Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 122 of 345
Found at i:40902272 original size:39 final size:39
Alignment explanation
Indices: 40902188--40902298 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
40902178 AGATACTAAT
** *
40902188 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
40902228 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
40902268 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
40902299 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:40905449 original size:26 final size:25
Alignment explanation
Indices: 40905420--40905497 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
40905410 ACTTTTGTTA
40905420 AGGGACT-TTGGATGAAAATGTGAAAT
1 AGGGACTATTGG-TGAAAA-GTGAAAT
*
40905446 AGGGACTAATTTGTGAAAAGTGAAAT
1 AGGGACT-ATTGGTGAAAAGTGAAAT
* *
40905472 AGGGACTAATTTGTGAAATGTGAAAT
1 AGGGACT-ATTGGTGAAAAGTGAAAT
40905498 TTATGCGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 39 0.81
27 6 0.12
28 3 0.06
ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28
Consensus pattern (25 bp):
AGGGACTATTGGTGAAAAGTGAAAT
Found at i:40906987 original size:37 final size:37
Alignment explanation
Indices: 40906937--40907011 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
40906927 AACGAGTAAG
40906937 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
1 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
40906974 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
1 TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
40907011 T
1 T
40907012 GTTCTTATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (37 bp):
TAGAAATCATGAGAATTAATACAATTTGTATTAATAA
Found at i:40909168 original size:42 final size:42
Alignment explanation
Indices: 40909087--40909168 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
40909077 TAATATATAT
* * * *
40909087 ATGTGATCTCGTATAAGACCATATCTGGGATATGTCATCGGC
1 ATGTGATCTCGTATAAGACCATATCTAGAACATGGCATCGGC
* * *
40909129 ATGTGATTTCGTGTAAGACCATGTCTAGAACATGGCATCG
1 ATGTGATCTCGTATAAGACCATATCTAGAACATGGCATCG
40909169 ATATGAGACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
ATGTGATCTCGTATAAGACCATATCTAGAACATGGCATCGGC
Found at i:40910241 original size:18 final size:18
Alignment explanation
Indices: 40910216--40910265 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
40910206 TAGCAGTGGT
40910216 AGTAATCAGTGCAGTAAGC
1 AGTAATCAGTGCAGTAA-C
* * *
40910235 -GTGATCAATACAGTAAC
1 AGTAATCAGTGCAGTAAC
40910252 AGTAATCAGTGCAG
1 AGTAATCAGTGCAG
40910266 AATGCAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTAATCAGTGCAGTAAC
Found at i:40910665 original size:27 final size:27
Alignment explanation
Indices: 40910619--40910734 Score: 103
Period size: 27 Copynumber: 4.4 Consensus size: 27
40910609 AGGGCAAATA
* * **
40910619 AGTCATTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCCTATAGGGGTATTTT
*
40910646 AGTCATTTTACCCTATAGGGATATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
* * *
40910673 GGTCATTCTACCATAT-GGTGGTATTTT
1 AGTCATTTTACCCTATAGG-GGTATTTT
*
40910700 AGTCATTTTACCCT-GA-GGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTTT
* *
40910725 GGTTATTTTA
1 AGTCATTTTA
40910735 TCACATAAAG
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
25 16 0.22
26 3 0.04
27 53 0.74
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (27 bp):
AGTCATTTTACCCTATAGGGGTATTTT
Found at i:40910767 original size:27 final size:27
Alignment explanation
Indices: 40910729--40911390 Score: 839
Period size: 27 Copynumber: 24.7 Consensus size: 27
40910719 TATTTTGGTT
* * * *
40910729 ATTTTATCACATAAAGGAAAAATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
*
40910756 ATTTTATCACATAAGGGAAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* * *
40910783 ATTTTATCACATGAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* * *
40910810 ATTTTATCAAATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* * *
40910837 ATTTTATTACATAAGAGCAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40910864 ATTTTATCACATAAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
* * *
40910891 GTTTTATCACATAAGGGCAATATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40910918 ATTTTATCACATGAGGGCAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40910945 ATTTTATCATATAAGGGCAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
*
40910972 ATTTTATCACATAAGGGCAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40910999 ATTTTATCAC--AAGGGTAAAATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
40911024 ATTTTATCACATAAGGGTAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
40911051 ATTTTATCAC--AAGGGTAGA-ATCGTC
1 ATTTTATCACATAAGGGTA-ATATCGTC
* *
40911076 ATTTTATCACATAAGGGCAATATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
* * *
40911103 ATTTTATCACATAAGGGTAAAATCATT
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40911130 ATTTTATCACATAAGGGTAAAATCGTT
1 ATTTTATCACATAAGGGTAATATCGTC
*
40911157 ATTTTATCACATAAGGGTAATATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
*
40911184 ATTTTATCACATAAGGGCAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* * * *
40911211 ATTTTATCACATAAAGGTAAAATTGTT
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40911238 ATTTTATCACATAAGGGAAATATCGTT
1 ATTTTATCACATAAGGGTAATATCGTC
*
40911265 ATTTTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* *
40911292 ATTTTATTACATAAGGGCAATATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
* * *
40911319 ATTTTATTACATAAGGGCAATATCATC
1 ATTTTATCACATAAGGGTAATATCGTC
*
40911346 ATTTTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGTAATATCGTC
*
40911373 ATTTTATCTCATAAGGGT
1 ATTTTATCACATAAGGGT
40911391 TCAGCTACGC
Statistics
Matches: 563, Mismatches: 66, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
25 45 0.08
26 2 0.00
27 516 0.92
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (27 bp):
ATTTTATCACATAAGGGTAATATCGTC
Found at i:40923367 original size:37 final size:37
Alignment explanation
Indices: 40923326--40923401 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
40923316 AATCCATGAA
40923326 GTATGTTAATAATAATGAAATGATAAAAAATGTCCTG
1 GTATGTTAATAATAATGAAATGATAAAAAATGTCCTG
40923363 GTATGTTAATAATAATGAAATGATAAAAAATGTCCTG
1 GTATGTTAATAATAATGAAATGATAAAAAATGTCCTG
40923400 GT
1 GT
40923402 TGAAGTCAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (37 bp):
GTATGTTAATAATAATGAAATGATAAAAAATGTCCTG
Found at i:40930446 original size:50 final size:50
Alignment explanation
Indices: 40930372--40930808 Score: 578
Period size: 50 Copynumber: 8.8 Consensus size: 50
40930362 TGCTAGGGAT
* *
40930372 ATATGAGAGCTAGCGTAAGACCATGTCTCGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
*
40930422 ATATGAGAGCTATTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * * *
40930472 AAATAAGAGCTAGTCTAAGACCATGTCTGGGACATTGTATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * *
40930522 ATATGAGAGCTAGTGTAAGACCATGTTTAGGACATGGTATCAGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
*
40930572 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
*
40930622 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * * **
40930672 ATATAAGAGCTAGTGTTAGACCATGTCTGGGACTTGGTATCGG-CT-TTG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
* * * *
40930720 ATATGTG-TC-AGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
** **
40930768 ATACAAGAG-TCAGTGTAAGACCATGTCTAAGACATGGCATC
1 ATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC
40930809 AACTTTGATG
Statistics
Matches: 335, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
46 28 0.08
47 3 0.01
48 10 0.03
49 2 0.01
50 292 0.87
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
Found at i:40938289 original size:20 final size:21
Alignment explanation
Indices: 40938251--40938289 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
40938241 TCGAATTGGT
40938251 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
40938272 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
40938290 ACTTTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:40938635 original size:50 final size:50
Alignment explanation
Indices: 40938561--40938797 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 50
40938551 TGCTGGGGAT
*
40938561 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAG
* * *
40938611 ATATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAG
* * *
40938661 AAATCAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAG
* * ** * * *
40938711 ATATGAGAGCTAATGTAAGACTATGTCTTAGACATGACATC-AGCT--TG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAG
* * *
40938758 ATATGTG-TC-AGTGTAAGACCATGTCTAGGACATGGCATCG
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
40938798 GCACTGTAAC
Statistics
Matches: 161, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
45 25 0.16
46 1 0.01
47 7 0.04
49 2 0.01
50 126 0.78
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGAG
