Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 16 of 182
Found at i:5465998 original size:15 final size:16
Alignment explanation
Indices: 5465978--5466010 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5465968 ATGTTTTATA
5465978 GATTA-TTGGAAGCTC
1 GATTATTTGGAAGCTC
5465993 GATTATTTTGGAAGCTC
1 GATTA-TTTGGAAGCTC
5466010 G
1 G
5466011 TTAGAGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (16 bp):
GATTATTTGGAAGCTC
Found at i:5475203 original size:20 final size:21
Alignment explanation
Indices: 5475168--5475206 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5475158 CAGCTCGTTG
5475168 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
5475189 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
5475207 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:5480900 original size:32 final size:32
Alignment explanation
Indices: 5480864--5481001 Score: 107
Period size: 39 Copynumber: 3.9 Consensus size: 32
5480854 ATTTACATCG
* *
5480864 TAATCACATTTACATTTAAGCATATA-CACATA
1 TAATCACA-TAACATTCAAGCATATATCACATA
5480896 TAATCACATAACATTCAAGCATATATCACAATACTCA
1 TAATCACATAACATTCAAGCATATATCAC---A-T-A
* *
5480933 TAAAATGACATAACATTCAAGCATATTTCACAATACTCA
1 T--AATCACATAACATTCAAGCATATATCAC---A-T-A
*
5480972 TAATCACATAACATTCAAGTATATATCACA
1 TAATCACATAACATTCAAGCATATATCACA
5481002 ATACTCAAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
31 15 0.16
32 11 0.12
34 1 0.01
35 1 0.01
36 1 0.01
37 27 0.30
39 35 0.38
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.30
Consensus pattern (32 bp):
TAATCACATAACATTCAAGCATATATCACATA
Found at i:5480944 original size:39 final size:39
Alignment explanation
Indices: 5480887--5481012 Score: 186
Period size: 39 Copynumber: 3.3 Consensus size: 39
5480877 ATTTAAGCAT
* *
5480887 ATACACATATAATCACATAACATTCAAGCATATATCACA
1 ATACTCATAAAATCACATAACATTCAAGCATATATCACA
* *
5480926 ATACTCATAAAATGACATAACATTCAAGCATATTTCACA
1 ATACTCATAAAATCACATAACATTCAAGCATATATCACA
*
5480965 ATACTCAT--AATCACATAACATTCAAGTATATATCACA
1 ATACTCATAAAATCACATAACATTCAAGCATATATCACA
5481002 ATACTCA-AAAA
1 ATACTCATAAAA
5481013 CATGTTTAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
37 33 0.42
38 2 0.03
39 43 0.55
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.27
Consensus pattern (39 bp):
ATACTCATAAAATCACATAACATTCAAGCATATATCACA
Found at i:5480990 original size:37 final size:37
Alignment explanation
Indices: 5480895--5481008 Score: 183
Period size: 37 Copynumber: 3.0 Consensus size: 37
5480885 ATATACACAT
5480895 ATAATCACATAACATTCAAGCATATATCACAATACTC
1 ATAATCACATAACATTCAAGCATATATCACAATACTC
* *
5480932 ATAAAATGACATAACATTCAAGCATATTTCACAATACTC
1 AT--AATCACATAACATTCAAGCATATATCACAATACTC
*
5480971 ATAATCACATAACATTCAAGTATATATCACAATACTC
1 ATAATCACATAACATTCAAGCATATATCACAATACTC
5481008 A
1 A
5481009 AAAACATGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
37 35 0.50
39 35 0.50
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (37 bp):
ATAATCACATAACATTCAAGCATATATCACAATACTC
Found at i:5481641 original size:18 final size:18
Alignment explanation
Indices: 5481618--5481653 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5481608 TAGGTATGAG
5481618 AAAGCTAACACTCCGAAT
1 AAAGCTAACACTCCGAAT
*
5481636 AAAGCTTACACTCCGAAT
1 AAAGCTAACACTCCGAAT
5481654 TTAGAGTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (18 bp):
AAAGCTAACACTCCGAAT
Found at i:5504515 original size:17 final size:17
Alignment explanation
Indices: 5504493--5504536 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
5504483 TCTACTTTTT
5504493 TACCTTTTACGATTTCG
1 TACCTTTTACGATTTCG
5504510 TACCTTTTACGATTTCG
1 TACCTTTTACGATTTCG
5504527 TACCTTTTAC
1 TACCTTTTAC
5504537 TAAAGTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.09, T:0.48
Consensus pattern (17 bp):
TACCTTTTACGATTTCG
Found at i:5514891 original size:13 final size:13
Alignment explanation
Indices: 5514873--5514898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5514863 CGAAATAATA
5514873 ATTATAATAATTT
1 ATTATAATAATTT
5514886 ATTATAATAATTT
1 ATTATAATAATTT
5514899 TGGTAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:5515044 original size:16 final size:15
Alignment explanation
Indices: 5515015--5515048 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
5515005 TATTTAATTG
5515015 TCAAATTAAATTAAT
1 TCAAATTAAATTAAT
*
5515030 TCAATATTAATTTAAT
1 TCAA-ATTAAATTAAT
5515046 TCA
1 TCA
5515049 TGTGATAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
TCAAATTAAATTAAT
Found at i:5519645 original size:28 final size:28
Alignment explanation
Indices: 5519613--5519668 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5519603 AACCTTATAA
5519613 ATATCTCAAAATATAGAACTCCTTTGCT
1 ATATCTCAAAATATAGAACTCCTTTGCT
5519641 ATATCTCAAAATATAGAACTCCTTTGCT
1 ATATCTCAAAATATAGAACTCCTTTGCT
5519669 TTTTATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (28 bp):
ATATCTCAAAATATAGAACTCCTTTGCT
Found at i:5519933 original size:352 final size:352
Alignment explanation
Indices: 5519289--5519961 Score: 1328
Period size: 352 Copynumber: 1.9 Consensus size: 352
5519279 AAAAACATAA
5519289 ATATCTCAAAATATAGAACTCCTTTGCTTTTTATGTTTCTCTTATATGAAAATAGACTCATTAAG
1 ATATCTCAAAATATAGAACTCCTTTGCTTTTTATGTTTCTCTTATATGAAAATAGACTCATTAAG
5519354 ATTTAATATGATATCTCATTTAGTCTCTGATTCAATTTATACTATTTTTGGTGATTTTTCAAAAT
66 ATTTAATATGATATCTCATTTAGTCTCTGATTCAATTTATACTATTTTTGGTGATTTTTCAAAAT
5519419 CACGTCACTGCTACTCTCCAAAACAGTTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATT
131 CACGTCACTGCTACTCTCCAAAACAGTTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATT
*
5519484 AACCTCATTTTAACATACATATCACAAATCATTTTCACCACATTTCATACATCACAAGTATAGGC
196 AACCTCATTTTAACATACATATCACAAATCATTTTCACCACATTTCATACATCAAAAGTATAGGC
5519549 CCATGATCACAAGGTCACCATAAAATCATCCTCATGTATAACTTACTTGTTTATAACCTTATAAA
261 CCATGATCACAAGGTCACCATAAAATCATCCTCATGTATAACTTACTTGTTTATAACCTTATAAA
5519614 TATCTCAAAATATAGAACTCCTTTGCT
326 TATCTCAAAATATAGAACTCCTTTGCT
*
5519641 ATATCTCAAAATATAGAACTCCTTTGCTTTTTATGTTTCTCTTATATGAAAATAGACTTATTAAG
1 ATATCTCAAAATATAGAACTCCTTTGCTTTTTATGTTTCTCTTATATGAAAATAGACTCATTAAG
5519706 ATTTAATATGATATCTCATTTAGTCTCTGATTCAATTTATACTATTTTTGGTGATTTTTCAAAAT
66 ATTTAATATGATATCTCATTTAGTCTCTGATTCAATTTATACTATTTTTGGTGATTTTTCAAAAT
5519771 CACGTCACTGCTACTCTCCAAAACAGTTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATT
131 CACGTCACTGCTACTCTCCAAAACAGTTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATT
5519836 AACCTCATTTTAACATACATATCACAAATCATTTTCACCACATTTCATACATCAAAAGTATAGGC
196 AACCTCATTTTAACATACATATCACAAATCATTTTCACCACATTTCATACATCAAAAGTATAGGC
5519901 CCATGATCACAAGGTCACCATAAAATCATCCTCATGTATAACTTACTTGTTTATAACCTTA
261 CCATGATCACAAGGTCACCATAAAATCATCCTCATGTATAACTTACTTGTTTATAACCTTA
5519962 CCACATCCTG
Statistics
Matches: 319, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 319 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.40
Consensus pattern (352 bp):
ATATCTCAAAATATAGAACTCCTTTGCTTTTTATGTTTCTCTTATATGAAAATAGACTCATTAAG
ATTTAATATGATATCTCATTTAGTCTCTGATTCAATTTATACTATTTTTGGTGATTTTTCAAAAT
CACGTCACTGCTACTCTCCAAAACAGTTTTATTGCTAATTCACTCTTTCACACTTTCTTTGTATT
AACCTCATTTTAACATACATATCACAAATCATTTTCACCACATTTCATACATCAAAAGTATAGGC
CCATGATCACAAGGTCACCATAAAATCATCCTCATGTATAACTTACTTGTTTATAACCTTATAAA
TATCTCAAAATATAGAACTCCTTTGCT
Found at i:5523319 original size:46 final size:46
Alignment explanation
Indices: 5523269--5523537 Score: 275
Period size: 46 Copynumber: 5.8 Consensus size: 46
5523259 TGGTTGAGCA
5523269 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
5523315 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
5523360 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
5523408 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
5523453 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5523501 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5523538 GCGGGTTACA
Statistics
Matches: 183, Mismatches: 22, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 89 0.49
47 55 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:5523425 original size:93 final size:93
Alignment explanation
Indices: 5523266--5523530 Score: 485
Period size: 93 Copynumber: 2.8 Consensus size: 93
5523256 GGATGGTTGA
5523266 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
5523331 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
5523359 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
5523424 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
5523452 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
5523517 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
5523531 CTTATGGGCG
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5529443 original size:32 final size:31
Alignment explanation
Indices: 5529405--5529473 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 31
5529395 TCTTTCCCTA
5529405 ATATAAGTTCGAATTTCACTTTTCTTGATCT
1 ATATAAGTTCGAATTTCACTTTTCTTGATCT
*
5529436 ATNATAAGTTCGTATTTCACTTTTCTTGATCT
1 AT-ATAAGTTCGAATTTCACTTTTCTTGATCT
5529468 ATATAA
1 ATATAA
5529474 TATAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 6 0.17
32 30 0.83
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.48
Consensus pattern (31 bp):
ATATAAGTTCGAATTTCACTTTTCTTGATCT
Found at i:5539125 original size:49 final size:49
Alignment explanation
Indices: 5538881--5539236 Score: 253
Period size: 49 Copynumber: 7.5 Consensus size: 49
5538871 TGTGCTAGTA
* *
5538881 TAAGACATGTCTGGGACAT-GCATCGGCCA-C-AT-TATGAGAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATC-GACATCGATATATGAGAGCCAGTG
* * * * *
5538927 TAAGACATGTCTGGGACAT-GCATC-AGCATTG--AGACGAGAGCCAGTT
1 TAAGACCTGTCTGGGACATGGCATCGA-CATCGATATATGAGAGCCAGTG
* * * * *
5538973 TAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCA-AGCTAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACATCGATATATG-AGAGCCAGTG
* * * * * * *
5539021 TAAGATCTATCTGGGACATGGCATCGGC-TTG--ACAT--GTGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAGAGCCAGTG
*
5539065 TAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAGAGCCAGTG
* * * * *
5539114 TAAGACCTGTCTCGGACATGGCATC-AGCTTCGATACATGAAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGA-CATCGATATATGAGAGCCAGTG
* * * *
5539163 TAAGACCTGTCTAGGACATGCCATCGACTTAGATATAT--GAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAGAGCCAGTG
