Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 155 of 438
Found at i:47042814 original size:18 final size:18
Alignment explanation
Indices: 47042787--47042838 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
47042777 GGCCCATTGA
*
47042787 AGTAACAGTAAATAGTGC
1 AGTAACAGTAAACAGTGC
*
47042805 AGTAATAGTAAACAGTGC
1 AGTAACAGTAAACAGTGC
*
47042823 AATAACAGTAAACAGT
1 AGTAACAGTAAACAGT
47042839 ATGCAAGTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (18 bp):
AGTAACAGTAAACAGTGC
Found at i:47050844 original size:27 final size:27
Alignment explanation
Indices: 47050806--47050859 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
47050796 TAGTAATGTA
47050806 GTGAAATAATGGGAATTTTGGGTCACT
1 GTGAAATAATGGGAATTTTGGGTCACT
47050833 GTGAAATAATGGGAATTTTGGGTCACT
1 GTGAAATAATGGGAATTTTGGGTCACT
47050860 ATAAGAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (27 bp):
GTGAAATAATGGGAATTTTGGGTCACT
Found at i:47051455 original size:49 final size:50
Alignment explanation
Indices: 47051363--47051495 Score: 148
Period size: 49 Copynumber: 2.7 Consensus size: 50
47051353 CAGGATATAC
* *
47051363 AAGCTAGTGTAAGACCTTTCTGGGACATGGCATC-GACACCGATAGATGT
1 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGACACCGATAGATGA
* * * *
47051412 GAGCTAATGTAAGATCTGTCTGGGACATGGCATCAG-C-CTCGATATATGA
1 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGACAC-CGATAGATGA
* *
47051461 AAG-TCAGTGTAAGACCTGTCTAGGACACGGCATCA
1 AAGCT-AGTGTAAGACCTGTCTGGGACATGGCATCA
47051496 ACTTTAATGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 67 0.96
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (50 bp):
AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGACACCGATAGATGA
Found at i:47059768 original size:40 final size:40
Alignment explanation
Indices: 47059709--47059794 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
47059699 CAGAATACAA
*
47059709 CCGGATATAACCACATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
* * *
47059749 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
47059789 CCGGAT
1 CCGGAT
47059795 GTAGTCACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (40 bp):
CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
Found at i:47059816 original size:40 final size:41
Alignment explanation
Indices: 47059725--47059833 Score: 129
Period size: 40 Copynumber: 2.7 Consensus size: 41
47059715 ATAACCACAT
* *
47059725 GCACGAATGCCCTCGGGTCTTAGCCCGGA-TAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
*
47059765 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTA
*
47059805 GCAC-AATTGCCTTCGGGT-TTAACCCGGAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
47059834 ATAATTTCCA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
39 12 0.19
40 46 0.74
41 1 0.02
42 3 0.05
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.24
Consensus pattern (41 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
Found at i:47061135 original size:18 final size:18
Alignment explanation
Indices: 47061114--47061151 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47061104 ACTTTTCTTC
* *
47061114 CTTTCTTTTTTTTTTTTT
1 CTTTCTTTGTTTTTGTTT
47061132 CTTTCTTTGTTTTTGTTT
1 CTTTCTTTGTTTTTGTTT
47061150 CT
1 CT
47061152 CTCATGTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (18 bp):
CTTTCTTTGTTTTTGTTT
Found at i:47062354 original size:48 final size:49
Alignment explanation
Indices: 47062242--47062362 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 49
47062232 TATAAGAGCC
* * *
47062242 AGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGACGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGATGAAAGCT
* * *
47062291 AGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGA-TAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGATGA-AAGCT
* *
47062339 AGTTTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
47062363 GCGCCAGCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 27 0.44
49 34 0.55
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGATGAAAGCT
Found at i:47064423 original size:19 final size:19
Alignment explanation
Indices: 47064387--47064429 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47064377 GCTAGATTGC
47064387 TAAATTGTAAAATGAGTTG
1 TAAATTGTAAAATGAGTTG
*
47064406 TAAATGTGTGAAAT-AGTTG
1 TAAAT-TGTAAAATGAGTTG
47064425 -AAATT
1 TAAATT
47064430 ATGAGTAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 4 0.18
19 10 0.45
20 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
TAAATTGTAAAATGAGTTG
Found at i:47065152 original size:46 final size:46
Alignment explanation
Indices: 47064987--47065166 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 46
47064977 GATGGTTGAG
*
47064987 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTAATTGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT-A-TGGATGCGAA
** * * * * *
47065035 TGTTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAGTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--CG-A-A
*
47065082 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
47065128 CACCCGAGCTCGTTGAGTTGAGTCCGAATTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47065167 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
45 1 0.01
46 39 0.36
47 29 0.27
48 30 0.28
50 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:47068020 original size:46 final size:45
Alignment explanation
Indices: 47067964--47068169 Score: 222
Period size: 46 Copynumber: 4.5 Consensus size: 45
47067954 GACGAGGGCT
47067964 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-A-GATGAGCC
*
47068010 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC-GAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAGATG--AGCC
* * * * *
47068056 AGTGTCAGACATGTCTGGGACATGCATCGGCTAC-GAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAGATGAGCC
* * * * *
47068100 AGTGTAAGACATGTCTAGGACATGCGTCAG-CACAGCTACATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG--AGATGAGCC
*
47068146 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
47068170 GCATTGACAC
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
43 4 0.03
44 31 0.23
45 1 0.01
46 101 0.74
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGAGATGAGCC
Found at i:47068149 original size:90 final size:91
Alignment explanation
Indices: 47067964--47068169 Score: 240
Period size: 90 Copynumber: 2.3 Consensus size: 91
47067954 GACGAGGGCT
*
47067964 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTAT-AGAGCCAGTGTAAGACATGTCTAGG
* *
47068029 ACATGCATCAGCCTCGAGATGTTAGCC
65 ACATGCATCAGCCGCGACATGTTAGCC
* * * * *
47068056 AGTGTCAGACATGTCTGGGACATGCATCGGCTACGAG-AT-GTGCTAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATAGAGCCAGTGTAAGACATGTCTAGG
* * *
47068119 ACATGCGTCAGCACAGCTACATG-T-GTC
65 ACATGCATCAGC-C-GCGACATGTTAGCC
*
47068146 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
47068170 GCATTGACAC
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
90 56 0.57
91 2 0.02
92 38 0.39
93 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATAGAGCCAGTGTAAGACATGTCTAGGA
CATGCATCAGCCGCGACATGTTAGCC
Found at i:47072806 original size:40 final size:40
Alignment explanation
Indices: 47072751--47072884 Score: 218
Period size: 40 Copynumber: 3.4 Consensus size: 40
47072741 AGGATGATAA
* *
47072751 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
47072791 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
47072832 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
47072871 CCGGGCTAAGTCCC
1 CCGGGCTAAGTCCC
47072885 AAATGTAACA
Statistics
Matches: 89, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 83 0.93
41 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:47074314 original size:93 final size:93
Alignment explanation
Indices: 47074202--47074372 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47074192 GCCCATAAGT
* *
47074202 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47074267 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47074295 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47074360 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47074373 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47074369 original size:46 final size:46
Alignment explanation
Indices: 47074194--47074369 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
47074184 TGTAACCCGC
* * *
47074194 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47074240 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
47074290 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
47074333 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47074370 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47076013 original size:22 final size:21
Alignment explanation
Indices: 47075972--47076015 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
47075962 GAATGTGCAT
47075972 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
47075994 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
47076016 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:47082517 original size:40 final size:40
Alignment explanation
Indices: 47082458--47082566 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 40
47082448 TATTCGGATG
*
47082458 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
47082498 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
** *
47082538 ATAACAAGGCTAAGTCCCAAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
47082567 AGCAAGTAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 58 0.97
41 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:47082866 original size:22 final size:21
Alignment explanation
Indices: 47082825--47082868 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
47082815 GAATGTGCAT
47082825 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
47082847 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
