974747 original size:27 final size:28
Alignment explanation
Indices: 97974666--97974760 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
97974656 GAGATTGGCG
* * * *
97974666 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
97974695 CTAAGTGTGCGAGTTTGATTATATAGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCA
97974723 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
97974750 CTGAGTGTGCG
1 CTAAGTGTGCG
97974761 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.39
28 21 0.36
29 15 0.25
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:97974771 original size:27 final size:27
Alignment explanation
Indices: 97974691--97974773 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
97974681 TAAATTGTAC
* *
97974691 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* * *
97974719 AGCGCTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
97974746 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
97974773 A
1 A
97974774 CTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:97983960 original size:28 final size:29
Alignment explanation
Indices: 97983923--97983992 Score: 106
Period size: 28 Copynumber: 2.4 Consensus size: 29
97983913 AAGTCTACAT
*
97983923 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
97983951 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
97983980 ACATTCATATGGC
1 ACATTCATATGGC
97983993 TCATCCAGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:97984003 original size:29 final size:28
Alignment explanation
Indices: 97983923--97984013 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
97983913 AAGTCTACAT
*
97983923 ACATGCATATGGCCCA-CTAGGCCCAATC
1 ACATTCATATGGCCCATC-AGGCCCAATC
* *
97983951 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCC-AATC
*
97983980 ACATTCATATGGCTCATCCA-GCCCGAATC
1 ACATTCATATGGCCCAT-CAGGCCC-AATC
97984009 A-ATTC
1 ACATTC
97984014 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCCAATC
Found at i:97991131 original size:13 final size:13
Alignment explanation
Indices: 97991113--97991138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97991103 GCTCGGTAGG
97991113 GACACGCCCGTGT
1 GACACGCCCGTGT
97991126 GACACGCCCGTGT
1 GACACGCCCGTGT
97991139 TCGATTACTC
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:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:98003112 original size:93 final size:93
Alignment explanation
Indices: 98003000--98003170 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
98002990 GCCCCTAAGT
** * *
98003000 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAGCTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98003065 CTAGTACGGATGCCTAGTTACATCTCAC
66 CGAGTACGGATGCCTAGTTACATCTCAC
* * *
98003093 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
98003158 CGAGTTCGGATGC
66 CGAGTACGGATGC
98003171 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTACGGATGCCTAGTTACATCTCAC
Found at i:98007700 original size:29 final size:29
Alignment explanation
Indices: 98007641--98007700 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
98007631 CTGACACTCG
**
98007641 GGTTTAACAAATCACGAGTTCCCTACCCT
1 GGTTTAACAAATCACGAGTTCCCTAAACT
*
98007670 GGTTTAACAAATCTCGAGTTCCCTAAACT
1 GGTTTAACAAATCACGAGTTCCCTAAACT
98007699 GG
1 GG
98007701 CTGCCGAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (29 bp):
GGTTTAACAAATCACGAGTTCCCTAAACT
Found at i:98010232 original size:46 final size:46
Alignment explanation
Indices: 98010112--98010235 Score: 194
Period size: 46 Copynumber: 2.7 Consensus size: 46
98010102 AAGCCGCCCC
* * * *
98010112 TAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGGATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
* *
98010158 TAAGTGAACTCGGACTCAAGTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
98010204 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
98010236 GATGCTCAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
Found at i:98012621 original size:28 final size:28
Alignment explanation
Indices: 98012577--98012634 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
98012567 TGGGAAATAG
*
98012577 TTGGGCTTGATGAGCCATATGAATGTGA
1 TTGGGCTTGATGAGCCATATGAATGAGA
* * *
98012605 TTGGGTTTGATGGGCCATGTGAATGAGA
1 TTGGGCTTGATGAGCCATATGAATGAGA
98012633 TT
1 TT
98012635 TGGCCTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.09, G:0.34, T:0.34
Consensus pattern (28 bp):
TTGGGCTTGATGAGCCATATGAATGAGA
Found at i:98012986 original size:27 final size:27
Alignment explanation
Indices: 98012956--98013400 Score: 392
Period size: 27 Copynumber: 16.7 Consensus size: 27
98012946 TAATAAAGAG
*
98012956 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
98012983 AAATTA-TCGAAATGCCTTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
** * * *
98013010 AAATTACCAAAATAGCCTCAATTT-TG
1 AAATTACTGAAATACCCTCGATTTGTA
* **
98013036 AAATTACTAAAATACCCTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
98013063 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
98013089 AAATTACTGAAATA-CCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
98013115 AAATTACTGAAATACCCCCAATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
98013142 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
98013169 AAATTA-TCGAAATACCCCCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
98013196 AAATTA-TCGAAATACCCTC-AATTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
98013222 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
98013249 AAATTACCG-AATACCCTCGATTTTTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
98013275 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
98013302 AAATTA-TCGAAACACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * **
98013329 AAATTA-TCAAAATATCCTTAATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
98013356 AAATTACCGAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* *
98013383 AAATGACTGACATACCCT
1 AAATTACTGAAATACCCT
98013401 TGTAGGGTAA
Statistics
Matches: 349, Mismatches: 57, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
25 5 0.01
26 103 0.30
27 241 0.69
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:98013062 original size:53 final size:54
Alignment explanation
Indices: 98012956--98013373 Score: 413
Period size: 53 Copynumber: 7.8 Consensus size: 54
98012946 TAATAAAGAG
** * * *
98012956 AAATTACTAAAATACCCTCGATTTGTAAAATTA-TCGAAATGCCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAATTTGTA
* * * * * *
98013010 AAATTACCAAAATAGCCTCAATTT-TGAAATTACTAAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATTTGTA
* *
98013063 AAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAAATA-CCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATTTGTA
* * * * * *
98013115 AAATTACTGAAATACCCCCAATTTGTGAAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAATTTGTA
* * *
98013169 AAATTATCGAAATACCCCCGATTTGTAAAATTA-TCGAAATACCCTCAA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAATTTGTA
* * * * * *
98013222 AAATTACTGAAATACCCTTGATTTGTAAAATTACCG-AATACCCTCGATTTTTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATTTGTA
* *
98013275 AAATTACCGAAACACCCTCGATTTGTAAAATTA-TCGAAACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCAATTTGTA
* * * ** *
98013329 AAATTATCAAAATATCCTTAATTTGTAAAATTACCGAAATACCCT
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCT
98013374 TGTAGTGTAA
Statistics
Matches: 305, Mismatches: 49, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
52 41 0.13
53 140 0.46
54 124 0.41
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAATTTGTA
Found at i:98013193 original size:133 final size:134
Alignment explanation
Indices: 98012955--98013400 Score: 526
Period size: 133 Copynumber: 3.3 Consensus size: 134
98012945 ATAATAAAGA
* * * * *
98012955 GAAATTACTAAAATACCCTCGATTTGTAAAATTA-TCGAAATGCCTTCGATTTGTAAAATTACCA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGTGAAATTACCG
* * * * * * *
98013019 AAATAGCCTCAATTT-TGAAATTA-CTAAAATACCCTTAATTTGTAAAATTACCAAAATACCCTC
65 AAACACCCTCGATTTGTAAAATTATC-GAAATACCCTCAATTTGTAAAATTATCAAAATACCCTC
*
98013082 GATTGT
129 AATTGT
* * * *
98013088 GAAATTACTGAAATA-CCTCAATTTGTAAAATTACTGAAATACCCCCAATTTGTGAAATTATCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTGAAATTACCGA
* * *