* * *
5539210 TAAGACCTTGTTTGGAACATGGGATCG
1 TAAGACC-TGTCTGGGACATGGCATCG
5539237 GCATTGTACC
Statistics
Matches: 249, Mismatches: 43, Indels: 34
0.76 0.13 0.10
Matches are distributed among these distances:
44 30 0.12
45 4 0.02
46 65 0.26
47 17 0.07
48 42 0.17
49 90 0.36
50 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGACATCGATATATGAGAGCCAGTG
Found at i:5539188 original size:98 final size:94
Alignment explanation
Indices: 5538881--5539231 Score: 337
Period size: 92 Copynumber: 3.7 Consensus size: 94
5538871 TGTGCTAGTA
* * *
5538881 TAAGACATGTCTGGGACATGCATCGGCCA-C-AT-TATGAGAGCCAGTGTAAGACATGTCTGGGA
1 TAAGACCTGTCTGGGACATGCATC-GACATCGATATATGAGAGCCAGTGTAAGACCTGTCTGGGA
* *
5538943 CAT-GCATCAGCATTGAGAC--GAGAGCCAGTT
65 CATGGCATCAGC-TTGA-ACATGA-AGTCAGTG
* * * * * * *
5538973 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCA-AGCTAGTGTAAGATCTATCTGGGA
1 TAAGACCTGTCTGGGACATGCATCGACATCGATATATG-AGAGCCAGTGTAAGACCTGTCTGGGA
* *
5539037 CATGGCATCGGCTTG-ACATG-TGTCAGTG
65 CATGGCATCAGCTTGAACATGAAGTCAGTG
* *
5539065 TAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAGACCTGTCTCGGA
1 TAAGACCTGTCTGGGACAT-GCATCGACATCGATATATGAGAGCCAGTGTAAGACCTGTCTGGGA
5539130 CATGGCATCAGCTTCGATACATGAAAGTCAGTG
65 CATGGCATCAGCTT-GA-ACATG-AAGTCAGTG
* * * * *
5539163 TAAGACCTGTCTAGGACATGCCATCGACTTAGATATAT--GAGCCAGTGTAAGACCTTGTTTGGA
1 TAAGACCTGTCTGGGACATG-CATCGACATCGATATATGAGAGCCAGTGTAAGACC-TGTCTGGG
5539226 ACATGG
64 ACATGG
5539232 GATCGGCATT
Statistics
Matches: 214, Mismatches: 29, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
91 2 0.01
92 51 0.24
93 49 0.23
94 32 0.15
95 8 0.04
96 21 0.10
97 12 0.06
98 39 0.18
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
TAAGACCTGTCTGGGACATGCATCGACATCGATATATGAGAGCCAGTGTAAGACCTGTCTGGGAC
ATGGCATCAGCTTGAACATGAAGTCAGTG
Found at i:5547959 original size:43 final size:43
Alignment explanation
Indices: 5547912--5548067 Score: 185
Period size: 40 Copynumber: 3.6 Consensus size: 43
5547902 TTTATGTGAA
*
5547912 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTACCCAC
* *
5547955 AAACGCCGCTAAAGATCATGACCTTT-A--GCGCTTTTA-TCAC
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGC-TTTACCCAC
* * *
5547995 AAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTACACATCAA
1 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTAC-C--CAC
*
5548041 AAACGCCGCTAAAGATCATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
5548068 GTAACTTTTA
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
40 31 0.33
41 4 0.04
42 5 0.05
43 28 0.29
46 27 0.28
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTACCCAC
Found at i:5549021 original size:143 final size:143
Alignment explanation
Indices: 5548762--5549038 Score: 527
Period size: 143 Copynumber: 1.9 Consensus size: 143
5548752 AATTGAACAT
*
5548762 AAGAATTTAGAGTGGTTGGGCCTCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
1 AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
5548827 TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
66 TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
5548892 TTTCACCATACAC
131 TTTCACCATACAC
5548905 AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
1 AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
* *
5548970 TTTTCTAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAATCTTACAACTCCCTTAAGA
66 TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
5549035 TTTC
131 TTTC
5549039 TACCCAAATC
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 131 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (143 bp):
AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
TTTCACCATACAC
Found at i:5550292 original size:2 final size:2
Alignment explanation
Indices: 5550285--5550317 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5550275 GTTTGGAGGA
*
5550285 GT GT GT GT GT GT GT GT GT GT GT GT GT GT TT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
5550318 AGATTCGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
GT
Found at i:5558513 original size:87 final size:86
Alignment explanation
Indices: 5558350--5558520 Score: 288
Period size: 87 Copynumber: 2.0 Consensus size: 86
5558340 CCATGTGCTA
*
5558350 TGTATTTTGATATTTAAAGGAGGAATATGAATGTTTTTTTTGTGTTAAACGACTTTTACTAAGTA
1 TGTATTTTGATATTTAAAGGAGGAATATGAATGTTTTTTGTGTGTTAAACGACTTTTACTAAGTA
*
5558415 GTTTTCGGTGAAAACGCTATG
66 GTTTTCAGTGAAAACGCTATG
* * *
5558436 TGTATTTTGATGTTTAAGGGAGGAATATGAATGTTTTGTTGTGTGTTAAACGGCTTTTACTAAGT
1 TGTATTTTGATATTTAAAGGAGGAATATGAATGTTTT-TTGTGTGTTAAACGACTTTTACTAAGT
5558501 AGTTTTCAGTGAAAACGCTA
65 AGTTTTCAGTGAAAACGCTA
5558521 AGAAGGACTA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 35 0.44
87 44 0.56
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (86 bp):
TGTATTTTGATATTTAAAGGAGGAATATGAATGTTTTTTGTGTGTTAAACGACTTTTACTAAGTA
GTTTTCAGTGAAAACGCTATG
Found at i:5564817 original size:48 final size:48
Alignment explanation
Indices: 5564763--5564935 Score: 199
Period size: 48 Copynumber: 3.6 Consensus size: 48
5564753 ATCGTAATGA
*
5564763 CATGTAAGACCATAGCTGAGACATGGCATTGGCATC-AGTATATGATCC
1 CATGTAAGACCATAGCTGGGACATGGCATTGGCATCGA-TATATGATCC
* *
5564811 CATGTAACACCAT-GTCTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATAG-CTGGGACATGGCATTGGCATCGATATATGATCC
* * * * * **
5564859 CATGTAAGACCATATCTGGGATATGGCGTTGGCATCGATATGTAATTT
1 CATGTAAGACCATAGCTGGGACATGGCATTGGCATCGATATATGATCC
*
5564907 CGTGTAAGACCAT-GTCTGGGACATGGCAT
1 CATGTAAGACCATAG-CTGGGACATGGCAT
5564936 CGATATGAGA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
47 1 0.01
48 105 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
CATGTAAGACCATAGCTGGGACATGGCATTGGCATCGATATATGATCC
Found at i:5567304 original size:23 final size:23
Alignment explanation
Indices: 5567274--5567320 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5567264 TGTGATTTTG
5567274 TGAAGTTTTGTAAAAGTGTTTCA
1 TGAAGTTTTGTAAAAGTGTTTCA
5567297 TGAAGTTTTGTAAAAGTGTTTCA
1 TGAAGTTTTGTAAAAGTGTTTCA
5567320 T
1 T
5567321 TATAGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (23 bp):
TGAAGTTTTGTAAAAGTGTTTCA
Found at i:5568823 original size:21 final size:20
Alignment explanation
Indices: 5568797--5568837 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
5568787 CTATGAGTAA
5568797 GCAGGAATGTACATAAGCCT
1 GCAGGAATGTACATAAGCCT
*
5568817 NGCAGGAATGTACGTAAGCCT
1 -GCAGGAATGTACATAAGCCT
5568838 ATAATTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (20 bp):
GCAGGAATGTACATAAGCCT
Found at i:5571188 original size:54 final size:54
Alignment explanation
Indices: 5571106--5571213 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
5571096 GCTAACATGG
*
5571106 GAATTGGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
1 GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
5571160 GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
1 GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
5571214 AAAAGTGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.36, T:0.24
Consensus pattern (54 bp):
GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
Found at i:5572163 original size:22 final size:22
Alignment explanation
Indices: 5572138--5572184 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
5572128 GTTGCTGCAA
* *
5572138 TGTCTACGGTGTTGAGCGC-TCC
1 TGTCTACAGCGTTGAGC-CATCC
5572160 TGTCTACAGCGTTGAGCCATCC
1 TGTCTACAGCGTTGAGCCATCC
5572182 TGT
1 TGT
5572185 TGACTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.32
Consensus pattern (22 bp):
TGTCTACAGCGTTGAGCCATCC
Found at i:5575124 original size:10 final size:10
Alignment explanation
Indices: 5575109--5575149 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
5575099 CTAATGTTAT
5575109 AAAAGAAAAA
1 AAAAGAAAAA
5575119 AAAAGAAAAA
1 AAAAGAAAAA
5575129 AAGAAGAAAACA
1 AA-AAGAAAA-A
*
5575141 GAAAGAAAA
1 AAAAGAAAA
5575150 GAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:5575132 original size:18 final size:18
Alignment explanation
Indices: 5575109--5575174 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
5575099 CTAATGTTAT
5575109 AAAAGAAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
* *
5575127 AAAAGAAGAAAACAGAAA
1 AAAAGAAAAAAAAAGAAA
5575145 GAAAAGAATAATAATAAAGAAA
1 -AAAAGAA-AA-AA-AAAGAAA
5575167 AAGAAGAA
1 AA-AAGAA
5575175 GACAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 16 0.41
19 7 0.18
20 1 0.03
21 4 0.10
22 11 0.28
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAAAAAGAAA
Found at i:5575149 original size:19 final size:19
Alignment explanation
Indices: 5575109--5575187 Score: 65
Period size: 18 Copynumber: 4.3 Consensus size: 19
5575099 CTAATGTTAT
* *
5575109 AAAAGAAAAAAAAAGAAA-
1 AAAAGAAGAAAACAGAAAG
5575127 AAAAGAAGAAAACAGAAAG
1 AAAAGAAGAAAACAGAAAG
* * *
5575146 AAAAGAATAATA-ATAAAG
1 AAAAGAAGAAAACAGAAAG
* *
5575164 AAAAAGAAGAAGACA-AAAA
1 -AAAAGAAGAAAACAGAAAG
5575183 AAAAG
1 AAAAG
5575188 TACAAATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
18 26 0.52
19 23 0.46
20 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (19 bp):
AAAAGAAGAAAACAGAAAG
Found at i:5575974 original size:43 final size:42
Alignment explanation
Indices: 5575894--5575975 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
5575884 GATAATCCTA
***
5575894 GAAAAAAAATTTAAAAAGAGGAGAAGATAATTTTGGGTTGTT
1 GAAAAAAAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
5575936 GAAAAAATAATTTAAAAAGAGGAGAAGATAAACATGGGTT
1 GAAAAAA-AATTTAAAAAGAGGAGAAGATAAACATGGGTT
5575976 ATTGGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.51, C:0.01, G:0.23, T:0.24
Consensus pattern (42 bp):
GAAAAAAAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
Found at i:5581186 original size:20 final size:20
Alignment explanation
Indices: 5581157--5581201 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
5581147 AGCACATGTA
*
5581157 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
5581177 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTTACAATTT
5581197 TTCAT
1 TTCAT
5581202 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:5591210 original size:36 final size:36
Alignment explanation
Indices: 5591154--5591225 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
5591144 GCCACGAAAG
