Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 42 of 332
Found at i:12735894 original size:18 final size:19
Alignment explanation
Indices: 12735871--12735919 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 19
12735861 AATTTGTTTC
12735871 ATAATATATAATATAATT-
1 ATAATATATAATATAATTA
*
12735889 AT-A-ATATAATCT-ATTA
1 ATAATATATAATATAATTA
12735905 ATAATATATAATATA
1 ATAATATATAATATA
12735920 TATACCTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 2 0.08
18 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATATATAATATAATTA
Found at i:12735922 original size:11 final size:11
Alignment explanation
Indices: 12735874--12735923 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
12735864 TTGTTTCATA
12735874 ATATATAATAT
1 ATATATAATAT
12735885 A-ATTATAATAT
1 ATA-TATAATAT
*
12735896 AATCTATTAATA-
1 -ATATA-TAATAT
12735908 ATATATAATAT
1 ATATATAATAT
12735919 ATATA
1 ATATA
12735924 CCTAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
10 6 0.19
11 18 0.56
12 3 0.09
13 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATAATAT
Found at i:12748700 original size:21 final size:21
Alignment explanation
Indices: 12748676--12748719 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
12748666 AGATAGGATA
12748676 GTGTCTTCGA-TCCGCTCCGCT
1 GTGTCTTCGACT-CGCTCCGCT
*
12748697 GTGTCTTCGACTTGCTCCGCT
1 GTGTCTTCGACTCGCTCCGCT
12748718 GT
1 GT
12748720 AATCTTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.05, C:0.34, G:0.25, T:0.36
Consensus pattern (21 bp):
GTGTCTTCGACTCGCTCCGCT
Found at i:12748779 original size:44 final size:45
Alignment explanation
Indices: 12748709--12748972 Score: 141
Period size: 44 Copynumber: 6.2 Consensus size: 45
12748699 GTCTTCGACT
* *
12748709 TGCTCCGCTGTAATCTTAGGGAGATAAGACCT-C-TGGCTTCAATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGACCTGCAT-GCTTCAATC
* * * * **
12748753 TGCTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTC
1 TGCTCCACTGTAATCTCAGGGAGATAAGACCTGC-ATGCTTCAATC
* *
12748799 TACTCCACTGTAATCTCAGGGAGATAAGACCTG-ATG--T-GATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGACCTGCATGCTTCAATC
* * * *
12748840 TTCTCTACTGTAA-CTTCAGAGAGATAAGA--T-C---CTTTAATC
1 TGCTCCACTGTAATC-TCAGGGAGATAAGACCTGCATGCTTCAATC
* * * * * * **
12748879 CGCTCCATTGTAATCTCAAGGAGATAGGA-TTACTAT-CTTTGATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGACCTGC-ATGCTTCAATC
* *
12748923 TGCTCCGCTGTAATCTCA-GGAGATAAGATCT-C-TGGCTTCAATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGACCTGCAT-GCTTCAATC
12748966 TGCTCCA
1 TGCTCCA
12748973 ATGCAACCGA
Statistics
Matches: 169, Mismatches: 34, Indels: 35
0.71 0.14 0.15
Matches are distributed among these distances:
38 1 0.01
39 24 0.14
40 3 0.02
41 29 0.17
42 1 0.01
43 22 0.13
44 52 0.31
45 1 0.01
46 35 0.21
47 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (45 bp):
TGCTCCACTGTAATCTCAGGGAGATAAGACCTGCATGCTTCAATC
Found at i:12748847 original size:46 final size:46
Alignment explanation
Indices: 12748711--12748848 Score: 117
Period size: 46 Copynumber: 3.0 Consensus size: 46
12748701 CTTCGACTTG
* * * *
12748711 CTCCGCTGTAATCTTAGGGAGATAAGACCT-CTG-G-CTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGTCTTC-ATCTA
* * * * *
12748755 CTCCACTGTAACCTCAGGGGGATAAGATCTGCA-AT-TCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGACCTG-ATGTGTCTTC-ATCTA
12748801 CTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTC-TCTA
1 CTCCACTGTAATCTCAGGGAGATAAGACCTGATGTG-TCTTCATCTA
12748847 CT
1 CT
12748849 GTAACTTCAG
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
44 25 0.34
45 1 0.01
46 42 0.58
48 5 0.07
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (46 bp):
CTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGTCTTCATCTA
Found at i:12749009 original size:85 final size:85
Alignment explanation
Indices: 12748914--12749298 Score: 300
Period size: 86 Copynumber: 4.5 Consensus size: 85
12748904 AGGATTACTA
* * *
12748914 TCTTTGATCTGCTCCGCTGTAATCTCAGG-AGATAAGATCT-CTGGCTTCAATCT-GCTCCAATG
1 TCTTTGATCTGCTTCGCTGTAAT-GCAGGAAGACAAGATCTACT-GCTTCAA-CTAGCTCCAATG
12748976 CAACCGATGGAGGCAAGGCTTTG
63 CAACCGATGGAGGCAAGGCTTTG
* * * *
12748999 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACTTCTTTAACTAGCTCCACTGCA
1 TCTTTGATCTGCTTCGCTG-TAATGCAGGAAGACAAGATCTACTGCTTCAACTAGCTCCAATGCA
* *
12749064 ATCGATGGATGCAAGGCTTTG
65 ACCGATGGAGGCAAGGCTTTG
* * ** * *
12749085 T-TTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCT-CTATC
1 TCTTT-GATCTGCTTCGCTG-TAATGCAGGAAGACAAGATCTACTG-CTTCAACTAGCTCCAAT-
* ** *
12749148 ACAACCGAAAGAGGCAAGGTTTGTG
62 GCAACCGATGGAGGCAAGGCTT-TG
* * * ** * * *
12749173 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCT-CTATCA
1 TCTTTGATCTGCTTCGCTGT-AATGCAGGAAGACAAGATCTACTG-CTTCAACTAGCTCCAAT-G
* *
12749237 CAACCGA-AGA-GCAAGGTTTGTG
63 CAACCGATGGAGGCAAGGCTT-TG
* * *
12749259 TCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATC
1 TCTTTGATCTGCTTCGCTGT-AATGCAGGAAGACAAGATC
12749299 CTTTGTCTTC
Statistics
Matches: 264, Mismatches: 26, Indels: 19
0.85 0.08 0.06
Matches are distributed among these distances:
85 27 0.10
86 136 0.52
87 32 0.12
88 67 0.25
89 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (85 bp):
TCTTTGATCTGCTTCGCTGTAATGCAGGAAGACAAGATCTACTGCTTCAACTAGCTCCAATGCAA
CCGATGGAGGCAAGGCTTTG
Found at i:12749035 original size:43 final size:43
Alignment explanation
Indices: 12748986--12749121 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
12748976 CAACCGATGG
12748986 AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
* * * * * *
12749029 AGGCAAGATCTACT-TCTTT-AACTAGCTCCACTG-CAAT-CGATGG-
1 AGGCAAG-GCT-TTGTCTTTGATCT-GCTTCGCTGTTAATGC-A-GGA
* *
12749072 ATGCAAGGCTTTGT-TTTCGATCTGCTTCGCTGTTAATGTAGGA
1 AGGCAAGGCTTTGTCTTT-GATCTGCTTCGCTGTTAATGCAGGA
12749115 AGGCAAG
1 AGGCAAG
12749122 ATCTTTTGTC
Statistics
Matches: 67, Mismatches: 15, Indels: 22
0.64 0.14 0.21
Matches are distributed among these distances:
41 4 0.06
42 13 0.19
43 33 0.49
44 16 0.24
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
Found at i:12749163 original size:44 final size:43
Alignment explanation
Indices: 12749115--12749251 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 43
12749105 TAATGTAGGA
12749115 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG-AAG
* * * * * ** ** * *
12749159 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGG
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCG-AAG
12749202 AAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAG
12749246 A-GCAAG
1 AGGCAAG
12749252 GTTTGTGTCT
Statistics
Matches: 66, Mismatches: 23, Indels: 10
0.67 0.23 0.10
Matches are distributed among these distances:
42 5 0.08
43 17 0.26
44 30 0.45
45 14 0.21
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAG
Found at i:12749198 original size:88 final size:88
Alignment explanation
Indices: 12748976--12749309 Score: 421
Period size: 86 Copynumber: 3.9 Consensus size: 88
12748966 TGCTCCAATG
** * * *
12748976 CAACCGATGGAGGCAAGGCTT-TGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
** * * * *
12749040 ACT-TCTTTAACTAGCTCCA-CTG
66 TTTGTCTTCAACCAGCTCTATC-A
* ** * * *
12749062 CAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
12749125 TTTTGTCTTCAACCAGCTCTATCA
65 TTTTGTCTTCAACCAGCTCTATCA
*
12749149 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
12749214 TTTGTCTTCAACCAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
* *
12749237 CAACCG-AAGA-GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCC
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
12749300 TTTGTCTTCA
66 TTTGTCTTCA
12749310 TTGATCTGTC
Statistics
Matches: 223, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
86 119 0.53
87 35 0.16
88 69 0.31
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (88 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
TTTGTCTTCAACCAGCTCTATCA
Found at i:12749206 original size:174 final size:173
Alignment explanation
Indices: 12748976--12749309 Score: 433
Period size: 174 Copynumber: 1.9 Consensus size: 173
12748966 TGCTCCAATG
** * *
12748976 CAACCGATGGAGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTA
1 CAACCGAAAGAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTA
* * * * *
12749041 CT-TCTTTAACTAGCTCCA-CTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGC
66 CTGTCTTCAACCAGCTCCATC-ACAACCGA-AGA-GCAAGG-TTTGTGTCTTCGATCTGCTTCGC
* * * *
12749102 TGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
127 TGTCAATGCAGAAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCA
* *
12749149 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGCTT-TGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