47082869 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:47096699 original size:26 final size:27
Alignment explanation
Indices: 47096670--47096728 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
47096660 CCACATATAT
*
47096670 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
47096696 ATAT-TGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
47096722 ATATCTG
1 ATATCTG
47096729 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.11
26 22 0.81
27 2 0.07
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:47104057 original size:2 final size:2
Alignment explanation
Indices: 47104050--47104082 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47104040 GGCTTCCCAC
47104050 TA TA 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 TA TA T
47104083 CTGTTTCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47105844 original size:29 final size:28
Alignment explanation
Indices: 47105811--47105883 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
47105801 CCTTCGAGCT
47105811 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
47105840 TGCACACTTAGTGCCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
47105868 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47105884 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:47105872 original size:28 final size:29
Alignment explanation
Indices: 47105753--47105883 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
47105743 TACTCGATTT
** * *
47105753 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
47105782 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
47105811 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47105840 TGCACACTTAGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47105868 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47105884 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47113459 original size:42 final size:40
Alignment explanation
Indices: 47113407--47113516 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 40
47113397 CTTCACAAAG
*
47113407 ATGCCTTCGGGACTTAGCCCGGATATATCAAAC-TCTTCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATAT--AACGTC-GCACGA
47113449 ATGCCTTCGGGACTTAGCCCGGATATAGTAACGTCGCACGA
1 ATGCCTTCGGGACTTAGCCCGGATATA-TAACGTCGCACGA
47113490 ATGCCTTCGGG-CTTAGCCCGGATATAT
1 ATGCCTTCGGGACTTAGCCCGGATATAT
47113517 GTTCGCGCAA
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
39 1 0.02
40 15 0.23
41 19 0.29
42 29 0.45
43 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATATAACGTCGCACGA
Found at i:47122630 original size:40 final size:39
Alignment explanation
Indices: 47122585--47122792 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
47122575 CGGAATACAA
*
47122585 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
47122625 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47122665 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
47122705 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
47122745 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47122785 CCGGATAT
1 CCGGATAT
47122793 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47122725 original size:80 final size:80
Alignment explanation
Indices: 47122585--47122792 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
47122575 CGGAATACAA
* * *
47122585 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
47122650 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
47122665 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
47122729 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
47122745 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
47122793 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:47130573 original size:40 final size:39
Alignment explanation
Indices: 47130528--47130735 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
47130518 CGGAATACAA
*
47130528 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
47130568 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47130608 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
47130648 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
47130688 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47130728 CCGGATAT
1 CCGGATAT
47130736 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47130668 original size:80 final size:80
Alignment explanation
Indices: 47130528--47130735 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
47130518 CGGAATACAA
* * *
47130528 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
47130593 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
47130608 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
47130672 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
47130688 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
47130736 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:47137236 original size:43 final size:43
Alignment explanation
Indices: 47137072--47137238 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
47137062 AGCTCTTACA
* * ** *
47137072 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAT-G
** * * * *
47137114 ATGCTGATAG-CCCAG-CTATGGTCTTATACAAAATCAAATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACATAATCACATAATG
** * **
47137157 ATGCCAATGTCTTAGACACGGTCTTACATGTAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
47137200 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
47137239 CTCGTTAATC
Statistics
Matches: 93, Mismatches: 26, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
42 5 0.05
43 86 0.92
44 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
Found at i:47139597 original size:93 final size:93
Alignment explanation
Indices: 47139490--47139660 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
47139480 GCCCCTAAGT
* *
47139490 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47139555 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
47139583 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47139648 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47139661 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:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47139657 original size:46 final size:46
Alignment explanation
Indices: 47139485--47139657 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
47139475 AACCCGCCCC
* * *
47139485 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
47139531 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
47139579 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47139624 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47139658 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 1 0.01
46 61 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47140114 original size:30 final size:30
Alignment explanation
Indices: 47140080--47140139 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47140070 ATTTAATACG
47140080 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
47140110 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
47140140 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:47147271 original size:43 final size:43
Alignment explanation
Indices: 47147123--47147273 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 43
47147113 TATCCCAGAT
** * *
47147123 ATGGTCTTACATGTTATCACATATA-GATGCCGATAG-CCC-AAC
1 ATGGTCTTACACATAATCACATA-ACGATGCCAAT-GTCCCAAAC
* * *
47147165 TATGGTCTTACACAAAATCAAATAACGATGCCAATGTCTCAAAC
1 -ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
* * *
47147209 ATGGTCTTACACGTAATCACATAATGATGCTAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
47147252 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
47147274 CTCGTTAATC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.02
43 86 0.95
44 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
Found at i:47154016 original size:47 final size:47
Alignment explanation
Indices: 47153946--47154148 Score: 309
Period size: 47 Copynumber: 4.3 Consensus size: 47
47153936 ATGATATACA
47153946 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
47153993 TATATAG-GTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATAT-GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
47154040 TATATGTGTGGTAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
47154087 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
47154134 CATATGTGTGATAAG
1 TATATGTGTGATAAG
47154149 TCCCGAAGGG
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 137 0.99
48 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:47154107 original size:94 final size:94
Alignment explanation
Indices: 47153946--47154148 Score: 352
Period size: 94 Copynumber: 2.2 Consensus size: 94
47153936 ATGATATACA
*
47153946 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGCC
47154011 TAATGGCCCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
* * *
47154040 TATATGTGTGGTAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGCC
*
47154105 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
*
47154134 CATATGTGTGATAAG
1 TATATGTGTGATAAG
47154149 TCCCGAAGGG
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 102 1.00
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (94 bp):
TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATAGGTGATAAGGCC
TAATGGCCCATGTGATGAATGTGAAAGTG
Found at i:47156322 original size:39 final size:39
Alignment explanation
Indices: 47156263--47156344 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
47156253 AGGGTCGAAC
*
47156263 ACAATTCATACAATAATAAAGCATTTAAAGCATAATTAA
1 ACAACTCATACAATAATAAAGCATTTAAAGCATAATTAA
47156302 ACAACTCATACAATAATAAAGCATTTAAAGCATAATTAA
1 ACAACTCATACAATAATAAAGCATTTAAAGCATAATTAA
47156341 ACAA
1 ACAA
47156345 TGCATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.26
Consensus pattern (39 bp):
ACAACTCATACAATAATAAAGCATTTAAAGCATAATTAA
Found at i:47156336 original size:19 final size:19