98013152 AACACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAATACCCTCAA
66 AACACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCAA
98013217 TTGT
131 TTGT
* * *
98013221 GAAATTACTGAAATACCCTTGATTTGTAAAATTACCG-AATACCCTCGATTTTTGAAATTACCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTGAAATTACCGA
* * *
98013285 AACACCCTCGATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTATCAAAATATCCTTAA
66 AACACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCAA
98013350 TTTGT
131 -TTGT
* * * * * *
98013355 AAAATTACCGAAATACCCTTG-TAGTGTAAAATGACTGACATACCCT
1 GAAATTACTGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCT
98013401 TGTAGGGTAA
Statistics
Matches: 267, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
132 50 0.19
133 157 0.59
134 53 0.20
135 7 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (134 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTGAAATTACCGA
AACACCCTCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCAA
TTGT
Found at i:98013401 original size:27 final size:27
Alignment explanation
Indices: 98013352--98013417 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
98013342 ATCCTTAATT
* *
98013352 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACTGAAATACCCTTGTAG
*
98013379 TGTAAAATGACTGACATACCCTTGTAG
1 TGTAAAATGACTGAAATACCCTTGTAG
*
98013406 GGTAAAATGACT
1 TGTAAAATGACT
98013418 ATTTTGCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCTTGTAG
Found at i:98020483 original size:28 final size:28
Alignment explanation
Indices: 98020374--98020485 Score: 118
Period size: 28 Copynumber: 4.0 Consensus size: 28
98020364 ATACCTATGT
* *
98020374 ATATGGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
98020402 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
98020430 ATCTGGCTCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
*
98020459 ATATGG-CCACTAGACCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
98020486 TACAGTCATG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
28 57 0.81
29 13 0.19
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:98020733 original size:16 final size:16
Alignment explanation
Indices: 98020714--98020758 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
98020704 ATCTTTTCAG
*
98020714 CATTTTGGCTTTTTGA
1 CATTTCGGCTTTTTGA
*
98020730 CATTTCGGCTTTTTGG
1 CATTTCGGCTTTTTGA
*
98020746 CATTTCGACTTTT
1 CATTTCGGCTTTT
98020759 CGGGATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (16 bp):
CATTTCGGCTTTTTGA
Found at i:98020759 original size:24 final size:24
Alignment explanation
Indices: 98020706--98020766 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
98020696 AAACTTTCAT
* * *
98020706 CTTTTCAGCATTTTGGCTTTTTGA
1 CTTTTCGGCATTTTGGCATTTCGA
* *
98020730 CATTTCGGCTTTTTGGCATTTCGA
1 CTTTTCGGCATTTTGGCATTTCGA
*
98020754 CTTTTCGGGATTT
1 CTTTTCGGCATTT
98020767 GTCGATCTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.51
Consensus pattern (24 bp):
CTTTTCGGCATTTTGGCATTTCGA
Found at i:98020766 original size:16 final size:16
Alignment explanation
Indices: 98020706--98020766 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
98020696 AAACTTTCAT
* * *
98020706 CTTTTCAGCATTTTGG
1 CTTTTCGGCATTTCGA
* * *
98020722 CTTTTTGACATTTCGG
1 CTTTTCGGCATTTCGA
*
98020738 CTTTTTGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
98020754 CTTTTCGGGATTT
1 CTTTTCGGCATTT
98020767 GTCGATCTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:98027740 original size:30 final size:29
Alignment explanation
Indices: 98027704--98027768 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
98027694 TTAAAGGTAA
*
98027704 CCCACTCACAAAGTCTATTGTTACTCTTT
1 CCCACTCACAAAGTCCATTGTTACTCTTT
*
98027733 CCNCACTCACAAAGTCCATTGTTGCTCTTT
1 CC-CACTCACAAAGTCCATTGTTACTCTTT
98027763 CCCACT
1 CCCACT
98027769 TCCATAGCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 6 0.18
30 27 0.82
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.34
Consensus pattern (29 bp):
CCCACTCACAAAGTCCATTGTTACTCTTT
Found at i:98038575 original size:77 final size:77
Alignment explanation
Indices: 98038448--98038633 Score: 372
Period size: 77 Copynumber: 2.4 Consensus size: 77
98038438 CGATTCTCAG
98038448 GCAACCTAAGCAGAATATCATTTGTATGCAGCAGATATGCATGGCACTTCCTCCGTTCCATTATT
1 GCAACCTAAGCAGAATATCATTTGTATGCAGCAGATATGCATGGCACTTCCTCCGTTCCATTATT
98038513 CCCAACCCATAT
66 CCCAACCCATAT
98038525 GCAACCTAAGCAGAATATCATTTGTATGCAGCAGATATGCATGGCACTTCCTCCGTTCCATTATT
1 GCAACCTAAGCAGAATATCATTTGTATGCAGCAGATATGCATGGCACTTCCTCCGTTCCATTATT
98038590 CCCAACCCATAT
66 CCCAACCCATAT
98038602 GCAACCTAAGCAGAATATCATTTGTATGCAGC
1 GCAACCTAAGCAGAATATCATTTGTATGCAGC
98038634 NNNNNNNNNN
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 109 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (77 bp):
GCAACCTAAGCAGAATATCATTTGTATGCAGCAGATATGCATGGCACTTCCTCCGTTCCATTATT
CCCAACCCATAT
Found at i:98045536 original size:27 final size:27
Alignment explanation
Indices: 98045496--98045549 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
98045486 AGGTACAACC
* *
98045496 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
98045523 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
98045550 TCACATGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:98046850 original size:43 final size:43
Alignment explanation
Indices: 98046803--98046940 Score: 152
Period size: 43 Copynumber: 3.2 Consensus size: 43
98046793 TGATTACATA
* *
98046803 TAAGACCATGTCTGGGACATTGGCATTGTGT-TGTAATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGT-TATATAATTACGTG
* * *
98046846 TAAGACCATGTCTTGGACATTGGCATCGTTATATGATTTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTTATATAATTACGTG
* * * * * * *
98046889 TAAGACCCTGTCTGGGACAATGGCATCGATATGTGATAACATG
1 TAAGACCATGTCTGGGACATTGGCATCGTTATATAATTACGTG
98046932 TAAGACCAT
1 TAAGACCAT
98046941 ACATGGGATA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 79 0.99
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGTTATATAATTACGTG
Found at i:98054606 original size:43 final size:43
Alignment explanation
Indices: 98054452--98054606 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
98054442 GGTTATCAAA
* * **
98054452 ATGTGATTACATATAAGACCATGCCTAGGACATTGGCAGT-G-T
1 ATGTGATAACATGTAAGACCATATCTAGGACATTGGCA-TCGAT
* * *
98054494 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATC-ATT
1 A-TGTGATAACATGTAAGACCATATCTAGGACATTGGCATCGA-T
* * * * *
98054538 ATATGATATCGTGTAAGACCCTATCTAGGACAGTGGCATCGAT
1 ATGTGATAACATGTAAGACCATATCTAGGACATTGGCATCGAT
98054581 ATGTGATAACATGTAAGACCATATCT
1 ATGTGATAACATGTAAGACCATATCT
98054607 GGGATATGGC
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.02
43 90 0.95
44 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATATCTAGGACATTGGCATCGAT
Found at i:98057496 original size:16 final size:16
Alignment explanation
Indices: 98057475--98057506 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
98057465 GTTGTAACGC
98057475 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
98057491 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
98057507 TCTCAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:98059057 original size:29 final size:29
Alignment explanation
Indices: 98058940--98059047 Score: 171
Period size: 29 Copynumber: 3.7 Consensus size: 29
98058930 GTGAGCATGA
*
98058940 ATATAAATTTGATTTGGGCCTAAAGGGTC
1 ATATAAATGTGATTTGGGCCTAAAGGGTC
* *
98058969 ATATAAATGTGATTTGGGCCTACAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGTC
*
98058998 ATATAAATGTGATTTGGGCCTAAAAGGTC
1 ATATAAATGTGATTTGGGCCTAAAGGGTC
*
98059027 ATATAAATGTAATTTGGGCCT
1 ATATAAATGTGATTTGGGCCT
98059048 GAGGGATCAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGTC
Found at i:98063610 original size:28 final size:29
Alignment explanation
Indices: 98063528--98063614 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
98063518 GTAAGCATGA
* *
98063528 ATATAAAAGTGGTTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
98063557 ATATAAATGTGATTTTGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
98063586 ATATAAATGTGATTTGGGCCTAAGGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
98063615 TTGTGAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGCC
Found at i:98066811 original size:16 final size:16