** *
12749214 TTTGTCTTCAACCAGCTCTATCACAACCGAAGAGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
65 ACTGTCTTCAACCAGCTCCATCACAACCGAAGAGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGT
12749279 CAATGCAGAAAGGCAAGATCCTTTGTCTTCA
130 CAATGCAGAAAGGCAAGATCCTTTGTCTTCA
12749310 TTGATCTGTC
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
172 5 0.04
173 25 0.18
174 88 0.64
175 19 0.14
176 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (173 bp):
CAACCGAAAGAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTA
CTGTCTTCAACCAGCTCCATCACAACCGAAGAGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTC
AATGCAGAAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCA
Found at i:12763584 original size:15 final size:17
Alignment explanation
Indices: 12763557--12763592 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12763547 CGATAGACAC
12763557 AAAATTGGAAAGA-TAG
1 AAAATTGGAAAGAGTAG
12763573 AAAATT-GAAAGAGTAG
1 AAAATTGGAAAGAGTAG
12763589 AAAA
1 AAAA
12763593 AACAGAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (17 bp):
AAAATTGGAAAGAGTAG
Found at i:12775637 original size:180 final size:179
Alignment explanation
Indices: 12775328--12775690 Score: 520
Period size: 180 Copynumber: 2.0 Consensus size: 179
12775318 TGTATACTAG
* * *
12775328 ATTTCTCCTTTTTATTTGTTTCCCTTGGTATTAGGCAGTTGACAGTTGTGTTTGTCTCTTATCTC
1 ATTTCTCCTTTTTATTTGTTTCCCTTGATATTAGGCAGTTGACAGTTGCG--TCTCTCTTATCTC
* *
12775393 TTTCCTTTTTAATCCTACTGGTATGCCTTCTTTCATTTCTTTTGTATTAAATGTCACATGTTTTG
64 TTTCCTTTTTAATCCTACTGATATGCCTTCTTTCATTTCCTTTGTATTAAATGTCACATGTTTTG
*
12775458 GCTTATAAAATGGTCTTCATTATTTTATTCATATTGCTTTTGATTGAGCTTCATCTA
129 GCTTATAAAATGG---TC--T-TTCTATTCATATTGCTTTTGATTGAGCTTCATCTA
12775515 ATTTCTCCTTTTTATTTGTTTCCCTTGATATTAGGCAGTTG-C-GTT-CG-CT-TCTTATCTCTT
1 ATTTCTCCTTTTTATTTGTTTCCCTTGATATTAGGCAGTTGACAGTTGCGTCTCTCTTATCTCTT
* *
12775575 TCCTTTTTAATGCTGCTGATATGCCTTCTTTCATTTCCTTTGTATTAAATGTCACATGTTTTGGC
66 TCCTTTTTAATCCTACTGATATGCCTTCTTTCATTTCCTTTGTATTAAATGTCACATGTTTTGGC
* * *
12775640 TTATAAAGTGGTCTTTCTATTCATATTGCTTTTGGTTGAGCTTCGTCTA
131 TTATAAAATGGTCTTTCTATTCATATTGCTTTTGATTGAGCTTCATCTA
12775689 AT
1 AT
12775691 ATCTGAATAC
Statistics
Matches: 165, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
174 34 0.21
175 1 0.01
177 2 0.01
180 82 0.50
181 1 0.01
184 1 0.01
185 3 0.02
186 1 0.01
187 40 0.24
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (179 bp):
ATTTCTCCTTTTTATTTGTTTCCCTTGATATTAGGCAGTTGACAGTTGCGTCTCTCTTATCTCTT
TCCTTTTTAATCCTACTGATATGCCTTCTTTCATTTCCTTTGTATTAAATGTCACATGTTTTGGC
TTATAAAATGGTCTTTCTATTCATATTGCTTTTGATTGAGCTTCATCTA
Found at i:12778948 original size:15 final size:15
Alignment explanation
Indices: 12778928--12778957 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12778918 TATACTTGGA
12778928 AGTGACTTATTCTTC
1 AGTGACTTATTCTTC
12778943 AGTGACTTATTCTTC
1 AGTGACTTATTCTTC
12778958 TTGTGTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
AGTGACTTATTCTTC
Found at i:12792250 original size:24 final size:24
Alignment explanation
Indices: 12792203--12792251 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
12792193 ATTTTGGTAA
12792203 ATAATACATAATTAATATTTTCAT
1 ATAATACATAATTAATATTTTCAT
12792227 ATAATACATAATTAATATTTTCAT
1 ATAATACATAATTAATATTTTCAT
12792251 A
1 A
12792252 CATTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATACATAATTAATATTTTCAT
Found at i:12796928 original size:20 final size:21
Alignment explanation
Indices: 12796889--12796929 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12796879 TTCAATACTA
12796889 ATATAAATGGAAACATTAAAT
1 ATATAAATGGAAACATTAAAT
*
12796910 ATATAAATTGAAA-ATTAAAT
1 ATATAAATGGAAACATTAAAT
12796930 GTTCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
ATATAAATGGAAACATTAAAT
Found at i:12798665 original size:93 final size:93
Alignment explanation
Indices: 12798495--12798760 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 93
12798485 CGCCCATAAG
* * * * *
12798495 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
12798560 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
12798588 CGAATTCAGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
12798653 ACGAGATCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
12798681 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
12798746 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
12798761 CAAACATCCT
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:12798710 original size:47 final size:46
Alignment explanation
Indices: 12798542--12798760 Score: 182
Period size: 47 Copynumber: 4.7 Consensus size: 46
12798532 ATCCATGAGT
* *
12798542 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCTCTC
* * * * * *
12798589 GAATTCAGACTCAACTCAACGAGTTC--A-GACATTTGCATC-CATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCTC-T---C
*
12798635 GAACTCGGACTCAACTCAACGAGATCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCTCTC
* * ***
12798682 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAGTTACATCTCTC
12798728 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
12798761 CAAACATCCT
Statistics
Matches: 138, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.01
43 8 0.06
44 5 0.04
45 1 0.01
46 51 0.37
47 55 0.40
48 1 0.01
49 6 0.04
50 9 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCTCTC
Found at i:12798756 original size:46 final size:46
Alignment explanation
Indices: 12798488--12798756 Score: 237
Period size: 46 Copynumber: 5.8 Consensus size: 46
12798478 TGTAACCCGC
* * * *
12798488 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
12798534 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * * * *
12798584 -C-TCA-CGAATTCAGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
12798627 CCATAAGTGAACTCGGACTCAACTCAACGAGATCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
12798673 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
12798720 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12798757 TGCCCAAACA
Statistics
Matches: 175, Mismatches: 32, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 5 0.03
45 2 0.01
46 90 0.51
47 57 0.33
48 2 0.01
49 6 0.03
50 4 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:12804807 original size:79 final size:81
Alignment explanation
Indices: 12804671--12804853 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
12804661 TCGAATGATG
* *
12804671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
12804735 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
12804750 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
12804812 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
12804830 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
12804854 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:12804869 original size:40 final size:40
Alignment explanation
Indices: 12804672--12804855 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
12804662 CGAATGATGT
* * * *
12804672 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
12804712 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
12804752 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12804790 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12804831 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
12804856 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:12804877 original size:79 final size:79
Alignment explanation
Indices: 12804724--12804878 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
12804714 GGACTAAGAT
* **
12804724 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
12804789 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
12804803 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
12804866 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
12804879 ATTCGAAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:12811449 original size:23 final size:24
Alignment explanation
Indices: 12811413--12811457 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
12811403 TAAAGAAATG
*
12811413 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
*
12811437 GAAAACAAA-AGAAAAAAAATG
1 GAAAAAAAAGAGAAAAAAAATG
12811458 TGTCCATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:12812833 original size:79 final size:81
Alignment explanation
Indices: 12812697--12812879 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
12812687 TCGAATGATG
* *
12812697 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
12812761 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
12812776 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
12812838 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
12812856 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