5591154 AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
1 AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
* * *
5591190 AAAGTTCACCGGTTTGGCAGTAAAGGCAAACTAACT
1 AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
5591226 CTATGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (36 bp):
AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
Found at i:5593037 original size:24 final size:24
Alignment explanation
Indices: 5593005--5593064 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
5592995 AACCCATATC
5593005 CATCGTCGAAACAGGGTTTCAGAG
1 CATCGTCGAAACAGGGTTTCAGAG
*
5593029 CATCGTCGAAACAGGGTTTCGGAG
1 CATCGTCGAAACAGGGTTTCAGAG
*
5593053 CATTGTCGAAAC
1 CATCGTCGAAAC
5593065 TTTCAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (24 bp):
CATCGTCGAAACAGGGTTTCAGAG
Found at i:5595520 original size:32 final size:32
Alignment explanation
Indices: 5595484--5595547 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
5595474 GTTGAAGATG
5595484 ACAAAATAAGATGATATTTTCTTTTTATCATC
1 ACAAAATAAGATGATATTTTCTTTTTATCATC
5595516 ACAAAATAAGATGATATTTTCTTTTTATCATC
1 ACAAAATAAGATGATATTTTCTTTTTATCATC
5595548 TTTTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (32 bp):
ACAAAATAAGATGATATTTTCTTTTTATCATC
Found at i:5612075 original size:46 final size:48
Alignment explanation
Indices: 5612000--5612113 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
5611990 ACAGGATAGA
*
5612000 AATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGAGACAGG
* *
5612046 AATGAGCCATGTAAG-CCGATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCC-ATATTACAGATATATGGCATTGGAGACAGG
* **
5612094 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
5612114 GTCGAAGACA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
45 2 0.03
46 18 0.31
47 1 0.02
48 35 0.60
49 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (48 bp):
AATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGAGACAGG
Found at i:5614004 original size:18 final size:18
Alignment explanation
Indices: 5613983--5614043 Score: 122
Period size: 18 Copynumber: 3.4 Consensus size: 18
5613973 GTGTTTCAGG
5613983 GAAAACCTTGTTTTCATT
1 GAAAACCTTGTTTTCATT
5614001 GAAAACCTTGTTTTCATT
1 GAAAACCTTGTTTTCATT
5614019 GAAAACCTTGTTTTCATT
1 GAAAACCTTGTTTTCATT
5614037 GAAAACC
1 GAAAACC
5614044 CTTCCTCAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (18 bp):
GAAAACCTTGTTTTCATT
Found at i:5615210 original size:29 final size:29
Alignment explanation
Indices: 5615168--5615255 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
5615158 CTATTTTCAC
*
5615168 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCCTTTAGGCCCAAATCACATTTAT
*
5615197 ATGGCCCTTTAGGCCCAAATCACATTTGT
1 ATGGCCCTTTAGGCCCAAATCACATTTAT
* *
5615226 GTGGCCCTTTAGGCCTAAATCACA-TTAT
1 ATGGCCCTTTAGGCCCAAATCACATTTAT
5615254 AT
1 AT
5615256 TCATGCTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 4 0.08
29 49 0.92
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
ATGGCCCTTTAGGCCCAAATCACATTTAT
Found at i:5615499 original size:16 final size:16
Alignment explanation
Indices: 5615467--5615509 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
5615457 ATCGCCAAAC
*
5615467 TTTCGGCATTTCAGCA
1 TTTCGGCTTTTCAGCA
*
5615483 -TTCTGGCTTTTCGGCA
1 TTTC-GGCTTTTCAGCA
5615499 TTTCGGCTTTT
1 TTTCGGCTTTT
5615510 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:5617515 original size:22 final size:22
Alignment explanation
Indices: 5617490--5617534 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5617480 TAACATTAAC
5617490 ATGTCTAGAAGGAATATATTAT
1 ATGTCTAGAAGGAATATATTAT
* *
5617512 ATGTCTAGGAGGCATATATTAT
1 ATGTCTAGAAGGAATATATTAT
5617534 A
1 A
5617535 ATCTAGCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (22 bp):
ATGTCTAGAAGGAATATATTAT
Found at i:5628590 original size:19 final size:19
Alignment explanation
Indices: 5628568--5628607 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5628558 TGATTTCATT
*
5628568 ATTGTGCAAAAATTTTGTG
1 ATTGTGCAAAAATTTCGTG
*
5628587 ATTGTGCGAAAATTTCGTG
1 ATTGTGCAAAAATTTCGTG
5628606 AT
1 AT
5628608 GAAATCCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (19 bp):
ATTGTGCAAAAATTTCGTG
Found at i:5634468 original size:27 final size:27
Alignment explanation
Indices: 5634430--5634483 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
5634420 ATGGAATCCT
*
5634430 TACTGAGTCTATTTTTGTGAAAAACAA
1 TACTGAGTCTATTTTTATGAAAAACAA
*
5634457 TACTGAGTCTATTTTTATGAGAAACAA
1 TACTGAGTCTATTTTTATGAAAAACAA
5634484 ATGACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (27 bp):
TACTGAGTCTATTTTTATGAAAAACAA
Found at i:5648156 original size:13 final size:13
Alignment explanation
Indices: 5648138--5648214 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 13
5648128 AGTTCTTCAT
5648138 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
5648151 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
5648164 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
5648177 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
5648190 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
5648203 TGCTTTGGAAAA
1 TGCTTTTGAAAA
5648215 TTTAAGTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:5648196 original size:39 final size:39
Alignment explanation
Indices: 5648140--5648214 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
5648130 TTCTTCATTG
*
5648140 CTTTTGAAAAGTGCTTTTGAAAAGTGCTGTGGAAAAGTA
1 CTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAAGTA
* * *
5648179 CTTTTGAGAAGTACTTTTGAGAAGTGCTTTGGAAAA
1 CTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAA
5648215 TTTAAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (39 bp):
CTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAAGTA
Found at i:5666040 original size:45 final size:45
Alignment explanation
Indices: 5665976--5666074 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
5665966 ATGTGCCGAC
** **
5665976 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGA
1 TACTGTTACCATTACCGATTCAACACTTTGTGTGTCGAATACTGA
* * *
5666021 TACTGTTACCATTATCGATTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACCATTACCGATTCAACACTTTGTGTGTCGAATACTGA
5666066 TACTGTTAC
1 TACTGTTAC
5666075 TGTTTCGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (45 bp):
TACTGTTACCATTACCGATTCAACACTTTGTGTGTCGAATACTGA
Found at i:5666257 original size:18 final size:18
Alignment explanation
Indices: 5666228--5666294 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
5666218 TAATATCGAC
5666228 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
5666246 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
5666264 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
5666282 TGTTACTGAATAA
1 TGTTACTGAATAA
5666295 ATAATCGTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:5676013 original size:96 final size:96
Alignment explanation
Indices: 5675849--5676132 Score: 356
Period size: 96 Copynumber: 3.0 Consensus size: 96
5675839 GACATTTGGG
* **
5675849 TGATATGTGTA-CTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATCATGAGAGTGAGT
1 TGATATGTG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGT
*
5675913 GTAAGACCATGTCTGGGACATGGCATCGATGT
65 GTAAGACCATGTCTGGGACATGGCATCGATAT
* * * *
5675945 TGATATGTGCGCTAGTGTAAGACTATGTCTAGGACATGGCATCGGCCACATCATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
* *
5676010 TAAGACCATGTTTGGGACATGGCATCGGTAT
66 TAAGACCATGTCTGGGACATGGCATCGATAT
* * * ** * *
5676041 TGAGACGGGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACC-TTTACATGTGAGCCATT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAT-CATGAGAGCCAGT
* * *
5676105 ATAAGACCATATCTTGGACATGGCATCG
65 GTAAGACCATGTCTGGGACATGGCATCG
5676133 GCAATTTACT
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 160 0.99
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGATAT
Found at i:5676036 original size:48 final size:48
Alignment explanation
Indices: 5675862--5676134 Score: 225
Period size: 48 Copynumber: 5.7 Consensus size: 48
5675852 TATGTGTACT
** **
5675862 AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATCATGAGAGTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
*** * * *
5675910 AGTGTAAGACCATGTCTGGGACATGGCATCGATG-TTGAT-ATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG--GCCACATCATGAGAGCC
* *
5675958 AGTGTAAGACTATGTCTAGGACATGGCATCGGCCACATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
* * * * *
5676006 AGTGTAAGACCATGTTTGGGACATGGCATCGG-TA-TTGA-GACGGGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGA---GAGCC
* ** *
5676054 AGTGTAAGACCATGTCTGGGACATGGCATCGACC-TTTACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-CATGAGAGCC
* * * *
5676102 ATTATAAGACCATATCTTGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
5676135 AATTTACTCT
Statistics
Matches: 179, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.01
46 3 0.02
47 3 0.02
48 165 0.92
49 4 0.02
50 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
Found at i:5676647 original size:24 final size:24
Alignment explanation
Indices: 5676620--5676717 Score: 160
Period size: 24 Copynumber: 4.0 Consensus size: 24
5676610 AAGGCTGTCA
5676620 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
5676644 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
5676668 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
5676692 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
5676717 G
1 G
5676718 AGCGGGAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 66 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:5678416 original size:33 final size:34
Alignment explanation
Indices: 5678336--5678417 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 34
5678326 CTATGGGCCG
5678336 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
1 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
* * **
5678370 TATTGTGATCTGAA-AA-GGGCTCTGGCCCAGTT
1 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
*
5678402 TCACTGTTAACTGAAT
1 T-ACTGTTATCTGAAT
5678418 GGGCTTAGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 15 0.38
33 12 0.31
34 12 0.31
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (34 bp):
TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTT
Found at i:5684689 original size:101 final size:101