Alignment explanation
Indices: 47156275--47156337 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
47156265 AATTCATACA
47156275 ATAATAAAGCATTTAAAGC
1 ATAATAAAGCATTTAAAGC
* * *
47156294 ATAATTAAA-CAACTCATA-C
1 ATAA-TAAAGC-ATTTAAAGC
47156313 AATAATAAAGCATTTAAAGC
1 -ATAATAAAGCATTTAAAGC
47156333 ATAAT
1 ATAAT
47156338 TAAACAATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (19 bp):
ATAATAAAGCATTTAAAGC
Found at i:47165664 original size:27 final size:27
Alignment explanation
Indices: 47165634--47165735 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
47165624 AGTCTGCTAG
* * *
47165634 GACACTAAACATGGGGTAGTCTATCGA
1 GACACTAAACACGAGGTAGTCCATCGA
* * *
47165661 GACATTAAACACGGGGTAGTCCGTCGA
1 GACACTAAACACGAGGTAGTCCATCGA
* * *
47165688 GACACTAAGCAAGAGGTAGTCCATCAA
1 GACACTAAACACGAGGTAGTCCATCGA
47165715 GACACTAAACACGAGGTAGTC
1 GACACTAAACACGAGGTAGTC
47165736 TGCTGGGACA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
GACACTAAACACGAGGTAGTCCATCGA
Found at i:47165745 original size:27 final size:27
Alignment explanation
Indices: 47165624--47165816 Score: 103
Period size: 27 Copynumber: 7.1 Consensus size: 27
47165614 AAACATATAG
* *
47165624 AGTCTGCT-AGGACACTAAACATGGGGT
1 AGTCTGCTGA-GACACTAAACACGAGGT
* * *
47165651 AGTCT-ATCGAGACATTAAACACGGGGT
1 AGTCTGCT-GAGACACTAAACACGAGGT
* * *
47165678 AGTCCG-TCGAGACACTAAGCAAGAGGT
1 AGTCTGCT-GAGACACTAAACACGAGGT
*
47165705 AGTC--CATCAAGACACTAAACACGAGGT
1 AGTCTGC-T-GAGACACTAAACACGAGGT
* *
47165732 AGTCTGCTGGGACAATAAACAC-AGGGT
1 AGTCTGCTGAGACACTAAACACGA-GGT
* * *
47165759 AGT-TCGTTGGGACACTAAATACGAGGT
1 AGTCT-GCTGAGACACTAAACACGAGGT
* ** * *
47165786 AGTTTGCCAAGACACTAGATACGAGGT
1 AGTCTGCTGAGACACTAAACACGAGGT
47165813 AGTC
1 AGTC
47165817 CACTAGGACA
Statistics
Matches: 132, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
26 3 0.02
27 124 0.94
28 4 0.03
29 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
AGTCTGCTGAGACACTAAACACGAGGT
Found at i:47165760 original size:54 final size:53
Alignment explanation
Indices: 47165624--47165788 Score: 152
Period size: 54 Copynumber: 3.1 Consensus size: 53
47165614 AAACATATAG
* * * * *
47165624 AGTCTGCTAGGACACTAAACATGGGGTAGTCTATCGAGACATTAAACACGGGGT
1 AGTCTGCTGGGACACTAAACA-AGGGTAGTCCATCGAGACACTAAACACGAGGT
* * * *
47165678 AGTCCG-TCGAGACACTAAGCAAGAGGTAGTCCATCAAGACACTAAACACGAGGT
1 AGTCTGCT-GGGACACTAAACAAG-GGTAGTCCATCGAGACACTAAACACGAGGT
* * * * * *
47165732 AGTCTGCTGGGACAATAAACACAGGGTAGTTCGTTGGGACACTAAATACGAGGT
1 AGTCTGCTGGGACACTAAACA-AGGGTAGTCCATCGAGACACTAAACACGAGGT
47165786 AGT
1 AGT
47165789 TTGCCAAGAC
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
53 2 0.02
54 83 0.94
55 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (53 bp):
AGTCTGCTGGGACACTAAACAAGGGTAGTCCATCGAGACACTAAACACGAGGT
Found at i:47165773 original size:81 final size:80
Alignment explanation
Indices: 47165634--47165831 Score: 189
Period size: 81 Copynumber: 2.4 Consensus size: 80
47165624 AGTCTGCTAG
* * * * * * *
47165634 GACACTAAACATGGGGTAGTCTATCGAGACATTAAACACGGGGTAGTCCGTCGAGACACTAAGCA
1 GACACTAAACACGAGGTAGTCTCT-GGGACAATAAACACAGGGTAGTCCGTCGAGACACTAAACA
*
47165699 AGAGGTAGTCCATCAA
65 AGAGGTAGTCCACCAA
* * * *
47165715 GACACTAAACACGAGGTAGTCTGCTGGGACAATAAACACAGGGTAGTTCGTTGGGACACTAAATA
1 GACACTAAACACGAGGTAGTCT-CTGGGACAATAAACACAGGGTAGTCCGTCGAGACACTAAACA
* ***
47165780 CGAGGTAGTTTGCCAA
65 AGAGGTAGTCCACCAA
* * * *
47165796 GACACTAGATACGAGGTAGTCCACTAGGACAATAAA
1 GACACTAAACACGAGGTAGT-CTCTGGGACAATAAA
47165832 TACGAAAAGG
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
81 93 0.98
82 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (80 bp):
GACACTAAACACGAGGTAGTCTCTGGGACAATAAACACAGGGTAGTCCGTCGAGACACTAAACAA
GAGGTAGTCCACCAA
Found at i:47165826 original size:27 final size:27
Alignment explanation
Indices: 47165768--47165836 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
47165758 TAGTTCGTTG
***
47165768 GGACACTAAATACGAGGTAGTTTGCCA
1 GGACACTAAATACGAGGTAGTCCACCA
* * *
47165795 AGACACTAGATACGAGGTAGTCCACTA
1 GGACACTAAATACGAGGTAGTCCACCA
*
47165822 GGACAATAAATACGA
1 GGACACTAAATACGA
47165837 AAAGGTCTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
GGACACTAAATACGAGGTAGTCCACCA
Found at i:47168435 original size:24 final size:24
Alignment explanation
Indices: 47168385--47168443 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
47168375 GCGCGAGAGT
* *
47168385 TTTGAATGTTTCAAGCCCCAAAGC
1 TTTGAATGTTTCAAGCACCAAACC
*
47168409 TTTGAATG-TTCTAAGCACTAAACC
1 TTTGAATGTTTC-AAGCACCAAACC
47168433 TTTG--TGTTTCA
1 TTTGAATGTTTCA
47168444 CTAGTTCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 21 0.70
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (24 bp):
TTTGAATGTTTCAAGCACCAAACC
Found at i:47171993 original size:22 final size:22
Alignment explanation
Indices: 47171965--47172007 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
47171955 AGTAAGTAAG
47171965 TTGTTCCATTTTGAATGAATTT
1 TTGTTCCATTTTGAATGAATTT
47171987 TTGTTCCATTTTGAATGAATT
1 TTGTTCCATTTTGAATGAATT
47172008 GAGTAGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (22 bp):
TTGTTCCATTTTGAATGAATTT
Found at i:47172010 original size:80 final size:80
Alignment explanation
Indices: 47171917--47172065 Score: 271
Period size: 80 Copynumber: 1.9 Consensus size: 80
47171907 AAATTGGATC
*
47171917 TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATTTTGAATG
1 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATAGTAAGTAAGTTGTTCCATTTTGAATG
47171982 AATTTTTGTTCCATT
66 AATTTTTGTTCCATT
* *
47171997 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATTGTAATTAAGTTGTTCCATTTTGAATG
1 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATAGTAAGTAAGTTGTTCCATTTTGAATG
47172062 AATT
66 AATT
47172066 GAGTAGACAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (80 bp):
TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATAGTAAGTAAGTTGTTCCATTTTGAATG
AATTTTTGTTCCATT
Found at i:47175773 original size:40 final size:40
Alignment explanation
Indices: 47175713--47175890 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
47175703 CGGATGATAA
47175713 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* *
47175753 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* *
47175793 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
*
47175833 CCGGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATAT
* *
47175873 CC-GGCTAATTCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
47175891 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:47179178 original size:39 final size:40
Alignment explanation
Indices: 47179078--47179260 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
47179068 TCGAATGATG
* * *
47179078 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
47179118 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
47179158 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
47179197 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
** *
47179238 -CCGGGCTTCGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47179261 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:47179242 original size:79 final size:81
Alignment explanation
Indices: 47179078--47179262 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
47179068 TCGAATGATG
* * *
47179078 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
47179142 CGTGCGAGTTAATAAA
66 CGTGCGAGTCAATAAA
* **
47179158 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
47179220 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATA-AA
** *
47179238 -CCGGGCTTCGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47179263 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATAAA
Found at i:47181189 original size:67 final size:67
Alignment explanation
Indices: 47181081--47181208 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
47181071 GCTTGAACAA
** *
47181081 TAAGCCTACCACCAACAAGTTGGGAGGTCACCTACAAGCTCACCATTCTGGGATGACTACTAAAT
1 TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACTAAAT
47181146 AG
66 AG
* * **
47181148 TAAGCCTGCCACCAGCAAGGAGGGAGGTCACCTGTAAGCTCACCATTCTAGGATGACTACT
1 TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACT
47181209 TGGGCAATAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (67 bp):
TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACTAAAT
AG
Found at i:47188570 original size:40 final size:39
Alignment explanation
Indices: 47188508--47188689 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 39
47188498 GACTCACTCA
** *
47188508 AATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCACG
* * *
47188548 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCC-GGTTTAGTAACTCGCACG
*
47188588 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACG
* * * * *
47188627 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCACG
*
47188667 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
47188690 ACATCATTCG
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 4 0.03
39 29 0.25
40 72 0.62
41 12 0.10
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCACG
Found at i:47188607 original size:79 final size:81
Alignment explanation
Indices: 47188506--47188690 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
47188496 ACGACTCACT
** * *
47188506 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
47188569 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
47188586 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
47188650 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
47188666 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47188691 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:47199454 original size:40 final size:41
Alignment explanation
Indices: 47199402--47199497 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
47199392 TATCTCGGTA
*
47199402 TCGCACACTTAGTGCCTCA-TATAGCCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCT-ATTATAGCCGAAGCTATTTCAAAC