Alignment explanation
Indices: 98066790--98066846 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
98066780 TTTGGTTCGC
*
98066790 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
98066806 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
98066822 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
98066838 TGTAATGGA
1 TGTAATGGA
98066847 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:98067113 original size:18 final size:17
Alignment explanation
Indices: 98067092--98067126 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
98067082 TTATTATTAA
*
98067092 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
98067110 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
98067127 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:98089107 original size:89 final size:89
Alignment explanation
Indices: 98089004--98089182 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
98088994 ATTGAAAAAA
*
98089004 GAAACCAAGGCATTCGGCCATGGCTAGTTCAAAGGAAAGGTATGCATTGTGATTTTATTCTAATT
1 GAAACCAAGGCATTCGGCCATGGATAGTTCAAAGGAAAGGTATGCATTGTGATTTTATTCTAATT
98089069 GATGTTGAGATTAAGTTGATAAGT
66 GATGTTGAGATTAAGTTGATAAGT
98089093 GAAACCAAGGCATTCGGCCATGGATAGTTCAAAGGAAAGGTATGCATTGTGATTTTATTCTAATT
1 GAAACCAAGGCATTCGGCCATGGATAGTTCAAAGGAAAGGTATGCATTGTGATTTTATTCTAATT
98089158 GATGTTGAGATTAAGTTGATAAGT
66 GATGTTGAGATTAAGTTGATAAGT
98089182 G
1 G
98089183 TATAGTCTAG
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (89 bp):
GAAACCAAGGCATTCGGCCATGGATAGTTCAAAGGAAAGGTATGCATTGTGATTTTATTCTAATT
GATGTTGAGATTAAGTTGATAAGT
Found at i:98090114 original size:70 final size:70
Alignment explanation
Indices: 98090001--98090141 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
98089991 TTAATTTATC
98090001 GATTTAGCTCAAGAAGTTAAAGATGGAGAGGCAAGCAAGGGCAAAGGAAAGAACATCGAGTAGCC
1 GATTTAGCTCAAGAAGTTAAAGATGGAGAGGCAAGCAAGGGCAAAGGAAAGAACATCGAGTAGCC
98090066 GAGTT
66 GAGTT
*
98090071 GATTTAGCTCAAGAAGTTAAAGGTGGAGAGGCAAGCAAGGGCAAAGGAAAGAACATCGAGTAGCC
1 GATTTAGCTCAAGAAGTTAAAGATGGAGAGGCAAGCAAGGGCAAAGGAAAGAACATCGAGTAGCC
98090136 GAGTT
66 GAGTT
98090141 G
1 G
98090142 GAATCGTTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.39, C:0.13, G:0.33, T:0.16
Consensus pattern (70 bp):
GATTTAGCTCAAGAAGTTAAAGATGGAGAGGCAAGCAAGGGCAAAGGAAAGAACATCGAGTAGCC
GAGTT
Found at i:98090448 original size:27 final size:28
Alignment explanation
Indices: 98090364--98090461 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
98090354 CATGAGATTG
* * * *
98090364 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
98090393 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
98090421 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
98090448 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
98090462 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:98090472 original size:27 final size:27
Alignment explanation
Indices: 98090392--98090474 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
98090382 TAAATTGTAC
* *
98090392 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
98090420 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
98090447 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
98090474 A
1 A
98090475 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:98090475 original size:29 final size:27
Alignment explanation
Indices: 98090364--98090475 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
98090354 CATGAGATTG
** * *
98090364 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
98090393 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
98090421 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
98090448 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
98090476 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:98094031 original size:50 final size:49
Alignment explanation
Indices: 98093925--98094156 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
98093915 CTGGTACGTA
* *
98093925 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* ** *
98093974 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * ** * * *
98094024 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACG
* * * * *
98094075 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* *
98094124 TAGCAGCCTGCACTTAGTACTACATACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
98094157 TCACAATAGA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 67 0.44
50 49 0.32
51 36 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:98094154 original size:100 final size:101
Alignment explanation
Indices: 98093974--98094154 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 101
98093964 CCGATACACG
* * * *
98093974 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACACGTAGCAGCCTACACTT
98094039 AGTACTACACACGTGATCGAAGTTATTGGGTACGCA
66 AGTACTACACACGTGATCGAAGTTATTGGGTACGCA
* * * * * *
98094075 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATCCGGTACATGTAGCAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACACGTAGCAGCCTACACTT
*
98094139 AGTACTACATACGTGA
66 AGTACTACACACGTGA
98094155 CCTCACAATA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 39 0.57
101 30 0.43
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCTAACAATCCGATACACGTAGCAGCCTACACTT
AGTACTACACACGTGATCGAAGTTATTGGGTACGCA
Found at i:98095601 original size:136 final size:136
Alignment explanation
Indices: 98095357--98095630 Score: 494
Period size: 136 Copynumber: 2.0 Consensus size: 136
98095347 CTATTTAGGC
* * * *
98095357 CCTAAATCAGGCTGTCACAACTCTTCCCCCTTTAGGGATTTTTGTCCCCGAAAATTTTACCAGTA
1 CCTAAATCAAGCTGTCACAACTCTCCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGTA
* *
98095422 AAGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCCTCTTCTACTCCGTG
66 AAGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCATCTTCTACTCCATG
98095487 TCTATG
131 TCTATG
98095493 CCTAAATCAAGCTGTCACAACTCTCCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGTA
1 CCTAAATCAAGCTGTCACAACTCTCCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGTA
98095558 AAGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCATCTTCTACTCCATG
66 AAGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCATCTTCTACTCCATG
98095623 TCTATG
131 TCTATG
98095629 CC
1 CC
98095631 ACAATACTTT
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 132 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (136 bp):
CCTAAATCAAGCTGTCACAACTCTCCCCCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCAGTA
AAGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCATCTTCTACTCCATG
TCTATG
Found at i:98100924 original size:27 final size:27
Alignment explanation
Indices: 98100877--98100982 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 27
98100867 CATTGCTGCC
* * *
98100877 AGAACAGATGA-TGTGACAGAGTCACT
1 AGAACAGATAATTGTGGCAGAGCCACT
*
98100903 AGAACAGATAATTGTGGCAGAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACT
98100930 AGAACAGAT-ATATGTGGCAGAGCCACT
1 AGAACAGATAAT-TGTGGCAGAGCCACT
* * *
98100957 AGATCAGATAAATGTGGCATAGCCAC
1 AGAACAGATAATTGTGGCAGAGCCAC
98100983 CAGGACGCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.17
27 56 0.81
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACT
Found at i:98100958 original size:54 final size:53
Alignment explanation
Indices: 98100875--98100985 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
98100865 AGCATTGCTG
* *
98100875 CCAGAACAGATGATGTGACAGAGTCACTAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATGATGTGACAGAGCCACTAGAACAGATAAATGTGGCAGAGCCA
* * * *
98100928 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-GATGTGACAGAGCCACTAGAACAGATAAATGTGGCAGAGCCA
98100982 CCAG
1 CCAG
98100986 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATGATGTGACAGAGCCACTAGAACAGATAAATGTGGCAGAGCCA
Found at i:98102428 original size:24 final size:24
Alignment explanation
Indices: 98102393--98102493 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
98102383 CCAACACTGT
* * *
98102393 TCTCCCTAATCAGCTCTTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
98102417 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
98102441 TCTCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
98102465 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