Alignment explanation
Indices: 5684567--5684755 Score: 351
Period size: 101 Copynumber: 1.9 Consensus size: 101
5684557 TATTCATACA
* *
5684567 CAGGGGATCAAACCTAACTAAAGGTCGGAAGTTGTTAATCAATAGAGCGCATACTATCTGAAAAG
1 CAGGGGATCAAACCTAACTAAAGGCCGGAAGTTGTTAATCAATAGAGCGCATACTATCTAAAAAG
5684632 AAATTAACTTTTCCGATGCATATACGAAACATACCT
66 AAATTAACTTTTCCGATGCATATACGAAACATACCT
*
5684668 CAGGGGATCAAACCTAACTAAAGGCCGGAAGTTGTTAATCAATAGAGTGCATACTATCTAAAAAG
1 CAGGGGATCAAACCTAACTAAAGGCCGGAAGTTGTTAATCAATAGAGCGCATACTATCTAAAAAG
5684733 AAATTAACTTTTCCGATGCATAT
66 AAATTAACTTTTCCGATGCATAT
5684756 TAAACATACC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 85 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (101 bp):
CAGGGGATCAAACCTAACTAAAGGCCGGAAGTTGTTAATCAATAGAGCGCATACTATCTAAAAAG
AAATTAACTTTTCCGATGCATATACGAAACATACCT
Found at i:5684912 original size:40 final size:40
Alignment explanation
Indices: 5684838--5685659 Score: 1423
Period size: 40 Copynumber: 20.6 Consensus size: 40
5684828 AACCCAAGTA
* *
5684838 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
5684877 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5684917 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5684957 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5684997 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685037 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685077 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685117 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685157 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685197 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685237 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685277 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685317 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685357 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685397 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685437 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685477 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685517 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685557 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
5685597 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5685637 CCTTCGGGACTTAGCGCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
5685660 CATTCGAATA
Statistics
Matches: 740, Mismatches: 41, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
39 12 0.02
40 725 0.98
41 3 0.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:5684970 original size:80 final size:80
Alignment explanation
Indices: 5684838--5685659 Score: 1576
Period size: 80 Copynumber: 10.3 Consensus size: 80
5684828 AACCCAAGTA
* * *
5684838 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
5684901 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
5684917 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5684982 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5684997 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685062 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685077 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685142 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685157 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685222 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685237 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685302 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685317 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685382 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685397 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685462 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685477 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
5685542 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
5685557 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
5685622 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
*
5685637 CCTTCGGGACTTAGCGCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
5685660 CATTCGAATA
Statistics
Matches: 736, Mismatches: 5, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
79 13 0.02
80 722 0.98
81 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:5686831 original size:101 final size:101
Alignment explanation
Indices: 5686656--5686858 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
5686646 ATTAAACAAC
*
5686656 TACATGTTCGGCTACTACCATAGGTGTATTAGAAATTTATACTATCAATAAGCTCAACTCCTTAG
1 TACATGTTCGGCTACTACCATAGGTGCATTAGAAATTTATACTATCAATAAGCTCAACTCCTTAG
*
5686721 CTCCTAATCGGTACACTAAGACCATCTTAACTTATT
66 CTCCTAATCGGAACACTAAGACCATCTTAACTTATT
*
5686757 TACATGTTCGGCTATTACCATAGGTGCATTAGAAATTTATACTATCAATAAGCTCAACTCCTTAG
1 TACATGTTCGGCTACTACCATAGGTGCATTAGAAATTTATACTATCAATAAGCTCAACTCCTTAG
5686822 CTCCTAATCGGAACACTAAGACCATCTTAACTTATT
66 CTCCTAATCGGAACACTAAGACCATCTTAACTTATT
5686858 T
1 T
5686859 CTCATCTTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (101 bp):
TACATGTTCGGCTACTACCATAGGTGCATTAGAAATTTATACTATCAATAAGCTCAACTCCTTAG
CTCCTAATCGGAACACTAAGACCATCTTAACTTATT
Found at i:5694063 original size:40 final size:40
Alignment explanation
Indices: 5693989--5694890 Score: 1493
Period size: 40 Copynumber: 22.6 Consensus size: 40
5693979 AACCCAAGTA
* *
5693989 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
5694028 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694068 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694108 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694148 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694188 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694228 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694268 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694308 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694348 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694388 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694428 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694468 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694508 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694548 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694588 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694628 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694668 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694708 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5694748 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5694788 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
5694828 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
5694868 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
5694891 CATTCGAATA
Statistics
Matches: 799, Mismatches: 62, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
39 12 0.02
40 784 0.98
41 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:5694121 original size:80 final size:80
Alignment explanation
Indices: 5693989--5694890 Score: 1718
Period size: 80 Copynumber: 11.3 Consensus size: 80
5693979 AACCCAAGTA
* * * *
5693989 CCTTCGGGATTTAGCC-GGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCTGGATATAGTCAA-TAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
*
5694052 GTCAATAGCACAAATG
65 GTCACTAGCACAAATG
5694068 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694133 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694148 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694213 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694228 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694293 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694308 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694373 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694388 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694453 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694468 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694533 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694548 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694613 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694628 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694693 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694708 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
5694773 TCACTAGCACAAATG
66 TCACTAGCACAAATG
5694788 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
*
5694853 TCAATAGCACAAATG
66 TCACTAGCACAAATG
*
5694868 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCTGGATAT
5694891 CATTCGAATA
Statistics
Matches: 814, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
79 15 0.02
80 796 0.98
81 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCTGGATATAGTCAATAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:5698579 original size:40 final size:40
Alignment explanation
Indices: 5698535--5698686 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 40
5698525 GGATATAGCT
* * * *
5698535 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
5698575 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
5698615 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
5698655 GCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
5698687 TTATCATCGA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 99 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:5703112 original size:34 final size:34
Alignment explanation
Indices: 5703074--5703142 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
5703064 GTAACAATCT
*
5703074 AGTATCAGTGTGGGCCCTAGCCCATTACAATAAC
1 AGTATCAGTGTGCGCCCTAGCCCATTACAATAAC
* *
5703108 AGTATCAGTGTGCGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGTGCGCCCTAGCCCATTACAATAAC
5703142 A
1 A
5703143 ATAATAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (34 bp):
AGTATCAGTGTGCGCCCTAGCCCATTACAATAAC
Found at i:5713837 original size:17 final size:19
Alignment explanation
Indices: 5713801--5713837 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
5713791 AAAGCCCATA
5713801 ACACGACCCATGTGGGCCC
1 ACACGACCCATGTGGGCCC
*
5713820 ACACG-CCCGTGT-GGCCC
1 ACACGACCCATGTGGGCCC
5713837 A
1 A
5713838 TTAATCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.19, C:0.43, G:0.27, T:0.11
