Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 131 of 135
Found at i:47216667 original size:110 final size:111
Alignment explanation
Indices: 47216470--47216680 Score: 307
Period size: 110 Copynumber: 1.9 Consensus size: 111
47216460 TCCTATGTCT
47216470 ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
1 ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
* * * * *
47216535 GTCCTTACGGCGTCTAGCCGCATAAATCAGTGTAGGCATATGATCA
66 ATCCTCACGACATCTAGCCGCATAAACCAGTGTAGGCATATGATCA
* * * * **
47216581 ATCAAAGCAAAATAAGGAGCCGTATGAATGAAGAATGTACTGA-GATAACATCTACGGTGTCTCT
1 ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
*
47216645 ATCCTCACGACATCTAGTCGCATAAACCAGTGTAGG
66 ATCCTCACGACATCTAGCCGCATAAACCAGTGTAGG
47216681 GAGCCTTGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
110 51 0.58
111 37 0.42
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (111 bp):
ATCAAAGCAAAATAAGGAGCAGCATGAATAAAGAACGTACCAACGATAACATCTACGGTGTCTCT
ATCCTCACGACATCTAGCCGCATAAACCAGTGTAGGCATATGATCA
Found at i:47223279 original size:22 final size:21
Alignment explanation
Indices: 47223226--47223273 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
47223216 CCAAAACATG
*
47223226 CAATTTAACCATTTTTAATTC
1 CAATTTAACCATTTTTAAGTC
47223247 CAATTTAACCATTTTTAAGTC
1 CAATTTAACCATTTTTAAGTC
47223268 CAATTT
1 CAATTT
47223274 GCACCAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (21 bp):
CAATTTAACCATTTTTAAGTC
Found at i:47223280 original size:10 final size:10
Alignment explanation
Indices: 47223267--47223293 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
47223257 ATTTTTAAGT
47223267 CCAATTTGCA
1 CCAATTTGCA
47223277 CCAATTTGCA
1 CCAATTTGCA
47223287 CCAATTT
1 CCAATTT
47223294 CACATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (10 bp):
CCAATTTGCA
Found at i:47224651 original size:22 final size:23
Alignment explanation
Indices: 47224608--47224652 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47224598 AAAAAGGTAC
47224608 CATATTTTTTGTATAATCTAATT
1 CATATTTTTTGTATAATCTAATT
47224631 CATATTTTTT-TACTAAT-TAATT
1 CATATTTTTTGTA-TAATCTAATT
47224653 TTGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
CATATTTTTTGTATAATCTAATT
Found at i:47225014 original size:75 final size:75
Alignment explanation
Indices: 47224890--47225047 Score: 271
Period size: 75 Copynumber: 2.1 Consensus size: 75
47224880 AAATTGTTGT
*
47224890 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATG
1 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATA
47224955 CAGATGAGGA
66 CAGATGAGGA
*
47224965 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGGTATAAGTGAATATGCAAATA
1 TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATA
**
47225030 TGGATGAGGA
66 CAGATGAGGA
*
47225040 TGATAGTG
1 TGCTAGTG
47225048 ACTTTCAAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (75 bp):
TGCTAGTGGGGTAGAAGGAGTAAATACTAAGAGGGTAAGCAGTGATATAAGTGAATATGCAAATA
CAGATGAGGA
Found at i:47225107 original size:3 final size:3
Alignment explanation
Indices: 47225099--47225179 Score: 146
Period size: 3 Copynumber: 27.3 Consensus size: 3
47225089 TGGGTTAGTA
47225099 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
47225147 ATG ATG ATG ATG ATG ATG ATG AGG ATG A-G ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
47225180 CGAATATTAG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:47233605 original size:28 final size:28
Alignment explanation
Indices: 47233572--47233629 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
47233562 AAAAGGAAAC
*
47233572 AAATTGAAACGATAACACAAGGAACAAG
1 AAATTGAAACGACAACACAAGGAACAAG
* *
47233600 AAATTGAAATGGCAACACAAGGAACAAG
1 AAATTGAAACGACAACACAAGGAACAAG
47233628 AA
1 AA
47233630 GCCAAGAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (28 bp):
AAATTGAAACGACAACACAAGGAACAAG
Found at i:47234186 original size:29 final size:27
Alignment explanation
Indices: 47234132--47234198 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
47234122 AATTTAGCAT
* * *
47234132 TTTTTTATTTTTATTTTTATTTTAATA
1 TTTTTTAATTTAATTTTTATTCTAATA
*
47234159 TTTTTTAATTTAATTTTTACATTCTAATT
1 TTTTTTAATTTAATTTTT--ATTCTAATA
*
47234188 TTTTTTCATTT
1 TTTTTTAATTT
47234199 GTTTGATTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 16 0.48
29 17 0.52
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTTTAATTTAATTTTTATTCTAATA
Found at i:47234190 original size:28 final size:26
Alignment explanation
Indices: 47234130--47234192 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
47234120 TTAATTTAGC
* * *
47234130 ATTTTTTTATTTTTATTTTTATTTTA
1 ATTTTTTTAATTTAATTTTTATTCTA
47234156 ATATTTTTTAATTTAATTTTTACATTCTA
1 AT-TTTTTTAATTTAATTTTT--ATTCTA
47234185 ATTTTTTT
1 ATTTTTTT
47234193 TCATTTGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 2 0.06
27 16 0.52
28 6 0.19
29 7 0.23
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTTTTTAATTTAATTTTTATTCTA
Found at i:47234878 original size:11 final size:11
Alignment explanation
Indices: 47234862--47234962 Score: 69
Period size: 11 Copynumber: 9.9 Consensus size: 11
47234852 ATTTTTTTAA
47234862 TTTTAAAATAT
1 TTTTAAAATAT
47234873 TTTTAAAATACT
1 TTTTAAAATA-T
*
47234885 TTTTTAAAT-T
1 TTTTAAAATAT
*
47234895 TTTT----TAA
1 TTTTAAAATAT
47234902 TTTTAAAATAT
1 TTTTAAAATAT
47234913 TTTTAAAATACT
1 TTTTAAAATA-T
**
47234925 TTTTTTAAT-T
1 TTTTAAAATAT
*
47234935 TTTT----TAA
1 TTTTAAAATAT
47234942 TTTTAAAATAT
1 TTTTAAAATAT
47234953 TTTTAAAATA
1 TTTTAAAATA
47234963 AAAATGGGCC
Statistics
Matches: 71, Mismatches: 7, Indels: 24
0.70 0.07 0.24
Matches are distributed among these distances:
6 2 0.03
7 8 0.11
10 10 0.14
11 34 0.48
12 17 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:47234904 original size:40 final size:40
Alignment explanation
Indices: 47234852--47234962 Score: 213
Period size: 40 Copynumber: 2.8 Consensus size: 40
47234842 TATAATAAAT
47234852 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
*
47234892 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
47234932 ATTTTTTTAATTTTAAAATATTTTTAAAATA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA
47234963 AAAATGGGCC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAA
Found at i:47239322 original size:35 final size:35
Alignment explanation
Indices: 47239282--47239353 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
47239272 AGGAAGGTAG
47239282 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
1 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
47239317 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
1 AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
47239352 AA
1 AA
47239354 ATAGAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (35 bp):
AATTCAATTGGTATTGCTCTTCTGAAATAATCTTA
Found at i:47244389 original size:3 final size:3
Alignment explanation
Indices: 47244381--47244406 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47244371 TTCTTTGTCT
47244381 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
47244407 TTTTAGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:47255697 original size:22 final size:23
Alignment explanation
Indices: 47255651--47255697 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
47255641 AAGTGTAAAA
*
47255651 AATGATTTATTATTGTTGGAAAT
1 AATGATTTATAATTGTTGGAAAT
*
47255674 AATGATTTGTAATTGTT-GAAAT
1 AATGATTTATAATTGTTGGAAAT
47255696 AA
1 AA
47255698 ATTTGCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (23 bp):
AATGATTTATAATTGTTGGAAAT
Found at i:47258033 original size:6 final size:7
Alignment explanation
Indices: 47258012--47258036 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47258002 GACAAACCGT
47258012 AAATAAA
1 AAATAAA
47258019 AAATAAA
1 AAATAAA
47258026 AAATAAA
1 AAATAAA
47258033 AAAT
1 AAAT
47258037 GAACTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:47260065 original size:20 final size:20
Alignment explanation
Indices: 47260040--47260080 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47260030 TCCTTTGGTT
47260040 AGTGCATCAGCTAGTGTCAC
1 AGTGCATCAGCTAGTGTCAC
47260060 AGTGCATCAGCTAGTGTCAC
1 AGTGCATCAGCTAGTGTCAC
47260080 A
1 A
47260081 CCCTAGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (20 bp):
AGTGCATCAGCTAGTGTCAC
Found at i:47272021 original size:19 final size:19
Alignment explanation
Indices: 47271997--47272034 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47271987 ACTTACGCAG
47271997 AGTTTACTATACCTCACAA
1 AGTTTACTATACCTCACAA
*
47272016 AGTTTATTATACCTCACAA
1 AGTTTACTATACCTCACAA
47272035 TTTACAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (19 bp):
AGTTTACTATACCTCACAA
Found at i:47280289 original size:9 final size:9
Alignment explanation
Indices: 47280271--47280319 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
47280261 AGTATAAAAC
*
47280271 TTAACTGAA
1 TTAACCGAA
47280280 TTAACCGAA
1 TTAACCGAA
*
47280289 TTAATCGAA
1 TTAACCGAA
47280298 TTAACCGAA
1 TTAACCGAA
47280307 TTAACCGAA
1 TTAACCGAA
47280316 TTAA
1 TTAA
47280320 AGTATTGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (9 bp):
TTAACCGAA
Found at i:47280995 original size:20 final size:21
Alignment explanation
Indices: 47280970--47281019 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
47280960 CTTTCCACCA
47280970 CAATAAAATATT-AAAATCTT
1 CAATAAAATATTAAAAATCTT
47280990 CAATAAAATATTAAAAATCTT
1 CAATAAAATATTAAAAATCTT
*
47281011 CAACAAAAT
1 CAATAAAAT
47281020 CCTCATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
CAATAAAATATTAAAAATCTT
Found at i:47287878 original size:14 final size:14
Alignment explanation
Indices: 47287855--47287893 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
47287845 TGTTACTATG
47287855 TTTTATTTTTAGAC
1 TTTTATTTTTAGAC
* *
47287869 TTTTAGTTTTAGAT
1 TTTTATTTTTAGAC
47287883 TTTTATTTTTA
1 TTTTATTTTTA
47287894 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (14 bp):
TTTTATTTTTAGAC
Found at i:47293695 original size:18 final size:19
Alignment explanation
Indices: 47293672--47293709 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
47293662 TTGCTATTTT
47293672 TATA-TTACAAAATATCTA
1 TATATTTACAAAATATCTA
47293690 TATATTTTACAAAATATCTA
1 TATA-TTTACAAAATATCTA
47293710 CTCTCTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATTTACAAAATATCTA
Found at i:47306145 original size:62 final size:60
Alignment explanation
Indices: 47306029--47306145 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 60
47306019 TTGTACAAAC
* ****
47306029 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTAAAT
1 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTCTTTTGAATAAGACAATAGTAAAT
* *
47306089 TATTTTTATATTTTTTCCTATTTAATAAAATAGAAGTTCTTTTGAATAAGACAATAG
1 TATTTTTATATTGTTT--TATTTAATAAAATAAAAGTTCTTTTGAATAAGACAATAG
47306146 GAATAATGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 15 0.31
62 33 0.69
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (60 bp):
TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTCTTTTGAATAAGACAATAGTAAAT
Found at i:47309485 original size:126 final size:125
Alignment explanation
Indices: 47309175--47309693 Score: 661
Period size: 124 Copynumber: 4.2 Consensus size: 125
47309165 AAGGCCAAAT
* ** * *
47309175 AGGAACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
** *
47309240 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAGTCATCTTTTCAAAATTATTTTTT-
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTATTTTTTC
* * * * *
47309299 AGGAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGTA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
47309364 TCTTGCTTGAAGTGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTATTTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTA-TTTTTTC
* *
47309425 AGGAACTACTGTAAAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* ** *
47309490 TCCTGCTTGAAGTGCTTTTT-ACACTATTTTTTCAGAACTGTCTTCT-TAAATTA-TTTTTC
66 TCCTGCTTGAAGCG-TTTTTGACACTATTTTTT-AGAACCATCTTCTCAAAATTATTTTTTC
* * * *
47309549 AAGAACTACTGTAGAAAAAGAGCATCTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * * * **
47309614 TCCTGCTTGAAGCATTTTTGATATTATCTTTTCAGAACTGTCTTCTCAAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTAT-TTTTTAGAACCATCTTCTCAAAATTATTTTTTC
** *
47309675 AAAAACTACTATA-AAAAAA
1 AGGAACTACTGTAGAAAAAA
47309694 CAAAATTCTT
Statistics
Matches: 348, Mismatches: 39, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
123 5 0.01
124 200 0.57
125 21 0.06
126 106 0.30
127 16 0.05
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (125 bp):
AGGAACTACTGTAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCATCTTCTCAAAATTATTTTTTC
Found at i:47309623 original size:250 final size:249
Alignment explanation
Indices: 47309175--47309693 Score: 677
Period size: 250 Copynumber: 2.1 Consensus size: 249
47309165 AAGGCCAAAT
* * ** * *
47309175 AGGAACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAAAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
* * *
47309240 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAGTCATCTTTTCAAAATTATTTTTTAGGAAC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGACTCATCTTTT-AAAATTATTTTTCAAGAAC
* * *
47309305 TACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGTATCTTGC
130 TACTATAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCCTGC
** *
47309370 TTGAAGTGTTTTTGACACTAT-TTTTTAGAACCATCTTCTCAAAATTATTTTTTTC
195 TTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTA-TTTTTTC
*
47309425 AGGAACTACTGTAAAAAAAAAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
1 AGGAACTACTGTAAAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
* *
47309490 TCCTGCTTGAAGTGCTTTTT-ACACTATTTTTTCAGAACT-GTCTTCTT-AAATTATTTTTCAAG
66 TCCTGCTTGAAGCG-TTTTTGACACTATTTTTT-AG-ACTCATCTT-TTAAAATTATTTTTCAAG
* * * * * *
47309552 AACTACTGTAGAAAAAGAGCATCTACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
127 AACTACTATAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCC
* * **
47309617 TGCTTGAAGCATTTTTGATATTATCTTTTCAGAACTGTCTTCTCAAAATTATTTTTTC
192 TGCTTGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTATTTTTTC
** *
47309675 AAAAACTACTATAAAAAAA
1 AGGAACTACTGTAAAAAAA
47309694 CAAAATTCTT
Statistics
Matches: 233, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
250 195 0.84
251 34 0.15
252 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (249 bp):
AGGAACTACTGTAAAAAAAAAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTCCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGACTCATCTTTTAAAATTATTTTTCAAGAACT
ACTATAGAAAAAAAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCCTGCT
TGAAGCATTTTTGACACTATCTTTTCAGAACCATCTTCTCAAAATTATTTTTTC
Found at i:47309817 original size:34 final size:35
Alignment explanation
Indices: 47309774--47309839 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
47309764 CTAACCACAA
47309774 AATTATTTTTAAAAAATCTAAACCCTAATTTAATT
1 AATTATTTTTAAAAAATCTAAACCCTAATTTAATT
*
47309809 AATT-TTTTTAAAAATTCTAAACCCTAATTTA
1 AATTATTTTTAAAAAATCTAAACCCTAATTTA
47309840 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (35 bp):
AATTATTTTTAAAAAATCTAAACCCTAATTTAATT
Found at i:47309842 original size:29 final size:31
Alignment explanation
Indices: 47309779--47309864 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
47309769 CACAAAATTA
*
47309779 TTTTTAAAAAATCTAAACCCTAATTTAATTAATT
1 TTTTTAAAAATTCTAAACCCTAA-TT-ATTAA-T
47309813 TTTTTAAAAATTCTAAACCCTAA-T-TT-AT
1 TTTTTAAAAATTCTAAACCCTAATTATTAAT
*
47309841 TTTTTAAAAATCCCTAAACCCTAA
1 TTTTTAAAAAT-TCTAAACCCTAA
47309865 ATAAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
28 12 0.24
29 12 0.24
30 2 0.04
32 1 0.02
34 22 0.45
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTTAAAAATTCTAAACCCTAATTATTAAT
Found at i:47309935 original size:15 final size:16
Alignment explanation
Indices: 47309900--47309937 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47309890 ACAAAGCACT
*
47309900 AACCCTAAAATCATAA
1 AACCCTAAAACCATAA
*
47309916 AACCCTAAACCCAT-A
1 AACCCTAAAACCATAA
47309931 AACCCTA
1 AACCCTA
47309938 GGCACTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (16 bp):
AACCCTAAAACCATAA
Found at i:47313529 original size:21 final size:21
Alignment explanation
Indices: 47313505--47313548 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47313495 ATCTTCAAGG
47313505 ATATGCAATCTTAGATATAAT
1 ATATGCAATCTTAGATATAAT
* *
47313526 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATAAT
47313547 AT
1 AT
47313549 GCAATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATAAT
Found at i:47313550 original size:19 final size:20
Alignment explanation
Indices: 47313504--47313559 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
47313494 AATCTTCAAG
*
47313504 GATATGCAATCTTAGATATAA
1 GATATGCAATCTTGGATAT-A
*
47313525 TATATGCAATCTTGGATAT-
1 GATATGCAATCTTGGATATA
*
47313544 GATATGCAATTTTGGA
1 GATATGCAATCTTGGA
47313560 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.45
21 17 0.55
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (20 bp):
GATATGCAATCTTGGATATA
Found at i:47313746 original size:43 final size:43
Alignment explanation
Indices: 47313693--47313781 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
47313683 ATTGTTTGAA
*
47313693 AAAAAAATCAATAAAAAAAAGGGAGAACGATTGGCAATTTTTT
1 AAAAAAATCAATAAAAAAAAGGGAGAACGATTGACAATTTTTT
* *
47313736 AAAAAAATCAATAAAAAAAGGGGAGAACGATTGACAGTTTTTT
1 AAAAAAATCAATAAAAAAAAGGGAGAACGATTGACAATTTTTT
47313779 AAA
1 AAA
47313782 GGTGGCTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.54, C:0.07, G:0.17, T:0.22
Consensus pattern (43 bp):
AAAAAAATCAATAAAAAAAAGGGAGAACGATTGACAATTTTTT
Found at i:47321517 original size:45 final size:45
Alignment explanation
Indices: 47321301--47321966 Score: 203
Period size: 44 Copynumber: 15.1 Consensus size: 45
47321291 CAAATCAGTT
* * *
47321301 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGGTCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * * * ** * * * * **
47321346 AAGACACCA-ACCTT-ACTTCCTTGGGT-TATAGCGGAGCAGGTTA
1 AAGATAGCAGATCTTGCCTTCC-TGCATCGACAGCGAAGCAGATCG
*
47321389 AAAATAGCAGATCTTGCCTTCCTGCA-CTGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCG
* * * ** * * * * * *
47321434 AAGACA-CTAG-CCTTGCCTCCCTGGGTTG-TAGTGGAGCAGGTTG
1 AAGATAGC-AGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * *
47321477 AAGATAGTAGATCTTGCTTTCCTGCATCGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * * * ** * * * * * *
47321522 AAGATACCAG-CCTTCCCTCCCTGGGTTG-TAGTGGAGCAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
47321565 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* ** * * * * * *
47321610 AAGATA-CTAG-CCTTGCC-TCCTTGGGTTG-TAGTG-GGCAGCTTG
1 AAGATAGC-AGATCTTGCCTTCC-TGCATCGACAGCGAAGCAGATCG
* * * * *
47321652 AAGATAACAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* ** * * * * *
47321697 AAGATA-CTAG-CCTTG-CTTCTCTGGGTCG-TAGTGGAGCAGGTTG
1 AAGATAGC-AGATCTTGCCTTC-CTGCATCGACAGCGAAGCAGATCG
* * * *
47321740 AAGATAGTAGATCTTGCCTTCTTGTA-CTGACAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCG
* * * ** * * * * *
47321785 AAGATACCA-ACCTTGCCTCCCTGGGTCG-TAGTGGAGCAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
* * *
47321828 AAGATAGCAGATCTTGCCTTCTTGTA-CTGACAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCG
* * * ** * * * * * *
47321873 AAGATACCA-ACCTTGCCTCCCTGGGTTG-TAG-TAGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGA-AGCAGATCG
* * * *
47321916 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCA
1 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
47321961 AAGATA
1 AAGATA
47321967 CCAGCCTTGT
Statistics
Matches: 429, Mismatches: 157, Indels: 70
0.65 0.24 0.11
Matches are distributed among these distances:
42 15 0.03
43 135 0.31
44 145 0.34
45 133 0.31
46 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG
Found at i:47321956 original size:351 final size:351
Alignment explanation
Indices: 47321301--47321989 Score: 995
Period size: 351 Copynumber: 2.0 Consensus size: 351
47321291 CAAATCAGTT
*
47321301 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGGTCGAAGACACCAACCTTACTTCC
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACTTCC
*
47321366 TTGGGTTATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA
66 TTGGGTCATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA
* * * * *
47321431 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCTT
131 TCGAAGACACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCT
* *
47321496 TCCTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCCCTGGGTTGTAGTGGAGCAG