98102489 TCTCC
1 TCTCC
98102494 TGATAGACTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.24, C:0.41, G:0.02, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:98111212 original size:29 final size:28
Alignment explanation
Indices: 98111176--98111253 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
98111166 TCATGAGATT
98111176 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
98111206 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
98111233 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
98111254 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:98111473 original size:145 final size:145
Alignment explanation
Indices: 98111231--98111504 Score: 548
Period size: 145 Copynumber: 1.9 Consensus size: 145
98111221 GTTTAAAGTA
98111231 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
98111296 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
98111361 GGCGAACTTGAAATG
131 GGCGAACTTGAAATG
98111376 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
98111441 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
98111505 ACCTTGAGTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 129 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
GGCGAACTTGAAATG
Found at i:98123464 original size:23 final size:22
Alignment explanation
Indices: 98123421--98123472 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
98123411 TTATAAATTT
*
98123421 TTAAAATTTTTAATTTTTTTAA
1 TTAAAATTTTTAATTTATTTAA
98123443 -TAAAATTTTAATAATTTATTTAA
1 TTAAAATTTT--TAATTTATTTAA
98123466 TTAAAAT
1 TTAAAAT
98123473 GATTATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 9 0.35
23 11 0.42
24 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAAATTTTTAATTTATTTAA
Found at i:98124061 original size:55 final size:51
Alignment explanation
Indices: 98123977--98124083 Score: 169
Period size: 55 Copynumber: 2.0 Consensus size: 51
98123967 AATAAATATT
98123977 GCTATTATTCTCTTGTTCTAATTAATCTCATTAATCAGGCCTTGTTTTCAGCAG
1 GCTATTATTCTCTTGTTCTAATTAATCTC---AATCAGGCCTTGTTTTCAGCAG
*
98124031 NGCTATTATTCTCTTGTTTTAATTAATCTCAATCAGGCCTTGTTTTCAGCAG
1 -GCTATTATTCTCTTGTTCTAATTAATCTCAATCAGGCCTTGTTTTCAGCAG
98124083 G
1 G
98124084 AGCTTTGACT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
51 1 0.02
52 22 0.43
55 28 0.55
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.44
Consensus pattern (51 bp):
GCTATTATTCTCTTGTTCTAATTAATCTCAATCAGGCCTTGTTTTCAGCAG
Found at i:98130126 original size:53 final size:53
Alignment explanation
Indices: 98130041--98130149 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
98130031 TCCCAACTGC
98130041 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
1 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
*
98130094 CTCGAAAATCGATAACACAACTCCTCAGCATATCCTCCAGTATCTGAATCATA
1 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
98130147 CTC
1 CTC
98130150 TCAGACTGAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.36, C:0.31, G:0.08, T:0.25
Consensus pattern (53 bp):
CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
Found at i:98133949 original size:50 final size:50
Alignment explanation
Indices: 98133888--98134152 Score: 204
Period size: 48 Copynumber: 5.3 Consensus size: 50
98133878 CATGTCCTGG
*
98133888 ACATGGTCTTACACTGACTCTCATACATCGGTGTCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGACTCTCATACATCGGTGCCGATGCCATGTCCCAA
* * * **
98133938 ACATGGTCTTACACT-AGCTCTCACACATCAGTACTAATGCCATGTCCCAA
1 ACATGGTCTTACACTGA-CTCTCATACATCGGTGCCGATGCCATGTCCCAA
* * * * * *
98133988 ATATGGTCTGACACTGACTCACCTAGCATATTGAG-GCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGACTCTCATA-C--ATCG-GTGCCGATGCCATGTCCCAA
* ** *
98134041 ACATGGTCTTACACTGGCTAGCAT--ATTGAG-GCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGACTCTCATACATCG-GTGCCGATGCCATGTCCCAA
** * * *
98134089 ACATGGTCTTACACT-AGCTCTCATA-A-CAATGTCGATGTCATGTTCCAA
1 ACATGGTCTTACACTGA-CTCTCATACATCGGTGCCGATGCCATGTCCCAA
* *
98134137 ACACGGTCTTATACTG
1 ACATGGTCTTACACTG
98134153 GCTCACACAT
Statistics
Matches: 170, Mismatches: 35, Indels: 21
0.75 0.15 0.09
Matches are distributed among these distances:
48 71 0.42
49 2 0.01
50 60 0.35
51 2 0.01
53 34 0.20
54 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
ACATGGTCTTACACTGACTCTCATACATCGGTGCCGATGCCATGTCCCAA
Found at i:98140723 original size:48 final size:48
Alignment explanation
Indices: 98140578--98141101 Score: 571
Period size: 48 Copynumber: 10.9 Consensus size: 48
98140568 CATACATCGT
* * * *
98140578 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATACATCAG
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA-A-CAA
* * *
98140628 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
** * * * *
98140676 TGTTGTTGCCCTGTTCCAAACATTGTCTTACACTGGCTCAGATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
* *
98140724 TGCCGATACCATATTCCAAACATGGTCTTACACTGGCTCACATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
** ***
98140772 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTGCATATTGA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
* * * * ** *
98140820 GGCCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
** ***
98140868 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTGCATATTGA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
* * * * ** *
98140916 GGCCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
** ***
98140964 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTGCATATTGA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
* * * * ** *
98141012 GGCCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
98141060 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
98141102 CATAACCCTA
Statistics
Matches: 383, Mismatches: 91, Indels: 2
0.80 0.19 0.00
Matches are distributed among these distances:
48 342 0.89
49 1 0.00
50 40 0.10
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAA
Found at i:98140760 original size:96 final size:96
Alignment explanation
Indices: 98140530--98141097 Score: 771
Period size: 96 Copynumber: 5.9 Consensus size: 96
98140520 GGGTAAAATA
** * * ** *
98140530 CCGATGCCATGTCCTGGACATGGTCTGACACTAACTCTCATACATCGTTGCCGATGCCATGTCCC
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATA-A-CAATGCCGATGCCATGTTCC
* * *
98140595 AAACATGGTCTTACACTAGCTCT-CATACATCAGTG
64 AAACATGGTCTTACACTGGCT-TGCATA-TTGAG-G
* * ** * ** * *
98140630 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGTTGTTGCCCTGTTCCAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
* * *** *
98140695 ACATTGTCTTACACTGGCTCAG-ATAACAATG
66 ACATGGTCTTACACTGGCT-TGCATATTGAGG
* * * * * ** *
98140726 CCGATACCATATTCCAAACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
98140791 ACATGGTCTTACACTGGCTTGCATATTGAGG
66 ACATGGTCTTACACTGGCTTGCATATTGAGG
98140822 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
98140887 ACATGGTCTTACACTGGCTTGCATATTGAGG
66 ACATGGTCTTACACTGGCTTGCATATTGAGG
98140918 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
98140983 ACATGGTCTTACACTGGCTTGCATATTGAGG
66 ACATGGTCTTACACTGGCTTGCATATTGAGG
98141014 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
98141079 ACATGGTCTTACACTGGCT
66 ACATGGTCTTACACTGGCT
98141098 CACACATAAC
Statistics
Matches: 423, Mismatches: 43, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
95 1 0.00
96 348 0.82
97 2 0.00
98 36 0.09
99 1 0.00
100 35 0.08
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
ACATGGTCTTACACTGGCTTGCATATTGAGG
Found at i:98141358 original size:28 final size:28
Alignment explanation
Indices: 98141322--98141380 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
98141312 CCATTACGAA
98141322 CATAATACCACAAACATATAATTCAACG
1 CATAATACCACAAACATATAATTCAACG
*
98141350 CATAGTACCACAAACATATAATTCAACG
1 CATAATACCACAAACATATAATTCAACG
98141378 CAT
1 CAT
98141381 CTGAATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.22
Consensus pattern (28 bp):
CATAATACCACAAACATATAATTCAACG
Found at i:98145175 original size:84 final size:84
Alignment explanation
Indices: 98145034--98145201 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
98145024 TGTCACCTTA
98145034 AAAATCATATCTTGAGTTCTAAAACTCGAAAATCAGTTTCGTAATTTTACCCTGAAAACATACTC
1 AAAATCATATCTTGAGTTCTAAAACTCGAAAATCAGTTTCGTAATTTTACCCTGAAAACATACTC