Found at i:40941300 original size:26 final size:27
Alignment explanation
Indices: 40941271--40941327 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
40941261 CCATATATAT
* *
40941271 ATATCTGT-TTTGGTGGCTTAGCCACA
1 ATATCTGTATCTGGTGACTTAGCCACA
* *
40941297 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTTAGCCACA
40941324 ATAT
1 ATAT
40941328 TTGGCAGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACTTAGCCACA
Found at i:40945793 original size:31 final size:31
Alignment explanation
Indices: 40945752--40945815 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
40945742 CCTTTTCATA
*
40945752 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
40945783 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
40945814 TT
1 TT
40945816 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:40946060 original size:24 final size:25
Alignment explanation
Indices: 40946029--40946103 Score: 129
Period size: 23 Copynumber: 3.1 Consensus size: 25
40946019 GCCTAGGCTC
40946029 TTTTAATAACTGGGGCA-AAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
40946053 TTTTAATAACTGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCT
40946077 -TTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
40946101 TTT
1 TTT
40946104 GCACTTCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
23 23 0.48
24 17 0.35
25 8 0.17
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (25 bp):
TTTTAATAACTGGGGCATAAGCCCT
Found at i:40946176 original size:9 final size:9
Alignment explanation
Indices: 40946162--40946238 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
40946152 ATCTCGTGTG
40946162 CATATCATA
1 CATATCATA
*
40946171 CATATCATGTG
1 CATATCA--TA
40946182 CATATCATA
1 CATATCATA
* *
40946191 CATGTCATGTG
1 CATATCA--TA
40946202 CATATCATA
1 CATATCATA
*
40946211 CATATCATGTG
1 CATATCA--TA
40946222 CATATCATA
1 CATATCATA
40946231 CATATCAT
1 CATATCAT
40946239 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:40946181 original size:20 final size:20
Alignment explanation
Indices: 40946158--40946240 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
40946148 GAACATCTCG
40946158 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
40946178 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
40946198 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
40946218 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
40946238 TGT
1 TGT
40946241 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:40946187 original size:11 final size:11
Alignment explanation
Indices: 40946158--40946229 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
40946148 GAACATCTCG
40946158 TGTGCATATCA
1 TGTGCATATCA
*
40946169 --TACATATCA
1 TGTGCATATCA
40946178 TGTGCATATCA
1 TGTGCATATCA
* *
40946189 --TACATGTCA
1 TGTGCATATCA
40946198 TGTGCATATCA
1 TGTGCATATCA
*
40946209 --TACATATCA
1 TGTGCATATCA
40946218 TGTGCATATCA
1 TGTGCATATCA
40946229 T
1 T
40946230 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:40946305 original size:25 final size:25
Alignment explanation
Indices: 40946277--40946324 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40946267 ATATATAAAC
* * *
40946277 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
40946302 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
40946325 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:40950122 original size:40 final size:39
Alignment explanation
Indices: 40950085--40950260 Score: 196
Period size: 39 Copynumber: 4.5 Consensus size: 39
40950075 ATATCCGGAC
*
40950085 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
40950125 TAAGCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
40950164 TAAGTCCCGAAGGCATTCGTGCGAG-TATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
40950203 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
40950242 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
40950261 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
38 7 0.06
39 86 0.72
40 26 0.22
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:40950174 original size:79 final size:78
Alignment explanation
Indices: 40950038--40950260 Score: 222
Period size: 78 Copynumber: 2.8 Consensus size: 78
40950028 TTGAATGCTG
* * * * * * *
40950038 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
40950101 TTGTGCGAG-A-TACAA
63 TTGTGCGAGTATTA-AA
* * *
40950116 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 --TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
40950180 TCGTGCGAGTATTAAA
63 TTGTGCGAGTATTAAA
* * *
40950196 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
40950261 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 50 0.41
79 47 0.38
80 23 0.19
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTATTAAA
Found at i:40950282 original size:78 final size:79
Alignment explanation
Indices: 40950118--40950293 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 79
40950108 AGATACAAGT
* * *
40950118 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
40950182 GTGCGAGTATTAAA
66 GAACGAGGACTAAA
* * * *
40950196 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
40950260 GAACGAGGAGCTATA
66 GAACGAGGA-CTAAA
*
40950275 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40950294 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 69 0.83
79 14 0.17
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGACTAAA
Found at i:40958048 original size:40 final size:39
Alignment explanation
Indices: 40958011--40958187 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 39
40958001 ATATCCGGAC
*
40958011 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
40958051 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
40958091 TAAGTCCCGAAGGCATTCGTGCGAG-TCATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGT
* * * *
40958131 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
40958170 TATGTCCGAAGGCATTTG
1 TAAGTCCGAAGGCATTTG
40958188 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
38 9 0.08
39 25 0.21
40 82 0.69
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:40958101 original size:80 final size:77
Alignment explanation
Indices: 40958005--40958187 Score: 208
Period size: 80 Copynumber: 2.3 Consensus size: 77
40957995 GTGAATATAT
* *
40958005 CCGGACTAAGATCCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CAT
*
40958068 TGTGCGAGATACTAAAT
61 TGTGCGAGATACTAAAA
* * *
40958085 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGT
* *
40958150 GTGAGTTACTAAAA
64 GCGAGATACTAAAA
*
40958164 CCGGGCTATGTCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTTG
40958188 AACGAGGAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 12 0.14
79 26 0.30
80 45 0.51
82 3 0.03
83 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGC
GAGATACTAAAA
Found at i:40972199 original size:23 final size:23
Alignment explanation
Indices: 40972173--40972254 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
40972163 CACGTTTACC
40972173 ACTATTAGCAGCTTTGCTGCATT
1 ACTATTAGCAGCTTTGCTGCATT
***
40972196 ACTATTAGCAGCTTTGCTATGTT
1 ACTATTAGCAGCTTTGCTGCATT
* * *
40972219 ACTACTAGTAGCTTTGTTGCATT
1 ACTATTAGCAGCTTTGCTGCATT
40972242 ACTATTAGCAGCT
1 ACTATTAGCAGCT
40972255 ACGCTGCGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (23 bp):
ACTATTAGCAGCTTTGCTGCATT
Found at i:40972442 original size:33 final size:33
Alignment explanation
Indices: 40972400--40972485 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
40972390 GCCCACACTA
40972400 TTACTGCATAGGGCTTAGGCCCAAAATGTACTG
1 TTACTGCATAGGGCTTAGGCCCAAAATGTACTG
* *
40972433 TTACTGCATAGGGCTTAGGCCCAGACTGTACTG
1 TTACTGCATAGGGCTTAGGCCCAAAATGTACTG
* * *
40972466 TTATTGAATAGGGCTCAGGC
1 TTACTGCATAGGGCTTAGGC
40972486 TCAGATTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (33 bp):
TTACTGCATAGGGCTTAGGCCCAAAATGTACTG
Found at i:40972461 original size:28 final size:28
Alignment explanation
Indices: 40972382--40972465 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 28
40972372 ATACTATTTT
* * *
40972382 GGGCATAGGCCCACACTATTACTGCATA
1 GGGCTTAGGCCCAGACTGTTACTGCATA
40972410 GGGCTTAGGCCCAAAATGTACTGTTACTGCATA
1 GGGCTTAGGCCC---A-G-ACTGTTACTGCATA
40972443 GGGCTTAGGCCCAGACTG-TACTG
1 GGGCTTAGGCCCAGACTGTTACTG
40972466 TTATTGAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 5 0.10
28 15 0.31
29 1 0.02
30 1 0.02
31 1 0.02
33 25 0.52
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (28 bp):
GGGCTTAGGCCCAGACTGTTACTGCATA
Found at i:40977268 original size:40 final size:40
Alignment explanation
Indices: 40977213--40977319 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
40977203 CAATTGAGGA
*
40977213 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
*
40977253 TTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
* *
40977293 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
40977320 ATTGGGTTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTG
Found at i:40981684 original size:40 final size:39
Alignment explanation
Indices: 40981605--40981781 Score: 187
Period size: 40 Copynumber: 4.5 Consensus size: 39
40981595 CGGATGATAA
* * * *
40981605 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * * *
40981645 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
* *
40981685 ACGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* *
40981725 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTTTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
40981765 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
40981782 ATACTTGAGT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 98 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:40981763 original size:80 final size:79
Alignment explanation
Indices: 40981605--40981781 Score: 230
Period size: 80 Copynumber: 2.2 Consensus size: 79
40981595 CGGATGATAA
* * * *
40981605 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTA
*
40981670 TGCTAGTGATTATAT
65 TGCGAGTGATTATAT
* * *
40981685 ACGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTG
1 -CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTA
**
40981750 TGCGAGTTTTTATAT
65 TGCGAGTGATTATAT
40981765 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGA-CCCGAAG
40981782 ATACTTGAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTAT
GCGAGTGATTATAT
Found at i:41079216 original size:26 final size:26
Alignment explanation
Indices: 41079182--41079289 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
41079172 TGAAATGCCC
* *
41079182 ATCAGGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
41079208 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
41079234 AGCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
41079260 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
41079286 ATCA
1 ATCA
41079290 ATTGTACCAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:41081008 original size:92 final size:92
Alignment explanation
Indices: 41080851--41081019 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
41080841 GCCCCTAAGT
* *
41080851 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
41080916 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
41080943 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
41081007 CGAGTTCGGATGC
65 CGAGTTCGGATGC
41081020 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 10 0.14
92 63 0.86
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41081016 original size:45 final size:44
Alignment explanation
Indices: 41080850--41081016 Score: 203
Period size: 45 Copynumber: 3.7 Consensus size: 44
41080840 CGCCCCTAAG
* * *
41080850 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAA
* *
41080895 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTGCATCCATAA
*
41080942 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
41080986 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGA
41081017 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 57 0.54
47 31 0.30
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAA
Found at i:41081492 original size:30 final size:30
Alignment explanation
Indices: 41081458--41081517 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41081448 ATTTAATACG
41081458 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41081488 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41081518 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41088534 original size:93 final size:93
Alignment explanation
Indices: 41088424--41088594 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
41088414 GCCCCTAAGT
* *
41088424 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
41088489 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
41088517 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
41088582 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41088595 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41088591 original size:46 final size:46
Alignment explanation
Indices: 41088419--41088591 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
41088409 AACCCGCCCC
* * * *
41088419 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
41088465 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
41088513 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
41088558 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41088592 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:41089047 original size:30 final size:30
Alignment explanation
Indices: 41089013--41089072 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41089003 ATTTAATACG
41089013 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41089043 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41089073 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41092741 original size:20 final size:20
Alignment explanation
Indices: 41092716--41092754 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
41092706 ACAAAATAGT
41092716 AGGAATTAGACCTAATCGTG
1 AGGAATTAGACCTAATCGTG
41092736 AGGAATTAGACCTAATCGT
1 AGGAATTAGACCTAATCGT
41092755 CAATAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (20 bp):
AGGAATTAGACCTAATCGTG
Found at i:41097850 original size:16 final size:16
Alignment explanation
Indices: 41097831--41097865 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
41097821 AATCAAAGAG
41097831 AAATTAAAACAAATTA
1 AAATTAAAACAAATTA
*
41097847 AAATTAAAATAAATTA
1 AAATTAAAACAAATTA
41097863 AAA
1 AAA
41097866 ATCAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATTAAAACAAATTA
Found at i:41097872 original size:16 final size:16
Alignment explanation
Indices: 41097835--41097875 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
41097825 AAAGAGAAAT
* *
41097835 TAAAACAAATTAAAAT
1 TAAAATAAATTAAAAA
41097851 TAAAATAAATTAAAAA
1 TAAAATAAATTAAAAA
*
41097867 TCAAATAAA
1 TAAAATAAA
41097876 AATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAATAAATTAAAAA
Found at i:41102688 original size:46 final size:46
Alignment explanation
Indices: 41102638--41102813 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
41102628 TGGTTGAGCA
41102638 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41102684 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
41102729 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41102777 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41102814 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 63 0.56
47 29 0.26
48 3 0.03
50 5 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41102794 original size:93 final size:93
Alignment explanation
Indices: 41102635--41102806 Score: 326
Period size: 93 Copynumber: 1.8 Consensus size: 93
41102625 GGATGGTTGA
*
41102635 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
41102700 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41102728 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
41102793 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41102807 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41104662 original size:24 final size:23
Alignment explanation
Indices: 41104626--41104671 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
41104616 TATATTAGTG
*
41104626 AAAGATTTATTGATCAGAAGCAT
1 AAAGATTTATTGAGCAGAAGCAT
* *
41104649 AAAGAATTTCTTGAGCTGAAGCA
1 AAAG-ATTTATTGAGCAGAAGCA
41104672 AGGTAATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (23 bp):
AAAGATTTATTGAGCAGAAGCAT
Found at i:41110097 original size:46 final size:46
Alignment explanation
Indices: 41110047--41110222 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
41110037 TGGTTGAGCA
41110047 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41110093 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41110138 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41110186 GCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41110223 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41110203 original size:93 final size:93
Alignment explanation
Indices: 41110044--41110215 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
41110034 GGATGGTTGA
* *
41110044 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
41110109 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41110137 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
41110202 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41110216 CTTATGGGCG
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:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41112354 original size:39 final size:40
Alignment explanation
Indices: 41112150--41112372 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
41112140 TTGAATGCTG
* * * * * *
41112150 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
41112190 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGGTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