Consensus pattern (19 bp):
ACACGACCCATGTGGGCCC
Found at i:5716281 original size:43 final size:42
Alignment explanation
Indices: 5716203--5716316 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
5716193 ATCTCGTACA
***
5716203 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
* * *
5716246 ATGCCACTGTCCTAGACAG-GGTCTTACACAAAATCAAGTACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACAAAATCAAATACG
** *
5716288 ATGCCAACATCCCAGATGTGGTCTTACAC
1 ATGCCAATGTCCCAGACGTGGTCTTACAC
5716317 GATAACACAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.55
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:5719001 original size:48 final size:47
Alignment explanation
Indices: 5718930--5719058 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 47
5718920 TGTGTGATAG
* *
5718930 TGTAAGACCATGTCTGGGACATGGCATCGGCAACATCATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAACA-CACGAAAGCCAA
* ** * * *
5718978 TGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAAAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA-ACACACGAAAGCCAA
5719026 TGTAAGACCATGTCTGGGACATGGCATCGGCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAA
5719059 TTTACCCTCT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 69 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCAACACACGAAAGCCAA
Found at i:5719367 original size:17 final size:17
Alignment explanation
Indices: 5719340--5719384 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
5719330 GTTGTGTTGA
5719340 TTTATAATATGTTATGTG
1 TTTA-AATATGTTATGTG
5719358 TTTAAATATGTTATGTG
1 TTTAAATATGTTATGTG
5719375 TTTAAATATG
1 TTTAAATATG
5719385 CATGGTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
TTTAAATATGTTATGTG
Found at i:5722012 original size:48 final size:48
Alignment explanation
Indices: 5721949--5722369 Score: 635
Period size: 48 Copynumber: 8.8 Consensus size: 48
5721939 TGTTACAACA
* *
5721949 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
5721997 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* *
5722045 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
5722093 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* *
5722141 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
5722189 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* *
5722237 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
5722285 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
5722333 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
5722370 ATTTATCTTG
Statistics
Matches: 333, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 333 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
Found at i:5722055 original size:96 final size:96
Alignment explanation
Indices: 5721949--5722369 Score: 815
Period size: 96 Copynumber: 4.4 Consensus size: 96
5721939 TGTTACAACA
5721949 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
5722014 GCTTTACCACATATACATATCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
5722045 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
5722110 GCTTTACCACATATACATATCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
5722141 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
5722206 GCTTTACCACATATACATATCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
5722237 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
5722302 GCTTTACCACATATACATATCACACATATAT
66 GCTTTACCACATATACATATCACACATATAT
* * *
5722333 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
5722370 ATTTATCTTG
Statistics
Matches: 322, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 322 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTCGTCATTCG
GCTTTACCACATATACATATCACACATATAT
Found at i:5725248 original size:46 final size:46
Alignment explanation
Indices: 5725181--5725402 Score: 225
Period size: 46 Copynumber: 4.8 Consensus size: 46
5725171 TGTAACCCGC
* * *
5725181 CCATAAGCGAACTCGGACTCAACTCAACGAGTT-TGAGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CGTTCGCAT
* * * **
5725227 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGATG-CCTAATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCA-T
* * ** *
5725273 ACATTTCA-CAAACTCGGACTCAACTCAACAAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
5725320 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
5725366 CCATAAGTGAACTCGAACTTAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5725403 TAGCCAAATA
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
45 4 0.03
46 102 0.72
47 32 0.23
48 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:5725315 original size:93 final size:93
Alignment explanation
Indices: 5725190--5725358 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
5725180 CCCATAAGCG
* * * *
5725190 AACTCGGACTCAACTCAACGAGTTTGAGCGTTCGTATCCATAAGTGAACTCGGGCTCAACTCAAC
1 AACTCGGACTCAACTCAACAAGTTGGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
5725255 GAGTTCGGATGCCTAATTACATTTCACA
66 GAGTTCAGATGCCTAATTACATTTCACA
5725283 AACTCGGACTCAACTCAACAAGTTCGGA-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACAAGTT-GGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5725347 CGAGTTCAGATG
65 CGAGTTCAGATG
5725359 TTCGCATCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACAAGTTGGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAATTACATTTCACA
Found at i:5727612 original size:40 final size:40
Alignment explanation
Indices: 5727557--5727690 Score: 189
Period size: 40 Copynumber: 3.4 Consensus size: 40
5727547 TGATAACCGT
*
5727557 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
5727597 GCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
5727637 GCTAAGTCCCGAAGGCATTTGAGCGAGTAACTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
**
5727676 GCTAAACCCCGAAGG
1 GCTAAGTCCCGAAGG
5727691 TTCTTGGTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 14 0.17
40 69 0.83
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:5733986 original size:28 final size:28
Alignment explanation
Indices: 5733925--5734862 Score: 1842
Period size: 28 Copynumber: 33.5 Consensus size: 28
5733915 TAAATTGTGC
*
5733925 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
5733952 AGTACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5733980 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734008 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734036 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734064 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734092 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734120 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734148 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734176 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734204 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734232 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734260 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734288 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734316 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734344 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734372 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734400 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734428 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734456 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734484 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734512 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734540 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734568 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734596 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734624 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734652 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734680 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734708 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734736 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734764 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734792 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
5734820 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
5734848 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
5734863 GACTTAATAT
Statistics
Matches: 906, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
27 15 0.02
28 891 0.98
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:5736230 original size:287 final size:287
Alignment explanation
Indices: 5735714--5736288 Score: 1123
Period size: 287 Copynumber: 2.0 Consensus size: 287
5735704 GATCATATGG
*
5735714 ACAGTATGTTAAGGGATATTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTAT
1 ACAGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTAT
5735779 TCCGACTTTGGAAATTCATTATAAATCAACCAGAGATAATTAGGAGTCATACAATATATGTATAG
66 TCCGACTTTGGAAATTCATTATAAATCAACCAGAGATAATTAGGAGTCATACAATATATGTATAG
5735844 ATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACTCTGTGCAGGGAG
131 ATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACTCTGTGCAGGGAG
*
5735909 ATATCCAAGTCGTAATGCACAAAGGTCAGTGTAGACGATCCCTGTAACATGGGAGACTTTGACTA
196 ATATCCAAGTCGTAATGCACAAAGGGCAGTGTAGACGATCCCTGTAACATGGGAGACTTTGACTA
5735974 ATAAACTGTACTAATTGGTCCAACCAA
261 ATAAACTGTACTAATTGGTCCAACCAA
5736001 ACAGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTAT
1 ACAGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTAT
5736066 TCCGACTTTGGAAATTCATTATAAATCAACCAGAGATAATTAGGAGTCATACAATATATGTATAG
66 TCCGACTTTGGAAATTCATTATAAATCAACCAGAGATAATTAGGAGTCATACAATATATGTATAG
5736131 ATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACTCTGTGCAGGGAG
131 ATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACTCTGTGCAGGGAG
5736196 ATATCCAAGTCGTAATGCACAAAGGGCAGTGTAGACGATCCCTGTAACATGGGAGACTTTGACTA
196 ATATCCAAGTCGTAATGCACAAAGGGCAGTGTAGACGATCCCTGTAACATGGGAGACTTTGACTA
*
5736261 ATAAACTGTACTAATTGGTCCGACCAA
261 ATAAACTGTACTAATTGGTCCAACCAA
5736288 A
1 A
5736289 AATTCTAGAA
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
287 285 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (287 bp):
ACAGTATGTTAAGAGATATTCAGGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGATTCCCTAT
TCCGACTTTGGAAATTCATTATAAATCAACCAGAGATAATTAGGAGTCATACAATATATGTATAG
ATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAACTCTGTGCAGGGAG
ATATCCAAGTCGTAATGCACAAAGGGCAGTGTAGACGATCCCTGTAACATGGGAGACTTTGACTA
ATAAACTGTACTAATTGGTCCAACCAA
Found at i:5743484 original size:7 final size:7
Alignment explanation
Indices: 5743472--5743497 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5743462 ATTTAAAAAT
5743472 GAATTGA
1 GAATTGA
5743479 GAATTGA
1 GAATTGA
5743486 GAATTGA
1 GAATTGA
5743493 GAATT
1 GAATT
5743498 ACCTTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (7 bp):
GAATTGA
Found at i:5746260 original size:11 final size:11
Alignment explanation
Indices: 5746244--5746268 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5746234 CTACCACCAT
5746244 AAGTTTCCTAC
1 AAGTTTCCTAC
5746255 AAGTTTCCTAC
1 AAGTTTCCTAC
5746266 AAG
1 AAG
5746269 ATTAAAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (11 bp):
AAGTTTCCTAC
Found at i:5749370 original size:13 final size:12
Alignment explanation
Indices: 5749344--5749381 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
5749334 TTCTCTCATC
5749344 TTCCATTCCCTT
1 TTCCATTCCCTT
5749356 TTCCATTCTCCTT
1 TTCCATTC-CCTT
5749369 TTCC-TATCCCTT
1 TTCCAT-TCCCTT
5749381 T
1 T
5749382 GCATAGCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.08, C:0.39, G:0.00, T:0.53
Consensus pattern (12 bp):
TTCCATTCCCTT
Found at i:5759381 original size:12 final size:11
Alignment explanation
Indices: 5759351--5759382 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
5759341 GGAAGAAAAT
5759351 CTTTTTATTTA
1 CTTTTTATTTA
5759362 CTTTTTATTTA
1 CTTTTTATTTA
5759373 CTTTATTATT
1 CTTT-TTATT
5759383 AATTTATCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTTTTATTTA
Found at i:5761660 original size:5 final size:5
Alignment explanation
Indices: 5761650--5761677 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5761640 TAAATATTTA
5761650 TTGAT TTGAT TTGAT TTGAT TTGAT TTG
1 TTGAT TTGAT TTGAT TTGAT TTGAT TTG
5761678 TACGTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (5 bp):
TTGAT
Found at i:5762266 original size:22 final size:20
Alignment explanation
Indices: 5762217--5762267 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
5762207 TTTCTACATA
*
5762217 ATTTTCTAAAAATATTTTAT
1 ATTTTTTAAAAATATTTTAT
*
5762237 AGTCTTTTAAAAATATTTTTAAT
1 A-TTTTTTAAAAATA-TTTT-AT
5762260 ATTTTTTA
1 ATTTTTTA
5762268 TAATTTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 11 0.44
22 10 0.40
23 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTTTAAAAATATTTTAT
Found at i:5770541 original size:138 final size:135
Alignment explanation
Indices: 5770283--5770692 Score: 489
Period size: 138 Copynumber: 3.0 Consensus size: 135
5770273 ATGGGCCTTT
*
5770283 TCACACAATTTGTTGGTCAAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTAGTTG
1 TCACACAAGTTGTTGGTCAAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTA-TTG
* * * * *
5770348 CAAATAATGTCGAACCTCAACCATCGGTAGGACATTCAAGACCAGCACCCAAAACATGGTAACCT
65 CAACTAATATCG-ACCTCAGCCATCAGTAGGACATTCAAGA-CAGCACCCGAAACATGGTAACCT
5770413 AAGTCTGC
128 AAGTCTGC
* * * *
5770421 TCATACAAGTTGTTGGTCAAAATATAAGCTACACGATGTTGCTCACACAAGCTATCGAATATCGG
1 TCACACAAGTTGTTGGTCAAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTAT-TG
*
5770486 CAACTAATACCAGACCTCAGCCATCAGTAGGACATTCAAGACTAGCACCCGAAACATGGT-ACCT
65 CAACTAATATC-GACCTCAGCCATCAGTAGGACATTCAAGAC-AGCACCCGAAACATGGTAACC-
** *
5770550 TGGGTTTGC
127 TAAGTCTGC
* * *** *
5770559 TCACACAAGCTATTGGTTGGAATGTAAGCTACACGATGTTGCTCACACAAGCTGTCGAGTATATG
1 TCACACAAGTTGTTGGTCAAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTAT-TG
* * * *
5770624 CAACTAATGATCGGAACTCAGCCACCAATAGGACATTCAAGAACAACACCCGAAACATGGTAAAC
65 CAACTAAT-ATC-GACCTCAGCCATCAGTAGGACATTCAAG-ACAGCACCCGAAACATGGT-AAC
5770689 CTAA
126 CTAA
5770693 TGACATGTCA
Statistics
Matches: 231, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
137 5 0.02
138 176 0.76
139 44 0.19
140 3 0.01
141 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (135 bp):
TCACACAAGTTGTTGGTCAAAATGTAAGCTACACGATGTTGCTCACACAAGCTATCGAGTATTGC
AACTAATATCGACCTCAGCCATCAGTAGGACATTCAAGACAGCACCCGAAACATGGTAACCTAAG
TCTGC
Found at i:5777294 original size:140 final size:139
Alignment explanation
Indices: 5776912--5777297 Score: 456
Period size: 137 Copynumber: 2.8 Consensus size: 139
5776902 TAACGGTTAG
* * *
5776912 AATGTAAGCTACACGATG--CTGCTCACACAAGCTATTGAGTATTCGTAACTAATGGCAAACCTC
1 AATGTAAGCTACACGATGTACTGCTCACACAAGCTATCGAGTATCCGTAACTAATGCCAAA-CTC
* ** * *
5776975 AGCCATCGGTAGGACATTGAAGACTGGCACCCGAAACATGGTAACCTGGGTCTTCTCAAACAGGC
65 AGCCATCGGTAGGACATTCAAGACCAGCACCCGAAACATGGTAACCTGGGTCTACTCAAACAAGC
5777040 TATCGGTCGA
130 TATCGGTCGA
* * * * * * **
5777050 AATGTAAGCTACAC-A-ATATTGTTCACACAAGATATCGAGTGTCCGCAACTAATGCCAGCCTCA
1 AATGTAAGCTACACGATGTACTGCTCACACAAGCTATCGAGTATCCGTAACTAATGCCAAACTCA
* * * **
5777113 GCCATCGGTAGGACATTCAGGAACAGCACCCGAAATATGGTAACCTGGGTCTACTCACTCAAGCT
66 GCCATCGGTAGGACATTCAAGACCAGCACCCGAAACATGGTAACCTGGGTCTACTCAAACAAGCT
5777178 ATCGGTCGA
131 ATCGGTCGA
* * * * *
5777187 AATGTAAGCTACACGATGCTACTCCTCACATAAGCTGTCAAGTATCCGTAACTAATGTCAAACTC
1 AATGTAAGCTACACGATG-TACTGCTCACACAAGCTATCGAGTATCCGTAACTAATGCCAAACTC
* * * *
5777252 AGCCACCGATAGGCCATTCAAGACCAACACCCGAAACATGGTAACC
65 AGCCATCGGTAGGACATTCAAGACCAGCACCCGAAACATGGTAACC
5777298 GTAATGACAT
Statistics
Matches: 202, Mismatches: 41, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
137 83 0.41
138 46 0.23
140 73 0.36
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (139 bp):
AATGTAAGCTACACGATGTACTGCTCACACAAGCTATCGAGTATCCGTAACTAATGCCAAACTCA
GCCATCGGTAGGACATTCAAGACCAGCACCCGAAACATGGTAACCTGGGTCTACTCAAACAAGCT
ATCGGTCGA
Found at i:5780831 original size:30 final size:31
Alignment explanation
Indices: 5780797--5780863 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
5780787 TTCCAACCCT
*
5780797 TTTTCAT-AGCTCGATAGTCGAAGCCATCCC
1 TTTTCATCAGCTCGATAGCCGAAGCCATCCC
* *
5780827 TTTTC-TCAGCTTGATAGCCGAAGCTATCCC
1 TTTTCATCAGCTCGATAGCCGAAGCCATCCC
5780857 TTTTCAT
1 TTTTCAT
5780864 TATTTGATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTTCATCAGCTCGATAGCCGAAGCCATCCC
Found at i:5780871 original size:30 final size:30
Alignment explanation
Indices: 5780809--5781045 Score: 153
Period size: 30 Copynumber: 7.9 Consensus size: 30
5780799 TTCATAGCTC
* * *
5780809 GATAGTCGAAGCCATCCCTTTTC-TCAGCTT
1 GATAGTCGAAGCTATCCCTTTTCATTA-TTT
*
5780839 GATAGCCGAAGCTATCCCTTTTCATTATTT
1 GATAGTCGAAGCTATCCCTTTTCATTATTT
* * * * *
5780869 GATGGTCGTCA-CCATCCTTTTTCATAATTT
1 GATAGTCG-AAGCTATCCCTTTTCATTATTT
* * * *
5780899 GGTAG-CTAAAGCTATCCCTTTTCATTGTTC
1 GATAGTC-GAAGCTATCCCTTTTCATTATTT
* * * * *
5780929 GATGGTCGTCA-CCATCCTTTTTCATT-GTT
1 GATAGTCG-AAGCTATCCCTTTTCATTATTT
* * * * *
5780958 GATGGTTGTCA-CTATCCCTTTTCATAATGT
1 GATAGTCG-AAGCTATCCCTTTTCATTATTT
*
5780988 GATAGTCGAGGCTATCCCTTTTCATTATTTT
1 GATAGTCGAAGCTATCCCTTTTCATTA-TTT
*
5781019 GATAGCCGAAGCTATCCCTTTTCATTA
1 GATAGTCGAAGCTATCCCTTTTCATTA
5781046 GCTGATGATC
Statistics
Matches: 157, Mismatches: 41, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
29 25 0.16
30 100 0.64
31 32 0.20
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.41
Consensus pattern (30 bp):
GATAGTCGAAGCTATCCCTTTTCATTATTT
Found at i:5780891 original size:60 final size:60
Alignment explanation
Indices: 5780836--5780953 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 60
5780826 CTTTTCTCAG
* *
5780836 CTTGATAGCCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACCATCCTTTTTCATAA
1 CTTGATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCTTTTTCATAA
* * * *
5780896 TTTGGTAGCTAAAGCTATCCCTTTTCATTGTTCGATGGTCGTCACCATCCTTTTTCAT
1 CTTGATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCTTTTTCAT
5780954 TGTTGATGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (60 bp):
CTTGATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCTTTTTCATAA
Found at i:5781033 original size:31 final size:31
Alignment explanation
Indices: 5780969--5781045 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
5780959 ATGGTTGTCA
* *
5780969 CTATCCCTTTTCA-TAATGTGATAGTCGAGG
1 CTATCCCTTTTCATTAATGTGATAGCCGAAG
* *
5780999 CTATCCCTTTTCATTATTTTGATAGCCGAAG
1 CTATCCCTTTTCATTAATGTGATAGCCGAAG
5781030 CTATCCCTTTTCATTA
1 CTATCCCTTTTCATTA
5781046 GCTGATGATC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 13 0.31
31 29 0.69
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (31 bp):
CTATCCCTTTTCATTAATGTGATAGCCGAAG
Found at i:5782426 original size:20 final size:20
Alignment explanation
Indices: 5782401--5782446 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
5782391 GGAAAGGTAA
5782401 TGAAATGATAAGTTCAAAGT
1 TGAAATGATAAGTTCAAAGT
5782421 TGAAATGATAAGTTCAAAGT
1 TGAAATGATAAGTTCAAAGT
5782441 TGAAAT
1 TGAAAT
5782447 TTATGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (20 bp):
TGAAATGATAAGTTCAAAGT
Found at i:5784851 original size:20 final size:22
Alignment explanation
Indices: 5784828--5784872 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
5784818 TTTGTTTCAT
*
5784828 TTTTTTATTCAT-TTA-TTGTA
1 TTTTTTATTAATCTTAGTTGTA
5784848 TTTTTTATTAATCTTAGTTGTA
1 TTTTTTATTAATCTTAGTTGTA
5784870 TTT
1 TTT
5784873 ATTTTTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 8 0.36
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTTTATTAATCTTAGTTGTA
Found at i:5784852 original size:22 final size:23
Alignment explanation
Indices: 5784826--5784877 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 23
5784816 ATTTTGTTTC
*
5784826 ATTTTTTTATTCAT-TTA-TTGT
1 ATTTTTTTATTAATCTTAGTTGT
5784847 A-TTTTTTATTAATCTTAGTTGT
1 ATTTTTTTATTAATCTTAGTTGT
5784869 ATTTATTTT
1 ATTT-TTTT
5784878 TCCAATAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.42
21 4 0.15
22 5 0.19
23 2 0.08
24 4 0.15
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (23 bp):
ATTTTTTTATTAATCTTAGTTGT
Found at i:5793343 original size:15 final size:15
Alignment explanation
Indices: 5793323--5793374 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
5793313 TTCACCTATT
*
5793323 CCTAAACCTTAAAAA
1 CCTAAACCCTAAAAA
5793338 CCTAAACCCTAAAAA
1 CCTAAACCCTAAAAA
* *
5793353 TCTAAACCCT-AAAG
1 CCTAAACCCTAAAAA
5793367 CCTAAACC
1 CCTAAACC
5793375 TCTATTGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
14 10 0.30
15 23 0.70