12812880 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:12812895 original size:40 final size:40
Alignment explanation
Indices: 12812698--12812881 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
12812688 CGAATGATGT
* * * *
12812698 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
12812738 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
12812778 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12812816 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
12812857 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
12812882 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:12812903 original size:79 final size:79
Alignment explanation
Indices: 12812750--12812914 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
12812740 GGACTAAGAT
* **
12812750 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
12812815 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
12812829 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
12812892 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
12812908 CCGAAGG
1 CCGAAGG
12812915 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:12815502 original size:33 final size:33
Alignment explanation
Indices: 12815458--12815526 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
12815448 ACAAACATAC
*
12815458 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
*
12815491 AAAGTAGTAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
12815524 AAA
1 AAA
12815527 AAGTAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.10, T:0.25
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:12815882 original size:15 final size:15
Alignment explanation
Indices: 12815826--12815882 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
12815816 AAAAGAATTT
* *
12815826 ATAAAATAACACATA
1 ATAAAAAAATACATA
* *
12815841 ATATAAAAATATCATC
1 ATAAAAAAATA-CATA
* *
12815857 TTAAAATAATACATA
1 ATAAAAAAATACATA
12815872 ATAAAAAAATA
1 ATAAAAAAATA
12815883 ATTAATAATT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAAAAAATACATA
Found at i:12815989 original size:5 final size:5
Alignment explanation
Indices: 12815967--12816100 Score: 52
Period size: 5 Copynumber: 27.2 Consensus size: 5
12815957 GTAATGAATG
* *
12815967 ATATAA ATATA A-ATA ATATA ATAGATA ATATA A-AAA ATAAGTA CTATA
1 ATAT-A ATATA ATATA ATATA AT--ATA ATATA ATATA AT-A-TA ATATA
* * * * *
12816015 A-A-A ATACA ATA-A ATGTT ATATA ATAAA ATATA ATTTA A-AT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
12816060 GGAAATA AGA-A ATATA ATATA ATAT- ATATA ATATA AAATA A
1 --ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
12816101 CGAAAATATA
Statistics
Matches: 97, Mismatches: 16, Indels: 31
0.67 0.11 0.22
Matches are distributed among these distances:
3 3 0.03
4 22 0.23
5 55 0.57
6 6 0.06
7 11 0.11
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (5 bp):
ATATA
Found at i:12815997 original size:27 final size:27
Alignment explanation
Indices: 12815949--12816000 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
12815939 TTTAGAATTT
* *
12815949 TAAATAATGTAATGAATGATATAAATA
1 TAAATAATATAATGAATAATATAAATA
12815976 TAAATAATATAAT-AGATAATATAAA
1 TAAATAATATAATGA-ATAATATAAA
12816001 AAATAAGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAATAATATAATGAATAATATAAATA
Found at i:12818438 original size:206 final size:204
Alignment explanation
Indices: 12817983--12818562 Score: 921
Period size: 206 Copynumber: 2.8 Consensus size: 204
12817973 CTGCTTTTTT
* *
12817983 GATTTGTTCTCTGACAATACAGAGATGTCAAATCATCTAAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGCTCTCTGACAATACAGAGATGCCAAATCATCT-AGATTTGCTTCATCGTAAACACGTGA
* *
12818048 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAAGATGCTAAATCATCTTGGAT
65 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* * *
12818113 CTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCTCGTTGAAGTGGAGAT
130 CTGCTTCAATCTAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCTCGTCGAAGTGGAGAT
* *
12818178 GCTAGACTTC
195 ACCAGACTTC
12818188 GATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGCTCTCTGACAATACAGAGATGCCAAATCATC-TAGATTTGCTTCATCGTAAACACGTGA
* *
12818253 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAATCATTTTGGAT
65 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* ** *
12818318 CTTGCTTCAATCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGC-CCTTCGTCGAAGTGGAG
130 C-TGCTTCAATCTAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCC-TCGTCGAAGTGGAG
12818382 ATACCAGACTTC
193 ATACCAGACTTC
*
12818394 GATTTGCTCTCTGCCAATACAGAGATGCCAAATCATCGTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGCTCTCTGACAATACAGAGATGCCAAATCATC-TAGATTTGCTTCATCGTAAACACGTGA
*
12818459 AAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
65 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
* *
12818524 CTGCTTC-AGCATAAACATCTGAAGGTGAGATCTACTATG
130 CTGCTTCAATC-TAAACATCTGAAGGTGAGATCTGCTATG
12818563 CTGCGGCCTA
Statistics
Matches: 346, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
204 2 0.01
205 155 0.45
206 189 0.55
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (204 bp):
GATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTAGATTTGCTTCATCGTAAACACGTGAA
AGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
TGCTTCAATCTAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCTCGTCGAAGTGGAGATA
CCAGACTTC
Found at i:12826590 original size:15 final size:15
Alignment explanation
Indices: 12826548--12826597 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
12826538 ATAACTTTGA
* *
12826548 ATGCAAACG-ATGTG
1 ATGCAAATGCATGAG
12826562 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
12826577 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
12826591 ATGCAAA
1 ATGCAAA
12826598 AAGGATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:12826596 original size:14 final size:16
Alignment explanation
Indices: 12826561--12826597 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12826551 CAAACGATGT
12826561 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
12826576 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
12826591 -ATGCAAA
1 GATGCAAA
12826598 AAGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:12827501 original size:33 final size:33
Alignment explanation
Indices: 12827432--12827529 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
12827422 CTATACCCAT
* * *
12827432 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
12827469 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
12827502 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
12827530 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:12827789 original size:41 final size:41
Alignment explanation
Indices: 12827744--12827940 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
12827734 ACCGGCTCTT
*
12827744 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
12827785 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
12827826 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
12827867 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
12827908 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
12827941 TAACGATAAA
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 138 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:12831323 original size:58 final size:58
Alignment explanation
Indices: 12831233--12831348 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
12831223 ATCGTTCTGA
12831233 AATCTGGGACAACGAAGTAAGGCAGTGTACTCCTCTACAGTAGGTACCAAGTCTACTT
1 AATCTGGGACAACGAAGTAAGGCAGTGTACTCCTCTACAGTAGGTACCAAGTCTACTT
12831291 AATCTGGGACAACGAAGTAAGGCAGTGTACTCCTCTACAGTAGGTACCAAGTCTACTT
1 AATCTGGGACAACGAAGTAAGGCAGTGTACTCCTCTACAGTAGGTACCAAGTCTACTT
12831349 CCCCAAAAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (58 bp):
AATCTGGGACAACGAAGTAAGGCAGTGTACTCCTCTACAGTAGGTACCAAGTCTACTT
Found at i:12833135 original size:33 final size:33
Alignment explanation
Indices: 12833096--12833164 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
12833086 ACAAACATAC
*
12833096 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
12833129 AAAGTAATAATTAAATAATGCATGACATACAAA
1 AAAGTAATAATTAAATAATGCATGACATACAAA
12833162 AAA
1 AAA
12833165 AAGTAATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGACATACAAA
Found at i:12833493 original size:31 final size:32
Alignment explanation
Indices: 12833453--12833513 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
12833443 ATGTAAAAGA
12833453 ATTTATAAAATAACACATAATATAA-AAATATC
1 ATTTATAAAATAACACATAATA-AATAAATATC
*
12833485 ATTT-TAAAATAATACATAATAAATAAATA
1 ATTTATAAAATAACACATAATAAATAAATA
