Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 164 of 335
Found at i:48295625 original size:83 final size:82
Alignment explanation
Indices: 48295502--48295726 Score: 336
Period size: 83 Copynumber: 2.8 Consensus size: 82
48295492 AACCCAAGTA
* * *
48295502 CCTTCGGGATTTAG-CCGGATATAGCAA-T-TCACACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
48295564 AGTCACTAGCACAAATG
66 AGTCACTAGCACAAATG
* *
48295581 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGCAACTA-TCGCACAAATGCCTTCGGGACTTAGCCCGGATA
48295646 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
*
48295664 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA--GCACAAATGCCATCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTATCGCACAAATGCCTTCGGGACTTAGCCCGGATA
48295726 T
65 T
48295727 CATCCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 13 0.10
80 42 0.32
81 1 0.01
83 76 0.57
84 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:48303066 original size:40 final size:39
Alignment explanation
Indices: 48303021--48303150 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
48303011 CGGAATATAA
48303021 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
48303061 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48303101 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
48303141 CCGGATATAA
1 CCGGATATAA
48303151 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48303165 original size:40 final size:40
Alignment explanation
Indices: 48303037--48303188 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
48303027 ATAACCATGT
* * *
48303037 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
48303077 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48303117 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
48303157 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
48303189 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:48303171 original size:80 final size:80
Alignment explanation
Indices: 48303037--48303186 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
48303027 ATAACCATGT
*
48303037 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
48303101 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
48303117 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
48303180 CCCGGAT
64 CCCGGAT
48303187 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:48306885 original size:40 final size:40
Alignment explanation
Indices: 48306805--48307035 Score: 317
Period size: 40 Copynumber: 5.7 Consensus size: 40
48306795 CTTCCAAACC
* * * *
48306805 CAAATACCTTCGGGATTTAG-CCGGATATAG-CAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCA
*
48306844 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
48306884 CAAATGCCTTCGGGACTTAGCCCAGG-TATAG-CAACTACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTC-ACTA---GCA
*
48306927 CAAATGCCTTCGGGACTTCGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
48306967 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
*
48307007 CAAATGCCATCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
48307036 CATCCGAATA
Statistics
Matches: 174, Mismatches: 9, Indels: 17
0.87 0.05 0.09
Matches are distributed among these distances:
39 18 0.10
40 116 0.67
41 3 0.02
42 2 0.01
43 34 0.20
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
Found at i:48306936 original size:83 final size:82
Alignment explanation
Indices: 48306805--48307035 Score: 341
Period size: 83 Copynumber: 2.9 Consensus size: 82
48306795 CTTCCAAACC
* * *
48306805 CAAATACCTTCGGGATTTAG-CCGGATATAGCAA-T-TCGCACAAATGCCTTCGGGTCTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACTTAGCCC
48306867 GGATATAGTCACTAGCA
66 GGATATAGTCACTAGCA
*
48306884 CAAATGCCTTCGGGACTTAGCCCAGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGC
1 CAAATGCCTTCGGGACTTAGCCC-GGATATAGCAACTA-TCGCACAAATGCCTTCGGGACTTAGC
48306948 CCGGATATAGTCACTAGCA
64 CCGGATATAGTCACTAGCA
*
48306967 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA--GCACAAATGCCATCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-CAACTATCGCACAAATGCCTTCGGGACTTAGCC
48307029 CGGATAT
65 CGGATAT
48307036 CATCCGAATA
Statistics
Matches: 139, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
79 18 0.13
80 40 0.29
81 3 0.02
82 2 0.01
83 75 0.54
84 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTATCGCACAAATGCCTTCGGGACTTAGCCC
GGATATAGTCACTAGCA
Found at i:48311214 original size:4 final size:4
Alignment explanation
Indices: 48311195--48311232 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
48311185 AGAAAAATAA
* *
48311195 AAAT AAA- AACT AAAT AAAT AAAT AAAT AAAC AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
48311233 AGTTTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 27 0.93
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:48311296 original size:3 final size:3
Alignment explanation
Indices: 48311290--48311324 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
48311280 AATTAAAAGG
* *
48311290 ATA ATA ATA AGA ATA ATA ATA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48311325 CTAAGCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:48312953 original size:44 final size:44
Alignment explanation
Indices: 48312888--48313409 Score: 298
Period size: 44 Copynumber: 11.5 Consensus size: 44
48312878 AATCCCGCCT
* * ** *
48312888 ACTGCAACTTCAGAGG-TATAGGATTTGTCCCTTGAATCTGCTCC
1 ACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCTGCTCC
* *
48312932 ACTGCAACTTTAGGGAGATAGGATTTGTAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * *
48312976 ACTGCAACTTCAGGGAGATAAGATTGGTTATCTTCGATCTGCT-C
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCC
* * * * * ** ** * * *
48313020 ACTGTAATTTTAGAGAGATAAGACTCATAATTTCAACCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * *
48313064 ACTGCAACTTCAGAGAGATAAGGTTTATAGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * **
48313108 ACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCC
* * *
48313153 ACTGCAACTTCAGGGAGATAAGATTTTTAAC-TCATAGCTTTGATCAGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCA-A--TCTG--C---TCC
* * ** * * *
48313204 ACTGTAACTTCAGGGAAATAAGATTCACTATCTTCAGTTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-TGTAGCTTCAATCTGCTCC
* *
48313249 ACTGCAACTTCAGGGAGATAAGACTTGCTATCTTGTAGCTTCAATCTACTCT
1 ACTGCAACTTCAGGGAGAT-A-A---G--AT-TTGTAGCTTCAATCTGCTCC
* * * * *
48313301 ACTGCAACTTCAGAGAGAT-AGAATTT-TCCATCTTCGATCTACCCC
1 ACTGCAACTTCAGGGAGATAAG-ATTTGT--AGCTTCAATCTGCTCC
* * * * * * *
48313346 ACTGCAACTTCAAGAAGATAAGATCTATAACTTCAATATGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
*
48313390 ATTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATA
48313410 CTTGCCACAA
Statistics
Matches: 369, Mismatches: 83, Indels: 52
0.73 0.16 0.10
Matches are distributed among these distances:
43 16 0.04
44 170 0.46
45 103 0.28
46 7 0.02
47 1 0.00
48 1 0.00
49 1 0.00
50 5 0.01
51 26 0.07
52 35 0.09
53 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
Found at i:48313280 original size:45 final size:44
Alignment explanation
Indices: 48313201--48313409 Score: 118
Period size: 45 Copynumber: 4.5 Consensus size: 44
48313191 TTTGATCAGT
* * * * *
48313201 TCCACTGTAACTTCAGGGAAATAAGATTCACTATCTTCAGTTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGC
*
48313246 TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTGTAGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGCTA-----T--CTTCAATCTGC
* * * * * *
48313298 TCTACTGCAACTTCAGAGAGAT-AGAATTTTCCATCTTCGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAG-A-TTGCTATCTTCAATCTGC
* * * * *
48313343 CCCACTGCAACTTCAAGAAGATAAGA-T-CTATAACTTCAATATGT
1 TCCACTGCAACTTCAGGGAGATAAGATTGCTAT--CTTCAATCTGC
*
48313387 TCCATTGCAACTTCAGGGAGATA
1 TCCACTGCAACTTCAGGGAGATA
48313410 CTTGCCACAA
Statistics
Matches: 126, Mismatches: 26, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
42 3 0.02
43 1 0.01
44 26 0.21
45 55 0.44
46 4 0.03
47 1 0.01
50 1 0.01
51 2 0.02
52 33 0.26
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAATCTGC
Found at i:48317884 original size:40 final size:40
Alignment explanation
Indices: 48317829--48318053 Score: 312
Period size: 40 Copynumber: 5.6 Consensus size: 40
48317819 TATTCGGATG
*
48317829 ATATCCGGGCTAAGTCCCGATGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
48317869 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
48317909 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
48317952 ATACCCGGGCTAAGTCCCGAAAGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
48317992 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACT
*
48318032 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
48318054 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 16 0.10
40 112 0.67
41 3 0.02
43 34 0.20
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:48317981 original size:83 final size:82
Alignment explanation
Indices: 48317829--48318051 Score: 332
Period size: 83 Copynumber: 2.8 Consensus size: 82
48317819 TATTCGGATG
* *
48317829 ATATCCGGGCTAAGTCCCGATGGCATTTGTGC--TAG-TGACTATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATAGTTG-CTATATCCGGGCTAAGTCCCGAAA
48317891 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* *
48317909 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-TAGTTGCTATATCCGGGCTAAGTCCCGAAA
48317974 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* *
48317992 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-A-TTGCTATATCC-GGCTAAATCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATAGTTGCTATATCCGGGCTAAGTCCCGAA
48318052 GGTACTTGGG
Statistics
Matches: 131, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 13 0.10
80 40 0.31
81 1 0.01
83 75 0.57
84 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (82 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATAGTTGCTATATCCGGGCTAAGTCCCGAAAG
CATTTGTGCTAGTGACT
Found at i:48319958 original size:3 final size:3
Alignment explanation
Indices: 48319952--48319986 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
48319942 AATTAAAAGG
* *
48319952 ATA ATA ATA AGA ATA ATA ATA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48319987 CTAAGCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:48321820 original size:45 final size:45
Alignment explanation
Indices: 48321547--48322068 Score: 317
Period size: 44 Copynumber: 11.4 Consensus size: 45
48321537 AATCCCACCT
* * ** *
48321547 ACTGCAACTTCAGAGG-TATAGGATTTG-TCCCTTGAATCTGCTCC
1 ACTGCAACTTCAG-GGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * *
48321591 ACTGCAACTTTAGGGAGATAGGATTTG-TAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * *
48321635 ACTGCAACTTCAGGGAGATAAGATTGGTTATCTTCGATCTGCT-C
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * * * * * * *
48321679 ACTGTAATTTTAGAGAGATAAGA-CT-CATAAT-TTCAACCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGC-T-ATCTTCAATCTGCTCC
* * * * *
48321723 ACTGCAACTTCAGAGAGATAAGGTTT-ATAGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * **
48321767 ACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * ** *
48321812 ACTGCAACTTCAGGGAGATAAGATTTTTAACTCGTAGCTTTGATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGA--TTT---GC-TATCTTCAATCTGCTCC
* ** * *
48321863 ACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAGTTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
* * *
48321908 ACTGCAACTTCAGGGAGATAAGACTTGCTATCTTGTAGCTTCAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGCTA-----T--CTTCAATCTGCTCC
* * * * * * *
48321960 ACTGCAACTTCAGAGAGA-CAGAATTTTCCATCTTCGATCTACCCC
1 ACTGCAACTTCAGGGAGATAAG-ATTTGCTATCTTCAATCTGCTCC
* * * * * * *
48322005 ACTGCAACTTCAAGAAGATAAGATCT-ATAACTTCAATATGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
*
48322049 ATTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATA
48322069 CTTGCCACAA
Statistics
Matches: 368, Mismatches: 87, Indels: 46
0.73 0.17 0.09
Matches are distributed among these distances:
43 12 0.03
44 162 0.44
45 114 0.31
46 3 0.01
47 4 0.01
49 2 0.01
50 2 0.01
51 37 0.10
52 32 0.09
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCC
Found at i:48329534 original size:22 final size:22
Alignment explanation
Indices: 48329509--48329552 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48329499 TTTAGTTAAT
48329509 TATGCAATATTCCAATTTTGCC
1 TATGCAATATTCCAATTTTGCC
48329531 TATGCAATATTCCAATTTTGCC
1 TATGCAATATTCCAATTTTGCC
48329553 CTTAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (22 bp):
TATGCAATATTCCAATTTTGCC
Found at i:48331193 original size:5 final size:5
Alignment explanation
Indices: 48331183--48331208 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48331173 CCCCTAAAAT
48331183 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
48331209 CAAAATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:48344199 original size:87 final size:85
Alignment explanation
Indices: 48343810--48344292 Score: 344
Period size: 87 Copynumber: 5.6 Consensus size: 85
48343800 AGTCATTTCA
* * * * *
48343810 TTTGGAAATAAAATCAAAATGAAATAAAATCTGTT-AATTGACGGGAATAAAT-CTTGAAACAGA
1 TTTGGAAA-AAAATAAAAATGGAAT-AAATCCGTTGAA-AGACGGGAATAAATAC-CGAAACAGA
* *
48343873 --TT-TTCAA-TTTAATT-CT-AT
62 TTTTATTTAATTTTAATTACTCGT
* * * * * *
48343891 TTTGGAAAAAAAATTAAAATCGAATAAAATCTGTT-AAATGGCGGGGATAAATCCCGAAACAGAT
1 TTTGG-AAAAAAATAAAAATGGAAT-AAATCCGTTGAAA-GACGGGAATAAATACCGAAACAGAT
* *
48343955 TTTATTTAATTTTAATTTCTAGT
63 TTTATTTAATTTTAATTACTCGT
* * * * * * *
48343978 TTTGGCAACAAAATAAGAAATGTAATAAAATCCATTGAACGATGGGAATAAATCCCGAAACAGGT
1 TTTGG-AAAAAAATAA-AAATGGAAT-AAATCCGTTGAAAGACGGGAATAAATACCGAAACAGAT
* *
48344043 TTTATTTAACTTTAATTTCTCG-
63 TTTATTTAATTTTAATTACTCGT
* * *
48344065 TTTGGAAATAAAATAAAAATGGAATAATATACGTTGAATGATGGGAATAAATACCGAAACAGATT
1 TTTGGAAA-AAAATAAAAATGGAATAA-ATCCGTTGAAAGACGGGAATAAATACCGAAACAGATT
* *
48344130 TTATTTTAATTTGAA-TACTTGT
64 TTA-TTTAATTTTAATTACTCGT
* * * * * *
48344152 TTTGGAAAAAAATCAAAATTAGAATAAAGTTCGTTGAAAGGCGGGAATAAAT-CTCTAAACAAAT
1 TTTGGAAAAAAAT-AAAAATGGAATAAA-TCCGTTGAAAGACGGGAATAAATAC-CGAAACAGAT
*
48344216 TTTATCTTAATTTTAA-TACTCAT
63 TTTAT-TTAATTTTAATTACTCGT
* * *
48344239 TTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGAAATAAATA
1 TTTGGAAA-AAAAT-AAAAATGGAAT-AAATCCGTTGAAAGACGGGAATAAATA
48344293 ATAACTTCCA
Statistics
Matches: 330, Mismatches: 50, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
81 49 0.15
82 4 0.01
83 2 0.01
84 4 0.01
85 9 0.03
86 59 0.18
87 107 0.32
88 91 0.28
89 5 0.02
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (85 bp):
TTTGGAAAAAAATAAAAATGGAATAAATCCGTTGAAAGACGGGAATAAATACCGAAACAGATTTT
ATTTAATTTTAATTACTCGT
Found at i:48344245 original size:174 final size:173
Alignment explanation
Indices: 48343880--48344292 Score: 442
Period size: 174 Copynumber: 2.4 Consensus size: 173
48343870 AGATTTTCAA
* * * * * * *
48343880 TTTAATTCT-ATTTTGGAAAAAAAATTAAAATCGAATAAAATCTGTTAAATGGCGGGGATAAATC
1 TTTAATTCTCATTTTGGAAATAAAATAAAAATGGAATAAAATC-GTTGAATGACGGGAATAAATA
* * *
48343944 CCGAAACAGATTTTATTTAATTTTAATTTCTAGTTTTGGCAACAAAATAAGAAATGTAATAAAAT
65 CCGAAACAGATTTTATTTAATTTGAATTACTAGTTTTGGCAAAAAAATAAGAAATGTAATAAAAT
* * **
48344009 CCATTGAACGATGGGAATAAATCCCGAAACAGGTTTTATTTAAC
130 CCATTGAAAGACGGGAATAAATCCCGAAACAAATTTTATTTAAC
* * *
48344053 TTTAATTTCTC-GTTTGGAAATAAAATAAAAATGGAATAATATACGTTGAATGATGGGAATAAAT
1 TTTAA-TTCTCATTTTGGAAATAAAATAAAAATGGAATAAAAT-CGTTGAATGACGGGAATAAAT
* *
48344117 ACCGAAACAGATTTTATTTTAATTTGAA-TACTTGTTTTGG-AAAAAAATCA-AAAT-TAGAATA
64 ACCGAAACAGATTTTA-TTTAATTTGAATTACTAGTTTTGGCAAAAAAATAAGAAATGT--AATA
* * * * * * *
48344178 AAGTTCGTTGAAAGGCGGGAATAAATCTCTAAACAAATTTTATCTTAAT
126 AAATCCATTGAAAGACGGGAATAAATCCCGAAACAAATTTTAT-TTAAC
* * *
48344227 TTTAATACTCATTTTGGAAATAAAATCAAAATTGGAATAAAATCCGTTGAATGACGGAAATAAAT
1 TTTAATTCTCATTTTGGAAATAAAAT-AAAAATGGAATAAAAT-CGTTGAATGACGGGAATAAAT
48344292 A
64 A
48344293 ATAACTTCCA
Statistics
Matches: 198, Mismatches: 33, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
171 1 0.01
172 4 0.02
173 54 0.27
174 94 0.47
175 45 0.23
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (173 bp):
TTTAATTCTCATTTTGGAAATAAAATAAAAATGGAATAAAATCGTTGAATGACGGGAATAAATAC
CGAAACAGATTTTATTTAATTTGAATTACTAGTTTTGGCAAAAAAATAAGAAATGTAATAAAATC
CATTGAAAGACGGGAATAAATCCCGAAACAAATTTTATTTAAC
Found at i:48344456 original size:26 final size:25
Alignment explanation
Indices: 48344398--48344455 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
48344388 ATTTAACTTT
48344398 AATTTTTTATTTTCAAAATAAAAAC
1 AATTTTTTATTTTCAAAATAAAAAC
48344423 AATTTTTTATTTTCAAAATAAAAAC
1 AATTTTTTATTTTCAAAATAAAAAC
48344448 AATTTTTT
1 AATTTTTT
48344456 TTTCACCTTG
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:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (25 bp):
AATTTTTTATTTTCAAAATAAAAAC
Found at i:48344576 original size:22 final size:23
Alignment explanation
Indices: 48344549--48344592 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
48344539 TTAGTGAACA
48344549 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
48344571 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
48344593 ATATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:48344594 original size:20 final size:21
Alignment explanation
Indices: 48344548--48344601 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
48344538 TTTAGTGAAC
48344548 AAAATATATAAATATAAATAA
1 AAAATATATAAATATAAATAA
* * *
48344569 ACAAATATTTATATATAAA-AT
1 A-AAATATATAAATATAAATAA
48344590 AAAATATA-AAAT
1 AAAATATATAAAT
48344602 TGAATAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 6 0.22
21 3 0.11
22 15 0.56
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATATAAATATAAATAA
Found at i:48346139 original size:17 final size:17
Alignment explanation
Indices: 48346117--48346150 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48346107 CAAAATTTGA
48346117 TTAAAAAGCT-TTAAAAC
1 TTAAAAA-CTCTTAAAAC
48346134 TTAAAAACTCTTAAAAC
1 TTAAAAACTCTTAAAAC
48346151 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAAACTCTTAAAAC
Found at i:48348092 original size:14 final size:14
Alignment explanation
Indices: 48348073--48348101 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48348063 TGTACAACTG
48348073 TATGTATGACTTTT
1 TATGTATGACTTTT
48348087 TATGTATGACTTTT
1 TATGTATGACTTTT
48348101 T
1 T
48348102 GTGGGGATTA
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:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TATGTATGACTTTT
Found at i:48354770 original size:34 final size:34
Alignment explanation
Indices: 48354701--48354813 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 34
48354691 AAATATATAT
* * ** * *
48354701 ATATATATTCACCTTCGGTTATGTCAAACCTTAC
1 ATATATATTTACCTTCGATTATACCAAGCCATAC
* *
48354735 ATATATATTTACTTTCGATTATACCAAGCTATAC
1 ATATATATTTACCTTCGATTATACCAAGCCATAC
* * *
48354769 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTTACCTTCGATTATACCAAGCCATAC
48354803 ATATATATTTA
1 ATATATATTTA
48354814 TGTACTTCCA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (34 bp):
ATATATATTTACCTTCGATTATACCAAGCCATAC
Found at i:48361891 original size:2 final size:2
Alignment explanation
Indices: 48361884--48361912 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48361874 CAAATAAATG
48361884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48361913 TCACCTTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48361943 original size:34 final size:34
Alignment explanation
Indices: 48361905--48362015 Score: 159
Period size: 34 Copynumber: 3.3 Consensus size: 34
48361895 ATATATATAT
* * *
48361905 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
48361939 ATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
48361973 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
48362007 ATATATATT
1 ATATATATT
48362016 TATGTATTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:48364554 original size:42 final size:41
Alignment explanation
Indices: 48364484--48364570 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
48364474 GACCAAAACT
* * *
48364484 CTAGTAGGTTTAGTGCCGGTGAATTGAATCAGGCCATTGAGC
1 CTAGCAGGCTTAGTGCCGGTGAATTGAATCAAG-CATTGAGC
*
48364526 CTAGCAGGCTTAGTGCCGGTGGAA-TGAATCAAGCTTTGAGC
1 CTAGCAGGCTTAGTGCCGGT-GAATTGAATCAAGCATTGAGC
48364567 CTAG
1 CTAG
48364571 AAGTCTTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 11 0.28
42 26 0.65
43 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAGTGCCGGTGAATTGAATCAAGCATTGAGC
Found at i:48364600 original size:41 final size:41
Alignment explanation
Indices: 48364484--48364607 Score: 99
Period size: 41 Copynumber: 3.0 Consensus size: 41
48364474 GACCAAAACT
* * * * *
48364484 CTAGTAGGTTTAGTGCCGGT-GAATTGAATCAGGCCATTGAGC
1 CTAGAAGGCTTAGTGCCGATGGAA-TGAATCAAG-CTTTGAGC
* *
48364526 CTAGCAGGCTTAGTGCCGGTGGAATGAATCAAGCTTTGAGC
1 CTAGAAGGCTTAGTGCCGATGGAATGAATCAAGCTTTGAGC
* * * * *
48364567 CTAGAAGTCTTCGTGTCGATGGATTGTAA-CAAGCTTCGAGC
1 CTAGAAGGCTTAGTGCCGATGGAATG-AATCAAGCTTTGAGC
48364608 TTAGCAAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 38 0.55
42 28 0.41
43 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (41 bp):
CTAGAAGGCTTAGTGCCGATGGAATGAATCAAGCTTTGAGC
Found at i:48364677 original size:16 final size:16
Alignment explanation
Indices: 48364656--48364686 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48364646 TTGTATGGAA
48364656 AATGTGAAAACTAAAC
1 AATGTGAAAACTAAAC
*
48364672 AATGTGCAAACTAAA
1 AATGTGAAAACTAAA
48364687 TAAATATTAA