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (15 bp):
CCTAAACCCTAAAAA
Found at i:5793378 original size:22 final size:22
Alignment explanation
Indices: 5793323--5793378 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
5793313 TTCACCTATT
5793323 CCTAAACCT-TAAAAACCTAAAC
1 CCTAAACCTCT-AAAACCTAAAC
** * *
5793345 CCTAAAAATCTAAACCCTAAAG
1 CCTAAACCTCTAAAACCTAAAC
5793367 CCTAAACCTCTA
1 CCTAAACCTCTA
5793379 TTGGAACTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (22 bp):
CCTAAACCTCTAAAACCTAAAC
Found at i:5794901 original size:16 final size:15
Alignment explanation
Indices: 5794880--5794924 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
5794870 ATTGGGTTGA
5794880 GAAAATTATTTAATT
1 GAAAATTATTTAATT
*
5794895 GGAAAATTAATTAATT
1 -GAAAATTATTTAATT
5794911 -AAAATTAATTTAAT
1 GAAAATT-ATTTAAT
5794925 AAACAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.23
15 6 0.23
16 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (15 bp):
GAAAATTATTTAATT
Found at i:5801010 original size:161 final size:161
Alignment explanation
Indices: 5800834--5801123 Score: 562
Period size: 161 Copynumber: 1.8 Consensus size: 161
5800824 CTTAGAATTG
5800834 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
1 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
*
5800899 AAGACAATCTTCATGCTAGAGAGTGCCGCCACGTTCACCTATTCTTGGCTCTTTGAGCAATGTTT
66 AAGACAATCTTCATGCTAGACAGTGCCGCCACGTTCACCTATTCTTGGCTCTTTGAGCAATGTTT
5800964 TTTATTTAGTATTCAACAATTAAACAAAAAC
131 TTTATTTAGTATTCAACAATTAAACAAAAAC
5800995 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
1 AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
*
5801060 AAGACAATCTTCATGCTAGACAGTGCCGCCACGTTCACCTATTTTTGGCTCTTTGAGCAATGTT
66 AAGACAATCTTCATGCTAGACAGTGCCGCCACGTTCACCTATTCTTGGCTCTTTGAGCAATGTT
5801124 AATAAATCAA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 127 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (161 bp):
AATCTTAATTACATATAGTTCATTTAGACATAAATGGTTTTTGTTTTGGCTTCAAATTTAAAGCA
AAGACAATCTTCATGCTAGACAGTGCCGCCACGTTCACCTATTCTTGGCTCTTTGAGCAATGTTT
TTTATTTAGTATTCAACAATTAAACAAAAAC
Found at i:5802471 original size:32 final size:32
Alignment explanation
Indices: 5802430--5802495 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
5802420 CATTATTATT
5802430 TATGCCTATCCCATAATATACGAATGAACCTA
1 TATGCCTATCCCATAATATACGAATGAACCTA
5802462 TATGCCTATCCCATAATATACGAATGAACCTA
1 TATGCCTATCCCATAATATACGAATGAACCTA
5802494 TA
1 TA
5802496 GTCACAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (32 bp):
TATGCCTATCCCATAATATACGAATGAACCTA
Found at i:5807615 original size:25 final size:25
Alignment explanation
Indices: 5807591--5807706 Score: 96
Period size: 25 Copynumber: 4.6 Consensus size: 25
5807581 ATACATGTAT
* *
5807591 GCTCATACGAGCTATGAACCGGTAT
1 GCTCATACGAGCTATGAATCGGTAA
*
5807616 GCCCTC-T-CGAGCTATAAATCGGTAA
1 G--CTCATACGAGCTATGAATCGGTAA
* *
5807641 GCTCATATGAGCTGA-GAATCGATAA
1 GCTCATACGAGCT-ATGAATCGGTAA
***
5807666 GCTC-TCACGAGCTGCAAATCGGTAA
1 GCTCAT-ACGAGCTATGAATCGGTAA
5807691 GCTCATACGAGCTATG
1 GCTCATACGAGCTATG
5807707 GTGTGTCCGT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 59 0.84
26 3 0.04
27 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATCGGTAA
Found at i:5807653 original size:50 final size:50
Alignment explanation
Indices: 5807591--5807706 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
5807581 ATACATGTAT
* * * *
5807591 GCTCATACGAGCTATGAACCGGTATGCCCTCTCGAGCTATAAATCGGTAA
1 GCTCATACGAGCTATGAACCGATAAGCCCTCACGAGCTACAAATCGGTAA
* * * *
5807641 GCTCATATGAGCTGA-GAATCGATAAGCTCTCACGAGCTGCAAATCGGTAA
1 GCTCATACGAGCT-ATGAACCGATAAGCCCTCACGAGCTACAAATCGGTAA
5807691 GCTCATACGAGCTATG
1 GCTCATACGAGCTATG
5807707 GTGTGTCCGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.02
50 53 0.96
51 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (50 bp):
GCTCATACGAGCTATGAACCGATAAGCCCTCACGAGCTACAAATCGGTAA
Found at i:5811176 original size:29 final size:29
Alignment explanation
Indices: 5811156--5811281 Score: 166
Period size: 29 Copynumber: 4.3 Consensus size: 29
5811146 TTGTGGTGAG
* *
5811156 CTCTGTTGAGAGGAAGTCTTTATGGTCAT
1 CTCTGTTAAAAGGAAGTCTTTATGGTCAT
*
5811185 CTCTGTTAAAAGGAAGTCTTTATGGTGAT
1 CTCTGTTAAAAGGAAGTCTTTATGGTCAT
*
5811214 CTCTGTTAAAAGGAAGCCTTTATGGTCAT
1 CTCTGTTAAAAGGAAGTCTTTATGGTCAT
*
5811243 CTCTGTTAAAA-GAATGTCTTTGTGG-CTAT
1 CTCTGTTAAAAGGAA-GTCTTTATGGTC-AT
*
5811272 CTCAGTTAAA
1 CTCTGTTAAA
5811282 TGAATGCCTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
28 4 0.05
29 83 0.95
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (29 bp):
CTCTGTTAAAAGGAAGTCTTTATGGTCAT
Found at i:5811274 original size:58 final size:58
Alignment explanation
Indices: 5811144--5811324 Score: 185
Period size: 58 Copynumber: 3.2 Consensus size: 58
5811134 AAAAGAAACC
* * *
5811144 CTTTGTGG-TGAGCTCTGTTGAGAGGAAGTCTTTATGGTCATCTCTGTTAAAAGGAA-GT
1 CTTTGTGGCTGATCTCTGTT-AAAGGAAGCCTTTATGGTCATCTCTGTTAAAA-GAATGT
*
5811202 CTTTATGG-TGATCTCTGTTAAAAGGAAGCCTTTATGGTCATCTCTGTTAAAAGAATGT
1 CTTTGTGGCTGATCTCTGTT-AAAGGAAGCCTTTATGGTCATCTCTGTTAAAAGAATGT
* * * * * *
5811260 CTTTGTGGCT-ATCTCAGTTAAATGAATGCC-TTGTGGTAAACTCTGTTAAAAGGATG-
1 CTTTGTGGCTGATCTCTGTTAAAGGAA-GCCTTTATGGTCATCTCTGTTAAAAGAATGT
*
5811316 CCTTGTGGC
1 CTTTGTGGC
5811325 AAGACTTTGA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
56 8 0.07
57 31 0.29
58 67 0.63
59 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (58 bp):
CTTTGTGGCTGATCTCTGTTAAAGGAAGCCTTTATGGTCATCTCTGTTAAAAGAATGT
Found at i:5811307 original size:28 final size:28
Alignment explanation
Indices: 5811243--5811324 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
5811233 TTATGGTCAT
* *
5811243 CTCTGTTAAAAGAATGTCTTTGTGGCTAT
1 CTCTGTTAAAAGAATG-CCTTGTGGCTAA
* *
5811272 CTCAGTTAAATGAATGCCTTGTGG-TAAA
1 CTCTGTTAAAAGAATGCCTTGTGGCT-AA
*
5811300 CTCTGTTAAAAGGATGCCTTGTGGC
1 CTCTGTTAAAAGAATGCCTTGTGGC
5811325 AAGACTTTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 29 0.66
29 14 0.32
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (28 bp):
CTCTGTTAAAAGAATGCCTTGTGGCTAA
Found at i:5811380 original size:28 final size:28
Alignment explanation
Indices: 5811318--5811381 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
5811308 AAAGGATGCC
*
5811318 TTGTGGCAAGACTTTGAAAGGAAAGTCT
1 TTGTGGCAAGACTTTGAAAGGAAAGCCT
* * * *
5811346 CTATGGCTA-ACTTTGGAAAGGAACGCCT
1 TTGTGGCAAGACTTT-GAAAGGAAAGCCT
5811374 TTGTGGCA
1 TTGTGGCA
5811382 GAATCTGAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
TTGTGGCAAGACTTTGAAAGGAAAGCCT
Found at i:5814014 original size:13 final size:12
Alignment explanation
Indices: 5813993--5814028 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
5813983 TTTTTATGCT
5813993 TTTTCATTTTTA
1 TTTTCATTTTTA
5814005 TTTTCTATTTTTA
1 TTTTC-ATTTTTA
*
5814018 TTTTAATTTTT
1 TTTTCATTTTT
5814029 TTTGCTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCATTTTTA
Found at i:5824694 original size:19 final size:18
Alignment explanation
Indices: 5824659--5824694 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5824649 GAAGCAAGCA
*
5824659 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
5824677 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
5824695 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:5838859 original size:26 final size:26
Alignment explanation
Indices: 5838823--5838888 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
5838813 TACATTGTTT
* *
5838823 CTCAGACGAGCTGTGAAATGAGTCTG
1 CTCACACGAGCTGTGAAATGAGGCTG
*
5838849 CTCACACGAGCTGTGAAATGGGGCTG
1 CTCACACGAGCTGTGAAATGAGGCTG
5838875 CTCACACGAGCTGT
1 CTCACACGAGCTGT
5838889 AGGTAGGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGAGGCTG
Found at i:5844532 original size:68 final size:66
Alignment explanation
Indices: 5844348--5844535 Score: 175
Period size: 68 Copynumber: 2.8 Consensus size: 66
5844338 GTCCTAGAGG
* *
5844348 ACTTCATATGTTGTCATAACCCAGCAATGGTCTTACACAATATGA-T-ATGTTTATGATCCTGGC
1 ACTTCATATGTTGTCAT-AGCCAGCTATGGTCTTACACAATATGATTCATGTTTATGATCCTGGC
**
5844411 GG
65 AA
* * * * * ** ** *
5844413 ACTTCAAATGTTGTCATAGCCAAACTTTAGTCTTACACAAGACAATGTCATGTTTATTCTCTTGG
1 ACTTCATATGTTGTCATAGCC-AGCTATGGTCTTACACAATATGAT-TCATGTTTATGATCCTGG
5844478 CAA
64 CAA
5844481 ACTTCATATGTTGTCGA-AGCTCAGCTATGGTCTTACACAATATGATTTCATGTTT
1 ACTTCATATGTTGTC-ATAGC-CAGCTATGGTCTTACACAATATGA-TTCATGTTT
5844536 TCCCATGGAC
Statistics
Matches: 95, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
64 3 0.03
65 32 0.34
67 1 0.01
68 56 0.59
69 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (66 bp):
ACTTCATATGTTGTCATAGCCAGCTATGGTCTTACACAATATGATTCATGTTTATGATCCTGGCA
A
Found at i:5846082 original size:26 final size:26
Alignment explanation
Indices: 5846052--5846101 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5846042 TCCCCTCCCT
5846052 ATTTTACCCCTAACAAAATTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
* * **
5846078 ATTTTGCCCTTAGTAAAATTTTGA
1 ATTTTACCCCTAACAAAATTTTGA
5846102 GAATATATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:5858927 original size:17 final size:18
Alignment explanation
Indices: 5858896--5858929 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5858886 CAATTAACTA
5858896 TTTGTACTAACTAATAAT
1 TTTGTACTAACTAATAAT
*
5858914 TTTGTTCTAA-TAATAA
1 TTTGTACTAACTAATAA
5858930 GATTAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTGTACTAACTAATAAT
Found at i:5861794 original size:15 final size:15
Alignment explanation
Indices: 5861776--5861823 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
5861766 AATTTAAAAA
5861776 TTAATTTTTTATATT
1 TTAATTTTTTATATT
*
5861791 TTAATTTTTAATATAAT
1 TTAATTTTT--TATATT
*
5861808 TTGA-TTTTTATATT
1 TTAATTTTTTATATT
5861822 TT
1 TT
5861824 TATAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 9 0.32
16 4 0.14
17 8 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAATTTTTTATATT
Found at i:5864857 original size:18 final size:17
Alignment explanation
Indices: 5864829--5864863 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5864819 ATTATTAAGA
*
5864829 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5864846 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5864864 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5865054 original size:39 final size:40