41112230 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
41112270 TTCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41112310 TCCGGGTTAAGTCTCGAAGGCATT-GTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
41112349 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41112373 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 35 0.22
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:41119282 original size:39 final size:40
Alignment explanation
Indices: 41119071--41119291 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
41119061 TTGAATGCTG
* * * * * *
41119071 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** *
41119111 TCCGGACTAAGAT-CCGAAGGC-TTTGTGCGAG-TACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41119149 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41119189 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
41119229 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
41119268 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41119292 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.01
38 21 0.13
39 44 0.27
40 95 0.59
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:41119291 original size:79 final size:79
Alignment explanation
Indices: 41119071--41119326 Score: 243
Period size: 78 Copynumber: 3.3 Consensus size: 79
41119061 TTGAATGCTG
* * * * * * * *
41119071 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGC-T
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCAT
*
41119133 TTGTGCGAGTACTAAA
64 TCGTGCGAGTACTAAA
* * *
41119149 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
41119214 GTGCGAGTTATTAAA
66 GTGCGAG-TACTAAA
* * * *
41119229 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACTGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
41119293 GAACGAGGAGCTATA
66 GTGCGAGTA-CTAAA
*
41119308 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
41119327 TACGTGATTT
Statistics
Matches: 150, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
77 1 0.01
78 60 0.40
79 59 0.39
80 30 0.20
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGTACTAAA
Found at i:41120981 original size:60 final size:60
Alignment explanation
Indices: 41120888--41121014 Score: 202
Period size: 60 Copynumber: 2.1 Consensus size: 60
41120878 GTTGTTTGAA
*
41120888 AGACTTTATGATATTTTATTTATCATTAATATTGTGTTTATCGTATAT-TTGTATTGTACT
1 AGACTTTATGATATTTTATTTATCATTAATATTGTGTTTATCGCAT-TGTTGTATTGTACT
* *
41120948 AGACTTTATGTTATTTTATTTATCATTGATATTGTGTTTATCGCATTGTTGTATTGTACT
1 AGACTTTATGATATTTTATTTATCATTAATATTGTGTTTATCGCATTGTTGTATTGTACT
*
41121008 ACACTTT
1 AGACTTT
41121015 GATCTATCAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 1 0.02
60 61 0.98
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (60 bp):
AGACTTTATGATATTTTATTTATCATTAATATTGTGTTTATCGCATTGTTGTATTGTACT
Found at i:41127770 original size:78 final size:77
Alignment explanation
Indices: 41127683--41127846 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 77
41127673 GAATTTAAAC
* * * **
41127683 CCGGTATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCATGTAGCC
1 CCGGTATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCC
41127746 TGCAGACCTTAAGT
64 TGCAGACCTTAAGT
* ** *
41127760 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTTCGGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCT
*
41127825 GCGGACCTTAAGT
65 GCAGACCTTAAGT
41127838 CCGGATATA
1 CCGG-TATA
41127847 CATCACTGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 8 0.11
78 65 0.89
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (77 bp):
CCGGTATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTG
CAGACCTTAAGT
Found at i:41127774 original size:39 final size:39
Alignment explanation
Indices: 41127703--41127846 Score: 191
Period size: 39 Copynumber: 3.7 Consensus size: 39
41127693 ACCAGCTCGA
* * * * **
41127703 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCATGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
41127742 AGCCTGCAGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
41127781 AGCCTGCGGACCTTAAGTTCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
41127820 AGCCTGCGGACCTTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
41127847 CATCACTGAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 2 0.02
39 90 0.98
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:41147834 original size:12 final size:12
Alignment explanation
Indices: 41147786--41147835 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
41147776 ATGGTCATGA
*
41147786 AGGGATTTTAGG
1 AGGGATTTGAGG
*
41147798 AGGGAGTTGAGG
1 AGGGATTTGAGG
* *
41147810 AGAGATATGAGG
1 AGGGATTTGAGG
*
41147822 AGGGATTTTAGG
1 AGGGATTTGAGG
41147834 AG
1 AG
41147836 AAAATCAAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.46, T:0.24
Consensus pattern (12 bp):
AGGGATTTGAGG
Found at i:41149306 original size:27 final size:27
Alignment explanation
Indices: 41149168--41149295 Score: 229
Period size: 27 Copynumber: 4.7 Consensus size: 27
41149158 CGTACCTGAA
*
41149168 CCCTTATATGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
*
41149195 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
41149222 CCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
41149249 CCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTT
*
41149276 CCCTTATGTGATAAGATGAC
1 CCCTTATGTGATAAAATGAC
41149296 CGAAATACCC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTT
Found at i:41149321 original size:54 final size:54
Alignment explanation
Indices: 41149168--41149322 Score: 141
Period size: 54 Copynumber: 2.9 Consensus size: 54
41149158 CGTACCTGAA
* ** * * **
41149168 CCCTTATATGATAAAATGACGATTTTTCCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGATAAAATGACGATAATACCCTCATAAGATAAAATGACAATTTTT
** * * ** *
41149222 CCCTTATGTGATAAAATGACGATTTTTCCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATAATACCCTCATAAGATAAAATGACAATTTTT
* * *
41149276 CCCTTATGTGATAAGATGACCGA-AATACCCTCATAAGGTAGAATGAC
1 CCCTTATGTGATAAAATGA-CGATAATACCCTCATAAGATAAAATGAC
41149323 CAAAATACCC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 86 0.97
55 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (54 bp):
CCCTTATGTGATAAAATGACGATAATACCCTCATAAGATAAAATGACAATTTTT
Found at i:41149321 original size:81 final size:80
Alignment explanation
Indices: 41149168--41149322 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 80
41149158 CGTACCTGAA
* * * **
41149168 CCCTTATATGATAAAATGACGATTTTTCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGA
1 CCCTTATATGATAAAATGACGATTTTTCCCTTATGTGATAAAATGACAA-TATACCCTCATAAGA
41149233 TAAAATGACGATTTTT
65 TAAAATGACGATTTTT
* *
41149249 CCCTTATGTGATAAAATGACGATTTTTCCCTTATGTGATAAGATGACCGAA-ATACCCTCATAAG
1 CCCTTATATGATAAAATGACGATTTTTCCCTTATGTGATAAAATGA-C-AATATACCCTCATAAG
* *
41149313 GTAGAATGAC
64 ATAAAATGAC
41149323 CAAAATACCC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 60 0.95
82 1 0.02
83 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (80 bp):
CCCTTATATGATAAAATGACGATTTTTCCCTTATGTGATAAAATGACAATATACCCTCATAAGAT
AAAATGACGATTTTT
Found at i:41153200 original size:40 final size:41
Alignment explanation
Indices: 41153146--41153242 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
41153136 TAACTTGGTA
* *
41153146 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCAAAGCTATTTCAAAC
* *
41153186 TCGCACAGTTAGTGCCATTTGTAGCCAAAGCTATTTCAAAC
1 TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTTCAAAC
41153227 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
41153243 AACATAATCG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 42 0.84
41 8 0.16
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTTCAAAC
Found at i:41163046 original size:46 final size:46
Alignment explanation
Indices: 41162923--41163047 Score: 223
Period size: 46 Copynumber: 2.7 Consensus size: 46
41162913 TGTAACCCGC
* * *
41162923 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
41162969 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
41163015 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
41163048 TGGATGCTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:41163070 original size:46 final size:45
Alignment explanation
Indices: 41162928--41163070 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
41162918 CCCGCCCATA
* ** * *
41162928 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
41162973 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*
41163019 AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
41163066 AGTGA
1 AGTGA
41163071 CATGTCACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 81 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:41163511 original size:30 final size:30
Alignment explanation
Indices: 41163477--41163536 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41163467 ATTTAATACG
*
41163477 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* *