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:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (16 bp):
AATGTGAAAACTAAAC
Found at i:48375294 original size:21 final size:21
Alignment explanation
Indices: 48375238--48375294 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
48375228 CATTTTTTCT
* *
48375238 TCCTAAATTCTCAATTTTCAA
1 TCCTCAATCCTCAATTTTCAA
**
48375259 TTTTCAATCTC-CAATTTTCAA
1 TCCTCAATC-CTCAATTTTCAA
48375280 TCCTCAATCCTCAAT
1 TCCTCAATCCTCAAT
48375295 CTATAAATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCCTCAATCCTCAATTTTCAA
Found at i:48375856 original size:15 final size:15
Alignment explanation
Indices: 48375836--48375864 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48375826 ATTTTTTTTA
48375836 ATTTTATTCTCTTCG
1 ATTTTATTCTCTTCG
48375851 ATTTTATTCTCTTC
1 ATTTTATTCTCTTC
48375865 AATCCTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTTATTCTCTTCG
Found at i:48383156 original size:46 final size:46
Alignment explanation
Indices: 48383089--48383256 Score: 202
Period size: 46 Copynumber: 3.6 Consensus size: 46
48383079 ACCCGCCCAT
48383089 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
* *
48383135 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-CTC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCCAC
* * *
48383184 ---TCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
48383228 AAGTGAACTCGGACTCAACTCAACGAGCT
1 AAGTGAACTCGGACTCAACTCAACGAGCT
48383257 TGGATGCTCA
Statistics
Matches: 104, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
46 58 0.56
47 29 0.28
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
Found at i:48383208 original size:93 final size:93
Alignment explanation
Indices: 48383093--48383263 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
48383083 GCCCATAAGT
* *
48383093 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
48383158 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
48383186 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
*
48383251 CGAGCTTGGATGC
66 CGAGCTCGGATGC
48383264 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48390949 original size:9 final size:9
Alignment explanation
Indices: 48390927--48390960 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
48390917 GTCCCTAATT
48390927 CACAAAAT-
1 CACAAAATA
48390935 CACAAAATA
1 CACAAAATA
48390944 CACAAAATA
1 CACAAAATA
48390953 CACAAAAT
1 CACAAAAT
48390961 TCTCATACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (9 bp):
CACAAAATA
Found at i:48390958 original size:18 final size:17
Alignment explanation
Indices: 48390927--48390960 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
48390917 GTCCCTAATT
48390927 CACAAAATCACAAAATA
1 CACAAAATCACAAAATA
48390944 CACAAAATACACAAAAT
1 CACAAAAT-CACAAAAT
48390961 TCTCATACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.65, C:0.24, G:0.00, T:0.12
Consensus pattern (17 bp):
CACAAAATCACAAAATA
Found at i:48393534 original size:40 final size:40
Alignment explanation
Indices: 48393459--48393554 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
48393449 TCTGTGTTTG
48393459 GCACTAAGTGTGCGATTTGAAATAACTTCGACTATA-AATA
1 GCACTAAGTGTGCGATTTGAAATAACTTCGACTATATAA-A
* * * * *
48393499 GCACTAAGTGTGCAGA-TTGGAATAGCTTTGGCTATATAAG
1 GCACTAAGTGTGC-GATTTGAAATAACTTCGACTATATAAA
48393539 GCACTAAGTGTGCGAT
1 GCACTAAGTGTGCGAT
48393555 ACCGAGATAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 2 0.04
40 42 0.88
41 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTTGAAATAACTTCGACTATATAAA
Found at i:48394280 original size:12 final size:12
Alignment explanation
Indices: 48394263--48394291 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48394253 TTGGTATAAT
48394263 TTTGGCTTATGA
1 TTTGGCTTATGA
48394275 TTTGGCTTATGA
1 TTTGGCTTATGA
48394287 TTTGG
1 TTTGG
48394292 TATTTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (12 bp):
TTTGGCTTATGA
Found at i:48394934 original size:15 final size:16
Alignment explanation
Indices: 48394900--48394936 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
48394890 GAAGGGACTT
48394900 TGTATGA-ATGTTTGA
1 TGTATGATATGTTTGA
48394915 T-TATGATATG-TTGA
1 TGTATGATATGTTTGA
48394929 TGTATGAT
1 TGTATGAT
48394937 TTTTATTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
TGTATGATATGTTTGA
Found at i:48398468 original size:38 final size:38
Alignment explanation
Indices: 48398412--48398491 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
48398402 GATGTGTATT
* * *
48398412 CGGGTTAAATCCCGCAGGCTTCA-TGTTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCT-AGTGCTGGTATTATATC
*
48398450 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
48398488 CGGG
1 CGGG
48398492 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:48398532 original size:43 final size:43
Alignment explanation
Indices: 48398463--48398651 Score: 274
Period size: 43 Copynumber: 4.4 Consensus size: 43
48398453 GATAAATCCC
* * *
48398463 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
48398504 GTAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
48398547 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
48398590 GCAAGCTTCGTGCCTGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
48398633 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
48398652 AATGATATGT
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 14 0.11
42 2 0.02
43 115 0.88
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:48399035 original size:45 final size:42
Alignment explanation
Indices: 48398966--48399075 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 42
48398956 TGTTGACTTG
* *
48398966 ATTATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
**
48399008 GATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 -AT--TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
48399053 ATTGATATCGGGCC-TCGAGCCTA
1 ATT-AT-TCGGGCCTTCGAGCCTA
48399076 ACAGGCGAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
42 1 0.02
43 13 0.22
44 9 0.15
45 36 0.61
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (42 bp):
ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
Found at i:48407639 original size:19 final size:19
Alignment explanation
Indices: 48407597--48407639 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
48407587 CACATATACA
*
48407597 TTCAACTAGTTCATATAAC
1 TTCATCTAGTTCATATAAC
48407616 TTCATCTAGTTCATATAAC
1 TTCATCTAGTTCATATAAC
48407635 TTCAT
1 TTCAT
48407640 ATTACCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (19 bp):
TTCATCTAGTTCATATAAC
Found at i:48407872 original size:43 final size:42
Alignment explanation
Indices: 48407807--48407921 Score: 110
Period size: 41 Copynumber: 2.7 Consensus size: 42
48407797 AGCTCGTACA
* *
48407807 ATGCCATATCCCAAATATGGTCTTACATGTTA-TCATATAACG
1 ATGCCATGTCCCAGATATGGTCTTACATGTTAGTCATAT-ACG
* * *
48407849 ATGCCACTGTCCCAGATAGGGTCTTATACG--AGTCATATACG
1 ATGCCA-TGTCCCAGATATGGTCTTACATGTTAGTCATATACG
* * *
48407890 TTGCCAATGTCCTAGACATGGTCTTACATGTT
1 ATGCC-ATGTCCCAGATATGGTCTTACATGTT
48407922 TTATCACTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
41 26 0.46
42 13 0.23
43 18 0.32
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATGTCCCAGATATGGTCTTACATGTTAGTCATATACG
Found at i:48414629 original size:41 final size:42
Alignment explanation
Indices: 48414547--48414639 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
48414537 TCCCAGATAT
* *
48414547 GGTCTTACATGTTATCATATATCAATGCCACTTTCCGAGACAG
1 GGTCTTACATG-TATCATATATCAATGCCAATGTCCGAGACAG
* * *
48414590 GGTCTTACATG-AGTCATATA-CAATGCTAATGTCCTAGACAT
1 GGTCTTACATGTA-TCATATATCAATGCCAATGTCCGAGACAG
48414631 GGTCTTACA
1 GGTCTTACA
48414640 CGAATTCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 26 0.59
42 7 0.16
43 11 0.25
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
GGTCTTACATGTATCATATATCAATGCCAATGTCCGAGACAG
Found at i:48426392 original size:43 final size:43
Alignment explanation
Indices: 48426310--48426458 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
48426300 ATCCCAAATC
* * * *
48426310 TGGTCTTACATGTTATCTCATATCGATGCCAATAG-CCCAG-CTA
1 TGGTCTTACACGTAATCACATAACGATGCCAAT-GTCCCAGAC-A
*
48426353 TGGTCTTACACGAAATCACATAACGATGCCAATGTCCCAGACA
1 TGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACA
*
48426396 TGGTTTTACACGTAATCACA-ATA-GAATGCCAATGT-CCAGACA
1 TGGTCTTACACGTAATCACATA-ACG-ATGCCAATGTCCCAGACA
* *
48426438 TGGCCTTACATGTAATCACAT
1 TGGTCTTACACGTAATCACAT
48426459 CTCGATAATC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
42 27 0.30
43 63 0.69
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TGGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACA
Found at i:48430778 original size:32 final size:32
Alignment explanation
Indices: 48430742--48430820 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
48430732 TAAAATAAGG
* * *
48430742 TTTTATGTTCCTTAAAAGTTAG-AGAAAAAAAT
1 TTTTAGGTCCCTTAAAAATTAGTA-AAAAAAAT
*
48430774 TTTTAGGTCCCTTAAAAATTGGTAAAAAAAA-
1 TTTTAGGTCCCTTAAAAATTAGTAAAAAAAAT
*
48430805 TTTT-GGACCCTTAAAA
1 TTTTAGGTCCCTTAAAA
48430821 GCTAAAAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 11 0.27
31 4 0.10
32 25 0.61
33 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (32 bp):
TTTTAGGTCCCTTAAAAATTAGTAAAAAAAAT
Found at i:48431267 original size:19 final size:19
Alignment explanation
Indices: 48431245--48431309 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
48431235 AGTTAAAATT
*
48431245 TTATAAAATACTAAAAAAA
1 TTATAAAATACTATAAAAA
*
48431264 TTATATAAAT-TTATAAAAA
1 TTATA-AAATACTATAAAAA
* *
48431283 TCAT-AAATATGTATAAAAA
1 TTATAAAATA-CTATAAAAA
48431302 TTATAAAA
1 TTATAAAA
48431310 CATCCTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.11
19 26 0.70
20 7 0.19
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TTATAAAATACTATAAAAA
Found at i:48431288 original size:9 final size:9
Alignment explanation
Indices: 48431245--48431411 Score: 88
Period size: 10 Copynumber: 17.7 Consensus size: 9
48431235 AGTTAAAATT
48431245 TTATAAAATA
1 TTATAAAA-A
* *
48431255 CTAAAAAAA
1 TTATAAAAA
*
48431264 TTATATAAAT
1 TTATA-AAAA
48431274 TTATAAAAA
1 TTATAAAAA
* *
48431283 TCATAAATA
1 TTATAAAAA
48431292 TGTATAAAAA
1 T-TATAAAAA
48431302 TTATAAAACA
1 TTATAAAA-A
** *
48431312 TCCTAAATA
1 TTATAAAAA
48431321 TTATAAAAA
1 TTATAAAAA
*
48431330 --ATAAAAT
1 TTATAAAAA
*
48431337 TTAT-AAAT
1 TTATAAAAA
48431345 TTATAAAACGA
1 TTATAAAA--A
* *
48431356 ATAGAAAAAA
1 TTA-TAAAAA
*
48431366 TCATAAAAA
1 TTATAAAAA
48431375 CTTATAATAAA
1 -TTATAA-AAA
*
48431386 TTATAATGAA
1 TTATAA-AAA
48431396 TTATAAAAAA
1 TTAT-AAAAA
48431406 TTATAA
1 TTATAA
48431412 TTTTTAAAAA
Statistics
Matches: 119, Mismatches: 26, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
7 6 0.05
8 8 0.07
9 41 0.34
10 53 0.45
11 7 0.06
12 4 0.03