*
47199442 TCGCACACTTAGTG-CTATTTGTAGCCGAAGCTATTTCAAAC
1 TCGCACACTTAGTGCCTA-TTATAGCCGAAGCTATTTCAAAC
*
47199483 -CGTACACTTAGTGCC
1 TCGCACACTTAGTGCC
47199498 GAACATAGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 39 0.80
41 7 0.14
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCTATTATAGCCGAAGCTATTTCAAAC
Found at i:47204047 original size:40 final size:40
Alignment explanation
Indices: 47204003--47204310 Score: 521
Period size: 40 Copynumber: 7.7 Consensus size: 40
47203993 GCTACTTGCT
47204003 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
47204043 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
47204083 CAAATGCCTTCGGAACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
47204123 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
47204163 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
47204203 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
47204243 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
47204282 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
47204311 CATCCGAATA
Statistics
Matches: 252, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.00
39 33 0.13
40 217 0.86
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:47217790 original size:93 final size:93
Alignment explanation
Indices: 47217678--47217849 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47217668 GCCCATAAGT
* *
47217678 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47217743 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47217771 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47217836 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
47217850 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47217845 original size:46 final size:46
Alignment explanation
Indices: 47217670--47217845 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
47217660 TGTAACCCGC
* * *
47217670 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47217716 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
47217766 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
47217809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47217846 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47220271 original size:30 final size:30
Alignment explanation
Indices: 47220227--47220315 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
47220217 CAAAGATAAC
47220227 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
47220256 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
47220286 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
47220316 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:47220275 original size:15 final size:15
Alignment explanation
Indices: 47220227--47220306 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
47220217 CAAAGATAAC
*
47220227 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47220241 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47220256 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
47220271 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47220286 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47220301 AAGAAA
1 AAGAAA
47220307 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47220315 original size:15 final size:15
Alignment explanation
Indices: 47220238--47220315 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
47220228 AGAAAACCGA
47220238 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
47220253 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
47220267 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47220282 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47220298 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47220313 ATA
1 ATA
47220316 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47223323 original size:46 final size:46
Alignment explanation
Indices: 47223256--47223428 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
47223246 TGTAACCCGC
*
47223256 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
47223302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
47223352 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
47223393 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47223429 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:47223421 original size:91 final size:92
Alignment explanation
Indices: 47223264--47223433 Score: 306
Period size: 91 Copynumber: 1.8 Consensus size: 92
47223254 GCCCATAAGT
*
47223264 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
47223329 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47223357 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
47223421 GAGTTCGGATGCC
66 GAGTTCGGATGCC
47223434 CAAATATCCA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47227412 original size:24 final size:24
Alignment explanation
Indices: 47227384--47227456 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
47227374 CATCATTAAA
*
47227384 ATATCTAATATCAATTAAACTTAT
1 ATATCTAATATCAATTAAATTTAT
47227408 ATATCTAATATCAATTAAATTTAT
1 ATATCTAATATCAATTAAATTTAT
47227432 ATATCTAATATCAATTAAATTTAT
1 ATATCTAATATCAATTAAATTTAT
47227456 A
1 A
47227457 CTTAAAATCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATCTAATATCAATTAAATTTAT
Found at i:47227904 original size:2 final size:2
Alignment explanation
Indices: 47227899--47227927 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47227889 TATATATATA
47227899 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
47227928 AACATGAATT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:47231517 original size:41 final size:43
Alignment explanation
Indices: 47231471--47231564 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 43
47231461 ACCGGCACGA
*
47231471 AGCCTGCTAGACTTTAAG-TCTGA-ACTCA-TTCACCGGCATT-T
1 AGCCTGCTAGACTTGAAGCT-TGATA-TCATTTCACCGGCATTAT
* *
47231512 CGCCTGCTAGGCTTGAAGCTTGATATCATTTCACCGGCATTAT
1 AGCCTGCTAGACTTGAAGCTTGATATCATTTCACCGGCATTAT
47231555 AGCCTGCTAG
1 AGCCTGCTAG
47231565 GCCCGAAGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 21 0.47
42 14 0.31
43 10 0.22
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (43 bp):
AGCCTGCTAGACTTGAAGCTTGATATCATTTCACCGGCATTAT
Found at i:47236203 original size:28 final size:28
Alignment explanation
Indices: 47236163--47236232 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
47236153 ATGAAAATTT
* *
47236163 CACTAAGCATGCGAGTTTGGTTAAT-GAG
1 CACTAAGTATGCGAGTTTGATT-ATCGAG
*
47236191 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTATGCGAGTTTGATTATCGAG
47236219 CACTAAGTATGCGA
1 CACTAAGTATGCGA
47236233 AAGAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
CACTAAGTATGCGAGTTTGATTATCGAG
Found at i:47240365 original size:40 final size:42
Alignment explanation
Indices: 47240265--47240365 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 42
47240255 TCGTAATGAT
*
47240265 CTCGCACACTTAGTGCCATTTCAATAAATCGAAGCTATTTCAGTA
1 CTCGCACACTTAGTGCC--TTCAATAAATCGAAGCTATTCCAG-A
* *
47240310 -TCTCACACTTAGTGCC-TCATATAACT-GAAGCTATTCCA-A
1 CTCGCACACTTAGTGCCTTCA-ATAAATCGAAGCTATTCCAGA
47240349 CTCGCACACTTAGTGCC
1 CTCGCACACTTAGTGCC
47240366 ATTTGTAGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
39 1 0.02
40 15 0.30
41 14 0.28
42 5 0.10
44 15 0.30
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (42 bp):
CTCGCACACTTAGTGCCTTCAATAAATCGAAGCTATTCCAGA
Found at i:47242830 original size:27 final size:27
Alignment explanation
Indices: 47242800--47243248 Score: 429
Period size: 27 Copynumber: 16.6 Consensus size: 27
47242790 TTAGTTTACC
47242800 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
47242827 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47242854 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
47242881 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47242908 AAATTACGAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
47242935 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
47242962 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47242989 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47243016 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * ***
47243043 AAATTACTAGAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
47243070 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * * **
47243097 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *** * *
47243124 GAATTACCATTTTA-CCCTCGATTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** * **
47243151 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47243178 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47243205 AAATTACCAAAATACCCCTGAG-TTGTG
1 AAATTACCAAAATACCCCTG-GTTTGTA
* *
47243232 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
47243249 TTGTAGGGTA
Statistics
Matches: 350, Mismatches: 67, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
26 7 0.02
27 336 0.96
28 7 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:47242865 original size:54 final size:54
Alignment explanation
Indices: 47242800--47243221 Score: 488
Period size: 54 Copynumber: 7.8 Consensus size: 54
47242790 TTAGTTTACC
*
47242800 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
47242854 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
47242908 AAATTACGAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
47242962 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *** *
47243016 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAGAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*** ** * * *
47243070 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *** * * ** *
47243124 GAATTACCATTTTA-CCCTCGATTTATAAAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
47243178 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
47243222 CTGAGTTGTG
Statistics