196 TCCTGCATCGACAACGAAGCAGATCGAAGATACCAACCTTCCCTCCCTGGGTTGTAGTAGAGCAG
* * *
47321561 GTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACTAGCCTTGC
261 GTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGC
* *
47321626 CTCCTTGGGTTGTAGTGGGCAGCTTG
326 CTCCCTAGGTTGTAGTGGGCAGCTTG
* * * * * * *
47321652 AAGATAACAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATACTAGCCTTGCTT-C
1 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACTTCC
* * * * * * * *
47321716 TCTGGGTCGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCTTGTACTGACAGTGAAGCAG
66 T-TGGGTCATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAG
*
47321781 ATCGAAGATACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCC
130 ATCGAAGACACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCC
* * ** * *
47321846 TTCTTGTA-CTGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCCCTGGGTTGTAGTAGAGT
195 TTCCTGCATC-GACAACGAAGCAGATCGAAGATACCAACCTTCCCTCCCTGGGTTGTAGTAGAGC
* *
47321910 AGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTT
259 AGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTT
*
47321975 GTCTCCCTAGGTTGT
324 GCCTCCCTAGGTTGT
47321990 CGTGAAGTAG
Statistics
Matches: 297, Mismatches: 39, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
350 3 0.01
351 294 0.99
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (351 bp):
AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACTTCC
TTGGGTCATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA
TCGAAGACACCAACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCT
TCCTGCATCGACAACGAAGCAGATCGAAGATACCAACCTTCCCTCCCTGGGTTGTAGTAGAGCAG
GTTGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGATACCAGCCTTGC
CTCCCTAGGTTGTAGTGGGCAGCTTG
Found at i:47322019 original size:88 final size:88
Alignment explanation
Indices: 47321301--47321989 Score: 921
Period size: 88 Copynumber: 7.8 Consensus size: 88
47321291 CAAATCAGTT
* * * * * * *
47321301 AAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGGTCGAAGACACCAACCTTACTTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* * * *
47321366 TTGGGTTATAGCGGAGCAGGTTA
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * *
47321389 AAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
47321454 CTGGGTTGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * * *
47321477 AAGATAGTAGATCTTGCTTTCCTGCATCGACAACGAAGCAGATCGAAGATACCAGCCTTCCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
47321542 CTGGGTTGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * *
47321565 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* *
47321630 TTGGGTTGTAGTGG-GCAGCTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * * *
47321652 AAGATAACAGATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATACTAGCCTTGCTTCT
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
47321717 CTGGGTCGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * * *
47321740 AAGATAGTAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
47321805 CTGGGTCGTAGTGGAGCAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * * *
47321828 AAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGATACCAACCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* *
47321893 CTGGGTTGTAGTAGAGTAGGTTG
66 CTGGGTTGTAGTGGAGCAGGTTG
* * *
47321916 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGTCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
47321981 CTAGGTTGT
66 CTGGGTTGT
47321990 CGTGAAGTAG
Statistics
Matches: 543, Mismatches: 57, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
87 77 0.14
88 466 0.86
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
CTGGGTTGTAGTGGAGCAGGTTG
Found at i:47322039 original size:44 final size:44
Alignment explanation
Indices: 47321990--47322338 Score: 409
Period size: 44 Copynumber: 7.9 Consensus size: 44
47321980 CCTAGGTTGT
* *
47321990 CGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
47322034 TGTGAAGTAGATCAAAGATAGCAGATCTTATCTTCATATATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *** *
47322078 CGTGAAGTAGATCGAAGATAGCATATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
47322122 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAG
1 -CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
47322167 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
47322211 CGTGAAGTAGATCAAAGATAGCAGATCTTCTCTTCCCATACTAGTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT--CAT-GTATTGG
* *
47322258 C--GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
47322300 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTAT
47322339 CAGCATATAA
Statistics
Matches: 264, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
42 43 0.16
43 3 0.01
44 147 0.56
45 62 0.23
46 3 0.01
47 6 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:47322137 original size:264 final size:263
Alignment explanation
Indices: 47321597--47322407 Score: 657
Period size: 264 Copynumber: 3.1 Consensus size: 263
47321587 TGCATCGACA
* * * * * * *
47321597 GCGAAGCAGATCGAAGATACTAGCCTTGCCTCCTTGGGTTGTAGTGGGCAGCTTGAAGATAACAG
1 GCGAAGCAGATCGAAGATACCAACCTTGCCTCCATGGGTTGTAGTGAGTAGATTGAAGATAGCAG
* * * * * *
47321662 ATCTTGCCTTCCTGTACCGATAGTGAAGCAGATCGAAGATACTAGCCTTG-CTTCTCTGGGTCGT
66 ATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGTCTTCCCTAGGTAGT
* * * * * * * * *
47321726 AGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATCGAAGATA
131 AGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTG--GGTGAAGTAGATCGAAGATA
* * * * * ** ** * * * * * ***
47321791 CCA-ACCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCTTGTAC
194 GCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATAC
***
47321855 TGACA
259 TGGTG
* * *
47321860 GTGAAGCAGATCGAAGATACCAACCTTGCCTCCCTGGGTTGTAGTAGAGTAGGTTGAAGATAGCA
1 GCGAAGCAGATCGAAGATACCAACCTTGCCTCCATGGGTTGTAGT-GAGTAGATTGAAGATAGCA
*
47321925 GATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGTC-TCCCTAGGTTG
65 GATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGTCTTCCCTAGGTAG
* * * * *
47321989 TCGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGGTGTGAAGTAGATCAAAGATA
130 TAGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTGG-GTGAAGTAGATCGAAGATA
* * * *
47322054 GCAGATCTTATCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCATATCTTGTCTTCCCATAC
194 GCAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATAC
47322119 TGGTG
259 TGGTG
* * * * * * ** * **
47322124 GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCAAAGATAG
1 GCGAAGCAGATCGAAGATACCA-ACCTTGCCTCCATGGGTT-GTAGTG-AGTAGATTGAAGATAG
* * ** * * * * *
47322188 CAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAGATCTTCTCTTCCCATA-
63 CAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAG-CCTTGTCTTCCC-TAG
* * * * *
47322251 CTAGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT-GGCGAAGTAGATCGAAG
126 GTAGTAGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTGGGTGAAGTAGATCGAAG
* * * * * * * *
47322315 AAAGCAGATCTTGTCTTCATGTATCAGCAT-ATAATAGATCAAAGGTAGCAGATGTCGTCTTCCC
191 ATAGCAGATCTTGTCTTCATGTATCGGCGTGA-AGTAGATCGAAGATAGCAGATCTTGTCTTCCC
47322379 ATACTGGTG
255 ATACTGGTG
* * *
47322388 GCAAAGTAGATCAAAGATAC
1 GCGAAGCAGATCGAAGATAC
47322408 AAGTCTTATC
Statistics
Matches: 436, Mismatches: 101, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
263 61 0.14
264 276 0.63
265 53 0.12
266 44 0.10
267 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (263 bp):
GCGAAGCAGATCGAAGATACCAACCTTGCCTCCATGGGTTGTAGTGAGTAGATTGAAGATAGCAG
ATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGTCTTCCCTAGGTAGT
AGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCTTGTATTGGGTGAAGTAGATCGAAGATAGC
AGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
GTG
Found at i:47322156 original size:133 final size:131
Alignment explanation
Indices: 47321916--47322404 Score: 581
Period size: 133 Copynumber: 3.7 Consensus size: 131
47321906 GAGTAGGTTG
* * ** * * * *
47321916 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAG-CCTTGTC-T
1 AAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
* * * * * *
47321979 CCC-TAGGTTGTCGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGGTGTGAAGTA
65 CCCATA-CTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATT-G-GTGAAGTA
47322043 GATCA
127 GATCA
* * * *
47322048 AAGATAGCAGATCTTATCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCATATCTTGTCTTC
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
*
47322113 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATT-G-GTGAAGTAGA
47322178 TCA
129 TCA
*
47322181 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTCTCTTC
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
* * * *
47322246 CCATACTAGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGAAGTAGATC
66 CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGTGAAGTAGATC
*
47322311 G
131 A
* ** * * * * *
47322312 AAGAAAGCAGATCTTGTCTTCATGTATCAGCAT-ATAATAGATCAAAGGTAGCAGATGTCGTCTT
1 AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGA-AGTAGATCAAAGATAGCAGATCTTGTCTT
*
47322376 CCCATACTGGTGGCAAAGTAGATCAAAGA
65 CCCATACTGGTGGCGAAGTAGATCAAAGA
47322405 TACAAGTCTT
Statistics
Matches: 311, Mismatches: 42, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
130 1 0.00
131 109 0.35
132 31 0.10
133 168 0.54
134 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (131 bp):
AAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGTGAAGTAGATC
A
Found at i:47322170 original size:89 final size:89
Alignment explanation
Indices: 47321990--47322404 Score: 392
Period size: 89 Copynumber: 4.7 Consensus size: 89
47321980 CCTAGGTTGT
* * *** * * *
47321990 CGTGAAGTAGATCAAAAAAAGCAGATCTTGTCTTCTTGTATTGGT-GTGAAGTAGATCAAAGATA
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
* *
47322054 GCAGATCTTATCTTCATATATTGG
66 GCAGATCTTGTCTTCATATATTAG
* * *
47322078 CGTGAAGTAGATCGAAGATAGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
*
47322143 GCAGATCTTGTCTTCATGTATTAG
66 GCAGATCTTGTCTTCATATATTAG
*** * * * *
47322167 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATA
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
* ** *
47322231 GCAGATCTTCTCTTCCCATACTAG
66 GCAGATCTTGTCTTCATATATTAG
* * * * * * ** *
47322255 TGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT--CAT-GTATTGGCGAAGTAGATCGAAGAA