12833514 ATTAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (32 bp):
ATTTATAAAATAACACATAATAAATAAATATC
Found at i:12833626 original size:27 final size:26
Alignment explanation
Indices: 12833578--12833641 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
12833568 TTTAGAATTT
* *
12833578 TAAATAATGTAATGAATGATATAAATA
1 TAAATAATATAATGAATAATATAAA-A
12833605 TAAATAATATAAT-AGATAATATAAAA
1 TAAATAATATAATGA-ATAATATAAAA
*
12833631 -AAGTAATATAA
1 TAAATAATATAA
12833642 AAATACAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 10 0.30
26 2 0.06
27 21 0.64
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (26 bp):
TAAATAATATAATGAATAATATAAAA
Found at i:12833726 original size:29 final size:28
Alignment explanation
Indices: 12833666--12833734 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
12833656 TTATATAATA
* *
12833666 AAATATAATTTAAATATATAGGAAATAAG
1 AAATATAATATATATATATA-GAAATAAG
12833695 AAATATAATATATATAATATA-AAATAACG
1 AAATATAATATATAT-ATATAGAAATAA-G
12833724 AAA-AT-ATATAT
1 AAATATAATATAT
12833735 GTAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 6 0.17
28 8 0.22
29 17 0.47
30 5 0.14
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (28 bp):
AAATATAATATATATATATAGAAATAAG
Found at i:12833764 original size:19 final size:19
Alignment explanation
Indices: 12833742--12833793 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
12833732 TATGTAAGAA
12833742 AAATATATAAATAATTAAT
1 AAATATATAAATAATTAAT
12833761 AAATATATAATATAA-TAAT
1 AAATATATAA-ATAATTAAT
*
12833780 -AATATAAAAATAAT
1 AAATATATAAATAAT
12833794 GATGTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 8 0.27
19 14 0.47
20 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATAAATAATTAAT
Found at i:12833780 original size:3 final size:3
Alignment explanation
Indices: 12833751--12833853 Score: 54
Period size: 3 Copynumber: 33.7 Consensus size: 3
12833741 AAAATATATA
* *
12833751 AAT AATT AAT AAAT ATAT AAT -AT AAT AAT AAT -AT AAA AAT AAT GAT
1 AAT AA-T AAT -AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
12833797 -GT AA- AAT AAT AAT AAT AATT TGT GAAA AAT AAT ATAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT -AAT AAT AAT A-AT AAT -AAT AAT
12833844 AAT -AT AAT AA
1 AAT AAT AAT AA
12833854 AATCATATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
2 9 0.12
3 52 0.68
4 16 0.21
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12833784 original size:11 final size:11
Alignment explanation
Indices: 12833746--12833853 Score: 68
Period size: 11 Copynumber: 9.8 Consensus size: 11
12833736 TAAGAAAAAT
12833746 ATATAAATAATTA
1 ATAT-AATAA-TA
12833759 ATA-AATATATA
1 ATATAATA-ATA
12833770 ATATAATAATA
1 ATATAATAATA
*
12833781 ATATAAAAATA
1 ATATAATAATA
*
12833792 ATGAT-GTAA-A
1 AT-ATAATAATA
12833802 ATAATAATAATA
1 AT-ATAATAATA
**
12833814 AT-TTGTGAA-A
1 ATATAAT-AATA
12833824 A-ATAATATATA
1 ATATAATA-ATA
12833835 ATA-AATAATA
1 ATATAATAATA
12833845 ATATAATAA
1 ATATAATAA
12833854 AATCATATTA
Statistics
Matches: 75, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
9 1 0.01
10 18 0.24
11 42 0.56
12 11 0.15
13 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
ATATAATAATA
Found at i:12833792 original size:30 final size:30
Alignment explanation
Indices: 12833758--12833850 Score: 91
Period size: 33 Copynumber: 3.0 Consensus size: 30
12833748 ATAAATAATT
12833758 AATAAATATATAATATAATAATAATATAAA
1 AATAAATATATAATATAATAATAATATAAA
* * *
12833788 AATAATGATGTAAAATAATAATAATAATTTGTGAAA
1 AATAA--ATATATAAT-ATAATAATAA--TAT-AAA
12833824 AAT-AATATATAATA-AATAATAATATAA
1 AATAAATATATAATATAATAATAATATAA
12833851 TAAAATCATA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
30 5 0.10
31 8 0.16
32 8 0.16
33 17 0.33
35 3 0.06
36 6 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (30 bp):
AATAAATATATAATATAATAATAATATAAA
Found at i:12833793 original size:14 final size:13
Alignment explanation
Indices: 12833743--12833810 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
12833733 ATGTAAGAAA
12833743 AATATATAAATAAT
1 AATATA-AAATAAT
*
12833757 TA-AT-AAATATAT
1 AATATAAAATA-AT
12833769 AATAT--AATAAT
1 AATATAAAATAAT
12833780 AATATAAAAATAAT
1 AATAT-AAAATAAT
* *
12833794 GATGTAAAATAAT
1 AATATAAAATAAT
12833807 AATA
1 AATA
12833811 ATAATTTGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
11 12 0.28
12 7 0.16
13 14 0.33
14 10 0.23
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:12837906 original size:21 final size:20
Alignment explanation
Indices: 12837877--12837922 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
12837867 CGAAATGCAA
12837877 TCAACCTAACA-TGAATTAAGT
1 TCAACCTAA-ATTG-ATTAAGT
*
12837898 TCAAGCTAAATTGATTAAGT
1 TCAACCTAAATTGATTAAGT
12837918 T-AACC
1 TCAACC
12837923 ATTTCAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAGT
Found at i:12838916 original size:18 final size:18
Alignment explanation
Indices: 12838893--12838928 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12838883 AAAATGTGTA
12838893 AATTTTCATGTTTCCAAT
1 AATTTTCATGTTTCCAAT
12838911 AATTTTCATGTTTCCAAT
1 AATTTTCATGTTTCCAAT
12838929 CACTATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
AATTTTCATGTTTCCAAT
Found at i:12840049 original size:17 final size:17
Alignment explanation
Indices: 12840016--12840049 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12840006 TTTGGTTATG
12840016 TGTTTTATATAATTTTT
1 TGTTTTATATAATTTTT
*
12840033 TGTTATTATGTAATTTT
1 TGTT-TTATATAATTTT
12840050 GCGAAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TGTTTTATATAATTTTT
Found at i:12840948 original size:17 final size:17
Alignment explanation
Indices: 12840898--12840953 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
12840888 AATATTATTT
12840898 ATTAAATTAA--TT-TA
1 ATTAAATTAATTTTCTA
*
12840912 AATAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
12840929 ATTAAA-TAATTTTCTCA
1 ATTAAATTAATTTTCT-A
*
12840946 ATTCAATT
1 ATTAAATT
12840954 CTAATTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.26
16 11 0.32
17 13 0.38
18 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:12846173 original size:28 final size:28
Alignment explanation
Indices: 12846141--12846195 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
12846131 GGTCTTTGAT
12846141 CATACTATAACACCACACTATGAACGTG
1 CATACTATAACACCACACTATGAACGTG
12846169 CATACTATAACACCACACTATGAACGT
1 CATACTATAACACCACACTATGAACGT
12846196 CACAAGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (28 bp):
CATACTATAACACCACACTATGAACGTG
Found at i:12846434 original size:34 final size:34
Alignment explanation
Indices: 12846391--12846458 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
12846381 TATTAGACTA
*
12846391 AGGATATGTTTTTGTTCGTCAACTAATATAAGTG
1 AGGATATGTTTTCGTTCGTCAACTAATATAAGTG
* *
12846425 AGGATATGTTTTCGTTTGTCTACTAATATAAGTG
1 AGGATATGTTTTCGTTCGTCAACTAATATAAGTG
12846459 TCTTTCCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (34 bp):
AGGATATGTTTTCGTTCGTCAACTAATATAAGTG
Found at i:12849941 original size:14 final size:14
Alignment explanation
Indices: 12849922--12849948 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12849912 TTGGTAACCT
12849922 GTAAAAGCTTTTCC
1 GTAAAAGCTTTTCC
12849936 GTAAAAGCTTTTC
1 GTAAAAGCTTTTC
12849949 ATGCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
GTAAAAGCTTTTCC
Found at i:12855137 original size:9 final size:9
Alignment explanation
Indices: 12855123--12855191 Score: 75
Period size: 9 Copynumber: 7.7 Consensus size: 9
12855113 AATAAGTATA
12855123 AAATTAACC
1 AAATTAACC
*
12855132 AAATTAATC
1 AAATTAACC
* *
12855141 GAATTAATC
1 AAATTAACC
12855150 AAATTAACC
1 AAATTAACC
* *
12855159 GAATTACCC
1 AAATTAACC
12855168 AAATTAACC
1 AAATTAACC
*
12855177 GAATTAACC
1 AAATTAACC
*
12855186 GAATTA
1 AAATTA
12855192 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (9 bp):
AAATTAACC
Found at i:12855147 original size:18 final size:18
Alignment explanation
Indices: 12855124--12855191 Score: 100
Period size: 18 Copynumber: 3.8 Consensus size: 18
12855114 ATAAGTATAA
*
12855124 AATTAACCAAATTAATCG
1 AATTAACCAAATTAACCG
*
12855142 AATTAATCAAATTAACCG
1 AATTAACCAAATTAACCG
*
12855160 AATTACCCAAATTAACCG
1 AATTAACCAAATTAACCG
*
12855178 AATTAACCGAATTA
1 AATTAACCAAATTA
12855192 TTTGTATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (18 bp):
AATTAACCAAATTAACCG
Found at i:12855153 original size:27 final size:27
Alignment explanation
Indices: 12855123--12855191 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
12855113 AATAAGTATA
* * * *
12855123 AAATTAACCAAATTAATCGAATTAATC
1 AAATTAACCGAATTAACCAAATTAACC
*
12855150 AAATTAACCGAATTACCCAAATTAACC
1 AAATTAACCGAATTAACCAAATTAACC
*
12855177 GAATTAACCGAATTA