41163507 AACTTTAGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
41163537 GGCTCGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:41165367 original size:10 final size:10
Alignment explanation
Indices: 41165343--41165401 Score: 57
Period size: 10 Copynumber: 6.0 Consensus size: 10
41165333 ATATTAATAT
*
41165343 TTTAA-ATAT
1 TTTAATATAA
41165352 TTTAATATAA
1 TTTAATATAA
41165362 TTTAATATAA
1 TTTAATATAA
** * **
41165372 AATAAAATCT
1 TTTAATATAA
41165382 TTTAATATAA
1 TTTAATATAA
41165392 TTTAATATAA
1 TTTAATATAA
41165402 AATATTATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
9 5 0.13
10 33 0.87
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTAATATAA
Found at i:41165387 original size:30 final size:30
Alignment explanation
Indices: 41165346--41165591 Score: 123
Period size: 30 Copynumber: 8.0 Consensus size: 30
41165336 TTAATATTTT
41165346 AAATATTTTAATATAATTTAATATAAAATA
1 AAATATTTTAATATAATTTAATATAAAATA
*
41165376 AAATCTTTTAATATAATTTAATATAAAAT-
1 AAATATTTTAATATAATTTAATATAAAATA
* * * ***
41165405 -ATTATTTCTAAATTTTAGAAAATATAAAAATA
1 AAATATTT-T-AATATAATTTAATAT-AAAATA
* *
41165437 AAATATTTTAA-ATATTTTATTATAACTTAATA
1 AAATATTTTAATATAATTTAATATAA---AATA
* * *
41165469 TAAA-A-TATAAAATTAATTTGAATA-AAATATGTT
1 -AAATATTTTAATA-TAATTT-AATATAAA-A--TA
41165502 AAATATTTTAATATAATTTAATATAAAAT-
1 AAATATTTTAATATAATTTAATATAAAATA
* * * * *
41165531 -ATTATTTCCAAATTTCAA-ATAATATAGAATA
1 AAATATTT--TAATAT-AATTTAATATAAAATA
* *
41165562 AAATATTTAAATATAATTTATTATAAAATA
1 AAATATTTTAATATAATTTAATATAAAATA
41165592 TTAAATTAAA
Statistics
Matches: 160, Mismatches: 32, Indels: 48
0.67 0.13 0.20
Matches are distributed among these distances:
28 11 0.07
29 5 0.03
30 74 0.46
31 14 0.09
32 21 0.13
33 27 0.17
34 8 0.05
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AAATATTTTAATATAATTTAATATAAAATA
Found at i:41165578 original size:25 final size:24
Alignment explanation
Indices: 41165549--41165597 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
41165539 CAAATTTCAA
41165549 ATAATATAGAATAAAATATTTAAAT
1 ATAATATAGAATAAAATA-TTAAAT
* **
41165574 ATAATTTATTATAAAATATTAAAT
1 ATAATATAGAATAAAATATTAAAT
41165598 TAAATTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAATATAGAATAAAATATTAAAT
Found at i:41169870 original size:15 final size:15
Alignment explanation
Indices: 41169850--41169895 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
41169840 ACGCATAACA
41169850 ATACTAAATATATAC
1 ATACTAAATATATAC
*
41169865 ATACTAAATATATAT
1 ATACTAAATATATAC
41169880 ATACATAATATATATA
1 ATAC-TAA-ATATATA
41169896 AAATGAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 18 0.64
16 3 0.11
17 7 0.25
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:41169894 original size:19 final size:19
Alignment explanation
Indices: 41169857--41169895 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
41169847 ACAATACTAA
*
41169857 ATATATACATACTAAATAT
1 ATATATACATAATAAATAT
*
41169876 ATATATACATAATATATAT
1 ATATATACATAATAAATAT
41169895 A
1 A
41169896 AAATGAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATATACATAATAAATAT
Found at i:41169970 original size:3 final size:3
Alignment explanation
Indices: 41169962--41169994 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
41169952 ATATATATAC
*
41169962 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41169995 AAGGATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:41170330 original size:23 final size:23
Alignment explanation
Indices: 41170185--41170346 Score: 74
Period size: 23 Copynumber: 7.0 Consensus size: 23
41170175 AATAAATAAA
* *
41170185 ATAATAAA-ATATACATAGTATGGT
1 ATAA-AAATATATACATAATAT-AT
41170209 ATTAAAAATATAT--ATAATAGTAT
1 A-TAAAAATATATACATAATA-TAT
* * *
41170232 TTAAGAATATATACATAAGATGAT
1 ATAAAAATATATACATAATAT-AT
*
41170256 AT-AAAATACATACATGGAATAGTAT
1 ATAAAAATATATACAT--AATA-TAT
* **
41170281 A-AGAAATATATA-ACTAATGGCAT
1 ATAAAAATATATACA-TAAT-ATAT
41170304 -TAAAAATATATACATAATATAT
1 ATAAAAATATATACATAATATAT
*
41170326 AT-AAAATACAT--ATAATATAT
1 ATAAAAATATATACATAATATAT
41170346 A
1 A
41170347 CATATATTAG
Statistics
Matches: 106, Mismatches: 17, Indels: 34
0.68 0.11 0.22
Matches are distributed among these distances:
20 10 0.09
22 20 0.19
23 38 0.36
24 15 0.14
25 22 0.21
26 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (23 bp):
ATAAAAATATATACATAATATAT
Found at i:41170522 original size:17 final size:17
Alignment explanation
Indices: 41170500--41170533 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41170490 AAAACTAAAT
*
41170500 ATAATATAACAATAATA
1 ATAATATAAAAATAATA
41170517 ATAATATAAAAATAATA
1 ATAATATAAAAATAATA
41170534 GTGATAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATATAAAAATAATA
Found at i:41180342 original size:13 final size:13
Alignment explanation
Indices: 41180324--41180363 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
41180314 TAAGCAATCG
**
41180324 CACACGAGTGTGT
1 CACACGAGCATGT
41180337 CACACGAGCATGT
1 CACACGAGCATGT
*
41180350 CACACGGGCATGT
1 CACACGAGCATGT
41180363 C
1 C
41180364 CCTGCCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (13 bp):
CACACGAGCATGT
Found at i:41188773 original size:15 final size:15
Alignment explanation
Indices: 41188726--41188773 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 15
41188716 ATTAAAACCC
41188726 AATTTATT-AATA-A
1 AATTTATTAAATATA
**
41188739 AACATATTAAA-ATA
1 AATTTATTAAATATA
41188753 AA-TTATTAAATATA
1 AATTTATTAAATATA
41188767 AATTTAT
1 AATTTAT
41188774 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 14 0.50
14 10 0.36
15 4 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTTATTAAATATA
Found at i:41189628 original size:2 final size:2
Alignment explanation
Indices: 41189623--41189655 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41189613 ATATTTGATA
41189623 TG TG 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 TG TG T
41189656 CTGTAGAATA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:41189727 original size:44 final size:44
Alignment explanation
Indices: 41189664--41189752 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
41189654 GTCTGTAGAA
41189664 TAACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCT
1 TAACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCT
*
41189708 TAACATG-AAGTAGGATTACCCGCAAAATAGTTCTTCGGGTATCT
1 TAACATGCAA-TAGGATTACCCGCAAAATAGTTCATCGGGTATCT
41189752 T
1 T
41189753 TTCGTAAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
TAACATGCAATAGGATTACCCGCAAAATAGTTCATCGGGTATCT
Found at i:41194470 original size:30 final size:31
Alignment explanation
Indices: 41194423--41194492 Score: 133
Period size: 30 Copynumber: 2.3 Consensus size: 31
41194413 TTATCTTGTA
41194423 CTCAACATTTAAAATTGTACCCAAATAAGTT
1 CTCAACATTTAAAATTGTACCCAAATAAGTT
41194454 CTCAACATTT-AAATTGTACCCAAATAAGTT
1 CTCAACATTTAAAATTGTACCCAAATAAGTT
41194484 CTCAACATT
1 CTCAACATT
41194493 AAGTAAGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
30 29 0.74
31 10 0.26
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (31 bp):
CTCAACATTTAAAATTGTACCCAAATAAGTT
Found at i:41194770 original size:25 final size:26
Alignment explanation
Indices: 41194718--41194772 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
41194708 GTTAAATTCA
41194718 AGTTTATTATAATGTACTTTTTTTTT
1 AGTTTATTATAATGTACTTTTTTTTT
41194744 AGTTTATTATAATGTAC-TTTTTTTT
1 AGTTTATTATAATGTACTTTTTTTTT
41194769 AGTT
1 AGTT
41194773 ACACTACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 12 0.41
26 17 0.59
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.64
Consensus pattern (26 bp):
AGTTTATTATAATGTACTTTTTTTTT
Found at i:41196162 original size:3 final size:3
Alignment explanation
Indices: 41196154--41196200 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
41196144 TCTAACACCA
41196154 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
41196201 AATCTACGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:41197105 original size:28 final size:28
Alignment explanation
Indices: 41197074--41197136 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
41197064 TCCCATACTA
*
41197074 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
41197102 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
41197130 ATGGGGT
1 ATGGGGT
41197137 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:41197796 original size:147 final size:147
Alignment explanation
Indices: 41197529--41197820 Score: 566
Period size: 147 Copynumber: 2.0 Consensus size: 147
41197519 TCTGGAGGTC
41197529 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
1 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
*
41197594 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCTTTTCCAGATGATAAA
66 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
*
41197659 CTACAATTATTCCTTTG
131 CCACAATTATTCCTTTG
41197676 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