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAA
* *
47322317 AGCAGATCTTGTCTTCATGTATCAG
65 AGCAGATCTTGTCTTCATATATTAG
* * * * * *
47322342 CAT-ATAATAGATCAAAGGTAGCAGATGTCGTCTTCCCATACTGGTGGCAAAGTAGATCAAAGA
1 CGTGA-AGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGA
47322405 TACAAGTCTT
Statistics
Matches: 256, Mismatches: 64, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
85 1 0.00
86 23 0.09
87 35 0.14
88 75 0.29
89 122 0.48
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (89 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
GCAGATCTTGTCTTCATATATTAG
Found at i:47322809 original size:22 final size:22
Alignment explanation
Indices: 47322749--47322806 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
47322739 AATCTTCAAG
47322749 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
47322768 GATATGCAATCTTGGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
47322790 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
47322807 GATTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.41
22 8 0.25
23 11 0.34
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:47330476 original size:25 final size:24
Alignment explanation
Indices: 47330439--47330506 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 24
47330429 GTCACCGATT
**
47330439 TTAGCTCTTATGAGCTTCCTGATA
1 TTAGCTCGCATGAGCTTCCTGATA
*
47330463 CTTAGCTCGCATGAGCTTCCTGTTA
1 -TTAGCTCGCATGAGCTTCCTGATA
47330488 TTCAGCTCGCATGAGCTTC
1 TT-AGCTCGCATGAGCTTC
47330507 TCGTTATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (24 bp):
TTAGCTCGCATGAGCTTCCTGATA
Found at i:47330512 original size:25 final size:25
Alignment explanation
Indices: 47330448--47330516 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
47330438 TTTAGCTCTT
*
47330448 ATGAGCTTCCTGATACTT-AGCTCGC
1 ATGAGCTTCCTGTTA-TTCAGCTCGC
47330473 ATGAGCTTCCTGTTATTCAGCTCGC
1 ATGAGCTTCCTGTTATTCAGCTCGC
47330498 ATGAGCTT-CTCGTTATTCA
1 ATGAGCTTCCT-GTTATTCA
47330517 AATCGGAGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 4 0.10
25 37 0.90
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATTCAGCTCGC
Found at i:47331813 original size:21 final size:22
Alignment explanation
Indices: 47331787--47331828 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
47331777 AATTGGTTTC
47331787 TGAAATGAATG-TTATTTGATA
1 TGAAATGAATGTTTATTTGATA
**
47331808 TGAAATGTCTGTTTATTTGAT
1 TGAAATGAATGTTTATTTGAT
47331829 CTGTAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (22 bp):
TGAAATGAATGTTTATTTGATA
Found at i:47333807 original size:15 final size:15
Alignment explanation
Indices: 47333787--47333816 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47333777 TAAAGTGTCT
47333787 GAGTCGAAGCTTGAA
1 GAGTCGAAGCTTGAA
47333802 GAGTCGAAGCTTGAA
1 GAGTCGAAGCTTGAA
47333817 CTAGTGCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GAGTCGAAGCTTGAA
Found at i:47336889 original size:14 final size:15
Alignment explanation
Indices: 47336865--47336895 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
47336855 AAACCCAAAT
47336865 AATCAATAATAATTA
1 AATCAATAATAATTA
47336880 AATC-ATAATAATTA
1 AATCAATAATAATTA
47336894 AA
1 AA
47336896 CCAGCAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
AATCAATAATAATTA
Found at i:47337192 original size:34 final size:34
Alignment explanation
Indices: 47337148--47337215 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
47337138 GCACAGTTGA
* *
47337148 ACAGTCTTGGGCATAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCATAAGCCCATCTCAGTA-CAGTG
* *
47337183 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCATAAGCCCATCTCAGTACAGTG
47337216 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCATAAGCCCATCTCAGTACAGTG
Found at i:47340651 original size:20 final size:21
Alignment explanation
Indices: 47340595--47340651 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
47340585 TTCATGTAAT
*
47340595 TAAATTGTA-AATTTATATGTTT
1 TAAATTGTATAA-TT-TATGTTG
* *
47340617 TAAATTGAATTATTTAT-TTG
1 TAAATTGTATAATTTATGTTG
47340637 TAAATTGTATAATTT
1 TAAATTGTATAATTT
47340652 CCATGAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 15 0.52
21 3 0.10
22 10 0.34
23 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (21 bp):
TAAATTGTATAATTTATGTTG
Found at i:47340866 original size:25 final size:25
Alignment explanation
Indices: 47340761--47340890 Score: 122
Period size: 25 Copynumber: 5.2 Consensus size: 25
47340751 TTTAGCTCTT
* * *
47340761 ATGAGCTTCCCGATACTCAGCTCGC
1 ATGAGCTTTCCGTTATTCAGCTCGC
* *
47340786 ATGAGCTTCCCGTTATTAAGCTCGC
1 ATGAGCTTTCCGTTATTCAGCTCGC
* *
47340811 ATGAGCTTTCCATTATTCAGGC-CGT
1 ATGAGCTTTCCGTTATTCA-GCTCGC
47340836 ATGAGCTTTCCGTTATTCAGCTCAG-
1 ATGAGCTTTCCGTTATTCAGCTC-GC
* * * *
47340861 AGGAGCTTACCGTT-TACAGCTCGT
1 ATGAGCTTTCCGTTATTCAGCTCGC
47340885 ATGAGC
1 ATGAGC
47340891 ATACATGTAC
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.01
24 14 0.16
25 71 0.80
26 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (25 bp):
ATGAGCTTTCCGTTATTCAGCTCGC
Found at i:47350713 original size:9 final size:9
Alignment explanation
Indices: 47350699--47350751 Score: 88
Period size: 9 Copynumber: 5.9 Consensus size: 9
47350689 TTTGGTTAAA
47350699 AATTAACCG
1 AATTAACCG
*
47350708 AATTAACTG
1 AATTAACCG
47350717 AATTAACCG
1 AATTAACCG
*
47350726 AATTAACCA
1 AATTAACCG
47350735 AATTAACCG
1 AATTAACCG
47350744 AATTAACC
1 AATTAACC
47350752 AATATTCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:47354638 original size:9 final size:9
Alignment explanation
Indices: 47354619--47354658 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
47354609 TTTGGTTAAA
*
47354619 AATTAACCG
1 AATTACCCG
*
47354628 AATTACTCG
1 AATTACCCG
47354637 AATTACCCG
1 AATTACCCG
47354646 AATTACCCG
1 AATTACCCG
47354655 AATT
1 AATT
47354659 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTACCCG
Found at i:47354688 original size:17 final size:17
Alignment explanation
Indices: 47354666--47354728 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
47354656 ATTGAATCAC
47354666 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
47354683 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
47354703 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
47354720 TACATAATT
1 TACATAATT
47354729 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:47354703 original size:37 final size:37
Alignment explanation
Indices: 47354657--47354731 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
47354647 ATTACCCGAA
*
47354657 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
47354694 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
47354731 T
1 T
47354732 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:47354919 original size:53 final size:53
Alignment explanation
Indices: 47354839--47354957 Score: 238
Period size: 53 Copynumber: 2.2 Consensus size: 53
47354829 AAAAACATGT
47354839 GTAATTGGGTAGATACTTAAGAGTTAGACTTTAGTTTTATTTTTATTGGGTTG
1 GTAATTGGGTAGATACTTAAGAGTTAGACTTTAGTTTTATTTTTATTGGGTTG
47354892 GTAATTGGGTAGATACTTAAGAGTTAGACTTTAGTTTTATTTTTATTGGGTTG
1 GTAATTGGGTAGATACTTAAGAGTTAGACTTTAGTTTTATTTTTATTGGGTTG
47354945 GTAATTGGGTAGA
1 GTAATTGGGTAGA
47354958 CTTTAGTTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 66 1.00
ACGTcount: A:0.25, C:0.03, G:0.26, T:0.45
Consensus pattern (53 bp):
GTAATTGGGTAGATACTTAAGAGTTAGACTTTAGTTTTATTTTTATTGGGTTG
Found at i:47354960 original size:38 final size:39
Alignment explanation
Indices: 47354916--47355032 Score: 164
Period size: 39 Copynumber: 3.0 Consensus size: 39
47354906 ACTTAAGAGT
*
47354916 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
* * *
47354954 TAGACTTTAGTTTTAGTTTTATTGGGTTAGATAATTTGA
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
* * *
47354993 TAGACTTTAGTTTTAGTTTTATTGGTTTGGGTAAATGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
47355032 T
1 T
47355033 TGGGTTGGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 27 0.40
39 41 0.60
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
Found at i:47355353 original size:21 final size:20
Alignment explanation
Indices: 47355329--47355371 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
47355319 TTAAATATTT
47355329 TTAATAATGTCATTTT-TTAAA
1 TTAATAATGT--TTTTCTTAAA
*
47355350 TTAATTATGTTTTTCTTAAA
1 TTAATAATGTTTTTCTTAAA
47355370 TT
1 TT
47355372 TTAAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
TTAATAATGTTTTTCTTAAA
Found at i:47358829 original size:17 final size:17
Alignment explanation
Indices: 47358803--47358837 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47358793 AAATAATAGT
*
47358803 AATAATAATAATAAATA
1 AATAACAATAATAAATA
47358820 AATAACAATAATAAATA
1 AATAACAATAATAAATA
47358837 A
1 A
47358838 CGTAAATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAACAATAATAAATA
Found at i:47358838 original size:13 final size:13
Alignment explanation
Indices: 47358791--47358838 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
47358781 ATAAGATAAG
* *
47358791 ATAAATAATAGTA
1 ATAAATAACAATA
*
47358804 AT-AATAATAATAA
1 ATAAATAACAAT-A
47358817 ATAAATAACAATA
1 ATAAATAACAATA
47358830 ATAAATAAC
1 ATAAATAAC
47358839 GTAAATACGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 8 0.26
13 15 0.48
14 8 0.26
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAATAACAATA
Found at i:47359056 original size:17 final size:16
Alignment explanation
Indices: 47359018--47359056 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
47359008 TTTTTTTTCA
47359018 ATTTATTCAATTTTTT
1 ATTTATTCAATTTTTT
47359034 AGTTTATTCAATTTTTT
1 A-TTTATTCAATTTTTT
47359051 GATTTA
1 -ATTTA
47359057 ATCTATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTCAATTTTTT
Found at i:47360316 original size:20 final size:20
Alignment explanation
Indices: 47360287--47360330 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47360277 GTGTACTTCT
*
47360287 TTTTTTTAATTTTT-ATGAA
1 TTTTTATAATTTTTAATGAA
47360306 CTTTTTATAATTTTTAATGAA
1 -TTTTTATAATTTTTAATGAA
47360327 TTTT
1 TTTT
47360331 GATTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTTTAATGAA
Found at i:47360349 original size:19 final size:20
Alignment explanation
Indices: 47360327--47360366 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