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:48431297 original size:29 final size:28
Alignment explanation
Indices: 48431263--48431391 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 28
48431253 TACTAAAAAA
*
48431263 ATTATATAAATTTATAAAA-ATCATAAAT
1 ATTATA-AAAATTATAAAACATCATAAAT
*
48431291 ATGTATAAAAATTATAAAACATCCTAAAT
1 AT-TATAAAAATTATAAAACATCATAAAT
* *
48431320 ATTATAAAAA--ATAAAA-TTTATAAAT
1 ATTATAAAAATTATAAAACATCATAAAT
* * * *
48431345 -TTATAAAACGAATAGAAAAAATCATAAAA
1 ATTATAAAA--ATTATAAAACATCATAAAT
48431374 ACTTATAATAAATTATAA
1 A-TTATAA-AAATTATAA
48431392 TGAATTATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
24 8 0.10
25 6 0.08
26 7 0.09
28 26 0.32
29 20 0.25
30 5 0.06
31 6 0.08
32 2 0.03
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (28 bp):
ATTATAAAAATTATAAAACATCATAAAT
Found at i:48431863 original size:10 final size:9
Alignment explanation
Indices: 48431765--48431997 Score: 109
Period size: 10 Copynumber: 24.8 Consensus size: 9
48431755 AATAAATGAC
48431765 ATTTTTAT-
1 ATTTTTATA
*
48431773 AGTTTTATA
1 ATTTTTATA
48431782 ATTTTTTTATA
1 A--TTTTTATA
*
48431793 ATTTATTAGA
1 ATTT-TTATA
48431803 ATTTATTATA
1 ATTT-TTATA
* *
48431813 GCTTTTTGT-
1 -ATTTTTATA
*
48431822 ACTTTTATA
1 ATTTTTATA
* *
48431831 GTATTTATA
1 ATTTTTATA
*
48431840 AGTTTTTATG
1 A-TTTTTATA
48431850 ATTTTATATA
1 ATTTT-TATA
48431860 ATTTTTATA
1 ATTTTTATA
* *
48431869 A-GTTCAT-
1 ATTTTTATA
* *
48431876 TTTTTTAAA
1 ATTTTTATA
48431885 ATATTTT-TAA
1 AT-TTTTAT-A
*
48431895 TATTTTTATT
1 -ATTTTTATA
*
48431905 ATTTTCATA
1 ATTTTTATA
48431914 ATTTATTATA
1 ATTT-TTATA
48431924 ATTTATTATA
1 ATTT-TTATA
48431934 AGTTTTTATA
1 A-TTTTTATA
*
48431944 ATATTTATA
1 ATTTTTATA
*
48431953 AGTTTTAT-
1 ATTTTTATA
*
48431961 ATTGGTTATA
1 ATT-TTTATA
*
48431971 ACTTTTATA
1 ATTTTTATA
*
48431980 ACTTTATATA
1 A-TTTTTATA
48431990 AGTTTTTA
1 A-TTTTTA
48431998 ATATGAACAT
Statistics
Matches: 167, Mismatches: 39, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
8 21 0.13
9 54 0.32
10 75 0.45
11 17 0.10
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (9 bp):
ATTTTTATA
Found at i:48432271 original size:10 final size:9
Alignment explanation
Indices: 48432158--48432335 Score: 102
Period size: 9 Copynumber: 19.3 Consensus size: 9
48432148 TTTATACTTG
*
48432158 TATAATATT
1 TATAATTTT
48432167 TATAAGTTTT
1 TATAA-TTTT
48432177 T-T-A-TTT
1 TATAATTTT
48432183 TATATATCTTT
1 TATA-AT-TTT
*
48432194 TATAA-GTT
1 TATAATTTT
48432202 TAT-ATTTT
1 TATAATTTT
* *
48432210 AAAATATTTT
1 TATA-ATTTT
48432220 TA-ATATGTTT
1 TATA-AT-TTT
*
48432230 TATTATTTT
1 TATAATTTT
48432239 TATAATTTAT
1 TATAATTT-T
*
48432249 TAGAATTTAT
1 TATAATTT-T
48432259 TATAAATTTT
1 TAT-AATTTT
*
48432269 TATAATATT
1 TATAATTTT
*
48432278 TATAAGTTT
1 TATAATTTT
48432287 TAT-ATTTT
1 TATAATTTT
*
48432295 TATAAATTTA
1 TAT-AATTTT
48432305 TATAAGTTTT
1 TATAA-TTTT
48432315 TA-ATATTTT
1 TATA-ATTTT
*
48432324 TATGATTTT
1 TATAATTTT
48432333 TAT
1 TAT
48432336 TAGAAATAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 36
0.72 0.09 0.19
Matches are distributed among these distances:
6 4 0.03
7 2 0.01
8 16 0.12
9 53 0.40
10 47 0.35
11 12 0.09
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:48432631 original size:22 final size:22
Alignment explanation
Indices: 48432597--48432644 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48432587 TTTTGAATTT
*
48432597 AAAAAAAAGATATAATTTAA-A
1 AAAAAAAAGATATAAATTAATA
*
48432618 AAAATAAAATATATAAATTAATA
1 AAAA-AAAAGATATAAATTAATA
48432641 AAAA
1 AAAA
48432645 GTATAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAAAAAGATATAAATTAATA
Found at i:48432760 original size:15 final size:15
Alignment explanation
Indices: 48432740--48432784 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
48432730 TTGTTTCAAA
**
48432740 ATATTTTATCTTTTT
1 ATATTTTATAATTTT
48432755 ATATTTTATAATTTT
1 ATATTTTATAATTTT
*
48432770 ATAATTTATATATTT
1 ATATTTTATA-ATTT
48432785 CTCAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTATAATTTT
Found at i:48438758 original size:63 final size:63
Alignment explanation
Indices: 48438621--48438745 Score: 250
Period size: 63 Copynumber: 2.0 Consensus size: 63
48438611 TCTAAAACAT
48438621 AAAAAAAAAACTAAATTAAAAATGTAAAGGGAGAAATCGTCTATTGTAAATATTTCTTTACCA
1 AAAAAAAAAACTAAATTAAAAATGTAAAGGGAGAAATCGTCTATTGTAAATATTTCTTTACCA
48438684 AAAAAAAAAACTAAATTAAAAATGTAAAGGGAGAAATCGTCTATTGTAAATATTTCTTTACC
1 AAAAAAAAAACTAAATTAAAAATGTAAAGGGAGAAATCGTCTATTGTAAATATTTCTTTACC
48438746 GGTCTCTTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (63 bp):
AAAAAAAAAACTAAATTAAAAATGTAAAGGGAGAAATCGTCTATTGTAAATATTTCTTTACCA
Found at i:48443642 original size:26 final size:26
Alignment explanation
Indices: 48443606--48443685 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
48443596 CGCATTATTA
48443606 TTCATTCAGCCACTGAACTCTTCGAT
1 TTCATTCAGCCACTGAACTCTTCGAT
48443632 TTCATTCAGCCACTGAACTCTTCGAT
1 TTCATTCAGCCACTGAACTCTTCGAT
* *
48443658 TTCATTCAGCCACTGAACTTTTTGAT
1 TTCATTCAGCCACTGAACTCTTCGAT
48443684 TT
1 TT
48443686 AACACTTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.39
Consensus pattern (26 bp):
TTCATTCAGCCACTGAACTCTTCGAT
Found at i:48447980 original size:20 final size:19
Alignment explanation
Indices: 48447953--48447994 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
48447943 CTTTCCAAAT
48447953 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
48447972 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
48447992 TTT
1 TTT
48447995 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:48450295 original size:27 final size:26
Alignment explanation
Indices: 48450260--48450371 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
48450250 AGCATGGCTG
* *
48450260 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
48450286 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
48450314 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
48450341 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
48450368 CCAG
1 CCAG
48450372 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:48450324 original size:54 final size:54
Alignment explanation
Indices: 48450260--48450371 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
48450250 AGCATGGCTG
*
48450260 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
48450314 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
48450368 CCAG
1 CCAG
48450372 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:48451808 original size:24 final size:24
Alignment explanation
Indices: 48451781--48451831 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
48451771 CTAGATTTCC
** *
48451781 TCCCTTATCTGCTTCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
48451805 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
48451829 TCC
1 TCC
48451832 TGACAGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.37, G:0.02, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:48452936 original size:21 final size:21
Alignment explanation
Indices: 48452912--48452951 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48452902 CCTCATTTTC
*
48452912 TAAAACCACTTGACCTTAAGG
1 TAAAACCACTTGAACTTAAGG
48452933 TAAAACCACTTGAACTTAA
1 TAAAACCACTTGAACTTAA
48452952 TAAATCGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (21 bp):
TAAAACCACTTGAACTTAAGG
Found at i:48459218 original size:95 final size:95
Alignment explanation
Indices: 48458967--48459410 Score: 428
Period size: 95 Copynumber: 4.7 Consensus size: 95
48458957 CTTGCTAATA
* * * * * *
48458967 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAACCTTCTCTGATTTAGTTGATTC
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATTATGAACAATCTTCTCTGAGTTAGTTGATTT
** *
48459032 AACATCGTTGCTCCAAACGACTCGTTGATT
66 AACATCACTGCTCCAAACGGCTCGTTGATT
** * * * * *
48459062 TAAGATTACAACCTAAGCTCA-TCAATTTAACATAATCAACAATTTTCTCTGAGTTAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATTATGAACAATCTTCTCTGAGTTAGTTGATTT
** * * ***
48459126 AACATTGCTGGTCCAAATGGCTTAATGATT
66 AACATCACTGCTCCAAACGGCTCGTTGATT
* * * *
48459156 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATTATAAACAATCTTCTCTGAGTTAATTGATT
1 TAAGATCGCAACCTAAG-TTCATTCGATTTAACATTATGAACAATCTTCTCTGAGTTAGTTGATT
*
48459220 TAACATCACTGCTCCAAACGGCTCTTTGATT
65 TAACATCACTGCTCCAAACGGCTCGTTGATT
* * * * *
48459251 TAAGATCGCAGCCTAAGTTCATTCGATTTAAC-TTCATGAACAATTTTATCTAAGTTAGCTGATT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACATT-ATGAACAATCTTCTCTGAGTTAGTTGATT
* * * *
48459315 TAACATCATTGTTCCAAATGGCTCGCTGATT
65 TAACATCACTGCTCCAAACGGCTCGTTGATT
* * * * * * **
48459346 TAATATCGCAACTTAAGTTCATTTGATTTAACATCT-TGAATAATTTTCTTTGAAATAGTTGATT
1 TAAGATCGCAACCTAAGTTCATTCGATTTAACAT-TATGAACAATCTTCTCTGAGTTAGTTGATT
48459410 T
65 T
48459411 GCTATCACTA
Statistics
Matches: 287, Mismatches: 56, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
94 78 0.27
95 207 0.72
96 1 0.00
97 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (95 bp):
TAAGATCGCAACCTAAGTTCATTCGATTTAACATTATGAACAATCTTCTCTGAGTTAGTTGATTT
AACATCACTGCTCCAAACGGCTCGTTGATT
Found at i:48459372 original size:190 final size:189
Alignment explanation
Indices: 48458967--48459380 Score: 497
Period size: 189 Copynumber: 2.2 Consensus size: 189
48458957 CTTGCTAATA
* ** * * *
48458967 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAACCTTCTCTGATTTAGTTGATTC
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATAAACAACCTTCTCTGAGTTAATTGATTC
** *
48459032 AACATCGTTGCTCCAAACGACTCGTTGATTTAAGATTACAACCTAAGCTCATCAATTTAACATAA
66 AACATCACTGCTCCAAACGACTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATAA
* * * ** *
48459097 TCAACAATTTTCTCTGAGTTAGTTGATTTAACATTGCTGGTCCAAATGGCTTAATGATT
131 TCAACAATTTTATCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * *
48459156 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACATTATAAACAATCTTCTCTGAGTTAATTGATT
1 TAAGATCGCAACCTAAG-TTCATTTGATTTAACATCATAAACAACCTTCTCTGAGTTAATTGATT
* * * * * * * *
48459220 TAACATCACTGCTCCAAACGGCTCTTTGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAACTT
65 CAACATCACTGCTCCAAACGACTCGTTGATTTAAGATCACAACCTAAGCTCA-TCAATTTAACAT
* * * * **
48459285 CATGAACAATTTTATCTAAGTTAGCTGATTTAACATCATTGTTCCAAATGGCTCGCTGATT
129 AATCAACAATTTTATCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* *
48459346 TAATATCGCAACTTAAGTTCATTTGATTTAACATC
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATC
48459381 TTGAATAATT
Statistics
Matches: 186, Mismatches: 36, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
189 97 0.52
190 89 0.48
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (189 bp):
TAAGATCGCAACCTAAGTTCATTTGATTTAACATCATAAACAACCTTCTCTGAGTTAATTGATTC
AACATCACTGCTCCAAACGACTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATAA
TCAACAATTTTATCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
Found at i:48459410 original size:190 final size:189
Alignment explanation
Indices: 48458967--48459410 Score: 496
Period size: 190 Copynumber: 2.3 Consensus size: 189
48458957 CTTGCTAATA
* ** * * * *
48458967 TAAGATCACAACCTAAGTTCATTCAATTTAACATCATGAACAACCTTCTCTGATTTAGTTGATTC
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCTTGAACAATCTTCTCTGAATTAGTTGATTT
** *
48459032 AACATCGTTGCTCCAAACGACTCGTTGATTTAAGATTACAACCTAAGCTCATCAATTTAACATAA
66 AACATCACTGCTCCAAACGACTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATAA
* * * ** *
48459097 TCAACAATTTTCTCTGAGTTAGTTGATTTAACATTGCTGGTCCAAATGGCTTAATGATT
131 TCAACAATTTTATCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * * *
48459156 TAAGATCGCAGCCTAAGCTT-ATTTGATTTAACAT-TATAAACAATCTTCTCTGAGTTAATTGAT
1 TAAGATCGCAACCTAAG-TTCATTTGATTTAACATCT-TGAACAATCTTCTCTGAATTAGTTGAT
* * * * * * *
48459219 TTAACATCACTGCTCCAAACGGCTCTTTGATTTAAGATCGCAGCCTAAGTTCATTCGATTTAACT
64 TTAACATCACTGCTCCAAACGACTCGTTGATTTAAGATCACAACCTAAGCTCA-TCAATTTAACA
* * * * **
48459284 TCATGAACAATTTTATCTAAGTTAGCTGATTTAACATCATTGTTCCAAATGGCTCGCTGATT
128 TAATCAACAATTTTATCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
* * * * * *
48459346 TAATATCGCAACTTAAGTTCATTTGATTTAACATCTTGAATAATTTTCTTTGAAATAGTTGATTT
1 TAAGATCGCAACCTAAGTTCATTTGATTTAACATCTTGAACAATCTTCTCTGAATTAGTTGATTT
48459411 GCTATCACTA
Statistics
Matches: 208, Mismatches: 42, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
189 96 0.46
190 111 0.53
191 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (189 bp):
TAAGATCGCAACCTAAGTTCATTTGATTTAACATCTTGAACAATCTTCTCTGAATTAGTTGATTT
AACATCACTGCTCCAAACGACTCGTTGATTTAAGATCACAACCTAAGCTCATCAATTTAACATAA
TCAACAATTTTATCTAAGTTAGCTGATTTAACATCACTGGTCCAAATGGCTCAATGATT
Found at i:48460472 original size:26 final size:25
Alignment explanation
Indices: 48460443--48460495 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
48460433 GATGATGTAG
48460443 TGGGACAAACAAGT-TCATTCACTTCT
1 TGGGACAAACAA-TCTC-TTCACTTCT
* *
48460469 TGGGGCATACAATCTCTTCACTTCT
1 TGGGACAAACAATCTCTTCACTTCT
48460494 TG
1 TG
48460496 TTTACCTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (25 bp):
TGGGACAAACAATCTCTTCACTTCT
Found at i:48463132 original size:14 final size:14
Alignment explanation
Indices: 48463113--48463167 Score: 92
Period size: 14 Copynumber: 3.9 Consensus size: 14
48463103 TAATTATATT
48463113 TATTAATAAAAGTA
1 TATTAATAAAAGTA
*
48463127 TATTAATAAAAGCTT
1 TATTAATAAAAG-TA
48463142 TATTAATAAAAGTA
1 TATTAATAAAAGTA
48463156 TATTAATAAAAG
1 TATTAATAAAAG
48463168 CAGGAGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (14 bp):
TATTAATAAAAGTA
Found at i:48463145 original size:29 final size:29
Alignment explanation
Indices: 48463111--48463168 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
48463101 GTTAATTATA
48463111 TTTATTAATAAAAGTATATTAATAAAAGC
1 TTTATTAATAAAAGTATATTAATAAAAGC
48463140 TTTATTAATAAAAGTATATTAATAAAAGC
1 TTTATTAATAAAAGTATATTAATAAAAGC
48463169 AGGAGAGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (29 bp):
TTTATTAATAAAAGTATATTAATAAAAGC
Found at i:48465989 original size:14 final size:14
Alignment explanation
Indices: 48465952--48465982 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48465942 CCAGAAAAGT
48465952 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
48465966 AAATCATTTTCCGG
1 AAATCATTTTCCAG
48465980 AAA
1 AAA
48465983 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:48470145 original size:23 final size:23
Alignment explanation
Indices: 48470102--48470145 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48470092 ATATCCCCTC
*
48470102 ATGGTGTGTAGGGCTGGATGGAG
1 ATGGTGTGTAGGGCTGAATGGAG
48470125 ATGGTGTGTAGAGGCT-AATGG
1 ATGGTGTGTAG-GGCTGAATGG
48470146 GTAGGACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.20, C:0.05, G:0.48, T:0.27
Consensus pattern (23 bp):
ATGGTGTGTAGGGCTGAATGGAG
Found at i:48476917 original size:31 final size:31
Alignment explanation
Indices: 48476882--48476962 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
48476872 GGCCGTGAGG
*
48476882 GCCACATGGGCGTGTGAGCCCACACGAGCAA
1 GCCACATGGGCGTGTGAGCCCACACAAGCAA
* * * *
48476913 GCCACATGGGCATGTGGGCCCACCCAAGCAG
1 GCCACATGGGCGTGTGAGCCCACACAAGCAA
48476944 GCCACATGGGCGTGTGAGC
1 GCCACATGGGCGTGTGAGC
48476963 TCATTTTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.22, C:0.32, G:0.35, T:0.11
Consensus pattern (31 bp):
GCCACATGGGCGTGTGAGCCCACACAAGCAA
Found at i:48478047 original size:55 final size:55
Alignment explanation
Indices: 48477933--48478058 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
48477923 CCCTTAGCCT
* * ** * *
48477933 GTGTGCAACACTGACTTTAAAACACGGCCATGGCATACGCCTGTGTGTCCTGCCT
1 GTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCATGTGTCCTACCC
* *
48477988 GTGTACAACACTGA-TTTAAAGACATGGCCGTGGCACACGCCCATGTCG-CCTACCC
1 GTGTACAACACTGACTTTAAA-ACACGGCCATGGCACACGCCCATGT-GTCCTACCC
* *
48478043 GTGTACAGCAATGACT
1 GTGTACAACACTGACT
48478059 CAAAAATTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
54 6 0.10
55 50 0.86
56 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCATGTGTCCTACCC
Found at i:48479374 original size:21 final size:21
Alignment explanation
Indices: 48479348--48479390 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48479338 AGCTTAATAG
48479348 TAAGTGATTCCGAGCTCCGTT
1 TAAGTGATTCCGAGCTCCGTT
* *
48479369 TAAGTGATTTCGAGTTCCGTT
1 TAAGTGATTCCGAGCTCCGTT
48479390 T
1 T
48479391 TTAATATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (21 bp):
TAAGTGATTCCGAGCTCCGTT
Found at i:48480296 original size:100 final size:100
Alignment explanation
Indices: 48480121--48480313 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
48480111 TATTGTGAGG
* *
48480121 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
48480186 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
48480221 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
48480286 AAGTGTAGGCTACTATGCATACCAGATA
66 AAGTGCAGGCTACTATGCATACCAGATA
48480314 GCTTTGGCTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCAGATAACTTCGA
Found at i:48480309 original size:49 final size:49
Alignment explanation
Indices: 48480126--48480313 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
48480116 TGAGGTCACG
* * *
48480126 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* * * *
48480175 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GGTCGCA
* *
48480226 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
* *
48480275 TGTGTAGTACTAAGTGTAGGCTACTATGCATACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
48480314 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 75 0.62
50 4 0.03
51 41 0.34
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCGCA
Found at i:48485360 original size:49 final size:49
Alignment explanation
Indices: 48485288--48485458 Score: 216
Period size: 49 Copynumber: 3.5 Consensus size: 49
48485278 TGGGGTCACG
*
48485288 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * ** * *
48485337 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
* * * *
48485387 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATTGGTTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
*
48485436 TGTGTCGTACTAAGTGCAGGCTA
1 TGTGTAGTACTAAGTGCAGGCTA
48485459 TTATGCGTAC
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 61 0.60
50 40 0.40
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:48485473 original size:99 final size:99
Alignment explanation
Indices: 48485281--48485473 Score: 287
Period size: 99 Copynumber: 1.9 Consensus size: 99
48485271 TCTATTGTGG
*
48485281 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTA
* *
48485346 CTAAGTGCAGGCTACTACATGTATCAGATGGTTA
66 CTAAGTGCAGGCTACTACACGTACCAGATGGTTA
* * * * *
48485380 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATTGGTTGTATGTGTCGTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTA
* **
48485445 CTAAGTGCAGGCTATTATGCGTACCAGAT
66 CTAAGTGCAGGCTACTACACGTACCAGAT
48485474 AGCTTTGGCT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 83 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (99 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTACACGTACCAGATGGTTA
Found at i:48486930 original size:94 final size:90
Alignment explanation
Indices: 48486736--48487029 Score: 329
Period size: 94 Copynumber: 3.2 Consensus size: 90
48486726 GAGTGTTACA
* * * * * * *
48486736 TGATGCATGTCCTATACATGTTTTACACTAGCACAACTCTTAGTCGATGCATGTCCCAGACACGT
1 TGATGCATGTCCCAGACATATCTTACACTAGCACAACTCCTAGCCGATGCATGTCCCAGACATGT
** *
48486801 CTTACACTGGCTATCATTGTCGAGGC
66 CTTACACTGGCTATCATAAT-GTGGC
** * * * *
48486827 CAATGCATGTCCTAGACATATCTTACACTGGCAC-TCATCACTACGCCGATGTCATGTCCCAGAA
1 TGATGCATGTCCCAGACATATCTTACACTAGCACAAC-TC-CTA-GCCGATG-CATGTCCCAGAC
*
48486891 ATGGTCTTACACTGGCTCTCATAATGTGGC
62 AT-GTCTTACACTGGCTATCATAATGTGGC
* * *
48486921 TGATGCATGTCCCATACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
1 TGATGCATGTCCCAGACATATCTTACACTAGCACAACTCCTAGCCGATGCATGTCCCAGACATGT
* *
48486986 TTTGCACTGGCTATCATAATGTGGC
66 CTTACACTGGCTATCATAATGTGGC
48487011 TGATGCATGTCCCAGACAT
1 TGATGCATGTCCCAGACAT
48487030 GTCCAAAATG
Statistics
Matches: 169, Mismatches: 28, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
90 43 0.25
91 43 0.25
92 9 0.05
93 8 0.05
94 46 0.27
95 20 0.12
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (90 bp):
TGATGCATGTCCCAGACATATCTTACACTAGCACAACTCCTAGCCGATGCATGTCCCAGACATGT
CTTACACTGGCTATCATAATGTGGC
Found at i:48486931 original size:47 final size:46
Alignment explanation
Indices: 48486780--48487032 Score: 217
Period size: 47 Copynumber: 5.5 Consensus size: 46
48486770 AACTCTTAGT
* * ** *
48486780 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCATTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGC
* * * * * **
48486827 CAATGCATGTCCTAGACATATCTTACACTGGCACTCATCACT-ACGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-AATGTGGC
*
48486873 CGATGTCATGTCCCAGAAATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTGGC
* * * * * * *
48486921 TGATGCATGTCCCATACATGTCTTACACTAG--CACA-ACTCTTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGC
* * *
48486965 CGATGCATGTCCCAGACATGTTTTGCACTGGCTATCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
*
48487011 TGATGCATGTCCCAGACATGTC
1 CGATGCATGTCCCAGACATGTC
48487033 CAAAATGTCT
Statistics
Matches: 161, Mismatches: 37, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
43 2 0.01
44 32 0.20
46 43 0.27
47 60 0.37
48 24 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
Found at i:48486975 original size:44 final size:44
Alignment explanation
Indices: 48486737--48487032 Score: 177