1 ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
41197741 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
66 GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
41197806 CCACAATTATTCCTT
131 CCACAATTATTCCTT
41197821 ATATGCTGGA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (147 bp):
ATGAGTGAAGAAGAATTTTGGTGCAATGTGTTTTGTTCTGTCACCTTTGATGTATCCACTATCGA
GCTGATCAATGCATGCTGTGTTGTCTTCAAACAAGACAGTTGTAGCTTCCTTTCCAGATGATAAA
CCACAATTATTCCTTTG
Found at i:41198604 original size:33 final size:33
Alignment explanation
Indices: 41198562--41198632 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
41198552 AGATCCAAAC
41198562 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
1 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
41198595 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
1 TTCTTAATGAAAATGCATGGGCAAATTGGATCA
41198628 TTCTT
1 TTCTT
41198633 GTATCATTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (33 bp):
TTCTTAATGAAAATGCATGGGCAAATTGGATCA
Found at i:41213301 original size:28 final size:28
Alignment explanation
Indices: 41213270--41213332 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
41213260 TCCCATATTA
*
41213270 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
41213298 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
41213326 ATGGGGT
1 ATGGGGT
41213333 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:41214523 original size:20 final size:20
Alignment explanation
Indices: 41214498--41214563 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
41214488 TAAAATTTAA
*
41214498 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTAAAAATT
*
41214518 ATTTTG-AACTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
*
41214537 ATTTTAAAATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
41214557 ATTTTGA
1 ATTTTGA
41214564 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 7 0.18
19 8 0.21
20 24 0.62
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:41214546 original size:53 final size:55
Alignment explanation
Indices: 41214434--41214553 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
41214424 ATTTTAGAAA
* * ***
41214434 AAAATTTAAAATTTCAACTTTTTATATATATATTTTAGAATTTTTCTAATTTTTT
1 AAAATTTAAAATTTCAAATTTTTATATATATATTTTAGAACTTTAAAAATTTTTT
* *
41214489 AAAATTTAAATTTTGAAATTTTTATA-A-ATATTTT-GAACTTTAAAAATTATTTT
1 AAAATTTAAAATTTCAAATTTTTATATATATATTTTAGAACTTTAAAAATT-TTTT
41214542 AAAATTTTAAAA
1 AAAA-TTTAAAA
41214554 ATTATTTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 10 0.18
53 15 0.27
54 7 0.13
55 23 0.42
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (55 bp):
AAAATTTAAAATTTCAAATTTTTATATATATATTTTAGAACTTTAAAAATTTTTT
Found at i:41214569 original size:20 final size:20
Alignment explanation
Indices: 41214484--41214568 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
41214474 TTTTTCTAAT
*
41214484 TTTTTAAAATTTAAATTTTGAAA
1 TTTTTAAAAATT--ATTTTG-AA
*
41214507 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
* *
41214526 -CTTTAAAAATTATTTTAAA
1 TTTTTAAAAATTATTTTGAA
*
41214545 ATTTTAAAAATTATTTTG-A
1 TTTTTAAAAATTATTTTGAA
41214564 TTTTT
1 TTTTT
41214569 TTTAATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.13
19 15 0.29
20 21 0.40
22 1 0.02
23 8 0.15
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:41216470 original size:49 final size:50
Alignment explanation
Indices: 41216390--41216565 Score: 219
Period size: 49 Copynumber: 3.5 Consensus size: 50
41216380 ATCTATTGTG
* *
41216390 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
41216440 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
41216490 CGATCACGTTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
41216540 AGGTCACGTGTGTAGTACTAAGTGCA
1 AGGTCACGTGTGTAGTACTAAGTGCA
41216566 TGTAACGCCC
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 41 0.39
50 27 0.26
51 37 0.35
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:41217647 original size:19 final size:20
Alignment explanation
Indices: 41217623--41217660 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41217613 GGTACCACCA
41217623 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
41217642 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
41217661 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:41218000 original size:93 final size:93
Alignment explanation
Indices: 41217890--41218060 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
41217880 GCCCCTAAGT
* *
41217890 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
41217955 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
41217983 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
41218048 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41218061 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41218057 original size:46 final size:46
Alignment explanation
Indices: 41217885--41218057 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
41217875 AACCCGCCCC
* * * *
41217885 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
41217931 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
41217979 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
41218024 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41218058 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:41225227 original size:19 final size:20
Alignment explanation
Indices: 41225203--41225240 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41225193 GGTACCACCA
41225203 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
41225222 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
41225241 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:41225628 original size:93 final size:92
Alignment explanation
Indices: 41225470--41225639 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 92
41225460 GCCCCTAAGT
* *
41225470 GAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
*
41225535 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCAGATGCCTAGTTACATCTCAC
* * *
41225562 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCT-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
41225627 CGAGTTCAGATGC
65 CGAGTTCAGATGC
41225640 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 24 0.34
93 47 0.66
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATCTCAC
Found at i:41225655 original size:46 final size:45
Alignment explanation
Indices: 41225514--41225655 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
41225504 CATCCATAAA
*
41225514 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT-AG
* * * * *
41225561 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATCTAG
41225607 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CTAG
41225653 TGA
1 TGA
41225656 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.41
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCTAG
Found at i:41233322 original size:49 final size:47
Alignment explanation
Indices: 41233215--41233340 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 47
41233205 TAAGATGCCA
* * * *
41233215 ATGCCATGTCTCAGACATGGTCTTACACTGGCTAGTATATTAAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTAGTATATCAAAGCCG
*** * *
41233263 ATGTTGTGTCCCAGACAGGTCTTACACTGACTTTCGTATATCAAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC--TAGTATATCAAAGCCG
*
41233312 ATGCCATGTCCCAGATAGGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
41233341 GCTCTCATCT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 13 0.21
48 13 0.21
49 37 0.59
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTAGTATATCAAAGCCG
Found at i:41239192 original size:40 final size:40
Alignment explanation
Indices: 41238869--41239180 Score: 516
Period size: 40 Copynumber: 7.8 Consensus size: 40
41238859 GAGAATTGAG
41238869 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41238909 AGTGATGTATCTGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
41238949 AGTGATATTTCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
41238989 AGTGATGTATCTGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41239029 AGTGATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41239069 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
41239109 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
41239149 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
41239181 ATCATGCTGG
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:41242190 original size:27 final size:27
Alignment explanation
Indices: 41242156--41242329 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
41242146 TAAATTGTAC
41242156 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
41242183 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41242209 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
41242237 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
41242265 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