Matches: 308, Mismatches: 58, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
53 4 0.01
54 301 0.98
55 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:47243263 original size:27 final size:27
Alignment explanation
Indices: 47243233--47243515 Score: 358
Period size: 27 Copynumber: 10.6 Consensus size: 27
47243223 TGAGTTGTGA
*
47243233 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47243260 AATTA-CTGAAATA-CCTTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
*
47243286 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47243313 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47243340 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47243367 AATTATCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * *
47243394 AATTACCGGAATACCTCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* **
47243421 AATTA-CTGAATTA-CCCTGTAGAATAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
*
47243447 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
47243474 AATTACCAAAATACCCCTGTAGGGTGG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
47243501 AATTATCGAGATACC
1 AATTATCGAAATACC
47243516 TTGTGGGGTA
Statistics
Matches: 226, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 45 0.20
27 181 0.80
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:47243264 original size:54 final size:54
Alignment explanation
Indices: 47243206--47243533 Score: 369
Period size: 54 Copynumber: 6.1 Consensus size: 54
47243196 TGGTTTGTAA
* * * *
47243206 AATTACCAAAATACCCCTG-AGTTGT-GAAATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAG-GGTAG-AATTACCGAAATACCCCTGTAGGGTAG
* *
47243260 AATTACTGAAATA-CCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
47243313 AATTATCGGAATACCCCTGTAGGGTAGAATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
47243367 AATTATCGAAATACCCCTATAGGGTAGAATTACCGGAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * **
47243421 AATTACTGAATTA-CCCTGTAGAATAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * * * *
47243474 AATTACCAAAATACCCCTGTAGGGTGGAATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
47243527 AATTACC
1 AATTACC
47243534 ATTTTGCCCC
Statistics
Matches: 233, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
53 102 0.44
54 131 0.56
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:47243272 original size:81 final size:80
Alignment explanation
Indices: 47242800--47243328 Score: 366
Period size: 81 Copynumber: 6.5 Consensus size: 80
47242790 TTAGTTTACC
* * * *
47242800 AAATTACCAAAATACCCCTG-GTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATCACCA
1 AAATTACCAAAATACCCCTGAG-TTGTAAAATTATC-GAAATACCCTT-GTGTGTAAAATTACCA
*
47242863 AAATACCCCTGGTTTGTA
63 AAATACCCTTGGTTTGTA
* * * *
47242881 AAATTACCAAAATACCCTTG-GTT-TACAAAATTA-CGAAAATACCCCTGGTTTGTAAAATTACT
1 AAATTACCAAAATACCCCTGAGTTGT--AAAATTATCG-AAATA-CCCTTGTGTGTAAAATTACC
* *
47242943 AAAATACCCTTTGTTTATA
62 AAAATACCCTTGGTTTGTA
* * * *
47242962 AAATTACCAAAATACCCCTG-GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGAG-TTGTAAAATTATCGAAATA-CCCTTGTGTGTAAAATTACCAA
* * *
47243026 AATACCCCTGATTTGTG
64 AATACCCTTGGTTTGTA
* * ** * *
47243043 AAATTACTAGAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACT-TGTAAAATTACCA
1 AAATTACCAAAATACCCCT-GAGTTGTAAAATTATCGAAATACCCTTG--TGTGTAAAATTACCA
* * **
47243106 AAGTACCCTTGATTTACA
63 AAATACCCTTGGTTTGTA
* *** * * *
47243124 GAATTACCATTTTA-CCCTCGATTTATAAAATTA-CTGAAATACCCTTG-GTTTACAAAATTACC
1 AAATTACCAAAATACCCCT-GAGTTGTAAAATTATC-GAAATACCCTTGTGTGT--AAAATTACC
47243186 AAAATACCCTTGGTTTGTA
62 AAAATACCCTTGGTTTGTA
* * * **
47243205 AAATTACCAAAATACCCCTGAGTTGTGAAATTATCGAAATACCCTTGTAGGGTAGAATTACTGAA
1 AAATTACCAAAATACCCCTGAGTTGTAAAATTATCGAAATACCCTTGT-GTGTAAAATTACCAAA
**
47243270 ATA-CCTT-GTAGGGTA
65 ATACCCTTGGT-TTGTA
* * * * *
47243285 GAATTACCGAAATACCCCTGTAG-GGTAGAATTATCGGAATACCC
1 AAATTACCAAAATACCCCTG-AGTTGTAAAATTATCGAAATACCC
47243329 CTGTAGGGTA
Statistics
Matches: 361, Mismatches: 66, Indels: 43
0.77 0.14 0.09
Matches are distributed among these distances:
79 5 0.01
80 53 0.15
81 287 0.80
82 13 0.04
83 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGAGTTGTAAAATTATCGAAATACCCTTGTGTGTAAAATTACCAAAA
TACCCTTGGTTTGTA
Found at i:47243318 original size:80 final size:80
Alignment explanation
Indices: 47243206--47243533 Score: 385
Period size: 80 Copynumber: 4.1 Consensus size: 80
47243196 TGGTTTGTAA
* * * *
47243206 AATTACCAAAATACCCCTG-AGTTGT-GAAATTATCGAAATACCCTTGTAGGGTAGAATTA-CTG
1 AATTACCGAAATACCCCTGTAG-GGTAG-AATTACCGAAATACCCCTGTAGGGTAGAATTATC-G
*
47243268 AAATACCTTGTAGGGTAG
63 AAATACCCTGTAGGGTAG
* * *
47243286 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGGAATACCCCTGTAGGGTAGAATTATCGGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAA
47243351 TACCCCTGTAGGGTAG
66 TA-CCCTGTAGGGTAG
* * * * *
47243367 AATTATCGAAATACCCCTATAGGGTAGAATTACCGGAATACCTCTGTAAGGTAGAATTA-CTGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC-GAA
* **
47243431 TTACCCTGTAGAATAG
65 ATACCCTGTAGGGTAG
* * *
47243447 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTGGAATTATCGAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAA
* * *
47243512 TACCTTGTGGGGTAA
66 TACCCTGTAGGGTAG
47243527 AATTACC
1 AATTACC
47243534 ATTTTGCCCC
Statistics
Matches: 213, Mismatches: 29, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
80 138 0.65
81 75 0.35
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (80 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAA
TACCCTGTAGGGTAG
Found at i:47244012 original size:22 final size:21
Alignment explanation
Indices: 47243963--47244024 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
47243953 AAGCCTTCTA
* *
47243963 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTATGTGCCAACCT
* *
47243984 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTATGTGCCAACCT
47244006 GATTATGGCTATGTGCCAA
1 -ATTATGGCTATGTGCCAA
47244025 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (21 bp):
ATTATGGCTATGTGCCAACCT
Found at i:47244219 original size:26 final size:27
Alignment explanation
Indices: 47244183--47244256 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
47244173 ATTCTGTTAA
* * *
47244183 GTGGCTTTGCCATATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
47244209 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
47244236 GTGACTCTGTCGCAATATCTG
1 GTGGCTCTGCCACAATATCTG
47244257 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:47244425 original size:19 final size:19
Alignment explanation
Indices: 47244403--47244524 Score: 59
Period size: 19 Copynumber: 7.5 Consensus size: 19
47244393 ATTCTGATTT
47244403 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
*
47244422 TTGATTCTG--A--T--TT
1 TTGATTCTGTTACCTGATA
47244435 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
* *
47244454 CTAATTCTG--A--T--T-
1 TTGATTCTGTTACCTGATA
*
47244466 TTGTTTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
*
47244485 CTGATTCTG--A--T--T-
1 TTGATTCTGTTACCTGATA
47244497 TTGATTCTGTTACCTGATA
1 TTGATTCTGTTACCTGATA
47244516 TTGATTCTG
1 TTGATTCTG
47244525 ATTCTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 40
0.59 0.08 0.33
Matches are distributed among these distances:
12 14 0.19
13 12 0.16
14 2 0.03
15 4 0.05
16 2 0.03
17 4 0.05
18 2 0.03
19 33 0.45
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.51
Consensus pattern (19 bp):
TTGATTCTGTTACCTGATA
Found at i:47244432 original size:6 final size:6
Alignment explanation
Indices: 47244393--47244581 Score: 106
Period size: 6 Copynumber: 30.3 Consensus size: 6
47244383 TTGCATTCAC
* *
47244393 ATTCTG ATTTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG A-TTCTG ATTCTG
* * * * *
47244444 -TTACCTG ATACTA ATTCTG ATTTTG TTTCTG -TTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
47244494 ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG AT--TCTG
47244544 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
47244582 AATGTTTCTT
Statistics
Matches: 143, Mismatches: 17, Indels: 46
0.69 0.08 0.22
Matches are distributed among these distances:
5 12 0.08
6 98 0.69
7 26 0.18
8 5 0.03
9 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:47244474 original size:31 final size:31
Alignment explanation
Indices: 47244393--47244567 Score: 260
Period size: 31 Copynumber: 5.6 Consensus size: 31
47244383 TTGCATTCAC
*
47244393 ATTCTGATTTTTGATTCTGTTACCTGATATTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
47244425 ATTCTGATTTTTGATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
47244457 ATTCTGATTTTGTTTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
47244488 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
47244519 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
47244550 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
47244568 ATTCTAGTTC
Statistics
Matches: 133, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 96 0.72
32 37 0.28
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:47262259 original size:45 final size:45
Alignment explanation
Indices: 47262195--47262282 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
47262185 GTTCCAAGTG
* * *
47262195 TTCATATCATATCAAATCCATACAGTAGTGTAATATGTTAGATTA
1 TTCATATCATACCAAATCCATACAGTAGTGTAACATGCTAGATTA
47262240 TTCATATCATACCAAATCCATACAGTAGTGTAACATGCTAGAT
1 TTCATATCATACCAAATCCATACAGTAGTGTAACATGCTAGAT
47262283 CACAACTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (45 bp):
TTCATATCATACCAAATCCATACAGTAGTGTAACATGCTAGATTA
Found at i:47266242 original size:46 final size:46
Alignment explanation
Indices: 47266175--47266346 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 46
47266165 ACCATGTAAC
* *
47266175 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
* * * *
47266221 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTG-TTCGCAT
* *** *