98145099 GTATGTACATCTACATATT
66 GTATGTACATCTACATATT
98145118 AAAATCATATCTTGAGTTCTAAAACTCGAAAATCAGTTTCGTAATTTTACCCTGAAAACATACTC
1 AAAATCATATCTTGAGTTCTAAAACTCGAAAATCAGTTTCGTAATTTTACCCTGAAAACATACTC
98145183 GTATGTACATCTACATATT
66 GTATGTACATCTACATATT
98145202 TTTTTCTAGA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (84 bp):
AAAATCATATCTTGAGTTCTAAAACTCGAAAATCAGTTTCGTAATTTTACCCTGAAAACATACTC
GTATGTACATCTACATATT
Found at i:98147365 original size:18 final size:19
Alignment explanation
Indices: 98147325--98147374 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
98147315 TTACAAAAAG
98147325 TATCGATATCCATATGATTTT
1 TATCGATA-CCATAT-ATTTT
98147346 TATCGATACCATAT-TTTT
1 TATCGATACCATATATTTT
98147364 TATCGATACCA
1 TATCGATACCA
98147375 AAGTTGCTTA
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:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
TATCGATACCATATATTTT
Found at i:98149570 original size:27 final size:27
Alignment explanation
Indices: 98149540--98149663 Score: 196
Period size: 27 Copynumber: 4.6 Consensus size: 27
98149530 ATATTAAGTC
* *
98149540 CGCACACTCT-GTGCTATATAATCAACT
1 CGCACACT-TAGTGCTACATAGTCAACT
98149567 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
98149594 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
98149622 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
98149649 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
98149664 GCACAATTTA
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
26 1 0.01
27 64 0.70
28 27 0.29
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:98149631 original size:55 final size:54
Alignment explanation
Indices: 98149540--98149663 Score: 196
Period size: 55 Copynumber: 2.3 Consensus size: 54
98149530 ATATTAAGTC
*
98149540 CGCACACTCT-GTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACT-TAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
* *
98149594 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAGTCAACT
98149649 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
98149664 GCACAATTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
53 1 0.02
54 19 0.29
55 45 0.69
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:98161810 original size:23 final size:23
Alignment explanation
Indices: 98161779--98161883 Score: 99
Period size: 23 Copynumber: 4.6 Consensus size: 23
98161769 TGAGCTGATG
* *
98161779 AACAATAAGCTCTAATGAGCTGA
1 AACAGTAAGCTCTAATGAGCTAA
98161802 AACAGTAAGCTCT-ATCGAGCT-A
1 AACAGTAAGCTCTAAT-GAGCTAA
* * *
98161824 AATAGTAAGCTC-ATACGAGTTAA
1 AACAGTAAGCTCTA-ATGAGCTAA
* *
98161847 AACGGTAAGCTCCAATGAGCTAAA
1 AACAGTAAGCTCTAATGAGCT-AA
98161871 AACAGTAAGCTCT
1 AACAGTAAGCTCT
98161884 TACAAGCTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
22 18 0.27
23 34 0.52
24 14 0.21
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTAATGAGCTAA
Found at i:98167668 original size:24 final size:24
Alignment explanation
Indices: 98167641--98167688 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
98167631 TAATAAAATC
98167641 AAAATAAAAAGAAAAAGAAAAAGA
1 AAAATAAAAAGAAAAAGAAAAAGA
* * * *
98167665 AAAATAGAGATAAAAATAAAAAGA
1 AAAATAAAAAGAAAAAGAAAAAGA
98167689 TAGAAAGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (24 bp):
AAAATAAAAAGAAAAAGAAAAAGA
Found at i:98167683 original size:6 final size:6
Alignment explanation
Indices: 98167635--98167686 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
98167625 TGAAAATAAT
* * * * * *
98167635 AAAATC AAAATA AAAAGA AAAAGA AAAAGA AAAATA GAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
98167683 AAAA
1 AAAA
98167687 GATAGAAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:98168538 original size:13 final size:13
Alignment explanation
Indices: 98168520--98168545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98168510 AAAGTCCTAG
98168520 AGCGGTTCCAAAC
1 AGCGGTTCCAAAC
98168533 AGCGGTTCCAAAC
1 AGCGGTTCCAAAC
98168546 TCTGGGACAT
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:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
AGCGGTTCCAAAC
Found at i:98174294 original size:40 final size:40
Alignment explanation
Indices: 98174250--98174511 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
98174240 GCTCCTCGTT
* *
98174250 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
98174290 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
98174330 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
98174369 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
98174408 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
98174447 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
98174488 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98174512 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:98181632 original size:100 final size:100
Alignment explanation
Indices: 98181517--98181716 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
98181507 TTTCCAAATC
98181517 TACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATGGTTTCCATGA
1 TACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATGGTTTCCATGA
98181582 TTCAACTAGCCCTTTTTGCATAAATAGCACAATTT
66 TTCAACTAGCCCTTTTTGCATAAATAGCACAATTT
98181617 TACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATGGTTTCCATGA
1 TACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATGGTTTCCATGA
98181682 TTCAACTAGCCCTTTTTGCATAAATAGCACAATTT
66 TTCAACTAGCCCTTTTTGCATAAATAGCACAATTT
98181717 ATGAAAGTGA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (100 bp):
TACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATGGTTTCCATGA
TTCAACTAGCCCTTTTTGCATAAATAGCACAATTT
Found at i:98182461 original size:79 final size:81
Alignment explanation
Indices: 98182359--98182542 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
98182349 GCTCCTCGTT
* *
98182359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
98182421 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
98182439 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
98182503 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
98182519 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98182543 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:98182476 original size:39 final size:41
Alignment explanation
Indices: 98182359--98182542 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
98182349 GCTCCTCGTT
* *
98182359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
98182399 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
98182439 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
98182478 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
98182519 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98182543 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:98182851 original size:73 final size:73
Alignment explanation
Indices: 98182732--98182879 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
98182722 CTTTTACTCA
*
98182732 AGAACTTACCTCGGGTGTTGTCGAATGATTCCGATAGCTATTCGACCACTTTTTCCCTCCCTTTA
1 AGAACTTACCTCGGGTGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCCTCCCTTTA
98182797 TCGGATTT
66 TCGGATTT
*
98182805 AGAACTTACCTCGGGTGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCTTCCCTTTA
1 AGAACTTACCTCGGGTGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCCTCCCTTTA
98182870 TCGGATTT
66 TCGGATTT
98182878 AG
1 AG
98182880 TTCCCCTTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (73 bp):
AGAACTTACCTCGGGTGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCCTCCCTTTA
TCGGATTT
Found at i:98184439 original size:93 final size:93
Alignment explanation
Indices: 98184327--98184497 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
98184317 GCCCATAAGT
* *
98184327 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98184392 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
98184420 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
98184485 CGAGTTCGGATGC
66 CGAGTTCGGATGC
98184498 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:98184494 original size:46 final size:46
Alignment explanation
Indices: 98184319--98184494 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
98184309 TGTAACCCGC
* * *
98184319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