Alignment explanation
Indices: 5865011--5865115 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
5865001 TTCCATTATG
5865011 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
5865050 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
5865095 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
5865116 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:5865109 original size:45 final size:44
Alignment explanation
Indices: 5865009--5865118 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
5864999 TTTTCCATTA
5865009 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
5865048 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
5865093 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
5865119 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:5865118 original size:16 final size:16
Alignment explanation
Indices: 5865097--5865161 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
5865087 TTGATTTGCT
*
5865097 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
5865113 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
5865129 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
5865145 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
5865161 A
1 A
5865162 ATACCATATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:5865372 original size:18 final size:20
Alignment explanation
Indices: 5865333--5865372 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5865323 GGTAGGAAGT
*
5865333 TTTATATATAATTATTTATA
1 TTTATATATAAGTATTTATA
5865353 TTTATATA-AAGTATTT-TA
1 TTTATATATAAGTATTTATA
5865371 TT
1 TT
5865373 AAGTCGACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTATATATAAGTATTTATA
Found at i:5867421 original size:39 final size:38
Alignment explanation
Indices: 5867362--5867453 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 38
5867352 GTCAATTATT
*
5867362 ATGTGATATATGCTTGAATGTTATGTGATTATATGAGTA
1 ATGTGATATATG-TTAAATGTTATGTGATTATATGAGTA
* *
5867401 TTGTGATATATGTTCAAATGTTATGTGATTATATGTGTA
1 ATGTGATATATGTT-AAATGTTATGTGATTATATGAGTA
*
5867440 ATGTGACATATGTT
1 ATGTGATATATGTT
5867454 TATAAGTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.04
39 45 0.96
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (38 bp):
ATGTGATATATGTTAAATGTTATGTGATTATATGAGTA
Found at i:5867443 original size:22 final size:21
Alignment explanation
Indices: 5867360--5867436 Score: 58
Period size: 23 Copynumber: 3.7 Consensus size: 21
5867350 GTGTCAATTA
*
5867360 TTATGTGATATATGCTTGAATG
1 TTATGTGATATATG-TTAAATG
5867382 TTATGTGATTATATG----A-G
1 TTATGTGA-TATATGTTAAATG
5867399 -TATTGTGATATATGTTCAAATG
1 TTA-TGTGATATATGTT-AAATG
5867421 TTATGTGATTATATGT
1 TTATGTGA-TATATGT
5867437 GTAATGTGAC
Statistics
Matches: 45, Mismatches: 0, Indels: 19
0.70 0.00 0.30
Matches are distributed among these distances:
16 8 0.18
17 6 0.13
18 1 0.02
21 1 0.02
22 14 0.31
23 15 0.33
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.48
Consensus pattern (21 bp):
TTATGTGATATATGTTAAATG
Found at i:5872215 original size:26 final size:26
Alignment explanation
Indices: 5872179--5872232 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
5872169 CCTGTAAGTG
5872179 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTGATACATGCTATGATA
* *
5872205 TTCTGAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
5872231 TT
1 TT
5872233 ATTAAACTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:5872239 original size:26 final size:26
Alignment explanation
Indices: 5872182--5872240 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
5872172 GTAAGTGTTC
*
5872182 TGAAACTGATACATGCTATGATATTC
1 TGAAACTGATACATGCTATGATATTA
* *
5872208 TGAAACTGATATATGTTATGATATTA
1 TGAAACTGATACATGCTATGATATTA
*
5872234 TTAAACT
1 TGAAACT
5872241 ACTGTAGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (26 bp):
TGAAACTGATACATGCTATGATATTA
Found at i:5877252 original size:29 final size:31
Alignment explanation
Indices: 5877214--5877277 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
5877204 AATATATAAT
*
5877214 AAATATTTATTT-TTTATTTTTTTAATTTTA
1 AAATATTTATTTATGTATTTTTTTAATTTTA
*
5877244 AAATA-TTATTTATGTATTTTTTTATTTTTA
1 AAATATTTATTTATGTATTTTTTTAATTTTA
5877274 AAAT
1 AAAT
5877278 GAATTTTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (31 bp):
AAATATTTATTTATGTATTTTTTTAATTTTA
Found at i:5881306 original size:19 final size:19
Alignment explanation
Indices: 5881282--5881320 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5881272 GCAAAATAGG
* *
5881282 ATAAAATGGTAATTTTGTT
1 ATAAAAGGGTAATTTGGTT
5881301 ATAAAAGGGTAATTTGGTT
1 ATAAAAGGGTAATTTGGTT
5881320 A
1 A
5881321 ATTGTGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (19 bp):
ATAAAAGGGTAATTTGGTT
Found at i:5890164 original size:40 final size:40
Alignment explanation
Indices: 5890067--5890250 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
5890057 TTGAATGCTG
* * * *
5890067 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
5890106 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
5890147 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
5890187 TCCGGGTTAAGTACCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
5890227 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
5890251 GTATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:5890207 original size:80 final size:81
Alignment explanation
Indices: 5890067--5890247 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
5890057 TTGAATGCTG
* *
5890067 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
5890131 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
* **
5890147 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TACCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
5890208 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
5890227 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
5890248 ATTGTATGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 4 0.05
80 75 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:5890271 original size:39 final size:38
Alignment explanation
Indices: 5890068--5890287 Score: 156
Period size: 40 Copynumber: 5.6 Consensus size: 38
5890058 TGAATGCTGT
* * * * *
5890068 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * *
5890108 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * * *
5890148 TCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
* *
5890188 CCGGGTTAAGTACCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
5890227 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
5890267 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
5890288 CTTGAACGAG
Statistics
Matches: 147, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
39 33 0.22
40 106 0.72
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:5894844 original size:12 final size:12
Alignment explanation
Indices: 5894827--5894854 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5894817 TCAGGCTGTT
5894827 ACACGGCCTAGC
1 ACACGGCCTAGC
5894839 ACACGGCCTAGC
1 ACACGGCCTAGC
5894851 ACAC
1 ACAC
5894855 AGGTGTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:5897541 original size:20 final size:20
Alignment explanation
Indices: 5897516--5897553 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5897506 TGTTATTTAA
*
5897516 TTAATAAAATAAATAAAAGG
1 TTAATAAAATAAAGAAAAGG
5897536 TTAATAAAATAAAGAAAA
1 TTAATAAAATAAAGAAAA
5897554 CATGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAATAAAATAAAGAAAAGG
Found at i:5898350 original size:29 final size:29
Alignment explanation
Indices: 5898310--5898517 Score: 170
Period size: 29 Copynumber: 7.1 Consensus size: 29
5898300 TATCGGCGGT
* * *
5898310 CATCGAATATGAAAAGGGATAGCT-TCGGC
1 CATCGATTATGAAAAGGGATAG-TGACGAC
* * * *
5898339 TATTGATTATGAAAAGGGATTGTGACAAC
1 CATCGATTATGAAAAGGGATAGTGACGAC
* *
5898368 CATCAACTATGAAAAGGGAT-GATGACGAC
1 CATCGATTATGAAAAGGGATAG-TGACGAC
* ** *
5898397 CATCGAATATGAAAAGGGATAGCT-TTGGC
1 CATCGATTATGAAAAGGGATAG-TGACGAC
*
5898426 TATCGATTATGAAAAGGGATAGTGACGAC
1 CATCGATTATGAAAAGGGATAGTGACGAC
* **
5898455 CATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGATT-ATGAAAAGGGATAGTGACGAC
* * * *
5898485 CATTGAATATGAAAAGGGACAGTTACGAC
1 CATCGATTATGAAAAGGGATAGTGACGAC
5898514 CATC
1 CATC
5898518 TTTTAGCACA
Statistics
Matches: 141, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
28 3 0.02
29 112 0.79
30 26 0.18
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (29 bp):
CATCGATTATGAAAAGGGATAGTGACGAC
Found at i:5898457 original size:87 final size:88
Alignment explanation
Indices: 5898310--5898503 Score: 291
Period size: 87 Copynumber: 2.2 Consensus size: 88
5898300 TATCGGCGGT
* *
5898310 CATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGATTGTGACAACCATCAAC
1 CATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGACAACCATCAAC
5898375 T-ATGAAAAGGGATGATGACGAC
66 TAATGAAAAGGGATGATGACGAC
* * * *
5898397 CATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGTGACGACCATCGAT
1 CATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGACAACCATCAAC
* **
5898462 TAATGAAAAGGGATGGTTTCGAC
66 TAATGAAAAGGGATGATGACGAC
*
5898485 CATTGAATATGAAAAGGGA
1 CATCGAATATGAAAAGGGA
5898504 CAGTTACGAC
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 60 0.62
88 36 0.38
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (88 bp):
CATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGACAACCATCAAC
TAATGAAAAGGGATGATGACGAC
Found at i:5930407 original size:19 final size:19
Alignment explanation
Indices: 5930383--5930419 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5930373 TTGATAATTC
* *
5930383 TTAATTATTTTTATTTTAA
1 TTAATTAATTATATTTTAA
5930402 TTAATTAATTATATTTTA
1 TTAATTAATTATATTTTA
5930420 TTTACTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATTAATTATATTTTAA
Found at i:5936037 original size:22 final size:23
Alignment explanation
Indices: 5936011--5936058 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
5936001 TTGCAAAGAT
*
5936011 TAAAT-CCTAATTA-CTAAAGAAA
1 TAAATCCCTAAATACCTAAA-AAA
5936033 TAAATCCCTAAATACCTAAAAAA
1 TAAATCCCTAAATACCTAAAAAA
5936056 TAA
1 TAA
5936059 TTAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 13 0.57
24 5 0.22
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAATCCCTAAATACCTAAAAAA
Done.