47266267 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTC--G-GTTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
*
47266311 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
47266347 ATGCCCAAAC
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
43 28 0.27
44 6 0.06
46 41 0.40
47 27 0.26
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:47266339 original size:90 final size:92
Alignment explanation
Indices: 47266183--47266351 Score: 279
Period size: 90 Copynumber: 1.8 Consensus size: 92
47266173 ACCCATAAGT
*
47266183 GAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTC-GGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47266248 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
47266276 GAACTCGGACTCAACTCAACGAGTTC-G-GTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCAGACTCAACTCAACGAGCTCGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
47266339 GAGTTCGGATGCC
66 GAGCTCGGATGCC
47266352 CAAACATCCT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
90 48 0.67
91 1 0.01
93 23 0.32
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCAGACTCAACTCAACGAGCTCGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47268750 original size:14 final size:14
Alignment explanation
Indices: 47268731--47268808 Score: 77
Period size: 15 Copynumber: 5.4 Consensus size: 14
47268721 CAAAGATAAT
*
47268731 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
47268745 AAGAAATCC-AAGA
1 AAGAAATCCGAATA
*
47268758 AGAGAAACCCGAATA
1 A-AGAAATCCGAATA
47268773 AAGAAATCCAGAATA
1 AAGAAATCC-GAATA
* *
47268788 AAGAGATCCAGGATA
1 AAGAAATCC-GAATA
47268803 AAGAAA
1 AAGAAA
47268809 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
13 4 0.08
14 22 0.42
15 27 0.51
ACGTcount: A:0.59, C:0.14, G:0.18, T:0.09
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:47268817 original size:15 final size:15
Alignment explanation
Indices: 47268742--47268817 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
47268732 AGAAAACCGA
47268742 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
47268757 A-AGAGAAACCCGA-
1 ATAAAGAAATCCAAG
47268770 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
47268784 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47268800 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47268815 ATA
1 ATA
47268818 CGATATATGC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
13 2 0.04
14 17 0.36
15 27 0.57
16 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47271806 original size:45 final size:46
Alignment explanation
Indices: 47271732--47271858 Score: 213
Period size: 45 Copynumber: 2.8 Consensus size: 46
47271722 TGTAACCCGC
* * *
47271732 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
47271778 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
47271823 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47271859 TGCCAAACAT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
44 13 0.17
45 50 0.65
46 14 0.18
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47271876 original size:45 final size:45
Alignment explanation
Indices: 47271737--47271876 Score: 123
Period size: 45 Copynumber: 3.1 Consensus size: 45
47271727 CCCGCCCATA
* *
47271737 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCG--CAACATCC-T
* * *
47271782 AAGTGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCATCAT--A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCGCAACATCCT
47271827 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGC-AACATCCT
47271872 AGTGA
1 AGTGA
47271877 CATGTCACTT
Statistics
Matches: 78, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
42 1 0.01
43 7 0.09
44 9 0.12
45 46 0.59
46 9 0.12
47 1 0.01
48 3 0.04
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCGCAACATCCT
Found at i:47275038 original size:15 final size:15
Alignment explanation
Indices: 47274999--47275080 Score: 73
Period size: 15 Copynumber: 5.6 Consensus size: 15
47274989 GTATCTTGGG
*
47274999 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
47275014 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
47275029 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
47275043 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
47275058 TTTC-TTATTC-GGT
1 TTTCTTTATTCTGGA
47275071 TTTCTATTAT
1 TTTCT-TTAT
47275081 CTTTGTTCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
13 8 0.15
14 11 0.20
15 35 0.65
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:47275083 original size:29 final size:29
Alignment explanation
Indices: 47274990--47275075 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
47274980 TAGTATATCG
* * * * *
47274990 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGGTTTCTC
47275020 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGGTTTCTC
*
47275049 TATCTTGGATTTC-TTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGGTTTCT
47275076 ATTATCTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 13 0.27
29 18 0.38
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGGTTTCTC
Found at i:47276559 original size:29 final size:28
Alignment explanation
Indices: 47276526--47276598 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
47276516 CCTTCGAGCT
47276526 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
47276555 TGCACACTTAGTGCCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
47276583 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47276599 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:47276587 original size:28 final size:29
Alignment explanation
Indices: 47276468--47276598 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
47276458 TACTCGATTT
** * *
47276468 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
47276497 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
47276526 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47276555 TGCACACTTAGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47276583 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47276599 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47284289 original size:29 final size:28
Alignment explanation
Indices: 47284256--47284328 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
47284246 CCTTCGAGCT
47284256 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
47284285 TGCACACTTAGTGCCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
47284313 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47284329 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:47284317 original size:28 final size:29
Alignment explanation
Indices: 47284198--47284328 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
47284188 TACTCGATTT
** * *
47284198 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
47284227 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
47284256 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47284285 TGCACACTTAGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47284313 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47284329 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47292021 original size:29 final size:28
Alignment explanation
Indices: 47291988--47292060 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
47291978 CCTTCGAGCT
47291988 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
47292017 TGCACACTTAGTGCCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
47292045 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47292061 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:47292049 original size:28 final size:29
Alignment explanation
Indices: 47291930--47292060 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
47291920 TACTCGATTT
** * *
47291930 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
47291959 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
47291988 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47292017 TGCACACTTAGTGCCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47292045 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47292061 ATCTCGTCAC
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47295148 original size:2 final size:2
Alignment explanation
Indices: 47295141--47295179 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
47295131 GAGACTAGTC
47295141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47295180 CATGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47303477 original size:27 final size:26
Alignment explanation
Indices: 47303393--47303496 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 26
47303383 AGGAAGCATC
* *
47303393 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
47303420 CTGATAGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
47303447 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
47303474 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
47303497 ATTTTGGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 9 0.13
27 56 0.84
28 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:47303485 original size:54 final size:53
Alignment explanation
Indices: 47303393--47303496 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 53
47303383 AGGAAGCATC
47303393 CTGGTGGCTATGCCACAATTATCTGATCTGATAGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATAGCTCTGCCACAT-TATCTGTT
* * * *
47303447 CTGGTGGCTCTGCCACAATTATCTGTTCTGGT-GACTCTGTCACATTATCT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATAG-CTCTGCCACATTATCT
47303497 ATTTTGGCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGATAGCTCTGCCACATTATCTGTT
Found at i:47305416 original size:16 final size:15
Alignment explanation
Indices: 47305387--47305436 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
47305377 TAATATAAAG
47305387 TGAATTGAAATATAT
1 TGAATTGAAATATAT
47305402 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
47305418 CTGATTAATTGAAATATAT
1 -TG---AATTGAAATATAT