98184365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
98184415 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
98184458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
98184495 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:98188717 original size:205 final size:206
Alignment explanation
Indices: 98187997--98188980 Score: 1519
Period size: 206 Copynumber: 4.8 Consensus size: 206
98187987 TTCTATCTGC
* * * * * *
98187997 TCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAGCAAGTGAAAACCAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
*
98188062 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
* * *
98188127 CAGTGAAATTATCTGAAGATGAGATCTACCATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAAA
131 CAGTGAAATTATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
98188192 CTTCGATTTGT
196 CTTCGATTTGT
*
98188203 TCTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* *
98188268 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATATTGCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
98188333 CAGTGAAATTATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
131 CAGTGAAATTATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
* * *
98188398 ATGCGATTTAT
196 CTTCGATTTGT
*
98188409 TCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* *
98188474 ATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAGATCATCTTGGATCTTGCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
*
98188539 CAGTGAAATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGAGAT-CCAGA
131 CAGTGAAATTATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
98188603 CTTCGATTTGT
196 CTTCGATTTGT
* *
98188614 TCTCAGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* * * * *
98188679 ATCAACTATGTCTTCGATTCGTTCCTTATAAGCACAAGGATGCCAAATCATCTCGGATC-TCCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
* ** * * * *
98188743 TAGT-ATAAACATCTGAAAGTGAGATCTGCTATGTATCTGCTCCCCGTCAAAGTAGAGATGCCAG
131 CAGTGA-AATTATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAG
*
98188807 ACTTTGATTTGT
195 ACTTCGATTTGT
*
98188819 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCTAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* *** * *
98188884 ATTAGCTATGTCTTCGATTCACTCCTTGTAAGCACAAGGATGCCAAATCCTCTTGGATC-TCCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
**
98188948 CAGT-ATAAACATCTGAAGGTGAGATCTACTATG
131 CAGTGA-AATTATCTGAAGGTGAGATCTACTATG
98188981 CTACGGCCTA
Statistics
Matches: 722, Mismatches: 54, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
203 1 0.00
204 55 0.08
205 294 0.41
206 372 0.52
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (206 bp):
TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
CAGTGAAATTATCTGAAGGTGAGATCTACTATGTATCTGCTCCCCGTCGAAGTGGAGATGCCAGA
CTTCGATTTGT
Found at i:98200677 original size:20 final size:21
Alignment explanation
Indices: 98200630--98200678 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
98200620 ATAGATATAT
***
98200630 ATATATATAAAAATAAATGTG
1 ATATATATAAAAATAAATAAC
98200651 ATAATATATAAAAA-AAATAAC
1 AT-ATATATAAAAATAAATAAC
98200672 ATATATA
1 ATATATA
98200679 CATCAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
ATATATATAAAAATAAATAAC
Found at i:98206963 original size:14 final size:14
Alignment explanation
Indices: 98206946--98206974 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
98206936 AATATTTCAA
98206946 AGTTAAATTTAGTT
1 AGTTAAATTTAGTT
98206960 AGTTAAATTTAGTT
1 AGTTAAATTTAGTT
98206974 A
1 A
98206975 TTTTCTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
AGTTAAATTTAGTT
Found at i:98211174 original size:42 final size:42
Alignment explanation
Indices: 98211124--98211243 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 42
98211114 ATGATATCAA
*
98211124 ATATCGATGCCACTATCCCAAACAGGGTCTTACAC-TAA-ATC
1 ATATCGATGCCA-TATCCCAAACATGGTCTTACACATAATATC
* * * *
98211165 ATATACGATGCCAATGTCCTAGACATGGTCTTACACATAATCTC
1 ATAT-CGATGCC-ATATCCCAAACATGGTCTTACACATAATATC
* * *
98211209 AAATCAATGCCAAAGTCCCAAACATGGTCTTACAC
1 ATATCGATGCCATA-TCCCAAACATGGTCTTACAC
98211244 GATATCACAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
41 4 0.06
42 26 0.41
43 28 0.44
44 5 0.08
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCATATCCCAAACATGGTCTTACACATAATATC
Found at i:98211234 original size:43 final size:42
Alignment explanation
Indices: 98211139--98211243 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
98211129 GATGCCACTA
* * * *
98211139 TCCCAAACAGGGTCTTACACTAAATCATATACGATGCCAATG
1 TCCCAAACATGGTCTTACACTAAATCAAATACAATGCCAAAG
* * *
98211181 TCCTAGACATGGTCTTACACATAATCTCAAAT-CAATGCCAAAG
1 TCCCAAACATGGTCTTACAC-TAA-ATCAAATACAATGCCAAAG
98211224 TCCCAAACATGGTCTTACAC
1 TCCCAAACATGGTCTTACAC
98211244 GATATCACAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 17 0.33
43 30 0.58
44 5 0.10
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (42 bp):
TCCCAAACATGGTCTTACACTAAATCAAATACAATGCCAAAG
Found at i:98214285 original size:54 final size:53
Alignment explanation
Indices: 98214203--98214360 Score: 178
Period size: 54 Copynumber: 3.0 Consensus size: 53
98214193 GGACTATGAC
* *
98214203 AACAAGTGATAAGCAATATT-CGTATAAGACCATAGCTGGGCTATGGCATCGGAA
1 AACAAGTGATAAG-TAT-TTCCGTATAAGACCATAGCTGGGATATGGCATCGGAA
* * *
98214257 AACAAGTGATAAGTGATTTCCGTATAAGACCATAGCTGGGTTATGACATCGGAG
1 AACAAGTGATAAGT-ATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGAA
* * * *
98214311 AA-AAGTGATAAATACTTCCGTGTAAGACCATA-TTCGGGATATGGCATCGG
1 AACAAGTGATAAGTATTTCCGTATAAGACCATAGCT-GGGATATGGCATCGG
98214361 TATGATATAT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
51 1 0.01
52 30 0.33
53 12 0.13
54 48 0.53
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (53 bp):
AACAAGTGATAAGTATTTCCGTATAAGACCATAGCTGGGATATGGCATCGGAA
Found at i:98214626 original size:16 final size:16
Alignment explanation
Indices: 98214604--98214641 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
98214594 GGAGAAATTA
98214604 ATGAATTATATATGAT
1 ATGAATTATATATGAT
*
98214620 GTGAATTATATATGAT
1 ATGAATTATATATGAT
98214636 ATGAAT
1 ATGAAT
98214642 GTTGCACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
ATGAATTATATATGAT
Found at i:98252160 original size:37 final size:37
Alignment explanation
Indices: 98252060--98252162 Score: 107
Period size: 37 Copynumber: 2.7 Consensus size: 37
98252050 GACGACGAGT
* *
98252060 TGATGAGACACTGGGTGTCAATTTACTACTTCAGATTAAT
1 TGATGAGACATTGGGTGTCAA-TT--TACTTCAGATTAAG
* * * * *
98252100 TCGATAAGGCATTGGGTGCCAATTTACTTCAGTTTAGG
1 T-GATGAGACATTGGGTGTCAATTTACTTCAGATTAAG
98252138 TGATGAGACATTGGGTGTCAATTTA
1 TGATGAGACATTGGGTGTCAATTTA
98252163 TTACTTTGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
37 21 0.40
38 12 0.23
40 3 0.06
41 16 0.31
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (37 bp):
TGATGAGACATTGGGTGTCAATTTACTTCAGATTAAG
Found at i:98263148 original size:31 final size:31
Alignment explanation
Indices: 98263113--98263172 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
98263103 ATGACCAAAA
98263113 TGCAAATATATAGAATATATGAGTAATATGT
1 TGCAAATATATAGAATATATGAGTAATATGT
*
98263144 TGCAAATATATAGAATATATGAGTTATAT
1 TGCAAATATATAGAATATATGAGTAATAT
98263173 ACTCATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (31 bp):
TGCAAATATATAGAATATATGAGTAATATGT
Found at i:98265486 original size:48 final size:48
Alignment explanation
Indices: 98265385--98265489 Score: 140
Period size: 48 Copynumber: 2.2 Consensus size: 48
98265375 CCATGCCTAT
* * * * *
98265385 TATTTTTGTAACAAAATTTGATTCACATGTTAAGCATGCCCAATGTAC
1 TATTTTTGTAACAAAATCTGATTCACATGATAAACATGCCCAATGAAA
*
98265433 TATTTTTGTAACAAAATCTGA-TCACATGATAAACATGCCCACTGAAA
1 TATTTTTGTAACAAAATCTGATTCACATGATAAACATGCCCAATGAAA
98265480 TAATTTTTGT
1 T-ATTTTTGT
98265490 TTCTATATGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
47 22 0.44
48 28 0.56
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (48 bp):
TATTTTTGTAACAAAATCTGATTCACATGATAAACATGCCCAATGAAA
Found at i:98276141 original size:21 final size:20
Alignment explanation
Indices: 98276096--98276141 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
98276086 TTGTTGGAAT
98276096 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