1 AAATTAACCGAATTA
12855192 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATTAACCGAATTAACCAAATTAACC
Found at i:12855222 original size:6 final size:6
Alignment explanation
Indices: 12855211--12855237 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12855201 AATTATGTGT
12855211 TTTTTA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
12855238 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:12855278 original size:13 final size:13
Alignment explanation
Indices: 12855262--12855286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12855252 AATTTTTATG
12855262 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
12855275 ATTGGGTTGGGT
1 ATTGGGTTGGGT
12855287 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:12855286 original size:18 final size:18
Alignment explanation
Indices: 12855263--12855300 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12855253 ATTTTTATGA
12855263 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
12855281 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
12855299 TT
1 TT
12855301 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:12859660 original size:16 final size:15
Alignment explanation
Indices: 12859634--12859664 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
12859624 AAATGGGGAA
12859634 TAAATTAAAATTAAT
1 TAAATTAAAATTAAT
12859649 TAAATTATAAATTAAT
1 TAAATTA-AAATTAAT
12859665 AACCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATTAAAATTAAT
Found at i:12871645 original size:21 final size:21
Alignment explanation
Indices: 12871621--12871675 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
12871611 TTTGCTGCCA
*
12871621 TCGCTGCTGCCTTTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
12871642 TCGCTACTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
12871663 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
12871676 CGCTCTAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.02, C:0.49, G:0.18, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:12874386 original size:27 final size:27
Alignment explanation
Indices: 12874356--12874411 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
12874346 TTAAAAACTC
* *
12874356 ATTTTTTAAAAATCAAAACAAATACAA
1 ATTTTTGAAAAATCAAAACAAAAACAA
* *
12874383 ATTTTTGATACATCAAAACAAAAACAA
1 ATTTTTGAAAAATCAAAACAAAAACAA
12874410 AT
1 AT
12874412 GAATGCTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (27 bp):
ATTTTTGAAAAATCAAAACAAAAACAA
Found at i:12876051 original size:28 final size:30
Alignment explanation
Indices: 12875986--12876058 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 30
12875976 TTAATCAAAA
*
12875986 CCCTAAACTTTAAAC-CATTAAAATATATC
1 CCCTAAACCTTAAACTCATTAAAATATATC
*
12876015 CCC-ATAACCTTAAACTC-TT-AACTATATC
1 CCCTA-AACCTTAAACTCATTAAAATATATC
*
12876043 CCCTAAACCCTAAACT
1 CCCTAAACCTTAAACT
12876059 ATATCCTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 22 0.58
29 15 0.39
30 1 0.03
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.29
Consensus pattern (30 bp):
CCCTAAACCTTAAACTCATTAAAATATATC
Found at i:12876077 original size:20 final size:21
Alignment explanation
Indices: 12876025--12876069 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
12876015 CCCATAACCT
* *
12876025 TAAACTCTTAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
*
12876046 TAAACCCTAAACTATATCCTC
1 TAAACCCTAAACTATATCCCC
12876067 TAA
1 TAA
12876070 CCACAAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCCC
Found at i:12876250 original size:14 final size:14
Alignment explanation
Indices: 12876207--12876252 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12876197 CTTAAACCAT
12876207 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
12876221 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
12876234 TAAACTATATCCCC
1 TAAACTATATCCCC
12876248 TAAAC
1 TAAAC
12876253 CATAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:12876301 original size:22 final size:22
Alignment explanation
Indices: 12876271--12876351 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
12876261 ACAAAATAAT
* *
12876271 AACCCTTAAGCCTTAACCCCTA
1 AACCATTAACCCTTAACCCCTA
* *
12876293 AACCATTAACCCATAACCCATA
1 AACCATTAACCCTTAACCCCTA
* * * *
12876315 ACCCATAAACCCCTAACCACTA
1 AACCATTAACCCTTAACCCCTA
*
12876337 ACCCA-TAACCCTTAA
1 AACCATTAACCCTTAA
12876352 ACCATAAGCC
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 8 0.17
22 40 0.83
ACGTcount: A:0.40, C:0.41, G:0.01, T:0.19
Consensus pattern (22 bp):
AACCATTAACCCTTAACCCCTA
Found at i:12876304 original size:29 final size:28
Alignment explanation
Indices: 12876270--12876356 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
12876260 CACAAAATAA
* * *
12876270 TAACCCTTAAGCCTTAACCCCTAAACCAT
1 TAACCC-TAACCCATAACCCATAAACCAT
**
12876299 TAACCCATAACCCATAACCCATAAACCCC
1 TAACCC-TAACCCATAACCCATAAACCAT
*
12876328 TAACCACTAACCCATAACCCTTAAACCAT
1 TAACC-CTAACCCATAACCCATAAACCAT
12876357 AAGCCATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
29 47 0.98
30 1 0.02
ACGTcount: A:0.39, C:0.40, G:0.01, T:0.20
Consensus pattern (28 bp):
TAACCCTAACCCATAACCCATAAACCAT
Found at i:12876309 original size:7 final size:7
Alignment explanation
Indices: 12876269--12876393 Score: 85
Period size: 7 Copynumber: 17.6 Consensus size: 7
12876259 CCACAAAATA
12876269 ATAACCC
1 ATAACCC
* *
12876276 TTAAGCC
1 ATAACCC
*
12876283 TTAACCC
1 ATAACCC
* *
12876290 CTAAACC
1 ATAACCC
12876297 ATTAACCC
1 A-TAACCC
12876305 ATAACCC
1 ATAACCC
12876312 ATAACCC
1 ATAACCC
12876319 ATAAACCC
1 AT-AACCC
*
12876327 CTAA-CC
1 ATAACCC
12876333 ACTAACCC
1 A-TAACCC
12876341 ATAACCC
1 ATAACCC
* *
12876348 TTAAACC
1 ATAACCC
*
12876355 ATAAGCC
1 ATAACCC
*
12876362 ATAA-AC
1 ATAACCC
12876368 ATAATCCC
1 ATAA-CCC
12876376 -TAAACCC
1 AT-AACCC
*
12876383 ATAATCC
1 ATAACCC
12876390 ATAA
1 ATAA
12876394 ACATTTAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
6 7 0.07
7 68 0.72
8 19 0.20
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (7 bp):
ATAACCC
Found at i:12876394 original size:15 final size:15
Alignment explanation
Indices: 12876284--12876395 Score: 96
Period size: 14 Copynumber: 7.8 Consensus size: 15
12876274 CCTTAAGCCT
*
12876284 TAACCCCTAAA-CCA
1 TAACCCATAAACCCA
12876298 TTAACCCAT-AACCCA
1 -TAACCCATAAACCCA
*
12876313 TAACCCATAAACCCC
1 TAACCCATAAACCCA
12876328 TAA-CCACT-AACCCA
1 TAACCCA-TAAACCCA
*
12876342 TAACCCTTAAA-CCA
1 TAACCCATAAACCCA
*
12876356 TAAGCCATAAA--CA
1 TAACCCATAAACCCA
12876369 TAATCCC-TAAACCCA
1 TAA-CCCATAAACCCA
*
12876384 TAATCCATAAAC
1 TAACCCATAAAC
12876396 ATTTAAATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
13 9 0.11
14 38 0.47
15 33 0.41
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.18
Consensus pattern (15 bp):
TAACCCATAAACCCA
Found at i:12876397 original size:28 final size:28
Alignment explanation
Indices: 12876234--12876395 Score: 56
Period size: 29 Copynumber: 5.7 Consensus size: 28
12876224 TAAAGTACCC
* * *
12876234 TAAACTATATCCCCTAAACCATAAACCA
1 TAAACCATAACCCCTAAACCATAAGCCA
* ** * * * * *
12876262 CAAAATAATAACCCTTAAGCCTTAACCCC
1 -TAAACCATAACCCCTAAACCATAAGCCA
* * *
12876291 TAAACCATTAACCCATAACCCATAACCCA
1 TAAACCA-TAACCCCTAAACCATAAGCCA
* * * * *
12876320 TAAACCCCTAACCACTAACCCATAACCCT
1 TAAA-CCATAACCCCTAAACCATAAGCCA
* * * *
12876349 TAAACCATAAGCCATAAA-CATAATCCC
1 TAAACCATAACCCCTAAACCATAAGCCA
* *
12876376 TAAACCCATAATCCATAAAC
1 TAAA-CCATAACCCCTAAAC
12876396 ATTTAAATAT
Statistics
Matches: 101, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 11 0.11
28 26 0.26
29 62 0.61
30 2 0.02
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.19
Consensus pattern (28 bp):
TAAACCATAACCCCTAAACCATAAGCCA
Found at i:12879548 original size:23 final size:23
Alignment explanation
Indices: 12879519--12879567 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
12879509 ATACCATATT
12879519 TTTAATGTATTAAAATAATGAAA
1 TTTAATGTATTAAAATAATGAAA
12879542 TTTAATGTATTAAAATAATGAAA
1 TTTAATGTATTAAAATAATGAAA
12879565 TTT
1 TTT
12879568 TGGATACGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (23 bp):
TTTAATGTATTAAAATAATGAAA
Found at i:12881064 original size:14 final size:14
Alignment explanation
Indices: 12881045--12881073 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12881035 TTTTTTTCTC
12881045 ATGTTGTGAGTGTA
1 ATGTTGTGAGTGTA
12881059 ATGTTGTGAGTGTA
1 ATGTTGTGAGTGTA
12881073 A
1 A
12881074 GAAGATGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (14 bp):
ATGTTGTGAGTGTA
Found at i:12883552 original size:14 final size:15
Alignment explanation
Indices: 12883523--12883560 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
12883513 TTCTCGTGTT