47305437 ACTGATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 2 0.07
19 7 0.23
20 6 0.20
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:47305429 original size:20 final size:20
Alignment explanation
Indices: 47305404--47305443 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47305394 AAATATATTG
47305404 AATTGAGAATATAT-CTGATT
1 AATTGA-AATATATACTGATT
47305424 AATTGAAATATATACTGATT
1 AATTGAAATATATACTGATT
47305444 GAAAACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
AATTGAAATATATACTGATT
Found at i:47305805 original size:18 final size:18
Alignment explanation
Indices: 47305779--47305892 Score: 61
Period size: 18 Copynumber: 6.4 Consensus size: 18
47305769 TAAATAAAGG
* *
47305779 TACTAAATAACTGATTAA
1 TACTGAATAACTGACTAA
* **
47305797 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTAA
* **
47305815 TGCTGAATAAAC-GACTGT
1 TACTGAAT-AACTGACTAA
* * * * *
47305833 TATTGAATAAATTATTAT
1 TACTGAATAACTGACTAA
*
47305851 TACTGAATAACTGATTAA
1 TACTGAATAACTGACTAA
* *
47305869 TACT-AATGACTGACTGA
1 TACTGAATAACTGACTAA
47305886 TACTGAA
1 TACTGAA
47305893 CAATAAAGAT
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
17 16 0.22
18 55 0.75
19 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTAA
Found at i:47307557 original size:30 final size:30
Alignment explanation
Indices: 47307523--47307580 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
47307513 TTTTTGGGCA
* *
47307523 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGGAAAATGGTCATTTTACCAAAGTC
47307553 TAGGGGGAAAATGGTCATTTTACCAAAG
1 TAGGGGGAAAATGGTCATTTTACCAAAG
47307581 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGGGGAAAATGGTCATTTTACCAAAGTC
Found at i:47308179 original size:49 final size:47
Alignment explanation
Indices: 47307923--47308235 Score: 171
Period size: 49 Copynumber: 6.6 Consensus size: 47
47307913 CTTGTGTGCC
* * * * * *
47307923 AGTGTCAGACATGTCTGGGACATGCATCGGCCAC--AATATGATACCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACGTAAGATGAGAGCT
* * *
47307969 AGTGGAAGACCATGTCTGGGACATG-AT-ATTG-ACGTAGAGAATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATGCATCA--GCACGTA-AG-ATGAGAGCT
* * * * *
47308018 AGTGTAAGACATGTTTGGGACATGCATCGACCTCG-ACGATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-AGCACGTAAGATGAGAGCT
* * * * *
47308065 AGTGTAAGACGTGTCTGGGACACGCATC-G-GC-TAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGTAAGATG-AGAGCT
* *
47308109 AGTGTAAGAAATGTCAGGGACATGCATCAGCACGTATAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGTA-AGATGAGAGCT
* * * * * *
47308157 AGTATAAGACCATGTCTGGGACATGGCATCAACCTCG-ATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCACGTAAGATGAGAGCT
*
47308206 AGTGTAAGACCATGTCCGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
47308236 GGCAACATAT
Statistics
Matches: 205, Mismatches: 41, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.00
44 31 0.15
45 3 0.01
46 10 0.05
47 50 0.24
48 31 0.15
49 66 0.32
50 8 0.04
51 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACGTAAGATGAGAGCT
Found at i:47309060 original size:55 final size:55
Alignment explanation
Indices: 47308994--47309124 Score: 208
Period size: 55 Copynumber: 2.4 Consensus size: 55
47308984 GCACTTAAAA
* * *
47308994 TTTAAAGTCAGTGTTGTACACGGGTAGGCCAGACGGGCGTATGTCATGGCCGTGT
1 TTTAAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCGTATGCCATGGCCGTGT
* *
47309049 TTTAAAGTCAGTGTTGTACAAGGGCAGGCCACACGGGCGTGTGCCATGGCCGTGT
1 TTTAAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCGTATGCCATGGCCGTGT
*
47309104 TTTAAAGTCAGTGTTGCACAC
1 TTTAAAGTCAGTGTTGTACAC
47309125 AGGACAAGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (55 bp):
TTTAAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCGTATGCCATGGCCGTGT
Found at i:47309139 original size:55 final size:54
Alignment explanation
Indices: 47308994--47309145 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
47308984 GCACTTAAAA
* * ** * * *
47308994 TTTAAAGTCAGTGTTGTACACGGGTAGGCCAGACGGGCGTATGTCATGGCCGTGT
1 TTTAAAGTCAGTGTTGCACAAGGACAGG-CACACGGGCGTGTGCCATGGCCGTGT
* *
47309049 TTTAAAGTCAGTGTTGTACAAGGGCAGGCCACACGGGCGTGTGCCATGGCCGTGT
1 TTTAAAGTCAGTGTTGCACAAGGACAGG-CACACGGGCGTGTGCCATGGCCGTGT
*
47309104 TTTAAAGTCAGTGTTGCACACAGGACAAGG-GCACGGGCGTGT
1 TTTAAAGTCAGTGTTGCACA-AGGAC-AGGCACACGGGCGTGT
47309146 CCTAAGCAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
55 80 0.92
56 4 0.05
57 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (54 bp):
TTTAAAGTCAGTGTTGCACAAGGACAGGCACACGGGCGTGTGCCATGGCCGTGT
Found at i:47310941 original size:361 final size:360
Alignment explanation
Indices: 47310278--47311000 Score: 1311
Period size: 361 Copynumber: 2.0 Consensus size: 360
47310268 CATTTTAGAA
*
47310278 ATAAGAGAATTTGTGGTACTTGTCGAGAGAGTGTGCAAGAAGGAGCTGGTGAAAGAAAGGAGGAA
1 ATAAGAGAATTTGTGGTACTTGTCGAAAGAGTGTGCAAGAAGGAGCTGGTGAAAGAAAGGAGGAA
*
47310343 AGCGGCCATTAAGTTGTAGGGCTTAAGGAAAAGACAGATGGGAAAGCACATCAGTCGTCATCTAA
66 AGCGACCATTAAGTTGTAGGGCTTAAGGAAAAGACAGATGGGAAAGCACATCAGTCGTCATCTAA
*
47310408 GAGATCCAAAGAATTTATTACTAGATCGAGTGTCTCGGTGGGATTTCCAAGTAGAAACAAGAACA
131 GAGATCCAAAGAATTTATTACTAGATCGAGTGTCTCAGTGGGATTTCCAAGTAGAAACAAGAACA
* *
47310473 AGCAGAACATGGCATAGAGAGCTCAGACCACTTCTGACGCGAGTGTCGGAAGCACTCGGCCAAAT
196 AACAGAACATGGCATAGAGAGCTCAGACCACTTCTGACGCGAGTGTCAGAAGCACTCGGCCAAAT
*
47310538 AGACTGGAGTGTCCACAGTGCGGTAGAAGCCATTTTGGTGAGTACCGAGTGAATGAAAGAGGTTG
261 AGACTAGAGTGTCCACAGTGCGGTAGAAGCCATTTTGGTGAGTACCGAGTGAATGAAAGAGGTTG
*
47310603 TTTTAGGTGTGGATCATTAGACCACTTTATTCGAG
326 TTTTAGGTGTGGATCATTAGACCACTTTATTCAAG
47310638 ATAAGAGAATTTGTGGTACTTGTCGAAAGAGTGTGCAAGAAGGAGCTGGTGAAAGAAAGGAGGAA
1 ATAAGAGAATTTGTGGTACTTGTCGAAAGAGTGTGCAAGAAGGAGCTGGTGAAAGAAAGGAGGAA
* * *
47310703 AGCGACCATTGAGTTGTAGGGCTTAAGGAAAAGATAGATGGGGAAAGCACATTAGTCGTCATCTA
66 AGCGACCATTAAGTTGTAGGGCTTAAGGAAAAGACAGAT-GGGAAAGCACATCAGTCGTCATCTA
*
47310768 AGAGATCCAAAGAATTTATTACTCGATCGAGTGTCTCAGTGGGATTTCCAAGTAGAAACAAGAAC
130 AGAGATCCAAAGAATTTATTACTAGATCGAGTGTCTCAGTGGGATTTCCAAGTAGAAACAAGAAC
*
47310833 AAACAGAACATGGCATAGAGAGCTCAGACCACTTCTGTCGCGAGTGTCAGAAGCACTCGGCCAAA
195 AAACAGAACATGGCATAGAGAGCTCAGACCACTTCTGACGCGAGTGTCAGAAGCACTCGGCCAAA
**
47310898 TAGACTAGAGTGTCCACAGTGCGGTAGAAGCCATTTTGGTGAGTGTCGAGTGAATGAAAGAGGTT
260 TAGACTAGAGTGTCCACAGTGCGGTAGAAGCCATTTTGGTGAGTACCGAGTGAATGAAAGAGGTT
47310963 GTTTTAGGTGTGGATCATTAGACCACTTTATTCAAG
325 GTTTTAGGTGTGGATCATTAGACCACTTTATTCAAG
47310999 AT
1 AT
47311001 TGCCCAGAAA
Statistics
Matches: 348, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
360 100 0.29
361 248 0.71
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (360 bp):
ATAAGAGAATTTGTGGTACTTGTCGAAAGAGTGTGCAAGAAGGAGCTGGTGAAAGAAAGGAGGAA
AGCGACCATTAAGTTGTAGGGCTTAAGGAAAAGACAGATGGGAAAGCACATCAGTCGTCATCTAA
GAGATCCAAAGAATTTATTACTAGATCGAGTGTCTCAGTGGGATTTCCAAGTAGAAACAAGAACA
AACAGAACATGGCATAGAGAGCTCAGACCACTTCTGACGCGAGTGTCAGAAGCACTCGGCCAAAT
AGACTAGAGTGTCCACAGTGCGGTAGAAGCCATTTTGGTGAGTACCGAGTGAATGAAAGAGGTTG
TTTTAGGTGTGGATCATTAGACCACTTTATTCAAG
Found at i:47315444 original size:21 final size:19
Alignment explanation
Indices: 47315402--47315444 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
47315392 CCCATATGGG
* *
47315402 TAATAATAAAAAATATGTA
1 TAATAATAAAAAATAGGAA
47315421 TAATATATAAAAAATAGGCAA
1 TAATA-ATAAAAAATAGG-AA
47315442 TAA
1 TAA
47315445 GTATGGTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (19 bp):
TAATAATAAAAAATAGGAA
Found at i:47317863 original size:19 final size:20
Alignment explanation
Indices: 47317835--47317875 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47317825 TTGAAAAGTC
*
47317835 AACATTAGGTGAAAT-TAAT
1 AACATAAGGTGAAATATAAT
*
47317854 AACATAAGGTGTAATATAAT
1 AACATAAGGTGAAATATAAT
47317874 AA
1 AA
47317876 TACCTAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
AACATAAGGTGAAATATAAT
Found at i:47318766 original size:49 final size:47
Alignment explanation
Indices: 47318713--47318935 Score: 177
Period size: 49 Copynumber: 4.7 Consensus size: 47
47318703 TTACTTGTGT
47318713 GCCAGTGTAAGACCATGTCTGGGACATGCATCAAGCCTCGACGATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATC-AGCCTCGA-GATGATA
* * * * * *
47318762 GCCAGTGTAAGA-CGTGTCTGGGTCACGCATC-GGCTAAGAGTTG-T-
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCT-CGAGATGATA
* * ** *
47318806 GCTAGTGTAAGA-CACGTCTGGGACATGCATCAGCACCTATAGATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCAG--CCTCGAGATGATA
* * * * *
47318854 GCTAGTATAAGACCATGTTTGGGACATGGCATCAACCTTGATGATGATA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGA-GATGATA
* *
47318903 GCCAGTGTAAGACCATGTCCGAGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATC
47318936 GACAACATAT
Statistics
Matches: 138, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
44 26 0.19
45 2 0.01
46 11 0.08
47 4 0.03
48 31 0.22
49 58 0.42
50 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGATA
Found at i:47327127 original size:43 final size:43
Alignment explanation
Indices: 47327079--47327161 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
47327069 CTCAGTCACA
47327079 CATCCACAATGAACTCAGACCACTCAACGAGCTCGGATGCTCG
1 CATCCACAATGAACTCAGACCACTCAACGAGCTCGGATGCTCG
* *
47327122 CATCCATAATGAACTCAGACCACTCAATGAGCTCGGATGC
1 CATCCACAATGAACTCAGACCACTCAACGAGCTCGGATGC
47327162 CACATATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (43 bp):
CATCCACAATGAACTCAGACCACTCAACGAGCTCGGATGCTCG
Found at i:47346199 original size:24 final size:24
Alignment explanation
Indices: 47346148--47346359 Score: 326
Period size: 23 Copynumber: 9.0 Consensus size: 24
47346138 GCTTTATCAT
*
47346148 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
47346173 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
47346197 ATAACTGGGGCATGAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47346220 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
47346243 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