47360317 TTTTAATGAA
*
47360327 TTTTGATTTTTTAAA-TATT
1 TTTTGAATTTTTAAATTATT
47360346 TTTTGAATTTTTAAATTATT
1 TTTTGAATTTTTAAATTATT
47360366 T
1 T
47360367 GATGATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTGAATTTTTAAATTATT
Found at i:47361034 original size:23 final size:24
Alignment explanation
Indices: 47361007--47361057 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
47360997 ATAATACATC
*
47361007 AAATA-TATT-ACAAATATTAAAAT
1 AAATATTATTAACAAAT-TAAAAAT
*
47361030 AAATATTTTTAACAAATTAAAAAT
1 AAATATTATTAACAAATTAAAAAT
47361054 AAAT
1 AAAT
47361058 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATTATTAACAAATTAAAAAT
Found at i:47361057 original size:24 final size:24
Alignment explanation
Indices: 47361016--47361069 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
47361006 CAAATATATT
*
47361016 ACAAATATTAAAATAAATATTTTTA
1 ACAAATATAAAAATAAAT-TTTTTA
47361041 ACAAAT-TAAAAATAAA-TTTTTA
1 ACAAATATAAAAATAAATTTTTTA
47361063 A-AAATAT
1 ACAAATAT
47361070 GTATACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
24 9 0.33
25 6 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
ACAAATATAAAAATAAATTTTTTA
Found at i:47361061 original size:23 final size:25
Alignment explanation
Indices: 47361016--47361069 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 25
47361006 CAAATATATT
*
47361016 ACAAATATTAAAATAAATATTTTTA
1 ACAAATATAAAAATAAATATTTTTA
47361041 ACAAAT-TAAAAAT-AA-ATTTTTA
1 ACAAATATAAAAATAAATATTTTTA
47361063 A-AAATAT
1 ACAAATAT
47361070 GTATACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 2 0.07
24 6 0.22
25 6 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
ACAAATATAAAAATAAATATTTTTA
Found at i:47363313 original size:20 final size:19
Alignment explanation
Indices: 47363288--47363336 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
47363278 AGCAATGAAT
47363288 TTGTTCACCAAGAGATACAA
1 TTGTTCA-CAAGAGATACAA
47363308 TTGTTCA-AA-AGATACAA
1 TTGTTCACAAGAGATACAA
*
47363325 CTGTTCATCAAG
1 TTGTTCA-CAAG
47363337 TGAAAGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 14 0.56
18 2 0.08
19 2 0.08
20 7 0.28
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (19 bp):
TTGTTCACAAGAGATACAA
Found at i:47368998 original size:42 final size:42
Alignment explanation
Indices: 47368938--47369040 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 42
47368928 GGATACTGAG
* **
47368938 ATGTGATTACGTGTAAGACCATGTATGGGACATTGTTATCG-T
1 ATGTGATT-CGTGTAAGACAATGTATGGGACATTGGCATCGAT
*
47368980 CATGTGATTCGTGTAAGACAATGTTTGGGACATTGGCATCGAT
1 -ATGTGATTCGTGTAAGACAATGTATGGGACATTGGCATCGAT
*
47369023 ATGAGATTCGTGTAAGAC
1 ATGTGATTCGTGTAAGAC
47369041 TATAGCAGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 45 0.83
43 9 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (42 bp):
ATGTGATTCGTGTAAGACAATGTATGGGACATTGGCATCGAT
Found at i:47375169 original size:12 final size:12
Alignment explanation
Indices: 47375154--47375180 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47375144 GAAAAAAACA
47375154 AAGAAAAAGGAG
1 AAGAAAAAGGAG
47375166 AAGAAAAAGGAG
1 AAGAAAAAGGAG
47375178 AAG
1 AAG
47375181 GAGCCACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGGAG
Found at i:47383123 original size:17 final size:18
Alignment explanation
Indices: 47383087--47383128 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
47383077 TTTTATATTT
47383087 TTTTATAATTGTTAATAA
1 TTTTATAATTGTTAATAA
* *
47383105 TTTTATGATT-TTTATAA
1 TTTTATAATTGTTAATAA
47383122 TTTTATA
1 TTTTATA
47383129 TCAATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATTGTTAATAA
Found at i:47383136 original size:11 final size:9
Alignment explanation
Indices: 47383086--47383193 Score: 55
Period size: 9 Copynumber: 11.8 Consensus size: 9
47383076 ATTTTATATT
47383086 TTTTTATAA
1 TTTTTATAA
*
47383095 TTGTTAATAA
1 TT-TTTATAA
*
47383105 -TTTTATGA
1 TTTTTATAA
47383113 TTTTTATAA
1 TTTTTATAA
47383122 TTTTATATCAA
1 TTTT-TAT-AA
*
47383133 TTTTCAT--
1 TTTTTATAA
47383140 TTTTTA-ATA
1 TTTTTATA-A
* *
47383149 TTTTTTTAT
1 TTTTTATAA
47383158 TTTTCTATAA
1 TTTT-TATAA
* *
47383168 TATTTTCTTA
1 T-TTTTATAA
47383178 TTTTT-TAA
1 TTTTTATAA
47383186 TATTTTAT
1 T-TTTTAT
47383194 GGGAAAATAT
Statistics
Matches: 74, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
7 5 0.07
8 8 0.11
9 31 0.42
10 21 0.28
11 9 0.12
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47383143 original size:27 final size:25
Alignment explanation
Indices: 47383085--47383145 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
47383075 AATTTTATAT
47383085 TTTTTTATAATTGTTAATAATTTTA
1 TTTTTTATAATTGTTAATAATTTTA
47383110 TGATTTTTATAATT-TTATATCAATTTTCA
1 T--TTTTTATAATTGTTA-AT-AATTTT-A
47383139 TTTTTTA
1 TTTTTTA
47383146 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 19 0.61
28 6 0.19
29 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTTTATAATTGTTAATAATTTTA
Found at i:47383144 original size:28 final size:25
Alignment explanation
Indices: 47383082--47383153 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 25
47383072 ATTAATTTTA
47383082 TATTTTTTTATAATTGTTAATAATTT
1 TATTTTTTTATAATT-TTAATAATTT
*
47383108 TATGATTTTTATAATTTTATATCAATTT
1 TAT-TTTTTTATAATTTTA-AT-AATTT
* *
47383136 TCATTTTTTAATATTTTT
1 T-ATTTTTTTATAATTTT
47383154 TTATTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 6 0.16
27 13 0.34
28 17 0.45
29 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (25 bp):
TATTTTTTTATAATTTTAATAATTT
Found at i:47383154 original size:18 final size:17
Alignment explanation
Indices: 47383133--47383191 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
47383123 TTTATATCAA
*
47383133 TTTTCATTTTTTAATATT
1 TTTTTATTTTTTAATA-T
47383151 TTTTTATTTTTCTATAATAT
1 TTTTTA-TTTT-T-TAATAT
47383171 TTTCTTATTTTTTAATAT
1 TTT-TTATTTTTTAATAT
47383189 TTT
1 TTT
47383192 ATGGGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 14 0.39
19 5 0.14
20 9 0.25
21 8 0.22
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTTTAATAT
Found at i:47383379 original size:18 final size:18
Alignment explanation
Indices: 47383358--47383452 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 18
47383348 TATGTTTAAT
47383358 TAATTTTATATTTTTTTA
1 TAATTTTATATTTTTTTA
**
47383376 TAATTGTTA-ATAATTTTA
1 TAATT-TTATATTTTTTTA
* * *
47383394 TGATTTTTATAATTTTATA
1 T-AATTTTATATTTTTTTA
* *
47383413 TCAATTTT-CATTTTTTAA
1 T-AATTTTATATTTTTTTA
* * *
47383431 TATTTTTTTATTTTTCTA
1 TAATTTTATATTTTTTTA
47383449 TAAT
1 TAAT
47383453 ATTTTCTTAT
Statistics
Matches: 55, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
17 5 0.09
18 33 0.60
19 17 0.31
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (18 bp):
TAATTTTATATTTTTTTA
Found at i:47383407 original size:17 final size:18
Alignment explanation
Indices: 47383371--47383412 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
47383361 TTTTATATTT
47383371 TTTTATAATTGTTAATAA
1 TTTTATAATTGTTAATAA
* *
47383389 TTTTATGATT-TTTATAA
1 TTTTATAATTGTTAATAA
47383406 TTTTATA
1 TTTTATA
47383413 TCAATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTATAATTGTTAATAA
Found at i:47383420 original size:11 final size:9
Alignment explanation
Indices: 47383370--47383477 Score: 55
Period size: 9 Copynumber: 11.8 Consensus size: 9
47383360 ATTTTATATT
47383370 TTTTTATAA
1 TTTTTATAA
*
47383379 TTGTTAATAA
1 TT-TTTATAA
*
47383389 -TTTTATGA
1 TTTTTATAA
47383397 TTTTTATAA
1 TTTTTATAA
47383406 TTTTATATCAA
1 TTTT-TAT-AA
*
47383417 TTTTCAT--
1 TTTTTATAA
47383424 TTTTTA-ATA
1 TTTTTATA-A
* *
47383433 TTTTTTTAT
1 TTTTTATAA
47383442 TTTTCTATAA
1 TTTT-TATAA
* *
47383452 TATTTTCTTA
1 T-TTTTATAA
47383462 TTTTT-TAA
1 TTTTTATAA
47383470 TATTTTAT
1 T-TTTTAT
47383478 GGGAAAATAT
Statistics
Matches: 74, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
7 5 0.07
8 8 0.11
9 31 0.42
10 21 0.28
11 9 0.12
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47383427 original size:27 final size:25
Alignment explanation
Indices: 47383369--47383429 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
47383359 AATTTTATAT
47383369 TTTTTTATAATTGTTAATAATTTTA
1 TTTTTTATAATTGTTAATAATTTTA
47383394 TGATTTTTATAATT-TTATATCAATTTTCA
1 T--TTTTTATAATTGTTA-AT-AATTTT-A
47383423 TTTTTTA
1 TTTTTTA
47383430 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 19 0.61
28 6 0.19
29 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTTTTATAATTGTTAATAATTTTA
Found at i:47383428 original size:28 final size:25
Alignment explanation
Indices: 47383352--47383437 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 25
47383342 TTTAAATATG
47383352 TTTAATTAATTTTATATTTTTTTATAAT
1 TTTAA-TAA-TTT-TATTTTTTTATAAT
*
47383380 TGTTAATAATTTTATGATTTTTATAAT
1 T-TTAATAATTTTAT-TTTTTTATAAT
* *
47383407 TTTATATCAATTTTCATTTTTTAATATT
1 TTTA-AT-AATTTT-ATTTTTTTATAAT
47383435 TTT
1 TTT
47383438 TTATTTTTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 6 0.12
27 16 0.33
28 21 0.43
29 6 0.12
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTAATAATTTTATTTTTTTATAAT
Found at i:47383457 original size:18 final size:18
Alignment explanation
Indices: 47383331--47383477 Score: 56
Period size: 18 Copynumber: 7.9 Consensus size: 18
47383321 TTTTTACAAA
*
47383331 ATTTTA-AATATTTTAAAT
1 ATTTTATAATATTTT-ATT
47383349 ATGTTTAATTAAT-TTTATATT
1 AT-TTT-A-TAATATTT-TATT
* * *
47383370 TTTTTATAAT-TGTTAATA
1 ATTTTATAATAT-TTTATT
* *
47383388 ATTTTATGAT-TTTTATA
1 ATTTTATAATATTTTATT
47383405 ATTTTAT-ATCAATTTTCATT
1 ATTTTATAAT--ATTTT-ATT
* *
47383425 -TTTTAATATTTTTTTATT
1 ATTTT-ATAATATTTTATT
*
47383443 -TTTCTATAATATTTTCTT
1 ATTT-TATAATATTTTATT
*
47383461 ATTTTTTAATATTTTAT
1 ATTTTATAATATTTTAT
47383478 GGGAAAATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
16 2 0.02
17 12 0.12
18 45 0.45
19 22 0.22
20 8 0.08
21 7 0.07
22 4 0.04
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTATAATATTTTATT
Found at i:47383504 original size:284 final size:284
Alignment explanation
Indices: 47382994--47383561 Score: 1102
Period size: 284 Copynumber: 2.0 Consensus size: 284
47382984 AATATTTTTT
*
47382994 TATAATTTAAGATTTTTTAGGATTTTTATAGAATATTAATACATTTTTACAAAATTTTAAATATC
1 TATAATTTAAGAGTTTTTAGGATTTTTATAGAATATTAATACATTTTTACAAAATTTTAAATATC
47383059 TTAATATGTTTAAATTAATTTTATATTTTTTTATAATTGTTAATAATTTTATGATTTTTATAATT