12883523 TTTGTTTTGTTTTCC
1 TTTGTTTTGTTTTCC
12883538 TTTGTTTTG-TTTCC
1 TTTGTTTTGTTTTCC
*
12883552 TTTCTTTTG
1 TTTGTTTTG
12883561 CAAGTACTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.00, C:0.13, G:0.13, T:0.74
Consensus pattern (15 bp):
TTTGTTTTGTTTTCC
Found at i:12884829 original size:33 final size:33
Alignment explanation
Indices: 12884789--12884854 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
12884779 TCTGAGAGAT
*
12884789 AGAATCAAAGATATGCTCAGTGGAAGACTCAAG
1 AGAATCAAAGATATCCTCAGTGGAAGACTCAAG
12884822 AGAATCAAAGATATCCTCAGTGGAAGACTCAAG
1 AGAATCAAAGATATCCTCAGTGGAAGACTCAAG
12884855 GGATATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (33 bp):
AGAATCAAAGATATCCTCAGTGGAAGACTCAAG
Found at i:12888495 original size:30 final size:30
Alignment explanation
Indices: 12888461--12888518 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
12888451 CACGGCCATG
12888461 ACACAAGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACAAGGGCGTGTGGATC-ACCCGTGTGTC
*
12888491 ACACACGGGCGTGTGGATCACCCGTGTG
1 ACACAAGGGCGTGTGGATCACCCGTGTG
12888519 GAAGTGCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACAAGGGCGTGTGGATCACCCGTGTGTC
Found at i:12892373 original size:10 final size:10
Alignment explanation
Indices: 12892358--12892407 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
12892348 TAATTTTAAG
12892358 ATTTAT-TTT
1 ATTTATCTTT
12892367 CATTTATCTTT
1 -ATTTATCTTT
*
12892378 AATTATCTTT
1 ATTTATCTTT
12892388 ATTTAT-TTGT
1 ATTTATCTT-T
12892398 ATTTATCTTT
1 ATTTATCTTT
12892408 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:12893911 original size:5 final size:5
Alignment explanation
Indices: 12893901--12893940 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
12893891 AACCTAAATT
*
12893901 AATAA AATAAA AATAA AATAAA AATAA AACAA AATAA AAT
1 AATAA AAT-AA AATAA AAT-AA AATAA AATAA AATAA AAT
12893941 CTTTCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:12893917 original size:11 final size:11
Alignment explanation
Indices: 12893901--12893940 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
12893891 AACCTAAATT
12893901 AATAAAATAAA
1 AATAAAATAAA
12893912 AATAAAATAAA
1 AATAAAATAAA
*
12893923 AATAAAA-CAA
1 AATAAAATAAA
12893933 AATAAAAT
1 AATAAAAT
12893941 CTTTCTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:12893922 original size:16 final size:17
Alignment explanation
Indices: 12893901--12893940 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
12893891 AACCTAAATT
*
12893901 AATAAAATA-AAAATAA
1 AATAAAATATAAAACAA
12893917 AATAAAA-ATAAAACAA
1 AATAAAATATAAAACAA
12893933 AATAAAAT
1 AATAAAAT
12893941 CTTTCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (17 bp):
AATAAAATATAAAACAA
Found at i:12900186 original size:9 final size:9
Alignment explanation
Indices: 12900174--12900246 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
12900164 TATTTTTTTA
12900174 AATTTTATT
1 AATTTTATT
12900183 AATTTTATT
1 AATTTTATT
12900192 AATTTTATT
1 AATTTTATT
12900201 AATTTTATT
1 AATTTTATT
12900210 AA--TT-TT
1 AATTTTATT
12900216 -ATTTTACTT
1 AATTTTA-TT
*
12900225 TATTTTATT
1 AATTTTATT
12900234 AA-TTTATT
1 AATTTTATT
12900242 AATTT
1 AATTT
12900247 ATTTTTGGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
5 1 0.02
6 2 0.04
7 4 0.07
8 8 0.14
9 36 0.63
10 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (9 bp):
AATTTTATT
Found at i:12900231 original size:15 final size:14
Alignment explanation
Indices: 12900175--12900251 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
12900165 ATTTTTTTAA
12900175 ATTTTATTAATTTT
1 ATTTTATTAATTTT
*
12900189 ATTAATT-TT-A-TTA
1 ATT--TTATTAATTTT
12900202 ATTTTATTAATTTT
1 ATTTTATTAATTTT
*
12900216 ATTTTACTTTATTTT
1 ATTTTA-TTAATTTT
12900231 ATTAATTTATTAA-TTT
1 A-T--TTTATTAATTTT
12900247 ATTTT
1 ATTTT
12900252 TGGATAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 19
0.68 0.05 0.26
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 9 0.18
14 12 0.24
15 11 0.22
16 7 0.14
17 3 0.06
18 4 0.08
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTAATTTT
Found at i:12900780 original size:12 final size:12
Alignment explanation
Indices: 12900765--12900795 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12900755 CCCCGCACAA
12900765 CTCCTCTTCCTC
1 CTCCTCTTCCTC
*
12900777 CTCCTCTTCGTC
1 CTCCTCTTCCTC
12900789 CTCCTCT
1 CTCCTCT
12900796 CAGCCGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.55, G:0.03, T:0.42
Consensus pattern (12 bp):
CTCCTCTTCCTC
Found at i:12903010 original size:96 final size:97
Alignment explanation
Indices: 12902839--12903020 Score: 271
Period size: 96 Copynumber: 1.9 Consensus size: 97
12902829 TTTAAGGATG
**
12902839 TGTTGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTTGCGTCAAAAGGTTCGAT
1 TGTTGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCGAT
* *
12902904 ATGTTTTTAAG-AAAAATAAAAATTAGGAGTA
66 ATATTCTTAAGCAAAAATAAAAATTAGGAGTA
*
12902935 TGTTGGGCTGAGTAACCGGGGTG-GGATGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTC-A
1 TGTTGGGCTGAGTAACCAGGGTGAGG-TGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCGA
*
12902998 CTATATTCTTAAGCAACAATAAA
65 -TATATTCTTAAGCAAAAATAAA
12903021 TAAATAAAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
95 3 0.04
96 66 0.86
97 8 0.10
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (97 bp):
TGTTGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCGAT
ATATTCTTAAGCAAAAATAAAAATTAGGAGTA
Found at i:12903663 original size:10 final size:10
Alignment explanation
Indices: 12903648--12903703 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
12903638 TAATTTTAAA
12903648 ATTTAT-TTT
1 ATTTATCTTT
*
12903657 CATTTATATTT
1 -ATTTATCTTT
*
12903668 AATTATCTTT
1 ATTTATCTTT
*
12903678 AATTATCTTT
1 ATTTATCTTT
12903688 ATTTAT-TTGT
1 ATTTATCTT-T
12903698 ATTTAT
1 ATTTAT
12903704 TTTTTAGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
9 2 0.05
10 36 0.88
11 3 0.07
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:12903858 original size:14 final size:14
Alignment explanation
Indices: 12903839--12903867 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12903829 AAAATTCCAT
12903839 TCCCATTATATTTA
1 TCCCATTATATTTA
12903853 TCCCATTATATTTA
1 TCCCATTATATTTA
12903867 T
1 T
12903868 TTGTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (14 bp):
TCCCATTATATTTA
Found at i:12904855 original size:41 final size:42
Alignment explanation
Indices: 12904810--12904900 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 42
12904800 ATTCTAGGAA
** *
12904810 TATTTTATTTTAT-TTTGAATAGTTTATTAAAATAAAGAAAT
1 TATTTTACCTTATCTTTGAATAGTTTATTAAAATAAAAAAAT
* * *
12904851 TATTTT-CCTTATCTTTTAGTAGTTTATTAGAATAAAAAAAT
1 TATTTTACCTTATCTTTGAATAGTTTATTAAAATAAAAAAAT
12904892 TATTTTACC
1 TATTTTACC
12904901 AATTAAGTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.10
41 36 0.86
42 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (42 bp):
TATTTTACCTTATCTTTGAATAGTTTATTAAAATAAAAAAAT
Found at i:12906409 original size:21 final size:22
Alignment explanation
Indices: 12906385--12906425 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
12906375 ATGGTATATA
12906385 AAAATGTACA-AGTA-ATATAAT
1 AAAAT-TACATAGTATATATAAT
12906406 AAAATTACATAGTATATATA
1 AAAATTACATAGTATATATA
12906426 TACGTTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATTACATAGTATATATAAT
Found at i:12907024 original size:21 final size:22
Alignment explanation
Indices: 12907000--12907052 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
12906990 TATACAAAAC
*
12907000 AAAATATACGCATAATATA-TT
1 AAAATATACGCATAATATACAT
* *
12907021 AAAATATACACATAATGTACAT
1 AAAATATACGCATAATATACAT
12907043 AAAATATACG
1 AAAATATACG
12907053 TATATTCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (22 bp):
AAAATATACGCATAATATACAT
Found at i:12914948 original size:21 final size:21
Alignment explanation
Indices: 12914922--12914962 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12914912 ATCTGCTCAA
* *
12914922 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12914943 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12914963 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12919425 original size:43 final size:44
Alignment explanation
Indices: 12919356--12919448 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
12919346 TCCTAATTGG
12919356 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
12919399 GAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
12919443 -AAAATA
1 GAAAATA
12919449 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:12919492 original size:19 final size:18
Alignment explanation
Indices: 12919470--12919509 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