Period size: 44 Copynumber: 6.5 Consensus size: 44
48486727 AGTGTTACAT
* * * * *
48486737 GATGCATGTCCTATACATGTTTTACACTAGCACAACTCTTAGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
* * * *
48486781 GATGCATGTCCCAGACACGTCTTACACTGGCTATC-ATTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CAACTCT-TA-GCC
* * * * *
48486828 AATGCATGTCCTAGACATATCTTACACTGGCAC-TCATCACTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACAAC-TC-TTA-GCC
* * * * * *
48486874 GATGTCATGTCCCAGAAATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGG--CACA-ACTCTTAGCC
* *
48486922 GATGCATGTCCCATACATGTCTTACACTAGCACAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
* * * * * *
48486966 GATGCATGTCCCAGACATGTTTTGCACTGGCTATCATAAT-GTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-A-CA-ACTCTTAGCC
48487012 GATGCATGTCCCAGACATGTC
1 GATGCATGTCCCAGACATGTC
48487033 CAAAATGTCT
Statistics
Matches: 190, Mismatches: 46, Indels: 30
0.71 0.17 0.11
Matches are distributed among these distances:
43 2 0.01
44 59 0.31
45 6 0.03
46 47 0.25
47 55 0.29
48 17 0.09
49 1 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCC
Found at i:48487009 original size:90 final size:90
Alignment explanation
Indices: 48486736--48487032 Score: 353
Period size: 90 Copynumber: 3.2 Consensus size: 90
48486726 GAGTGTTACA
* * * * *
48486736 TGATGCATGTCCTATACATGTTTTACACTAGCACAACTCTTAGTCGATGCATGTCCCAGACACGT
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
** *
48486801 CTTACACTGGCTATCATTGTCGAGGC
66 CTTACACTGGCTATCATAAT-GTGGC
** * * * * * *
48486827 CAATGCATGTCCTAGACATATCTTACACTGGCAC-TCATCACTACGCCGATGTCATGTCCCAGAA
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TC-TTA-GCCGATG-CATGTCCCAGAC
*
48486891 ATGGTCTTACACTGGCTCTCATAATGTGGC
62 AT-GTCTTACACTGGCTATCATAATGTGGC
*
48486921 TGATGCATGTCCCATACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
1 TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
* *
48486986 TTTGCACTGGCTATCATAATGTGGC
66 CTTACACTGGCTATCATAATGTGGC
48487011 TGATGCATGTCCCAGACATGTC
1 TGATGCATGTCCCAGACATGTC
48487033 CAAAATGTCT
Statistics
Matches: 172, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
90 46 0.27
91 43 0.25
92 9 0.05
93 8 0.05
94 46 0.27
95 20 0.12
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (90 bp):
TGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACATGT
CTTACACTGGCTATCATAATGTGGC
Found at i:48487726 original size:12 final size:12
Alignment explanation
Indices: 48487709--48487733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48487699 CAAAAATGTA
48487709 AAAATCATCAAG
1 AAAATCATCAAG
48487721 AAAATCATCAAG
1 AAAATCATCAAG
48487733 A
1 A
48487734 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:48488336 original size:18 final size:19
Alignment explanation
Indices: 48488307--48488342 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48488297 TCAAAATGAC
*
48488307 GGTTTTCTTAAATATGAAT
1 GGTTTTCTTAAAGATGAAT
48488326 GGTTTTC-TAAAGATGAA
1 GGTTTTCTTAAAGATGAA
48488343 CTTTATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (19 bp):
GGTTTTCTTAAAGATGAAT
Found at i:48490607 original size:6 final size:6
Alignment explanation
Indices: 48490596--48490620 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48490586 CATATATCTT
48490596 AATCAA AATCAA AATCAA AATCAA A
1 AATCAA AATCAA AATCAA AATCAA A
48490621 CCAATCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCAA
Found at i:48494169 original size:34 final size:35
Alignment explanation
Indices: 48494086--48494176 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 35
48494076 TCACTAAATT
*
48494086 ATTCGTCGGTTTAT-TCGACTAGTGCTAGGGGCAAC
1 ATTCGTCAGTTTATCT-GACTAGTGCTAGGGGCAAC
* * *
48494121 CTTCATCAGTTTATCTGACTAGTG-T-TGGGCACAC
1 ATTCGTCAGTTTATCTGACTAGTGCTAGGGGCA-AC
*
48494155 ATTCGTCAGTTTATCCGACTAG
1 ATTCGTCAGTTTATCTGACTAG
48494177 CGCTGGGCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 5 0.11
34 22 0.47
35 19 0.40
36 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (35 bp):
ATTCGTCAGTTTATCTGACTAGTGCTAGGGGCAAC
Found at i:48494184 original size:34 final size:34
Alignment explanation
Indices: 48494086--48494266 Score: 121
Period size: 35 Copynumber: 5.1 Consensus size: 34
48494076 TCACTAAATT
* * * *
48494086 ATTCGTCGGTTTATTCGACTAGTGCTAGGGGCA-AC
1 ATTCGTCAGTTTATCCGACTAGCGCT--GGGCACAA
* * * * * *
48494121 CTTCATCAGTTTATCTGACTAGTGTTGGGCACAC
1 ATTCGTCAGTTTATCCGACTAGCGCTGGGCACAA
*
48494155 ATTCGTCAGTTTATCCGACTAGCGCTGGGCGCAA
1 ATTCGTCAGTTTATCCGACTAGCGCTGGGCACAA
* ** * *
48494189 ATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACTAA
1 AT-TCGTCAGTTTATCCGACTAGCGCTGGG--CAC-AA
* *
48494227 TTATTCGTCAGTTTATCCGAATAGCGCTGGGAACAA
1 --ATTCGTCAGTTTATCCGACTAGCGCTGGGCACAA
48494263 ATTC
1 ATTC
48494267 TTTCACGGAT
Statistics
Matches: 113, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
33 5 0.04
34 35 0.31
35 42 0.37
36 2 0.02
37 4 0.04
38 2 0.02
39 21 0.19
40 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (34 bp):
ATTCGTCAGTTTATCCGACTAGCGCTGGGCACAA
Found at i:48495844 original size:15 final size:16
Alignment explanation
Indices: 48495798--48495850 Score: 56
Period size: 15 Copynumber: 3.3 Consensus size: 16
48495788 TAAAAATATT
*
48495798 TATATTAATTTAATTTCA
1 TATATTAA--TAATTTTA
48495816 TAT-TTAATAATTTTA
1 TATATTAATAATTTTA
*
48495831 TATATTAA-AATTTTT
1 TATATTAATAATTTTA
48495846 TATAT
1 TATAT
48495851 AGTCATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 21 0.66
16 4 0.12
17 4 0.12
18 3 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTAATAATTTTA
Found at i:48496308 original size:15 final size:15
Alignment explanation
Indices: 48496248--48496321 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
48496238 AATACATATA
*
48496248 TTTTCTTTTT-TTCT
1 TTTTTTTTTTATTCT
** *
48496262 TTTTTCCTTTCTTCT
1 TTTTTTTTTTATTCT
* ***
48496277 CTTTTTTTTTCCCCT
1 TTTTTTTTTTATTCT
48496292 TTTTTTTTTTATTCT
1 TTTTTTTTTTATTCT
48496307 TTCTTTTCTTTTATT
1 TT-TTTT-TTTTATT
48496322 TTCTTTTCAA
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
14 7 0.16
15 27 0.60
16 4 0.09
17 7 0.16
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTTATTCT
Found at i:48496309 original size:37 final size:38
Alignment explanation
Indices: 48496252--48496324 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
48496242 CATATATTTT
*
48496252 CTTTTTTTCTTTTTTCCTTTCTTCTCTTTTTTTTTCCC
1 CTTTTTTTCTTTTTTCCTTTCTTCTCTTTTATTTTCCC
*
48496290 CTTTTTTT-TTTTATT-CTTTCTTTTCTTTTATTTTC
1 CTTTTTTTCTTTT-TTCCTTTCTTCTCTTTTATTTTC
48496325 TTTTCAATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 22 0.69
38 10 0.31
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (38 bp):
CTTTTTTTCTTTTTTCCTTTCTTCTCTTTTATTTTCCC
Found at i:48496329 original size:42 final size:43
Alignment explanation
Indices: 48496248--48496329 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
48496238 AATACATATA
* * * *
48496248 TTTTCTTTTTTTCTTTTTTCCTTTCTTCTCTTTTTTTTTCCCC
1 TTTTCTTTTTTTATTCTTTCCTTTCTTCTATTTTCTTTTCCCC
* *
48496291 TTTT-TTTTTTTATTCTTTCTTTTCTTTTATTTTCTTTTC
1 TTTTCTTTTTTTATTCTTTCCTTTCTTCTATTTTCTTTTC
48496330 AATCTTGTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 29 0.88
43 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (43 bp):
TTTTCTTTTTTTATTCTTTCCTTTCTTCTATTTTCTTTTCCCC
Found at i:48496735 original size:38 final size:37
Alignment explanation
Indices: 48496646--48496735 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 37
48496636 AAGTTAAAAG
*
48496646 TTTAATATTATT-ATATTAATAATATTTTTTTTTATT
1 TTTAATATTATTAAAATTAATAATATTTTTTTTTATT
*
48496682 TTTAA-AGATATTTAAAATTAATAA-ATTATTTTTTTAATT
1 TTTAATA-TTA-TTAAAATTAATAATATT-TTTTTTT-ATT
48496721 TTTAATATTATTAAA
1 TTTAATATTATTAAA
48496736 CATACATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
35 1 0.02
36 7 0.16
37 5 0.11
38 21 0.47
39 10 0.22
40 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
TTTAATATTATTAAAATTAATAATATTTTTTTTTATT
Found at i:48496786 original size:13 final size:13
Alignment explanation
Indices: 48496770--48496794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48496760 TAATTAATTT
48496770 ATTATTTTAATAA
1 ATTATTTTAATAA
48496783 ATTATTTTAATA
1 ATTATTTTAATA
48496795 TTTAAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTTTAATAA
Found at i:48496820 original size:18 final size:19
Alignment explanation
Indices: 48496784--48496823 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
48496774 TTTTAATAAA
*
48496784 TTATTTTAATATTTAAATT
1 TTATTTTAATATATAAATT
48496803 TTATTTTAATA-ATAAATT
1 TTATTTTAATATATAAATT
48496821 TTA
1 TTA
48496824 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTTTAATATATAAATT
Found at i:48496823 original size:13 final size:14
Alignment explanation
Indices: 48496805--48496846 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
48496795 TTTAAATTTT
48496805 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
48496818 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
48496833 ATTTTAAATAATAT
1 ATTTT-AATAATAT
48496847 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:48496831 original size:16 final size:16
Alignment explanation
Indices: 48496809--48496845 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
48496799 AATTTTATTT
48496809 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
48496826 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
48496841 TAATA
1 TAATA
48496846 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:48497212 original size:27 final size:27
Alignment explanation
Indices: 48497172--48497227 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
48497162 TGAATTTAAC
48497172 AAAATATGACATATTATAATCTAATATA
1 AAAATATGACATATTATAAT-TAATATA
* *
48497200 AAAATATGA-ATATTTTAATTATTATA
1 AAAATATGACATATTATAATTAATATA
48497226 AA
1 AA
48497228 TATGAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 8 0.31
27 9 0.35
28 9 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (27 bp):
AAAATATGACATATTATAATTAATATA
Found at i:48497944 original size:26 final size:24
Alignment explanation
Indices: 48497914--48497963 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
48497904 AAATAAAAAA
48497914 ATTTAAAAATC-TAATAAATCAAATAT
1 ATTTAAAAA-CATAA-AAA-CAAATAT
48497940 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
48497964 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.30
25 4 0.17
26 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:48497983 original size:21 final size:21
Alignment explanation
Indices: 48497934--48497989 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
48497924 CTAATAAATC
* *
48497934 AAAT-ATATTTAAAAACATAA
1 AAATAATATTAAAAAAAATAA
*
48497954 AAACAAATATTAAAAAAAATAA
1 AAA-TAATATTAAAAAAAATAA
*
48497976 AAATAATACTAAAA
1 AAATAATATTAAAA