41242292 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
41242319 AGCACTGAGTG
1 AGCACTAAGTG
41242330 AGCGGACTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:41242270 original size:82 final size:81
Alignment explanation
Indices: 41242157--41242312 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41242147 AAATTGTACA
* *
41242157 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
41242221 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
41242238 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
41242303 TGCGAGTTGA
65 TGCGAATTGA
41242313 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:41246013 original size:25 final size:25
Alignment explanation
Indices: 41245985--41246032 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
41245975 ATGACAGAAG
*
41245985 TAAAAAGACAAA-AGAAAGGAAAAAA
1 TAAAAAGA-AAAGAAAAAGGAAAAAA
*
41246010 TAAACAGAAAAGAAAAAGGAAAA
1 TAAAAAGAAAAGAAAAAGGAAAA
41246033 GAAGAGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (25 bp):
TAAAAAGAAAAGAAAAAGGAAAAAA
Found at i:41264697 original size:38 final size:40
Alignment explanation
Indices: 41264557--41264733 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
41264547 GTGCGAGTAT
* *
41264557 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
41264597 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
41264637 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
41264677 -CCGGGCT-AGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
* *
41264715 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
41264734 TACTTGGTTG
Statistics
Matches: 129, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
37 2 0.02
38 30 0.23
39 19 0.15
40 78 0.60
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:41272644 original size:40 final size:40
Alignment explanation
Indices: 41272551--41272765 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
41272541 CGGATGATAA
* *
41272551 CCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTGACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
41272590 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TACTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
41272630 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41272670 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41272710 CCGGGCT-AGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
41272748 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
41272766 TACTTGGTTG
Statistics
Matches: 164, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
37 5 0.03
38 27 0.16
39 46 0.28
40 84 0.51
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41272721 original size:79 final size:79
Alignment explanation
Indices: 41272547--41272765 Score: 322
Period size: 79 Copynumber: 2.8 Consensus size: 79
41272537 TATTCGGATG
* *
41272547 ATAACCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTGACTAT-TCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
41272611 TTTGTGCGAGTTAT
66 TTTGTGCGAGTTAT
*
41272625 ACTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 A-TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
41272690 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTA-T
* * *
41272706 ATAACCGGGCT-AGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
41272766 TACTTGGTTG
Statistics
Matches: 130, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
77 16 0.12
78 17 0.13
79 51 0.39
80 44 0.34
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTAT
Found at i:41280702 original size:40 final size:39
Alignment explanation
Indices: 41280647--41280877 Score: 302
Period size: 40 Copynumber: 5.8 Consensus size: 39
41280637 CGGATGATAA
* * * *
41280647 CCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
41280687 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
41280727 CCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
41280767 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
41280807 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
41280847 CCGGGCTACGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
41280878 AGCTATATCC
Statistics
Matches: 175, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 8 0.05
40 167 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:41280861 original size:120 final size:119
Alignment explanation
Indices: 41280647--41280877 Score: 349
Period size: 120 Copynumber: 1.9 Consensus size: 119
41280637 CGGATGATAA
* * *
41280647 CCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* *
41280712 TGCGAGTTATTACATCCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAACTCCCGAAGGCA-TTGAGCGAGTTATTACAT
* *
41280767 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
*
41280831 GTGCGAGTTACTATATCCGGGCT-ACGTCCCGAAGGCATTGAGCGAGT
65 GTGCGAGTTACTACATCCGGGCTAAC-TCCCGAAGGCATTGAGCGAGT
41280878 AGCTATATCC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
119 12 0.12
120 89 0.88
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAACTCCCGAAGGCATTGAGCGAGTTATTACAT
Found at i:41283693 original size:51 final size:51
Alignment explanation
Indices: 41283561--41283717 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
41283551 AAGATGTTTA
*
41283561 TCACACATCAAACTTTGACATTCTTCCATTAAACATCAAAATACATGCATG
1 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
* *
41283612 TCACA-ATCAAACTTTTACATTCTTCCATTAAACATCAAAATAGATGCATG
1 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
41283662 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
1 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
41283713 TCACA
1 TCACA
41283718 TATGGGTAAG
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 48 0.48
51 53 0.52
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.30
Consensus pattern (51 bp):
TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
Found at i:41285581 original size:33 final size:33
Alignment explanation
Indices: 41285544--41285610 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
41285534 TACACAAATC
*
41285544 AAAACAATTTATTTCACTATTCATGATAAAACT
1 AAAACAATTTATTTCACTATTCATAATAAAACT
41285577 AAAACAATTTATTTCACTATTCATAATAAAACT
1 AAAACAATTTATTTCACTATTCATAATAAAACT
41285610 A
1 A
41285611 TCCATCCATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (33 bp):
AAAACAATTTATTTCACTATTCATAATAAAACT
Found at i:41286746 original size:53 final size:54
Alignment explanation
Indices: 41286643--41286849 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
41286633 TTCATTTTTA
* * * *
41286643 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACTAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
41286696 AACTCACTATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTCCCTTATAG
1 AACTTACTAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * *
41286750 TAGTTTA-TCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACT-AATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
41286805 AACTTACAAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACTAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
41286850 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 40 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACTAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:41294224 original size:53 final size:55
Alignment explanation
Indices: 41294163--41294300 Score: 156
Period size: 53 Copynumber: 2.5 Consensus size: 55
41294153 TTAAACTTAC
* *
41294163 CATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTT-CCTTAT-G-AACTCAT
1 CATTGCCATGTCTTAACATGGTCTTACATGGGAT-CTTTGCCTTATAGTAACTCAT
* * * ** *
41294216 CATTGCCATGCCTTAGCATAGTCTTACATGGGATCTTTGCCTTATAGTAGTTTAT
1 CATTGCCATGTCTTAACATGGTCTTACATGGGATCTTTGCCTTATAGTAACTCAT
* *
41294271 CAATGCCATGTCTTGACATGGTCTTACATG
1 CATTGCCATGTCTTAACATGGTCTTACATG
41294301 ATTTCCTTGC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 4 0.06
53 35 0.51
54 1 0.01
55 29 0.42
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (55 bp):
CATTGCCATGTCTTAACATGGTCTTACATGGGATCTTTGCCTTATAGTAACTCAT
Found at i:41297270 original size:12 final size:12
Alignment explanation
Indices: 41297253--41297277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41297243 AGTGTCGAAT
41297253 CGGTAACAGTAA
1 CGGTAACAGTAA
41297265 CGGTAACAGTAA
1 CGGTAACAGTAA
41297277 C
1 C
41297278 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:41297280 original size:51 final size:45
Alignment explanation
Indices: 41297169--41297275 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
41297159 GGTAGCATAG
* * *
41297169 CAGTAGCAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAGCAGTAACAGTATTCGACACATAAAGTGCTGAATCGGTAA
41297214 CAGTAGCAGTAACAGTATTCGACACATAAAGTG-TCGAATCGGTAA
1 CAGTAGCAGTAACAGTATTCGACACATAAAGTGCT-GAATCGGTAA
* *
41297259 CAGTAACGGTAACAGTA
1 CAGTAGCAGTAACAGTA
41297276 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (45 bp):
CAGTAGCAGTAACAGTATTCGACACATAAAGTGCTGAATCGGTAA