12919460 TGAATAAAAC
12919470 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
12919489 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
12919507 TTA
1 TTA
12919510 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:12924144 original size:42 final size:43
Alignment explanation
Indices: 12924089--12924180 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 43
12924079 TCCTAATTGG
12924089 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-
1 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAT
* * *
12924131 AAAAATAGTTCCCTTATTTTAGTAAACTACTAAAAGATAAAAT
1 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAT
12924174 AAAAATA
1 AAAAATA
12924181 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 39 0.85
43 7 0.15
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (43 bp):
AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAT
Found at i:12924224 original size:19 final size:18
Alignment explanation
Indices: 12924202--12924241 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
12924192 TGAATAAAAC
12924202 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
12924221 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
12924239 TTA
1 TTA
12924242 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:12933066 original size:30 final size:30
Alignment explanation
Indices: 12933032--12933088 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12933022 TAAAAATATA
*
12933032 ATTTTTAAAAAATTAAATTAAAATTTTATT
1 ATTTTTAAAAAATTAAAGTAAAATTTTATT
* *
12933062 ATTTTTATAAAATTAAAGTATAATTTT
1 ATTTTTAAAAAATTAAAGTAAAATTTT
12933089 TTTAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTTTAAAAAATTAAAGTAAAATTTTATT
Found at i:12938985 original size:43 final size:43
Alignment explanation
Indices: 12938924--12939010 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
12938914 CTTAGGTGGC
12938924 TGCAGTTGTTTGATAGATGGATTTATACTGATCTGTAGATACT
1 TGCAGTTGTTTGATAGATGGATTTATACTGATCTGTAGATACT
12938967 TGCAGTTGTTTGATAGATGGATTTATACTGATCTGTAGATACT
1 TGCAGTTGTTTGATAGATGGATTTATACTGATCTGTAGATACT
12939010 T
1 T
12939011 TTGACGAATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (43 bp):
TGCAGTTGTTTGATAGATGGATTTATACTGATCTGTAGATACT
Found at i:12954701 original size:33 final size:33
Alignment explanation
Indices: 12954659--12954721 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
12954649 AATTAAAACA
12954659 ATTTTCATAATCATTAACACAATACTAATTTTC
1 ATTTTCATAATCATTAACACAATACTAATTTTC
*
12954692 ATTTTCATAATCATTAATACAATACTAATT
1 ATTTTCATAATCATTAACACAATACTAATT
12954722 GACATTTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (33 bp):
ATTTTCATAATCATTAACACAATACTAATTTTC
Found at i:12954772 original size:12 final size:11
Alignment explanation
Indices: 12954732--12954782 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
12954722 GACATTTAAC
12954732 ATTTAAATTTCTT
1 ATTT-AATTTC-T
*
12954745 ATTCAATTTCT
1 ATTTAATTTCT
12954756 ATTTAATTTCT
1 ATTTAATTTCT
*
12954767 ACTTTAATTTCA
1 A-TTTAATTTCT
12954779 ATTT
1 ATTT
12954783 TAATCTTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 15 0.44
12 16 0.47
13 3 0.09
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTAATTTCT
Found at i:12954775 original size:23 final size:24
Alignment explanation
Indices: 12954732--12954782 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
12954722 GACATTTAAC
*
12954732 ATTTAAATTTCTTATTCAATTTCT
1 ATTTAAATTTCTTATTCAATTTCA
*
12954756 ATTT-AATTTC-TACTTTAATTTCA
1 ATTTAAATTTCTTA-TTCAATTTCA
12954779 ATTT
1 ATTT
12954783 TAATCTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 18 0.75
24 4 0.17
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTTAAATTTCTTATTCAATTTCA
Found at i:12955191 original size:20 final size:18
Alignment explanation
Indices: 12955162--12955244 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 18
12955152 AAATCCCTAG
12955162 TTTTTCCTTTTTCTTTTCT
1 TTTTTCCTTTTT-TTTTCT
12955181 TTTTCTCCTTTTTTTTTCT
1 TTTT-TCCTTTTTTTTTCT
*
12955200 TTCTTTCTCGTTTGTTATTTTGT
1 TT-TTTC-C-TTT-TT-TTTTCT
* *
12955223 TCTTTCCTTCTTTGTTTCT
1 TTTTTCCTT-TTTTTTTCT
12955242 TTT
1 TTT
12955245 CTTTTATGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
19 20 0.38
20 15 0.29
21 5 0.10
22 6 0.12
23 6 0.12
ACGTcount: A:0.01, C:0.19, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTTCCTTTTTTTTTCT
Found at i:12955220 original size:23 final size:20
Alignment explanation
Indices: 12955166--12955228 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
12955156 CCCTAGTTTT
12955166 TCCTTTTTCTTTTCTT-TTTC
1 TCCTTTTT-TTTTCTTCTTTC
12955186 TCCTTTTTTTTTCTTTCTTTC
1 TCCTTTTTTTTTC-TTCTTTC
* *
12955207 TCGTTTGTTATTTTGTTCTTTC
1 TCCTTT-TT-TTTTCTTCTTTC
12955229 CTTCTTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 5 0.14
20 10 0.27
21 9 0.24
22 9 0.24
23 4 0.11
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.73
Consensus pattern (20 bp):
TCCTTTTTTTTTCTTCTTTC
Found at i:12959389 original size:22 final size:22
Alignment explanation
Indices: 12959348--12959389 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12959338 TCTGCAAATT
* *
12959348 ATAATGACTTGTAAATAAATGG
1 ATAATGACTTGGAAACAAATGG
*
12959370 ATAATGATTTGGAAACAAAT
1 ATAATGACTTGGAAACAAAT
12959390 AACTTGATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (22 bp):
ATAATGACTTGGAAACAAATGG
Found at i:12959700 original size:25 final size:25
Alignment explanation
Indices: 12959671--12959718 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12959661 GCACTCTCTC
* *
12959671 GAGCCATATAGCAGGATGCTTATGT
1 GAGCCATATAACAGGAAGCTTATGT
*
12959696 GAGCCATGTAACAGGAAGCTTAT
1 GAGCCATATAACAGGAAGCTTAT
12959719 CCGGGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTTATGT
Found at i:12959872 original size:25 final size:24
Alignment explanation
Indices: 12959838--12959889 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
12959828 AAGTTCAAAC
12959838 GAGCCATATCAAGAAGCTCATAAA
1 GAGCCATATCAAGAAGCTCATAAA
* *
12959862 GAGCCTATATCAGGGAGCTCATAAA
1 GAGCC-ATATCAAGAAGCTCATAAA
12959887 GAG
1 GAG
12959890 TTGCGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAAGAAGCTCATAAA
Found at i:12962680 original size:111 final size:112
Alignment explanation
Indices: 12962514--12962736 Score: 326
Period size: 111 Copynumber: 2.0 Consensus size: 112
12962504 TTGAAACAAC
* * * * *
12962514 ATAAAATAAAAATTACAAATGTGTTTTTTTAGAAGAGGAATTGAATTTGAGATTTAAGGATGAAA
1 ATAAAATAAAAATTACAAATATG---TTTCAGAAAAGGAATTGAACTTGAGATTTAAGGACGAAA
*
12962579 TCATTATTATTTAA-TCATTTAACCAA-ATGAGTTAATATATTAAAAATAAA
63 TCATTATTATTTAACT-ATTTAACCAAGAT-AGCTAATATATTAAAAATAAA
12962629 ATAAAATAAAAATTACAAATATG-TTCAGAAAAGGAATTGAACTTGAGATTTAAGGACGAAATCA
1 ATAAAATAAAAATTACAAATATGTTTCAGAAAAGGAATTGAACTTGAGATTTAAGGACGAAATCA
12962693 TTATTATTTAACTATTTAACCAAGATAGCTAATATATTAAAAAT
66 TTATTATTTAACTATTTAACCAAGATAGCTAATATATTAAAAAT
12962737 TATAAATATG
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
111 75 0.75
112 3 0.03
115 22 0.22
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (112 bp):
ATAAAATAAAAATTACAAATATGTTTCAGAAAAGGAATTGAACTTGAGATTTAAGGACGAAATCA
TTATTATTTAACTATTTAACCAAGATAGCTAATATATTAAAAATAAA
Found at i:12964608 original size:19 final size:18
Alignment explanation
Indices: 12964575--12964629 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 18
12964565 GATTCCAAAA
12964575 TTATTATTTTATTAAATTT
1 TTATTATTTTATT-AATTT
12964594 TTATATATTTT-TTAATTT
1 TTAT-TATTTTATTAATTT
*
12964612 TT-TTAATTTA-TAATTT
1 TTATTATTTTATTAATTT
12964628 TT
1 TT
12964630 TAAAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 13 0.39
17 1 0.03
18 7 0.21
19 6 0.18
20 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTATTTTATTAATTT
Found at i:12966086 original size:47 final size:47
Alignment explanation
Indices: 12965977--12966087 Score: 118
Period size: 47 Copynumber: 2.4 Consensus size: 47
12965967 CCGGGATAAG
* * * *
12965977 CACATAGTGTTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
12966024 CACAAAGT-ACTTCATCGGAACAAATTCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
12966071 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
12966088 ACTCAATGTC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
47 48 0.94
48 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:12967912 original size:2 final size:2
Alignment explanation
Indices: 12967905--12967935 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12967895 TAAAAATCTT
12967905 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 T
12967936 TCTTTGGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12969019 original size:22 final size:22
Alignment explanation