47346267 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
47346291 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47346314 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47346337 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47346360 GCACTTCCTC
Statistics
Matches: 177, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
23 90 0.51
24 75 0.42
25 12 0.07
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47346328 original size:94 final size:94
Alignment explanation
Indices: 47346148--47346360 Score: 356
Period size: 94 Copynumber: 2.3 Consensus size: 94
47346138 GCTTTATCAT
* * *
47346148 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATGA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
47346212 GCCCTTTAATAACTGGGGCATAAGCCCTTTA
64 GCCCTTTAATAACTGGGGCATAAGCCCTTTA
* *
47346243 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
47346308 CCTTTAATAACTGGGGCATAAGCCCTTTA
66 CCTTTAATAACTGGGGCATAAGCCCTTTA
47346337 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
47346361 CACTTCCTCC
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
94 100 0.89
95 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (94 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:47346431 original size:9 final size:9
Alignment explanation
Indices: 47346417--47346473 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
47346407 ATCTCATGTG
47346417 CATATCATA
1 CATATCATA
*
47346426 CATATCATGTG
1 CATATCA--TA
47346437 CATATCATA
1 CATATCATA
* *
47346446 CATGTCATGTG
1 CATATCA--TA
47346457 CATATCATA
1 CATATCATA
47346466 CATATCAT
1 CATATCAT
47346474 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:47346433 original size:20 final size:20
Alignment explanation
Indices: 47346405--47346475 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
47346395 GCATTTATGA
*
47346405 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
47346425 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
47346445 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
47346465 ACATATCATGT
1 ACATATCATGT
47346476 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:47346440 original size:11 final size:11
Alignment explanation
Indices: 47346410--47346464 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
47346400 TATGAACATC
47346410 TCATGTGCATA
1 TCATGTGCATA
*
47346421 TCA--TACATA
1 TCATGTGCATA
47346430 TCATGTGCATA
1 TCATGTGCATA
* *
47346441 TCA--TACATG
1 TCATGTGCATA
47346450 TCATGTGCATA
1 TCATGTGCATA
47346461 TCAT
1 TCAT
47346465 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:47347793 original size:27 final size:27
Alignment explanation
Indices: 47347773--47348034 Score: 323
Period size: 27 Copynumber: 9.7 Consensus size: 27
47347763 AGGGTATTTT
*
47347773 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
47347800 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
47347827 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
47347854 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
47347881 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
47347908 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
47347935 GGTAATTATGTAAAT-TAGGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
47347962 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
47347989 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
47348016 GGTAATTCTGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
47348035 AGTACTTTGG
Statistics
Matches: 209, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.01
27 204 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:47347867 original size:81 final size:81
Alignment explanation
Indices: 47347774--47348034 Score: 366
Period size: 81 Copynumber: 3.2 Consensus size: 81
47347764 GGGTATTTTA
* * * *
47347774 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
47347839 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
*
47347855 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
*
47347919 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * * * *
47347936 GTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
*
47348000 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAATG
47348017 GTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATCGAG
47348035 AGTACTTTGG
Statistics
Matches: 159, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.02
81 154 0.97
82 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:47354477 original size:29 final size:29
Alignment explanation
Indices: 47354443--47354516 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47354433 TAATCAGCCG
*
47354443 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
47354472 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
47354501 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
47354517 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:47362525 original size:29 final size:29
Alignment explanation
Indices: 47362491--47362564 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47362481 TAATCAGCCG
*
47362491 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
47362520 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
47362549 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
47362565 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:47371796 original size:50 final size:50
Alignment explanation
Indices: 47371739--47371833 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
47371729 AGCTTCATAC
47371739 ACATAGTATCAACTACCATATAGGTATCATACATATCTGTACTTTCCTGT
1 ACATAGTATCAACTACCATATAGGTATCATACATATCTGTACTTTCCTGT
* *
47371789 ACATAGTATCAACTACCATATAGGTATCGTACGTATCTGTACTTT
1 ACATAGTATCAACTACCATATAGGTATCATACATATCTGTACTTT
47371834 ACCGTATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (50 bp):
ACATAGTATCAACTACCATATAGGTATCATACATATCTGTACTTTCCTGT
Found at i:47373891 original size:42 final size:42
Alignment explanation
Indices: 47373783--47373948 Score: 127
Period size: 42 Copynumber: 3.9 Consensus size: 42
47373773 TAAGATTCCA
* * **** *
47373783 ATGCCATATCCCAGATATGGACTTACATGGGATCACATATATCA
1 ATGCCATATCCCAGACATGGTCTTACACAAAATCAC--ATATCG
* * ** * *
47373827 ATGCCGATAGCCCAG-CTATGGTCTTACACGATGTCTCGTATCG
1 ATGCC-ATATCCCAGAC-ATGGTCTTACACAAAATCACATATCG
* *
47373870 ATGTCATGTCCCAGACATGGTCTTACACAAAATCACATATCG
1 ATGCCATATCCCAGACATGGTCTTACACAAAATCACATATCG
* **
47373912 ATGCCATATCCCAGATATGGTCTTACATGAAATCACA
1 ATGCCATATCCCAGACATGGTCTTACACAAAATCACA
47373949 AATAACCCTA
Statistics
Matches: 96, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 60 0.62
43 9 0.09
44 5 0.05
45 22 0.23
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACAAAATCACATATCG
Found at i:47376396 original size:25 final size:25
Alignment explanation
Indices: 47376322--47376399 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
47376312 CTCGGCCCTG
47376322 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
47376347 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
47376369 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
47376394 TCACAT
1 TCACAT
47376400 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:47376445 original size:49 final size:47
Alignment explanation
Indices: 47376271--47376587 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
47376261 CCCTTCGGGA
* * * * * *
47376271 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
47376318 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
47376365 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
47376412 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
47376461 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
47376510 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
47376557 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
47376588 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:47376468 original size:96 final size:94
Alignment explanation
Indices: 47376271--47376587 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
47376261 CCCTTCGGGA
* * * * * * * *
47376271 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
47376336 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
47376365 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
47376429 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
47376461 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
47376525 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
47376557 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
47376588 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:47380385 original size:43 final size:43
Alignment explanation
Indices: 47380324--47380544 Score: 388
Period size: 43 Copynumber: 5.1 Consensus size: 43
47380314 CCTTGCTCGA
** * * *
47380324 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
47380367 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
47380410 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
*
47380453 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
47380496 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
47380539 ATCACC
1 ATCACC
47380545 AGCATGACTG
Statistics
Matches: 171, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.32, C:0.33, G:0.22, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
Found at i:47380718 original size:42 final size:42
Alignment explanation
Indices: 47380527--47380738 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
47380517 AGGCTCGAAG
* * * * * * *
47380527 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
47380569 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
47380609 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
47380649 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
47380689 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
47380731 GCCCGGAT
1 GCCCGGAT
47380739 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Done.