66 TTAATATGTTTAAATTAATTTTATATTTTTTTATAATTGTTAATAATTTTATGATTTTTATAATT
47383124 TTATATCAATTTTCATTTTTTAATATTTTTTTATTTTTCTATAATATTTTCTTATTTTTTAATAT
131 TTATATCAATTTTCATTTTTTAATATTTTTTTATTTTTCTATAATATTTTCTTATTTTTTAATAT
47383189 TTTATGGGAAAATATTAAACCATAAGTTACCATGTGTCACCATTTAATTGACCCGTCAATTTATT
196 TTTATGGGAAAATATTAAACCATAAGTTACCATGTGTCACCATTTAATTGACCCGTCAATTTATT
47383254 TTAACAGTCTATGTGGTCAATAAC
261 TTAACAGTCTATGTGGTCAATAAC
*
47383278 TATAATTTAAGAGTTTTTAGGATTTTTATAGAATATTAATACATTTTTACAAAATTTTAAATATT
1 TATAATTTAAGAGTTTTTAGGATTTTTATAGAATATTAATACATTTTTACAAAATTTTAAATATC
47383343 TTAAATATGTTT-AATTAATTTTATATTTTTTTATAATTGTTAATAATTTTATGATTTTTATAAT
66 TT-AATATGTTTAAATTAATTTTATATTTTTTTATAATTGTTAATAATTTTATGATTTTTATAAT
47383407 TTTATATCAATTTTCATTTTTTAATATTTTTTTATTTTTCTATAATATTTTCTTATTTTTTAATA
130 TTTATATCAATTTTCATTTTTTAATATTTTTTTATTTTTCTATAATATTTTCTTATTTTTTAATA
47383472 TTTTATGGGAAAATATTAAACCATAAGTTACCATGTGTCACCATTTAATTGACCCGTCAATTTAT
195 TTTTATGGGAAAATATTAAACCATAAGTTACCATGTGTCACCATTTAATTGACCCGTCAATTTAT
47383537 TTTAACAGTCTATGTGGTCAATAAC
260 TTTAACAGTCTATGTGGTCAATAAC
47383562 GAAACCGTTA
Statistics
Matches: 281, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
284 272 0.97
285 9 0.03
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (284 bp):
TATAATTTAAGAGTTTTTAGGATTTTTATAGAATATTAATACATTTTTACAAAATTTTAAATATC
TTAATATGTTTAAATTAATTTTATATTTTTTTATAATTGTTAATAATTTTATGATTTTTATAATT
TTATATCAATTTTCATTTTTTAATATTTTTTTATTTTTCTATAATATTTTCTTATTTTTTAATAT
TTTATGGGAAAATATTAAACCATAAGTTACCATGTGTCACCATTTAATTGACCCGTCAATTTATT
TTAACAGTCTATGTGGTCAATAAC
Found at i:47388279 original size:9 final size:9
Alignment explanation
Indices: 47388267--47388361 Score: 129
Period size: 9 Copynumber: 10.4 Consensus size: 9
47388257 AAAATAAAAA
47388267 AATTCGGGT
1 AATTCGGGT
47388276 AATTCGGGT
1 AATTCGGGT
*
47388285 ATTTTTC-GGT
1 A--ATTCGGGT
*
47388295 AATTCGGTT
1 AATTCGGGT
*
47388304 AATTCGGTT
1 AATTCGGGT
47388313 AATTCGGGT
1 AATTCGGGT
*
47388322 AATTCGGTT
1 AATTCGGGT
47388331 AATTCGGGT
1 AATTCGGGT
47388340 AATTCGGGT
1 AATTCGGGT
47388349 AATTCGGGT
1 AATTCGGGT
47388358 AATT
1 AATT
47388362 TTTAACCAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
8 3 0.04
9 67 0.87
10 4 0.05
11 3 0.04
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:47388539 original size:12 final size:12
Alignment explanation
Indices: 47388522--47388546 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47388512 AGTAATTTCG
47388522 GGTCGGTTAACC
1 GGTCGGTTAACC
47388534 GGTCGGTTAACC
1 GGTCGGTTAACC
47388546 G
1 G
47388547 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:47388643 original size:18 final size:18
Alignment explanation
Indices: 47388620--47388655 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47388610 GGTAAATGAT
47388620 ATCCTCTCATTAGCATTA
1 ATCCTCTCATTAGCATTA
47388638 ATCCTCTCATTAGCATTA
1 ATCCTCTCATTAGCATTA
47388656 CATGGTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
ATCCTCTCATTAGCATTA
Found at i:47390381 original size:27 final size:27
Alignment explanation
Indices: 47390351--47390405 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
47390341 AGAAATGGAT
*
47390351 ATGAGATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
47390378 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
47390405 A
1 A
47390406 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.25
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:47390385 original size:20 final size:18
Alignment explanation
Indices: 47390338--47390394 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
47390328 GATGACAAGG
*
47390338 ATGAGAAATGGATATGAG
1 ATGAGAAATGGATATGAA
*
47390356 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
47390375 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
47390395 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.23
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:47395071 original size:87 final size:87
Alignment explanation
Indices: 47394918--47395243 Score: 471
Period size: 87 Copynumber: 3.8 Consensus size: 87
47394908 ATTTTATATC
* * *
47394918 AGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGACTTTGTTTTCGAT
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
47394983 CTGCTTCGCTGTTAACGCAGGA
66 CTGCTTCGCTGTTAACGCAGGA
* * * *
47395005 AGACAAGATCTG-TCATCTCTAACCAGCTCCACTGCAACCAATAGAGGCAAGGCTTTGTTTTTGA
1 AGGCAAGATCTGCT-ATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGA
* *
47395069 TCTGCTTCGCTG--ATCTGTAGGA
65 TCTGCTTCGCTGTTAAC-GCAGGA
* * *
47395091 AGGCAAAATCTGCT-TCTTTAACCAGCTCCACTGCAATCGATAGAGGCAAGGCTTTGTTTTCAAT
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
47395155 CTGCTTCGCTGTTAACGCAGGA
66 CTGCTTCGCTGTTAACGCAGGA
* * *
47395177 AGGTAAGATCTGCTATCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAGGCTTTGTTTTCGAT
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
47395242 CT
66 CT
47395244 TCACTGATCT
Statistics
Matches: 209, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
85 58 0.28
86 33 0.16
87 118 0.56
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGAT
CTGCTTCGCTGTTAACGCAGGA
Found at i:47395226 original size:172 final size:173
Alignment explanation
Indices: 47394918--47395243 Score: 512
Period size: 172 Copynumber: 1.9 Consensus size: 173
47394908 ATTTTATATC
* * * *
47394918 AGGCAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGACTTTGTTTTCGAT
1 AGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGTTTTCAAT
47394983 CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCAATA
66 CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCAATA
*
47395048 GAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGATCTGTAGGA
131 GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGATCTGTAGGA
* *
47395091 AGGCAAAATCTGCT-TCTTTAACCAGCTCCACTGCAATCGATAGAGGCAAGGCTTTGTTTTCAAT
1 AGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGTTTTCAAT
** * **
47395155 CTGCTTCGCTGTTAACGCAGGAAGGTAAGATCTG-CTATCTTTAACCAGCTCCACTGCAACTGAT
66 CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTC-ATCTCTAACCAGCTCCACTGCAACCAAT
*
47395219 GGAGGCAAGGCTTTGTTTTCGATCT
130 AGAGGCAAGGCTTTGTTTTCGATCT
47395244 TCACTGATCT
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
171 1 0.01
172 125 0.90
173 13 0.09
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (173 bp):
AGGCAAAATCTGCTATCTTTAACCAGCTCCACTGCAACCGATAGAGGCAAGACTTTGTTTTCAAT
CTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCAATA
GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGATCTGTAGGA
Found at i:47396484 original size:14 final size:14
Alignment explanation
Indices: 47396465--47396538 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 14
47396455 TTAGCCTCTC
47396465 CATTTTTACTCTTT
1 CATTTTTACTCTTT
*
47396479 CATTTTTTA-TTTTT
1 CA-TTTTTACTCTTT
47396493 CATTTTT-CAT-TTT
1 CATTTTTAC-TCTTT
* *
47396506 CATTTTCA-TTTTT
1 CATTTTTACTCTTT
47396519 CATTTTT-CATCTTT
1 CATTTTTAC-TCTTT
47396533 C-TTTTT
1 CATTTTT
47396539 TTTTGAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 1 0.02
13 28 0.57
14 14 0.29
15 6 0.12
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTACTCTTT
Found at i:47396490 original size:21 final size:21
Alignment explanation
Indices: 47396466--47396525 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
47396456 TAGCCTCTCC
47396466 ATTTTT-ACTCTTTCATTTTTT
1 ATTTTTCA-TCTTTCATTTTTT
* *
47396487 ATTTTTCATTTTTCA-TTTTC
1 ATTTTTCATCTTTCATTTTTT
*
47396507 A-TTTTCATTTTTCATTTTT
1 ATTTTTCATCTTTCATTTTT
47396526 CATCTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 13 0.37
20 9 0.26
21 12 0.34
22 1 0.03
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTTCATCTTTCATTTTTT
Found at i:47396492 original size:7 final size:7
Alignment explanation
Indices: 47396476--47396538 Score: 87
Period size: 7 Copynumber: 9.4 Consensus size: 7
47396466 ATTTTTACTC
47396476 TTTCATT
1 TTTCATT
*
47396483 TTTTATT
1 TTTCATT
47396490 TTTCATT
1 TTTCATT
47396497 TTTCA-T
1 TTTCATT
47396503 TTTCA-T
1 TTTCATT
47396509 TTTCATT
1 TTTCATT
47396516 TTTCATT
1 TTTCATT
*
47396523 TTTCATC
1 TTTCATT
47396530 TTTC-TT
1 TTTCATT
47396536 TTT
1 TTT
47396539 TTTTGAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
6 16 0.31
7 35 0.69
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCATT
Found at i:47396514 original size:33 final size:33
Alignment explanation
Indices: 47396476--47396538 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
47396466 ATTTTTACTC
* *
47396476 TTTCATTTTTTATTTTTCATTTTTCATTTTCAT
1 TTTCATTTTTCATTTTTCATCTTTCATTTTCAT
*
47396509 TTTCATTTTTCATTTTTCATCTTTCTTTTT
1 TTTCATTTTTCATTTTTCATCTTTCATTTT
47396539 TTTTGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (33 bp):
TTTCATTTTTCATTTTTCATCTTTCATTTTCAT
Found at i:47396539 original size:14 final size:14
Alignment explanation
Indices: 47396465--47396538 Score: 84
Period size: 14 Copynumber: 5.5 Consensus size: 14
47396455 TTAGCCTCTC
47396465 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
* *
47396479 CATTTTTTATTTTT
1 CATTTTTCATCTTT
47396493 CATTTTTCAT-TTT
1 CATTTTTCATCTTT
*
47396506 CA-TTTTCATTTTT
1 CATTTTTCATCTTT
47396519 CATTTTTCATCTTT
1 CATTTTTCATCTTT
47396533 C-TTTTT
1 CATTTTT
47396539 TTTTGAAATC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
12 7 0.13
13 15 0.28
14 31 0.57
15 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:47402523 original size:24 final size:23
Alignment explanation
Indices: 47402485--47402530 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
47402475 TACAGAACTA
*
47402485 AAAAAAATAAATAAATGAAACCT
1 AAAAAAATAAATAAAAGAAACCT
*
47402508 AAAAAAATGAACTAAAAGAAACC
1 AAAAAAAT-AAATAAAAGAAACC
47402531 CTAGCCCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAAAAATAAATAAAAGAAACCT
Found at i:47404019 original size:51 final size:51
Alignment explanation
Indices: 47403897--47404031 Score: 186
Period size: 51 Copynumber: 2.6 Consensus size: 51
47403887 CATGTCACTA
47403897 GTGGCT-CAAGTGTGGTACTATGTGAATGCCACTTTGTGAAGAAAGATAGCT
1 GTGGCTACAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATAGCT
*
47403948 GTGG-TCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCT
1 GTGGCT-ACAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATAGCT
* *