98276115 GATTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
98276136 GGTTGA
1 GGTTGA
98276142 TAGCAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:98283786 original size:25 final size:24
Alignment explanation
Indices: 98283728--98283800 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
98283718 TTTTTTTCTC
* *
98283728 TTAA-ATTTTAAATTTTATTTAATCA
1 TTAATATTTT-AA-TTTATTAAATTA
*
98283753 TTTAT-TTTTCAATTTATTAAATTA
1 TTAATATTTT-AATTTATTAAATTA
*
98283777 TTAATATTTTATATTAATTAAATT
1 TTAATATTTTA-ATTTATTAAATT
98283801 TTTGAGAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (24 bp):
TTAATATTTTAATTTATTAAATTA
Found at i:98285710 original size:40 final size:40
Alignment explanation
Indices: 98285659--98285930 Score: 431
Period size: 40 Copynumber: 6.8 Consensus size: 40
98285649 GGATATAGCT
* * *
98285659 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG-AACTAGTC
* * * *
98285699 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTGA-TAGTA
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG-AACTAGTC
* *
98285739 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
98285779 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
98285819 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
98285859 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
98285899 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
98285931 TTATCATCCN
Statistics
Matches: 224, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 1 0.00
40 223 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (40 bp):
ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
Found at i:98291142 original size:16 final size:16
Alignment explanation
Indices: 98291123--98291153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98291113 CTTCTTCACT
98291123 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
98291139 TACTTACTTACTTAA
1 TACTCACTTACTTAA
98291154 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:98291159 original size:20 final size:20
Alignment explanation
Indices: 98291120--98291159 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
98291110 AAACTTCTTC
* *
98291120 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
98291140 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
98291160 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:98291535 original size:55 final size:53
Alignment explanation
Indices: 98291392--98291599 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
98291382 ATCCTTTTGA
* *
98291392 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * *
98291445 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
98291499 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
98291553 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
98291600 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 9 0.07
55 71 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:98291544 original size:108 final size:110
Alignment explanation
Indices: 98291392--98291592 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
98291382 ATCCTTTTGA
* *
98291392 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
98291455 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
98291500 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
98291565 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
98291593 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:98306874 original size:30 final size:30
Alignment explanation
Indices: 98306839--98306896 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
98306829 CACAGCCATG
*
98306839 ACACACGGGCTTGTGG-TCTACCCATGTGTC
1 ACACACGGGCGTGTGGATC-ACCCATGTGTC
98306869 ACACACGGGCGTGTGGATCACCCATGTG
1 ACACACGGGCGTGTGGATCACCCATGTG
98306897 GAAGTGCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGGATCACCCATGTGTC
Found at i:98324122 original size:8 final size:8
Alignment explanation
Indices: 98324109--98324135 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
98324099 TTATGAAGGA
98324109 TAAGGGAT
1 TAAGGGAT
98324117 TAAGGGAT
1 TAAGGGAT
98324125 TAAGGGAT
1 TAAGGGAT
98324133 TAA
1 TAA
98324136 TGCATGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (8 bp):
TAAGGGAT
Found at i:98325487 original size:22 final size:22
Alignment explanation
Indices: 98325459--98325500 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
98325449 TTGAGCTTGT
98325459 AGAAATACAAGTGATTGGTTGC
1 AGAAATACAAGTGATTGGTTGC
98325481 AGAAATACAAGTGATTGGTT
1 AGAAATACAAGTGATTGGTT
98325501 AGGAGCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (22 bp):
AGAAATACAAGTGATTGGTTGC
Found at i:98329004 original size:15 final size:17
Alignment explanation
Indices: 98328974--98329006 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
98328964 GAAAACATCT
98328974 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
98328991 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
98329006 C
1 C
98329007 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:98344581 original size:25 final size:25
Alignment explanation
Indices: 98344550--98344607 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
98344540 ATGTATCCAA
98344550 CATGATGCAAAGATTCCTTTCGATC
1 CATGATGCAAAGATTCCTTTCGATC
98344575 CATGATGCAAAGATTCCTTTCGATC
1 CATGATGCAAAGATTCCTTTCGATC
98344600 CATGATGC
1 CATGATGC
98344608 GGTCGTTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (25 bp):
CATGATGCAAAGATTCCTTTCGATC
Found at i:98345605 original size:10 final size:10
Alignment explanation
Indices: 98345587--98345645 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
98345577 GAAATTCTAG
98345587 AAGATAAATA
1 AAGATAAATA
98345597 CAA-ATAAATA
1 -AAGATAAATA
*
98345607 AAGATAATTA
1 AAGATAAATA
98345617 AAGATAAATA
1 AAGATAAATA
98345627 AAGATAAATGA
1 AAGATAAAT-A
98345638 AA-ATAAAT
1 AAGATAAAT
98345646 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAGATAAATA
Found at i:98346454 original size:96 final size:97
Alignment explanation
Indices: 98346289--98346470 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 97
98346279 ATTTTATTTA
* * *
98346289 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCAA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCAA
*
98346354 CCCCGGTTATTCAACCCAACATACCCCTAATT
66 CCCCGGTTACTCAACCCAACATACCCCTAATT
* * * *
98346386 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACGTGGAGAGAGGTGACAGCCGAGCACCTC-
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACC-CA
*
98346449 ACCCCGGTTACTCAGCCCAACA
65 ACCCCGGTTACTCAACCCAACA
98346471 CATTCTTAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
96 65 0.87
97 10 0.13
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCAA
CCCCGGTTACTCAACCCAACATACCCCTAATT
Found at i:98347226 original size:28 final size:26
Alignment explanation
Indices: 98347195--98347260 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 26
98347185 TTAATATCTG
98347195 AAAATAATAAATAATAAAATAATAAGA-A
1 AAAATAA-AAATAATAAAATAA-AA-ACA
98347223 AAAATAAACTAA-AATAAAATAAAAACA
1 AAAATAAA--AATAATAAAATAAAAACA
98347250 AAAATAAAAAT
1 AAAATAAAAAT
98347261 TGGGTTACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
25 2 0.06
26 1 0.03
27 12 0.35
28 17 0.50
29 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAATAAAAATAATAAAATAAAAACA
Found at i:98353691 original size:10 final size:10
Alignment explanation
Indices: 98353672--98353721 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
98353662 TGAAATTCTA
98353672 AAAGATAAAT
1 AAAGATAAAT
98353682 ACAA-ATAAAT
1 A-AAGATAAAT
98353692 AAAGATAAAT
1 AAAGATAAAT
98353702 AAAGATAAAT
1 AAAGATAAAT
98353712 GAAA-ATAAAT
1 -AAAGATAAAT
98353722 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:98358177 original size:31 final size:31
Alignment explanation
Indices: 98358139--98358217 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
98358129 TACAATGTAC
98358139 AAGGTATGAAAATGCAAATGT-GATCGATTAT
1 AAGGTATGAAAATGCAAATGTAGAT-GATTAT
* * *
98358170 AAGGTATG-ATAGGTAAATGTAGATGATTAT
1 AAGGTATGAAAATGCAAATGTAGATGATTAT
98358200 AAGGTAT-AATAATGCAAA
1 AAGGTATGAA-AATGCAAA
98358218 CACGATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 23 0.59
31 16 0.41
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (31 bp):
AAGGTATGAAAATGCAAATGTAGATGATTAT
Found at i:98361466 original size:5 final size:5