Indices: 12968993--12969036 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12968983 AACTTGAATT
*
12968993 TTAAACTTTTAAAAATATAAAA
1 TTAAACTTTTAAAAATAAAAAA
*
12969015 TTAAACTTTTAGAAATAAAAAA
1 TTAAACTTTTAAAAATAAAAAA
12969037 AACAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (22 bp):
TTAAACTTTTAAAAATAAAAAA
Found at i:12969043 original size:23 final size:22
Alignment explanation
Indices: 12968995--12969043 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
12968985 CTTGAATTTT
* **
12968995 AAACTTTTAAAAATATAAAATT
1 AAACTTTTAAAAATAAAAAAAC
*
12969017 AAACTTTTAGAAATAAAAAAAAC
1 AAACTTTTAAAAAT-AAAAAAAC
12969040 AAAC
1 AAAC
12969044 AAAATTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (22 bp):
AAACTTTTAAAAATAAAAAAAC
Found at i:12981449 original size:12 final size:12
Alignment explanation
Indices: 12981432--12981456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12981422 TGAAAATGAA
12981432 TCATTTCCATTT
1 TCATTTCCATTT
12981444 TCATTTCCATTT
1 TCATTTCCATTT
12981456 T
1 T
12981457 TGGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:12984404 original size:29 final size:27
Alignment explanation
Indices: 12984389--12984459 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 27
12984379 AGATGACCAC
12984389 AAATGCATCCATTTAACTGAGATAGCCA
1 AAATGCAT-CATTTAACTGAGATAGCCA
12984417 AAATGCATCATTTTTAA-TAGAGATAGCCA
1 AAATGCATCA--TTTAACT-GAGATAGCCA
12984446 CAAATGCATCATTT
1 -AAATGCATCATTT
12984460 TTAATAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 2 0.05
28 12 0.31
29 15 0.38
30 10 0.26
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (27 bp):
AAATGCATCATTTAACTGAGATAGCCA
Found at i:12984453 original size:30 final size:30
Alignment explanation
Indices: 12984385--12984506 Score: 146
Period size: 30 Copynumber: 4.1 Consensus size: 30
12984375 ACGAAGATGA
12984385 CCACAAATGCATCCA--TTTAACT-GAGATAG
1 CCACAAATGCAT-CATTTTTAA-TAGAGATAG
12984414 CCA-AAATGCATCATTTTTAATAGAGATAG
1 CCACAAATGCATCATTTTTAATAGAGATAG
12984443 CCACAAATGCATCATTTTTAATAGAGATAG
1 CCACAAATGCATCATTTTTAATAGAGATAG
* * * *
12984473 CCATAAA-GACATCCTTTTTAACAAAGATAG
1 CCACAAATG-CATCATTTTTAATAGAGATAG
12984503 CCAC
1 CCAC
12984507 CAAGGCATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 9 0.11
29 19 0.23
30 53 0.64
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.27
Consensus pattern (30 bp):
CCACAAATGCATCATTTTTAATAGAGATAG
Found at i:12984526 original size:29 final size:28
Alignment explanation
Indices: 12984489--12984636 Score: 163
Period size: 29 Copynumber: 5.2 Consensus size: 28
12984479 AGACATCCTT
*
12984489 TTTAACAAAGATAGCCACCAAGGCATTCC
1 TTTAACAAAGATAGCCACAAAGGC-TTCC
*
12984518 TTTAACAAAGATAGCCATAAAGGCTTCC
1 TTTAACAAAGATAGCCACAAAGGCTTCC
* * * * *
12984546 TTTGAA-AAAAACAACCACAAAGACATTCA
1 TTT-AACAAAGATAGCCACAAAGGC-TTCC
*
12984575 TTTAACAAAGATCGCCACAAAGGCTTCC
1 TTTAACAAAGATAGCCACAAAGGCTTCC
* *
12984603 TTATAATAGAGATAGCCACAAAGGCTTCC
1 TT-TAACAAAGATAGCCACAAAGGCTTCC
12984632 TTTAA
1 TTTAA
12984637 TAGAGACAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
28 30 0.31
29 68 0.69
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (28 bp):
TTTAACAAAGATAGCCACAAAGGCTTCC
Found at i:12984636 original size:57 final size:57
Alignment explanation
Indices: 12984467--12984636 Score: 173
Period size: 57 Copynumber: 2.9 Consensus size: 57
12984457 TTTTTAATAG
* * * * *
12984467 AGATAGCCATAAAGACATCCTTTTTAACAAAGATAGCCACCAAGGCATTCCTTTAACAA
1 AGATAGCCACAAAGGCTTCC-TTTGAA-AAAGATAGCCACAAAGGCATTCCTTTAACAA
* * * * * *
12984526 AGATAGCCATAAAGGCTTCCTTTGAAAAAAACAACCACAAAGACATTCATTTAACAA
1 AGATAGCCACAAAGGCTTCCTTTGAAAAAGATAGCCACAAAGGCATTCCTTTAACAA
* *
12984583 AGATCGCCACAAAGGCTTCCTTAT-AATAGAGATAGCCACAAAGGC-TTCCTTTAA
1 AGATAGCCACAAAGGCTTCCTT-TGAA-AAAGATAGCCACAAAGGCATTCCTTTAA
12984637 TAGAGACAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
57 55 0.60
58 19 0.21
59 18 0.20
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (57 bp):
AGATAGCCACAAAGGCTTCCTTTGAAAAAGATAGCCACAAAGGCATTCCTTTAACAA
Found at i:12984650 original size:28 final size:29
Alignment explanation
Indices: 12984589--12984664 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
12984579 ACAAAGATCG
* *
12984589 CCACAAAGGCTTCCTTATAATAGAGATAG
1 CCACAAAGGCTTCCTTATAATAGAGACAA
12984618 CCACAAAGGCTTCCTT-TAATAGAGACAA
1 CCACAAAGGCTTCCTTATAATAGAGACAA
*
12984646 TCACAAAGGC-TCACTTATA
1 CCACAAAGGCTTC-CTTATA
12984665 TGGAAATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 2 0.05
28 22 0.52
29 18 0.43
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCTTCCTTATAATAGAGACAA
Found at i:12984651 original size:86 final size:87
Alignment explanation
Indices: 12984429--12984653 Score: 249
Period size: 86 Copynumber: 2.6 Consensus size: 87
12984419 ATGCATCATT
* * * * * * *
12984429 TTTAATAGAGATAGCCACAAATGCATCATTTTTAATAGAGATAGCCATAAAGACATCCTTTTTAA
1 TTTAATAGAGATAGCCACAAAGGCTTC--CTTTAATAGAGACAACCACAAAGACATCCTATTTAA
*
12984494 CAAAGATAGCCACCAAGGCATTCC
64 CAAAGATAGCCACAAAGGCATTCC
* * * * * *
12984518 TTTAACAAAGATAGCCATAAAGGCTTCCTTTGAA-AAAAACAACCACAAAGACATTC-ATTTAAC
1 TTTAATAGAGATAGCCACAAAGGCTTCCTTT-AATAGAGACAACCACAAAGACATCCTATTTAAC
*
12984581 AAAGATCGCCACAAAGGC-TTCC
65 AAAGATAGCCACAAAGGCATTCC
*
12984603 TTATAATAGAGATAGCCACAAAGGCTTCCTTTAATAGAGACAATCACAAAG
1 TT-TAATAGAGATAGCCACAAAGGCTTCCTTTAATAGAGACAACCACAAAG
12984654 GCTCACTTAT
Statistics
Matches: 112, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
85 8 0.07
86 61 0.54
87 19 0.17
88 2 0.02
89 22 0.20
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (87 bp):
TTTAATAGAGATAGCCACAAAGGCTTCCTTTAATAGAGACAACCACAAAGACATCCTATTTAACA
AAGATAGCCACAAAGGCATTCC
Found at i:12995388 original size:72 final size:71
Alignment explanation
Indices: 12995283--12995447 Score: 170
Period size: 72 Copynumber: 2.3 Consensus size: 71
12995273 GACATGTACC
* * * * *
12995283 TTCTCATTACCATACTTCTCATAGTAATAGAATAACCAAAAGAAATAAACAAAACAATACAACAC
1 TTCTCATTACCAAACTTCTTACAATAACAGAATAACCAAAAGAAATAAACAAAACAATACAACAC
12995348 -TCATATT
66 ATC--ATT
* *** * * **
12995355 TTCTCATTACCAAACTTCTTACAATAACCGAATAATTTAAAGAAGTGAATGAAACAATACAACAC
1 TTCTCATTACCAAACTTCTTACAATAACAGAATAACCAAAAGAAATAAACAAAACAATACAACAC
12995420 ATGCATT
66 AT-CATT
*
12995427 TTCTCATTACCACACTTCTTA
1 TTCTCATTACCAAACTTCTTA
12995448 TCTTTAATAG
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
72 75 0.97
73 1 0.01
74 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (71 bp):
TTCTCATTACCAAACTTCTTACAATAACAGAATAACCAAAAGAAATAAACAAAACAATACAACAC
ATCATT
Found at i:13001512 original size:23 final size:23
Alignment explanation
Indices: 13001430--13001516 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
13001420 CCTGATCAGT
*
13001430 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
13001452 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
13001472 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
13001495 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
13001517 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:13001915 original size:15 final size:15
Alignment explanation
Indices: 13001889--13001945 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
13001879 CATATATATT
13001889 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
13001903 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
13001918 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
13001933 ATATAAATTCAAT
1 ATATAATTTCAAT
13001946 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:13003225 original size:5 final size:5
Alignment explanation
Indices: 13003217--13003277 Score: 115
Period size: 5 Copynumber: 12.4 Consensus size: 5
13003207 TCTTTAGTTT
13003217 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
13003266 ATATA ATATA AT
1 ATATA ATATA AT
13003278 TAAACATTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.07
5 51 0.93
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:13003312 original size:8 final size:8
Alignment explanation
Indices: 13003299--13003327 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13003289 TATCTTTATT
13003299 ATATAATA
1 ATATAATA
13003307 ATATAATA
1 ATATAATA
13003315 ATATAATA
1 ATATAATA
13003323 ATATA
1 ATATA
13003328 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:13007877 original size:23 final size:23
Alignment explanation
Indices: 13007844--13007893 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
13007834 TTGACTGATA
*
13007844 AAATCTCTATATATTAACTCCGT
1 AAATCTCTATATATTAAATCCGT
*
13007867 AAATCTTTATATATTAAATCCGT
1 AAATCTCTATATATTAAATCCGT
13007890 AAAT
1 AAAT
13007894 ATCCTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATCTCTATATATTAAATCCGT
Done.