47403999 TTGGCTACAAGGGTGGTACTATGTGCAAGCCAC
1 GTGGCTACAAGTGTGGTACTATGTG-AAGCCAC
47404032 CGGGTATCCG
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
50 1 0.01
51 38 0.50
52 37 0.49
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (51 bp):
GTGGCTACAAGTGTGGTACTATGTGAAGCCACTTTGTGAAGAAAGATAGCT
Found at i:47406110 original size:8 final size:8
Alignment explanation
Indices: 47406097--47406142 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
47406087 TTAAATGAAT
47406097 TGAAATGG
1 TGAAATGG
47406105 TGAAATGG
1 TGAAATGG
47406113 TGAAATGG
1 TGAAATGG
*
47406121 TGAAATAG
1 TGAAATGG
*
47406129 AGAAATGG
1 TGAAATGG
*
47406137 AGAAAT
1 TGAAAT
47406143 AGGAAACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (8 bp):
TGAAATGG
Found at i:47406118 original size:16 final size:16
Alignment explanation
Indices: 47406097--47406148 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
47406087 TTAAATGAAT
*
47406097 TGAAATGGTGAAATGG
1 TGAAATGGTGAAATAG
47406113 TGAAATGGTGAAATAG
1 TGAAATGGTGAAATAG
* *
47406129 AGAAATGGAGAAATAG
1 TGAAATGGTGAAATAG
47406145 -GAAA
1 TGAAA
47406149 CATTTGGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (16 bp):
TGAAATGGTGAAATAG
Found at i:47406248 original size:6 final size:6
Alignment explanation
Indices: 47406237--47406271 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
47406227 TTCTCCAAAC
47406237 TGAAAA TGAAAA TGAAAA TTGTAAAA TGAAAA TGA
1 TGAAAA TGAAAA TGAAAA -TG-AAAA TGAAAA TGA
47406272 CTTAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (6 bp):
TGAAAA
Found at i:47406264 original size:14 final size:13
Alignment explanation
Indices: 47406237--47406269 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
47406227 TTCTCCAAAC
47406237 TGAAAA-TGAAAA
1 TGAAAATTGAAAA
47406249 TGAAAATTGTAAAA
1 TGAAAATTG-AAAA
47406263 TGAAAAT
1 TGAAAAT
47406270 GACTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 2 0.11
14 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (13 bp):
TGAAAATTGAAAA
Found at i:47406976 original size:272 final size:272
Alignment explanation
Indices: 47406490--47407041 Score: 827
Period size: 272 Copynumber: 2.0 Consensus size: 272
47406480 ATAGAAAAAC
* * *
47406490 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCGAAGAAGCACTTGTAATTATA
1 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCCAAGAAGCACTTATAATTAAA
* *
47406555 CCCGATAGGAAAGAAGCCTAAAAGCCTATTATGTTATAAGGTGAGACAACAAATCATAGTATCAT
66 CCCAATAGGAAAGAAGCCTAAAAGCCTATTATCTTATAAGGTGAGACAACAAATCATAGTATCAT
* * * *
47406620 TAACTAAGGTTGTCGCCCCCTACATCCTAGTTGAACTAAGGTTTTGTTTTTCTAGTTAAAATGAA
131 TAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAAA
* **
47406685 CTTCTATAAATAAATAAGGGTTCTACATTCTCTTCGTATAAATAGATGACACCAGAAAGGCTATT
196 CTTCTATAAATAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGACACCAGAAAGGCTATT
47406750 TACACAACTTTA
261 TACACAACTTTA
** * * *
47406762 AAATATTGGGTTGGATCAAATTATAAGGTATTGGATTAAAAGCCCAAGAAGTACTTATAATTAAA
1 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCCAAGAAGCACTTATAATTAAA
** * *
47406827 CTTAATAGGGAAGAAGCCTAAAAGCCCT-TTATCTTATAAGGTGGGACAACAAATCATAGTATCA
66 CCCAATAGGAAAGAAGCCTAAAAG-CCTATTATCTTATAAGGTGAGACAACAAATCATAGTATCA
*
47406891 TTAACTAATGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAA
130 TTAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAA
* * * * * * *
47406956 ACTTCTATAATTAAATAAGGGTTCTGCATTCTCTCCCAATAAATAGATGGCAGCAGCAGGGTTAT
195 ACTTCTATAAATAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGACACCAGAAAGGCTAT
47407021 TTACACAACTTTA
260 TTACACAACTTTA
47407034 AAATATTG
1 AAATATTG
47407042 TTACTCTGCT
Statistics
Matches: 250, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
272 247 0.99
273 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (272 bp):
AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCCAAGAAGCACTTATAATTAAA
CCCAATAGGAAAGAAGCCTAAAAGCCTATTATCTTATAAGGTGAGACAACAAATCATAGTATCAT
TAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCGTTTTTCTAGTTAAAATAAA
CTTCTATAAATAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGACACCAGAAAGGCTATT
TACACAACTTTA
Found at i:47413083 original size:39 final size:39
Alignment explanation
Indices: 47412937--47413076 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 39
47412927 AGCGGCACTT
* *
47412937 TTAGCGGCG-TTTGGACAAAAAACGCCACTAAAAATTAAGCA
1 TTAGCGGCGCTTT-TAC-AAAAACGCCGCTAAAAA-TAAGCA
* * * * * *
47412978 TTAGTGGTGCTTTTACAAAAATGACGCTAAAGATCGAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAAT-AAGCA
**
47413018 TTAGCGGCGCATTTT-GGAAAACGCCGCTAAAAATAAGCA
1 TTAGCGGCGC-TTTTACAAAAACGCCGCTAAAAATAAGCA
*
47413057 TTAGCGGCG-TTTTCCAAAAA
1 TTAGCGGCGCTTTTACAAAAA
47413077 GTGCCGCAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 14 0.18
40 39 0.51
41 13 0.17
42 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAAATAAGCA
Found at i:47413190 original size:41 final size:41
Alignment explanation
Indices: 47413128--47413406 Score: 407
Period size: 41 Copynumber: 6.8 Consensus size: 41
47413118 TTTTTGGGGT
* * ***
47413128 CTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
*
47413169 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
*
47413210 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
* * *
47413251 CTTTAGCGGCGTTTTTGAAAAGGTGCCGCGAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
*
47413292 CTTTAGCGGCGTTTTTGAAAACGCGCCGCTAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
* * *
47413333 CTTTAGTGGCGTTTTT-AAAGAAGTGCCGCTAATGCTCGTAA
1 CTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCGTAC
*
47413374 CTTTTGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
47413407 AATAAAATCT
Statistics
Matches: 214, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 3 0.01
41 208 0.97
42 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
Found at i:47414274 original size:7 final size:7
Alignment explanation
Indices: 47414264--47414319 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
47414254 TTTTGAGTTC
47414264 AGGGTTT
1 AGGGTTT
47414271 AGGGTTT
1 AGGGTTT
47414278 A-GGTTT
1 AGGGTTT
*
47414284 AGGGCTT
1 AGGGTTT
*
47414291 AGGGGTT
1 AGGGTTT
47414298 -GGAGTTT
1 AGG-GTTT
*
47414305 AAGGTTT
1 AGGGTTT
*
47414312 AGAGTTT
1 AGGGTTT
47414319 A
1 A
47414320 CATTTTAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
6 8 0.20
7 31 0.77
8 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:47417127 original size:129 final size:129
Alignment explanation
Indices: 47416981--47417240 Score: 484
Period size: 129 Copynumber: 2.0 Consensus size: 129
47416971 GCTAAATATA
*
47416981 TTATTAAATTAAGATTAAAAATATATTTAAATATATTACTAACTATTATATGATAATAACAAAAT
1 TTATTAAATTAAAATTAAAAATATATTTAAATATATTACTAACTATTATATGATAATAACAAAAT
*
47417046 TAGTATTAATTATTATATAAGTAATCTTAAAGTAAGAATAAAAAATAAAAATTAAGTAGTCATT
66 TAGTATTAACTATTATATAAGTAATCTTAAAGTAAGAATAAAAAATAAAAATTAAGTAGTCATT
*
47417110 TTATTAAATTAAAATTAAAAATATTTTTAAATATATTACTAACTATTATATGATAATAACAAAAT
1 TTATTAAATTAAAATTAAAAATATATTTAAATATATTACTAACTATTATATGATAATAACAAAAT
*
47417175 TAGTATTAACTATTATATAAGTAATCTTAGAGTAAGAATAAAAAATAAAAATTAAGTAGTCATT
66 TAGTATTAACTATTATATAAGTAATCTTAAAGTAAGAATAAAAAATAAAAATTAAGTAGTCATT
47417239 TT
1 TT
47417241 TTATAATCAT
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (129 bp):
TTATTAAATTAAAATTAAAAATATATTTAAATATATTACTAACTATTATATGATAATAACAAAAT
TAGTATTAACTATTATATAAGTAATCTTAAAGTAAGAATAAAAAATAAAAATTAAGTAGTCATT
Found at i:47418152 original size:16 final size:16
Alignment explanation
Indices: 47418131--47418165 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
47418121 TACAAAGGTA
*
47418131 TTGCCTTTGTTATATT
1 TTGCCTTTGTTATAAT
47418147 TTGCCTTTGTTATAAT
1 TTGCCTTTGTTATAAT
47418163 TTG
1 TTG
47418166 TCAGTGGAAA
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:0.14, C:0.11, G:0.14, T:0.60
Consensus pattern (16 bp):
TTGCCTTTGTTATAAT
Found at i:47419627 original size:43 final size:43
Alignment explanation
Indices: 47419519--47419875 Score: 349
Period size: 43 Copynumber: 8.3 Consensus size: 43
47419509 ATGATATGTT
* * * * *
47419519 TTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * * *
47419561 TATAGCGGCATTTTTGATAAAAAGCACCGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCATGGTC
* * * **
47419605 TTTAGTGGCGTTTGTGACAAAAGCGCCACTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * *
47419648 TTTAGCAGCGTTTCTGAGAAAAACGCCGCTAAAGGCCATGGTA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
47419691 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* *
47419734 TTTAGCGGCGTTTGT-AGGAAAAACACCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
47419777 TATAGTGGCGTTTGTGAGGAAAGCGCCGCTAAAGGTCCTAGTA
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
* * **
47419820 TTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
47419863 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
47419876 ATTTCTAGAA
Statistics
Matches: 254, Mismatches: 57, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
42 14 0.06
43 221 0.87
44 19 0.07
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:47421803 original size:18 final size:18
Alignment explanation
Indices: 47421776--47421810 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47421766 AGCAAAAACC
*
47421776 TTAAAGAAAATGGAAGAA
1 TTAAAGAAAATAGAAGAA
*
47421794 TTAAATAAAATAGAAGA
1 TTAAAGAAAATAGAAGA
47421811 GAAGTAGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (18 bp):
TTAAAGAAAATAGAAGAA
Found at i:47425139 original size:38 final size:37
Alignment explanation
Indices: 47425069--47425141 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
47425059 TTTTCATAAT
* *
47425069 TTCACTTTTTTACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
47425106 TTCACTTTTTCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTTCACTTTT-AA-TCAATATTCAATTCAA
47425142 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.48
Consensus pattern (37 bp):
TTCACTTTTTCACTTTTAATCAATATTCAATTCAAAA
Found at i:47425172 original size:23 final size:22
Alignment explanation
Indices: 47425129--47425172 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
47425119 TTTCAAGTCA
47425129 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
47425152 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