Alignment explanation
Indices: 98361458--98361500 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
98361448 ATAAAAGAAT
98361458 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
98361501 ATTTAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:98362443 original size:16 final size:18
Alignment explanation
Indices: 98362420--98362454 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
98362410 AAATAAAATA
*
98362420 TAAAAAATTAATT-TTAT
1 TAAAAATTTAATTGTTAT
98362437 TAAAAATTTAATTGTTAT
1 TAAAAATTTAATTGTTAT
98362455 AACGAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAAAAATTTAATTGTTAT
Found at i:98375063 original size:100 final size:100
Alignment explanation
Indices: 98374949--98375136 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
98374939 GAAGCTATCT
* * *
98374949 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACATGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
*
98375014 TGCACTTAGTACTACACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
98375049 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
*
98375114 TGCACTTAGTGCTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
98375137 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:98375074 original size:51 final size:49
Alignment explanation
Indices: 98374944--98375138 Score: 255
Period size: 49 Copynumber: 3.9 Consensus size: 49
98374934 TAGCTGAAGC
*
98374944 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* ** *
98374993 AATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * * * *
98375044 TTTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * *
98375093 TATCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
98375139 TCACAATAGT
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.66
50 2 0.02
51 39 0.32
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:98377152 original size:30 final size:30
Alignment explanation
Indices: 98377116--98377210 Score: 181
Period size: 30 Copynumber: 3.2 Consensus size: 30
98377106 CCATGAATTA
98377116 GATCCAATCTGAAATTCAACATCAGAAGTC
1 GATCCAATCTGAAATTCAACATCAGAAGTC
98377146 GATCCAATCTGAAATTCAACATCAGAAGTC
1 GATCCAATCTGAAATTCAACATCAGAAGTC
*
98377176 GATCCAATCTAAAATTCAACATCAGAAGTC
1 GATCCAATCTGAAATTCAACATCAGAAGTC
98377206 GATCC
1 GATCC
98377211 TCACTGTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (30 bp):
GATCCAATCTGAAATTCAACATCAGAAGTC
Found at i:98377711 original size:15 final size:15
Alignment explanation
Indices: 98377664--98377719 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
98377654 CAAGAAAACT
98377664 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
98377679 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
98377694 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
98377709 GAATAAAGAAA
1 GAATAAAGAAA
98377720 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 3 0.09
15 29 0.83
16 3 0.09
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:98385317 original size:79 final size:82
Alignment explanation
Indices: 98385206--98385390 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
98385196 GCTACTCGTT
* *
98385206 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
98385269 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
98385286 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
98385349 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
98385366 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98385391 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:98385390 original size:40 final size:40
Alignment explanation
Indices: 98385187--98385390 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
98385177 CGGAATTTAA
** *
98385187 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
98385227 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
98385267 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
98385306 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
98385346 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
98385386 CCGGA
1 CCGGA
98385391 CATCATTCAA
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:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:98386990 original size:33 final size:33
Alignment explanation
Indices: 98386946--98387011 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
98386936 TCGGTTTAGC
*
98386946 GGTCCCGAAACCACTTCCCGACTAGGGTCAATT
1 GGTCCCAAAACCACTTCCCGACTAGGGTCAATT
98386979 GGTCCCAAAACCACTTCCCGACTAGGGTCAATT
1 GGTCCCAAAACCACTTCCCGACTAGGGTCAATT
98387012 TTGGGCTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (33 bp):
GGTCCCAAAACCACTTCCCGACTAGGGTCAATT
Found at i:98405335 original size:27 final size:27
Alignment explanation
Indices: 98405298--98405554 Score: 442
Period size: 27 Copynumber: 9.4 Consensus size: 27
98405288 TAAATTGTGC
* *
98405298 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
98405325 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
98405353 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
98405380 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
98405407 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
98405434 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
98405461 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
98405488 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
98405516 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
98405543 AGCACTGAGTGT
1 AGCACTAAGTGT
98405555 ACGGACTTAA
Statistics
Matches: 223, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
27 171 0.77
28 52 0.23
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:98413605 original size:39 final size:40
Alignment explanation
Indices: 98413510--98413732 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
98413500 TTGAATGATG
*
98413510 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
98413548 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
98413589 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
98413628 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
98413667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
98413706 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
98413733 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:98413696 original size:79 final size:81
Alignment explanation
Indices: 98413510--98413732 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
98413500 TTGAATGATG
* * *
98413510 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
98413571 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
98413589 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
98413651 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
98413667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
98413731 TG
66 TG
98413733 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:98413754 original size:79 final size:79
Alignment explanation
Indices: 98413510--98413765 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
98413500 TTGAATGATG
* * * *
98413510 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
98413571 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
98413589 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
98413653 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
98413667 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
98413731 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
98413747 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
98413766 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:98419267 original size:42 final size:44
Alignment explanation
Indices: 98419158--98419277 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 44
98419148 TATTTGATTT
* * *
98419158 TCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCA
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
** * * * *
98419202 TTGATCTGTTTCCCTACTACTTAGGGGTTT-A-GATCTGTAAAC-
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCT-TGTAAACA
98419244 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
98419278 TTTGAAAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
42 27 0.46
43 7 0.12
44 25 0.42
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (44 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAACA
Done.