48497990 CAATTCTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 9 0.31
22 17 0.59
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAATATTAAAAAAAATAA
Found at i:48504273 original size:36 final size:36
Alignment explanation
Indices: 48504231--48504312 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
48504221 TTTATCAATA
* * *
48504231 TCATTCAGTAACAATTAATTATTCAGTAGCAATCAG
1 TCATTCAGTAACAATCAATCATTCAGTAACAATCAG
* *
48504267 TTATTCAGTAATAATCAATCATTCAGTAACAATCAG
1 TCATTCAGTAACAATCAATCATTCAGTAACAATCAG
*
48504303 TCATTTAGTA
1 TCATTCAGTA
48504313 CCTTTATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATCATTCAGTAACAATCAG
Found at i:48504306 original size:18 final size:18
Alignment explanation
Indices: 48504230--48504312 Score: 94
Period size: 18 Copynumber: 4.6 Consensus size: 18
48504220 ATTTATCAAT
*
48504230 ATCATTCAGTAACAATTA
1 ATCATTCAGTAACAATCA
* *
48504248 ATTATTCAGTAGCAATCA
1 ATCATTCAGTAACAATCA
* * *
48504266 GTTATTCAGTAATAATCA
1 ATCATTCAGTAACAATCA
48504284 ATCATTCAGTAACAATCA
1 ATCATTCAGTAACAATCA
* *
48504302 GTCATTTAGTA
1 ATCATTCAGTA
48504313 CCTTTATTCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (18 bp):
ATCATTCAGTAACAATCA
Found at i:48504519 original size:44 final size:44
Alignment explanation
Indices: 48504456--48504556 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
48504446 CGGATTAAAC
* *
48504456 CGAAGTC-ACAGTAACAGTACGACACACATGGTGGCTCATCGACT
1 CGAAGTCGA-AGTAACAGTACGACACACATAGTGCCTCATCGACT
* **
48504500 CGAAGTCGAAGTAATAGTACGACACTTATAGTGCCTCATCGACT
1 CGAAGTCGAAGTAACAGTACGACACACATAGTGCCTCATCGACT
*
48504544 -AAAGGTCGAAGTA
1 CGAA-GTCGAAGTA
48504557 TCCCTGAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 2 0.04
44 46 0.94
45 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (44 bp):
CGAAGTCGAAGTAACAGTACGACACACATAGTGCCTCATCGACT
Found at i:48506717 original size:40 final size:39
Alignment explanation
Indices: 48506552--48506735 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
48506542 AAATTGAATG
* * *
48506552 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
48506592 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
48506632 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
48506672 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
48506711 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48506736 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:48506760 original size:80 final size:81
Alignment explanation
Indices: 48506592--48506780 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
48506582 GCTGGAAATT
* * * *
48506592 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
48506657 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
48506673 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
48506736 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
48506752 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
48506781 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:48514839 original size:40 final size:39
Alignment explanation
Indices: 48514674--48514857 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
48514664 AAATTGAATG
* * *
48514674 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
48514714 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
48514754 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
48514794 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
48514833 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48514858 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:48514882 original size:80 final size:81
Alignment explanation
Indices: 48514714--48514902 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
48514704 GCTGGAAATT
* * * *
48514714 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
48514779 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
48514795 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
48514858 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
48514874 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
48514903 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:48516673 original size:11 final size:11
Alignment explanation
Indices: 48516650--48516694 Score: 72
Period size: 12 Copynumber: 3.9 Consensus size: 11
48516640 TTAATATTTA
48516650 AATTTCTTATTC
1 AATTTC-TATTC
48516662 AATTTCTATTC
1 AATTTCTATTC
48516673 AATTTCTACTTC
1 AATTTCTA-TTC
48516685 AATTTCTATT
1 AATTTCTATT
48516695 TTAATCTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.47
12 17 0.53
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:48516676 original size:23 final size:23
Alignment explanation
Indices: 48516650--48516694 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48516640 TTAATATTTA
48516650 AATTTCTTA-TTCAATTTCTATTC
1 AATTTC-TACTTCAATTTCTATTC
48516673 AATTTCTACTTCAATTTCTATT
1 AATTTCTACTTCAATTTCTATT
48516695 TTAATCTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.56
Consensus pattern (23 bp):
AATTTCTACTTCAATTTCTATTC
Found at i:48529387 original size:25 final size:25
Alignment explanation
Indices: 48529340--48529394 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
48529330 GGATGAGAAA
* *
48529340 GAAAAAACTAAGTTAGGGGTTTGAG
1 GAAAAAACTAAATTAGGGATTTGAG
* *
48529365 GAAAAAACTAAATTAGGTATTTGGG
1 GAAAAAACTAAATTAGGGATTTGAG
48529390 GAAAA
1 GAAAA
48529395 CGATTTGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.24
Consensus pattern (25 bp):
GAAAAAACTAAATTAGGGATTTGAG
Found at i:48529597 original size:40 final size:43
Alignment explanation
Indices: 48529507--48529600 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 43
48529497 TTACCCTTAG
* *
48529507 TGGCATTTATGACAAAAATGTCGCTATCGCTTTTAACCTTTTA
1 TGGCGTTTATGACAAAAACGTCGCTATCGCTTTTAACCTTTTA
*
48529550 TGGCGTTTATG-CAAAAACGTCGCTATTC-C-TTT-ACCTTTTG
1 TGGCGTTTATGACAAAAACGTCGCTA-TCGCTTTTAACCTTTTA
*
48529590 TTGCGTTTATG
1 TGGCGTTTATG
48529601 GGAAAACTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 17 0.37
41 3 0.07
42 14 0.30
43 12 0.26
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (43 bp):
TGGCGTTTATGACAAAAACGTCGCTATCGCTTTTAACCTTTTA
Found at i:48535270 original size:16 final size:16
Alignment explanation
Indices: 48535249--48535280 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48535239 ATATTAGTAG
48535249 ATAATTCAAACATGTT
1 ATAATTCAAACATGTT
48535265 ATAATTCAAACATGTT
1 ATAATTCAAACATGTT
48535281 CTTAGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAATTCAAACATGTT
Found at i:48538610 original size:48 final size:48
Alignment explanation
Indices: 48538539--48538706 Score: 246
Period size: 48 Copynumber: 3.5 Consensus size: 48
48538529 AAAAGTGCCT
** *
48538539 GTGTAAGACCATAACTGGGACATGGCATCGGTGATGATATATGTGCTA
1 GTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATATGTGCTA
* * *
48538587 GTGTAAGACCATGTCTGAGACATGGTATCGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATATGTGCTA
* * *
48538635 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATATGCTA
1 GTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATATGTGCTA
*
48538683 GTGTAAGACCATGTCTAAGACATG
1 GTGTAAGACCATGTCTGAGACATG
48538707 TGTGCCAGTG
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 106 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGAGACATGGCATCGGTGATGATATATGTGCTA
Found at i:48538697 original size:96 final size:96
Alignment explanation
Indices: 48538533--48538706 Score: 294
Period size: 96 Copynumber: 1.8 Consensus size: 96
48538523 CGTACTAAAA
* * *
48538533 GTGCCTGTGTAAGACCATAACTGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCA
1 GTGCCAGTGTAAGACCATAACTGGGACATGGCATCGGCGATGATATATATGCTAGTGTAAGACCA
*
48538598 TGTCTGAGACATGGTATCGGTGATGATATGT
66 TGTCTAAGACATGGTATCGGTGATGATATGT
**
48538629 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATATGCTAGTGTAAGACCA
1 GTGCCAGTGTAAGACCATAACTGGGACATGGCATCGGCGATGATATATATGCTAGTGTAAGACCA
48538694 TGTCTAAGACATG
66 TGTCTAAGACATG
48538707 TGTGCCAGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (96 bp):
GTGCCAGTGTAAGACCATAACTGGGACATGGCATCGGCGATGATATATATGCTAGTGTAAGACCA
TGTCTAAGACATGGTATCGGTGATGATATGT
Found at i:48543905 original size:93 final size:93
Alignment explanation
Indices: 48543791--48543962 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48543781 CGCCCATAAG
* *
48543791 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48543856 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
48543884 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
48543949 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
48543963 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:48543959 original size:46 final size:46
Alignment explanation
Indices: 48543784--48543959 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
48543774 TGTAACCCGC
* * *
48543784 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
48543830 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
48543880 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48543923 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48543960 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 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 61 0.57
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48554597 original size:231 final size:231
Alignment explanation
Indices: 48554187--48554653 Score: 781
Period size: 231 Copynumber: 2.0 Consensus size: 231
48554177 GCCCGTGCCC
* *
48554187 ACCACCTGTGCTCAAGACTGATAAAACAACACGGGCATGGGAGAAGTAAACGAAGTAGAACACAG
1 ACCACCCGTGCTCAAGACTGATAAAACAACACGGACATGGGAGAAGTAAACGAAGTAGAACACAG
*
48554252 TCATTCGACACGGCAAAAATTAGGGCACACGGGCGTGCCCCATGGCCGTGTGTCCCAAAATCTAT
66 TCATTCGACACGGCAAAAATTAGGGCACACGGGCGTGCCCCATGGCCATGTGTCCCAAAATCTAT
*
48554317 AAATCCCCCTCACTATTCATCATCCCCTTCCCCAAAATCCCTAACCCTAGCCACTGCAACTTTAC
131 AAATCCCCCTCACTATTCATCATCCCCTTCCCCAAAATCCCTAACCCTAGCCACTGCAACTTCAC
* * **
48554382 ACGTCTTACCTGCCACGTCTGTGCGCCGCCCACAAT
196 ACGCCCTACCTGCCACGTCCATGCGCCGCCCACAAT
* *
48554418 ACCACCCGTGCTCAAGACTGATAAAACAACACGGACGTGGGAGAAGTAAACGAAGTAGGACACAG
1 ACCACCCGTGCTCAAGACTGATAAAACAACACGGACATGGGAGAAGTAAACGAAGTAGAACACAG
* * * *
48554483 TCGTTCGACACTGCAAAAATTAGGGTACACGGGCGTGCCCCATGGCCATGTGTCCTAAAATCTAT
66 TCATTCGACACGGCAAAAATTAGGGCACACGGGCGTGCCCCATGGCCATGTGTCCCAAAATCTAT
* *
48554548 AAATGCCCCTCACTATTCATCATCCCCTTCCCCAAAATCCCTAACCCTAGCCACTGTAACTTCAC
131 AAATCCCCCTCACTATTCATCATCCCCTTCCCCAAAATCCCTAACCCTAGCCACTGCAACTTCAC
*
48554613 ATGCCCTACCTGCCACGTCCATGCGCCGCCCACAAT
196 ACGCCCTACCTGCCACGTCCATGCGCCGCCCACAAT
48554649 ACCAC
1 ACCAC
48554654 TTTTGACGAC
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
231 219 1.00
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.19
Consensus pattern (231 bp):
ACCACCCGTGCTCAAGACTGATAAAACAACACGGACATGGGAGAAGTAAACGAAGTAGAACACAG