47425173 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:47425330 original size:45 final size:45
Alignment explanation
Indices: 47425242--47425429 Score: 236
Period size: 45 Copynumber: 4.2 Consensus size: 45
47425232 AATAATAACA
* * * * *
47425242 GATACACGGTGG-ATCAGCACAGAGC-ACCACCCTTAGAGTCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
*
47425285 GATACTCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * *
47425330 GGTGCCCGGTGGAATTAGCACATAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
* * * *
47425375 GGTACCCGGTGGAATTAGCACATAGCAACCACCGTTACAATCAAT
1 GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
*
47425420 GATACTCGGT
1 GATACCCGGT
47425430 ACACGTAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 11 0.09
44 12 0.09
45 106 0.82
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
Found at i:47427701 original size:19 final size:20
Alignment explanation
Indices: 47427677--47427714 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
47427667 TATATAACCT
47427677 AATAAATAA-TGA-AAAAATA
1 AATAAA-AATTGATAAAAATA
47427696 AATAAAAATTGATAAAAAT
1 AATAAAAATTGATAAAAAT
47427715 TTTGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 9 0.53
20 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AATAAAAATTGATAAAAATA
Found at i:47428372 original size:86 final size:86
Alignment explanation
Indices: 47428207--47428372 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 86
47428197 ATATAATATA
* * *
47428207 AATAAATATTTAAGTTAAACCAAATGGAGAAATTGTTTAATTAATTTTTATTTAAATAATATTTA
1 AATAAATATTTAAGTTAAACCAAATAGAGAAATTATCTAATTAATTTTTATTTAAATAATATTTA
**
47428272 TCCAAAATTTAAAAATGAGAT
66 TCCAAAATCAAAAAATGAGAT
* * *
47428293 AATAAATATTTAAGTTAAATCAAATAGATAAA-TATCTAATTAGTTTTTATTTAAATAAATATTT
1 AATAAATATTTAAGTTAAACCAAATAGAGAAATTATCTAATTAATTTTTATTTAAAT-AATATTT
*
47428357 AT-CTAAATACAAAAAA
65 ATCCAAAAT-CAAAAAA
47428373 AAAAAAACAA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 26 0.38
86 43 0.62
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (86 bp):
AATAAATATTTAAGTTAAACCAAATAGAGAAATTATCTAATTAATTTTTATTTAAATAATATTTA
TCCAAAATCAAAAAATGAGAT
Found at i:47430801 original size:6 final size:6
Alignment explanation
Indices: 47430790--47430815 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47430780 GCTACTATTA
47430790 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
47430816 GAAAAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:47431348 original size:23 final size:22
Alignment explanation
Indices: 47431309--47431352 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
47431299 ATGTTTAAAA
47431309 ATAATATAAAAAATAATAATAC
1 ATAATATAAAAAATAATAATAC
*
47431331 ATAATATTAAAAACTAATAATA
1 ATAATA-TAAAAAATAATAATA
47431353 AAATTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAATATAAAAAATAATAATAC
Found at i:47435481 original size:19 final size:20
Alignment explanation
Indices: 47435437--47435481 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47435427 ATCATGTTCA
47435437 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
47435457 TA-TTTTATA-ATAA-TTAAT
1 TATTTTTA-ACATAATTTAAT
47435475 TATTTTT
1 TATTTTT
47435482 CTACAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:47438768 original size:19 final size:17
Alignment explanation
Indices: 47438739--47438787 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
47438729 AAATAATAGG
* *
47438739 AAAAGTAATAATACTAA
1 AAAAATAATAAAACTAA
*
47438756 GAAAATATAATAAAAGTAA
1 -AAAA-ATAATAAAACTAA
47438775 AAAAATAATAAAA
1 AAAAATAATAAAA
47438788 ATTGAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.33
18 8 0.30
19 10 0.37
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (17 bp):
AAAAATAATAAAACTAA
Found at i:47439872 original size:94 final size:94
Alignment explanation
Indices: 47439711--47439911 Score: 287
Period size: 94 Copynumber: 2.1 Consensus size: 94
47439701 TAAGGACACA
* *
47439711 CCCGTGTGTCCAGGTCGTGTGACCTACACGGCCATGTCTTCACACCATGTAACTCACTATAGAAC
1 CCCGTGTGTCCAGGTCGTGTGACCTACACGACCATGTCTTCACACCATATAACTCACTATAGAAC
* * *
47439776 ACTACC-TTGTGCACATGACTTGGGATATG
66 ACT-CCTTTGTGCACACGACCTGGGACATG
* * * * * *
47439805 CCCGTGTGTCCCGGTCTTGTGACTTACACGACCATGTCTTCACACCGTATAACTCATTGTAGAAC
1 CCCGTGTGTCCAGGTCGTGTGACCTACACGACCATGTCTTCACACCATATAACTCACTATAGAAC
47439870 ACTCCTTTGTGCACACGACCTGGGACATG
66 ACTCCTTTGTGCACACGACCTGGGACATG
47439899 CCCGTGTGTCCAG
1 CCCGTGTGTCCAG
47439912 CCACACAGCC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 2 0.02
94 92 0.98
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (94 bp):
CCCGTGTGTCCAGGTCGTGTGACCTACACGACCATGTCTTCACACCATATAACTCACTATAGAAC
ACTCCTTTGTGCACACGACCTGGGACATG
Found at i:47442836 original size:21 final size:22
Alignment explanation
Indices: 47442812--47442853 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
47442802 AAAACCTGCC
47442812 AGAA-GCAAACAA-AAAAAAATT
1 AGAATGCAAA-AATAAAAAAATT
*
47442833 AGAATGTAAAAATAAAAAAAT
1 AGAATGCAAAAATAAAAAAAT
47442854 AAAAAATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (22 bp):
AGAATGCAAAAATAAAAAAATT
Found at i:47446543 original size:68 final size:68
Alignment explanation
Indices: 47446431--47446561 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 68
47446421 TTTCACCATT
* * * * *
47446431 TCTATGGCCCATGTAATCACTTAGATTGGGATGTAACGTTTAGGCCCGGTTTGAGGGGTTACATT
1 TCTATAGCCCATGTAATCACTTAAATTGGGATGTAACGTCTAGGCACAGTTTGAGGGGTTACATT
47446496 TAG
66 TAG
* * *
47446499 TCTATAGCCTATGTAATCGCTTAAATTGGG-TCGTAATGTCTAGGCACAGTTTGAGGGGTTACA
1 TCTATAGCCCATGTAATCACTTAAATTGGGAT-GTAACGTCTAGGCACAGTTTGAGGGGTTACA
47446562 ACTTCTTTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
67 1 0.02
68 53 0.98
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (68 bp):
TCTATAGCCCATGTAATCACTTAAATTGGGATGTAACGTCTAGGCACAGTTTGAGGGGTTACATT
TAG
Found at i:47448243 original size:24 final size:24
Alignment explanation
Indices: 47448216--47448261 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
47448206 TTGCCAGTGA
47448216 ATTTATTTCCGATCATTGTTATGG
1 ATTTATTTCCGATCATTGTTATGG
*
47448240 ATTTATTTCCGATGATTGTTAT
1 ATTTATTTCCGATCATTGTTAT
47448262 AAAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (24 bp):
ATTTATTTCCGATCATTGTTATGG
Found at i:47449403 original size:24 final size:24
Alignment explanation
Indices: 47449374--47449423 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47449364 GAATGCCATT
47449374 TTTGAGTCCTTGAGTATTCGACCA
1 TTTGAGTCCTTGAGTATTCGACCA
47449398 TTTGAGTCCTTGAGTATTCGACCA
1 TTTGAGTCCTTGAGTATTCGACCA
47449422 TT
1 TT
47449424 CAGTTCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (24 bp):
TTTGAGTCCTTGAGTATTCGACCA
Found at i:47457337 original size:18 final size:18
Alignment explanation
Indices: 47457292--47457338 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
47457282 TGGTTTCTAA
* *
47457292 ATTGTTGCACATGAATGG
1 ATTGTTACATATGAATGG
47457310 ATTAGTTACATATGAATGG
1 ATT-GTTACATATGAATGG
47457329 ATTGTTACAT
1 ATTGTTACAT
47457339 GTTCAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (18 bp):
ATTGTTACATATGAATGG
Found at i:47458017 original size:69 final size:69
Alignment explanation
Indices: 47457906--47458565 Score: 935
Period size: 69 Copynumber: 9.7 Consensus size: 69
47457896 AGATTCAGCA
*
47457906 TCTTTAAAATGTGTTCATTTACGTTCTATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47457971 GTAG
66 GTAG
* * *
47457975 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTGTTGTAAAGGGCTGATAT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47458040 GTAG
66 GTAG
* * *
47458044 TCTTTAAAATGTGTTCATTTACATTCGTTTTAAATGCTTAAGGTGCTGCTGTAAAGGGCTGA-TT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47458108 GTAG
66 GTAG
* * * *
47458112 TATTTAAAATGTGTTAATCTACATTCGATTTAAATGCTTAATGTGCTAG-TGTAAAGGGCTGATT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCT-GCTGTAAAGGGCTGATT
47458176 TGTAG
65 TGTAG
* * *
47458181 TCTTTAAAATGTGTTCGTTTACGGTCGATTTAAGTGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47458246 GTAG
66 GTAG
* * * *
47458250 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGTTTAATGTGCTACTGCAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47458315 GTAG
66 GTAG
* * * *
47458319 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGTTTAATGTGCTACTGCAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47458384 GTAG
66 GTAG
* * *
47458388 TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTGATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
47458453 GTAT
66 GTAG
* * * * * *
47458457 TCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGTGTTGTTGTATAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
47458522 -TA-
66 GTAG
*
47458524 -----AAACTGTGTTCATTTACGTTC-ATTTTAAATGCTTAATGTGCT
1 TCTTTAAAATGTGTTCATTTACGTTCGA-TTTAAATGCTTAATGTGCT
47458566 TTCCAAAAAT
Statistics
Matches: 539, Mismatches: 48, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
61 1 0.00
62 35 0.06
68 63 0.12
69 440 0.82
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (69 bp):
TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
GTAG
Found at i:47458349 original size:35 final size:35
Alignment explanation
Indices: 47458241--47458349 Score: 82
Period size: 35 Copynumber: 3.1 Consensus size: 35
47458231 GTAAAGGGCT
47458241 GATTTGTAGTCTTTAAAATGTGTTGATTTACGTTC
1 GATTTGTAGTCTTTAAAATGTGTTGATTTACGTTC
* * * * ** * **
47458276 GATTT-AAATGTTT--AATGTGCT-ACTGCAAAGGGC
1 GATTTGTAGTCTTTAAAATGTGTTGA-T-TTACGTTC
47458309 TGATTTGTAGTCTTTAAAATGTGTTGATTTACGTTC
1 -GATTTGTAGTCTTTAAAATGTGTTGATTTACGTTC
47458345 GATTT
1 GATTT
47458350 AAATGTTTAA
Statistics
Matches: 49, Mismatches: 18, Indels: 14
0.60 0.22 0.17
Matches are distributed among these distances:
31 1 0.02
32 8 0.16
33 3 0.06
34 10 0.20
35 15 0.31
36 3 0.06
37 8 0.16
38 1 0.02
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (35 bp):
GATTTGTAGTCTTTAAAATGTGTTGATTTACGTTC
Found at i:47477493 original size:19 final size:20
Alignment explanation
Indices: 47477456--47477493 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47477446 TTGCTTTTAT
47477456 TCAAAAAAAAAACCGTTGAA
1 TCAAAAAAAAAACCGTTGAA
* *
47477476 TCAAGAAAATAACC-TTGA
1 TCAAAAAAAAAACCGTTGA
47477494 TGTATGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
TCAAAAAAAAAACCGTTGAA
Done.