Found at i:41298369 original size:22 final size:20
Alignment explanation
Indices: 41298333--41298393 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
41298323 ATTCTGTTTG
*
41298333 TTTTGTTTCTATTTATTTTA
1 TTTTATTTCTATTTATTTTA
*
41298353 TGCTTTATTTCTTTTTATTTTA
1 T--TTTATTTCTATTTATTTTA
*
41298375 TTTTATTTATATTATATTT
1 TTTTATTTCTATT-TATTT
41298394 AATTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.32
21 5 0.15
22 18 0.53
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTATTTCTATTTATTTTA
Found at i:41298607 original size:33 final size:33
Alignment explanation
Indices: 41298538--41298600 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
41298528 ATTATTTAAT
*
41298538 TAATAAATATCTCTTAATTTTAATAATAATAAA
1 TAATAAATATCTCTTAATTTAAATAATAATAAA
41298571 TAATAAATATCTAC-TAATTTAAATAA-AATA
1 TAATAAATATCT-CTTAATTTAAATAATAATA
41298601 TTATAATTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAATAATAAA
Found at i:41298630 original size:17 final size:17
Alignment explanation
Indices: 41298573--41298630 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
41298563 ATAATAAATA
*
41298573 ATAAATATCTACTAATTTAA
1 ATAAATAT-TA-TAA-TTAC
*
41298593 ATAAAATATTATAATTGC
1 AT-AAATATTATAATTAC
*
41298611 ATAAATATTATCATTAC
1 ATAAATATTATAATTAC
41298628 ATA
1 ATA
41298631 TGTATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 3 0.09
20 4 0.12
21 6 0.18
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAATATTATAATTAC
Found at i:41298904 original size:20 final size:19
Alignment explanation
Indices: 41298877--41298931 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
41298867 ATATAAAAAC
41298877 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
41298896 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
*
41298916 AT-ATAATATATATAAT
1 ATAACAAT-TATATAAT
41298932 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 12 0.38
21 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:41303343 original size:12 final size:12
Alignment explanation
Indices: 41303326--41303350 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41303316 TATGTATGTT
41303326 TGAAAAATATTA
1 TGAAAAATATTA
41303338 TGAAAAATATTA
1 TGAAAAATATTA
41303350 T
1 T
41303351 TATTACTTAC
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TGAAAAATATTA
Found at i:41305882 original size:27 final size:27
Alignment explanation
Indices: 41305848--41306097 Score: 338
Period size: 27 Copynumber: 9.3 Consensus size: 27
41305838 TAGTTTACAA
* *
41305848 AATTACCGAAATACCCTTGAAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41305875 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41305902 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41305929 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
41305956 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
41305983 AATTACCGAAATACCATTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41306010 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41306037 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
41306064 AATTACCGAGATACCCTTGTGGGGAAA
1 AATTACCGAAATACCCCTGTAGGGTAG
41306091 AATTACC
1 AATTACC
41306098 ATTTTACCAC
Statistics
Matches: 196, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:41305994 original size:81 final size:81
Alignment explanation
Indices: 41305851--41306083 Score: 385
Period size: 81 Copynumber: 2.9 Consensus size: 81
41305841 TTTACAAAAT
* * * * *
41305851 TACCGAAATACCCTTGAAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
41305916 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* *
41305932 TACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
*
41305997 CATTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
*
41306013 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATAC
1 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
41306078 CCTTGT
66 CCTTGT
41306084 GGGGAAAAAT
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 140 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:41306547 original size:31 final size:31
Alignment explanation
Indices: 41306512--41306591 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
41306502 TTGCATTCAC
* *
41306512 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
*
41306543 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTCACCTAATACTG
*
41306574 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
41306592 ATTCTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTCACCTAATACTG
Found at i:41306551 original size:6 final size:6
Alignment explanation
Indices: 41306512--41306617 Score: 83
Period size: 6 Copynumber: 17.3 Consensus size: 6
41306502 TTGCATTCAC
* * *
41306512 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
41306561 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTA ATTTTG ATTCT-
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
41306609 AGTTCTG AT
1 A-TTCTG AT
41306618 AATGTTTCTT
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
5 4 0.05
6 66 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:41310901 original size:45 final size:45
Alignment explanation
Indices: 41310851--41310957 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
41310841 AGTAGCATAG
41310851 CAGTAGCAGTAACAGTATTCAACACACAAAGTG-CTGAATCT-GTAA
1 CAGTAGCAGTAACAGTATTCAACACACAAAGTGTC-GAAT-TGGTAA
**
41310896 CAGTAGCAGTAACAGTATTTGACACACAAAGTGTCGAATTGGTAA
1 CAGTAGCAGTAACAGTATTCAACACACAAAGTGTCGAATTGGTAA
* *
41310941 CAGTAACGGTAACAGTA
1 CAGTAGCAGTAACAGTA
41310958 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.02
45 54 0.96
46 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (45 bp):
CAGTAGCAGTAACAGTATTCAACACACAAAGTGTCGAATTGGTAA
Found at i:41311244 original size:40 final size:40
Alignment explanation
Indices: 41311168--41311246 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
41311158 CTTCATTAGA
* * *
41311168 AATTTTACAGTTCAATGCAATATACATAACATTATTCAGC
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGC
* ** *
41311208 AATTTCACAGTTCAATTCGGTATTCAAAACAATATTCAG
1 AATTTCACAGTTCAATGCAATATACAAAACAATATTCAG
41311247 TATCCCATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAATATACAAAACAATATTCAGC
Found at i:41312299 original size:33 final size:33
Alignment explanation
Indices: 41312230--41312292 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
41312220 ATTATTTAAT
*
41312230 TAATAAATATCTCTTAATTTTAATAATAATAAA
1 TAATAAATATCTCTTAATTTAAATAATAATAAA
41312263 TAATAAATATCTAC-TAATTTAAATAA-AATA
1 TAATAAATATCT-CTTAATTTAAATAATAATA
41312293 TTATAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAATAATAAA
Found at i:41312592 original size:20 final size:19
Alignment explanation
Indices: 41312565--41312619 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
41312555 ATATAAAACC
41312565 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
41312584 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
*
41312604 AT-ATAATATATATAAT
1 ATAACAAT-TATATAAT
41312620 TTATATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 12 0.38
21 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:41312618 original size:9 final size:9
Alignment explanation
Indices: 41312593--41312627 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
41312583 AATAATCAAT
41312593 TATATAATA
1 TATATAATA
41312602 TAATATAATA
1 T-ATATAATA
*
41312612 TATATAATT
1 TATATAATA
41312621 TATATAA
1 TATATAA
41312628 AATCTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATATAATA
Found at i:41314484 original size:46 final size:46
Alignment explanation
Indices: 41314434--41314606 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
41314424 TGGTTGAGCA
41314434 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41314480 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
41314525 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41314573 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41314607 GGGCCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41314590 original size:93 final size:93
Alignment explanation
Indices: 41314431--41314601 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
41314421 GGATGGTTGA
* * *
41314431 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41314496 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41314524 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
41314589 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
41314602 ACTTAGGGCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41329442 original size:6 final size:6
Alignment explanation
Indices: 41329426--41329478 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
41329416 CATATTGGCT
* * * * *
41329426 TCTGTAA TCTGAA TCTGAA TCTGGA TCTGAA TCCGAA TTTGAA ACTGTA
1 TCTG-AA TCTGAA TCTGAA TCTGAA TCTGAA TCTGAA TCTGAA TCTGAA
41329475 TCTG
1 TCTG
41329479 TTTCTGACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (6 bp):
TCTGAA
Done.