TCATTCGACACGGCAAAAATTAGGGCACACGGGCGTGCCCCATGGCCATGTGTCCCAAAATCTAT
AAATCCCCCTCACTATTCATCATCCCCTTCCCCAAAATCCCTAACCCTAGCCACTGCAACTTCAC
ACGCCCTACCTGCCACGTCCATGCGCCGCCCACAAT
Found at i:48554714 original size:22 final size:25
Alignment explanation
Indices: 48554673--48554721 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
48554663 CCAAAAGCTC
*
48554673 TTCCCTCTTATGTTTGTTCA-TCTT
1 TTCCCTCTTATGTTTCTTCATTCTT
48554697 TTCCCTC-TAT-TTTCTTCATTCTT
1 TTCCCTCTTATGTTTCTTCATTCTT
48554720 TT
1 TT
48554722 ATTTATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 9 0.39
24 7 0.30
ACGTcount: A:0.08, C:0.27, G:0.04, T:0.61
Consensus pattern (25 bp):
TTCCCTCTTATGTTTCTTCATTCTT
Found at i:48557352 original size:7 final size:7
Alignment explanation
Indices: 48557340--48557364 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48557330 CCCTCAATAT
48557340 TAACCCA
1 TAACCCA
48557347 TAACCCA
1 TAACCCA
48557354 TAACCCA
1 TAACCCA
48557361 TAAC
1 TAAC
48557365 TCTTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:48557939 original size:610 final size:610
Alignment explanation
Indices: 48556780--48560404 Score: 7124
Period size: 610 Copynumber: 5.9 Consensus size: 610
48556770 ACATTGAGGG
* *
48556780 CAATGTACATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTGTCTTA
1 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
48556845 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
66 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
* *
48556910 ATTGAATTAAAACATAGGCATTTATGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
131 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
*
48556975 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGATATTATC
196 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
* * * *
48557040 TTGAGTTGAAATTCATAAGTTTAAACATCAAAAAGCCATAATTTTTTGTAAGATCTTGAGCTTTT
261 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
*
48557105 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGCGCGTCAGTATTGATTTGTTATTC
326 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
48557170 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
391 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
*
48557235 GCACTTAGGTTTAACCCACTCACTCTACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
456 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
48557300 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
521 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
48557365 TCTTAGTGATCCCCTTTGCGCCTAA
586 TCTTAGTGATCCCCTTTGCGCCTAA
48557390 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
1 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
48557455 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
66 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
48557520 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
131 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
48557585 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
196 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
48557650 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
261 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
48557715 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
326 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
48557780 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
391 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
*
48557845 GCACTTAGGTTTAACCCACTCACTCTACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
456 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
48557910 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
521 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
48557975 TCTTAGTGATCCCCTTTGCGCCTAA
586 TCTTAGTGATCCCCTTTGCGCCTAA
48558000 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
1 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
48558065 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
66 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
48558130 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
131 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
48558195 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
196 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
48558260 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
261 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
48558325 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
326 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
48558390 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
391 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
*
48558455 GCACTTAGGTTTAACCCACTCACTCTACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
456 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
48558520 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
521 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
48558585 TCTTAGTGATCCCCTTTGCGCCTAA
586 TCTTAGTGATCCCCTTTGCGCCTAA
48558610 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
1 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
48558675 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
66 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
48558740 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
131 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
48558805 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
196 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
48558870 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
261 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
48558935 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
326 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
48559000 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
391 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
48559065 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
456 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
48559130 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
521 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
48559195 TCTTAGTGATCCCCTTTGCGCCTAA
586 TCTTAGTGATCCCCTTTGCGCCTAA
48559220 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
1 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
48559285 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
66 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
48559350 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
131 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
48559415 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
196 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
48559480 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
261 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
48559545 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
326 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
48559610 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
391 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
*
48559675 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTTCCTTCATAATTAACCCTTAGTGATCCCC
456 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
48559740 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
521 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
48559805 TCTTAGTGATCCCCTTTGCGCCTAA
586 TCTTAGTGATCCCCTTTGCGCCTAA
48559830 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
1 CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
48559895 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
66 TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
48559960 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
131 CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
48560025 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
196 ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
48560090 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
261 TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
48560155 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
326 AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
48560220 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
391 TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
48560285 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
456 GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
48560350 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCAT
521 TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCAT
48560405 TATTGTTGAA
Statistics
Matches: 3002, Mismatches: 13, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
610 3002 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (610 bp):
CAATGTATATCTTAAGTGTGGGGGGTCTTTTATATCATCATCAGAAATCCCTGAATTTTTTCTTA
TTCTCACGTGAATCACTCATATCACTATTAGAATGAATTTTAATTAATGAATTTTATTGCAATGT
CTTGAATTAAAACATAGGCATTTAGGCATTGATTGTTTAAACTTTAAGACATTAGGGAATCAAGC
ATGATAAGTTGACTTTTGAAGAATTAAAAAACTTTTAGGTTGCTTCCCTAAGTTTAGGTATTATC
TTGTGTTGAAATTCACAAGTTTAAACATCAAAAAGCCATAATTTTTTATAAGATCTTGAGCCTTT
AGAGCATATTTTATTTCTTTCATGCTCACTTTTATTATGAGTGCGTCAGTATTGATTTGTTATTC
TAGAACTTGCTTGATTATGCATGTCAAGACCACACCATTTGATTTGATATGTTAAGATGATAAAG
GCACTTAGGTTTAACCCACTCACTCCACAAAAGCTTACCTTCATAATTAACCCTTAGTGATCCCC
TTTGCGCCTAACAAGCCATTAATTGATTTACCCTCAATATTAACCCATAACCCATAACCCATAAC
TCTTAGTGATCCCCTTTGCGCCTAA
Found at i:48557962 original size:7 final size:7
Alignment explanation
Indices: 48557950--48557974 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48557940 CCCTCAATAT
48557950 TAACCCA
1 TAACCCA
48557957 TAACCCA
1 TAACCCA
48557964 TAACCCA
1 TAACCCA
48557971 TAAC
1 TAAC
48557975 TCTTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:48558572 original size:7 final size:7
Alignment explanation
Indices: 48558560--48558584 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48558550 CCCTCAATAT
48558560 TAACCCA
1 TAACCCA
48558567 TAACCCA
1 TAACCCA
48558574 TAACCCA
1 TAACCCA
48558581 TAAC
1 TAAC
48558585 TCTTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:48559182 original size:7 final size:7
Alignment explanation
Indices: 48559170--48559194 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48559160 CCCTCAATAT
48559170 TAACCCA
1 TAACCCA
48559177 TAACCCA
1 TAACCCA
48559184 TAACCCA
1 TAACCCA
48559191 TAAC
1 TAAC
48559195 TCTTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:48559792 original size:7 final size:7
Alignment explanation
Indices: 48559780--48559804 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48559770 CCCTCAATAT
48559780 TAACCCA
1 TAACCCA
48559787 TAACCCA
1 TAACCCA
48559794 TAACCCA
1 TAACCCA
48559801 TAAC
1 TAAC
48559805 TCTTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Done.