Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 89
Found at i:6406732 original size:20 final size:19
Alignment explanation
Indices: 6406691--6406735 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6406681 CTATTATTAT
* * *
6406691 TAAATATATTAAATACATA
1 TAAATATATTAAAAAAAAA
6406710 TAAATATTATTAAAAAAAAA
1 TAAATA-TATTAAAAAAAAA
6406730 TAAATA
1 TAAATA
6406736 AATAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAATATATTAAAAAAAAA
Found at i:6407220 original size:15 final size:15
Alignment explanation
Indices: 6407200--6407228 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6407190 AGAGACAGAG
6407200 ACAGAGAAAAAAAAA
1 ACAGAGAAAAAAAAA
6407215 ACAGAGAAAAAAAA
1 ACAGAGAAAAAAAA
6407229 CAATATACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
ACAGAGAAAAAAAAA
Found at i:6408085 original size:19 final size:19
Alignment explanation
Indices: 6408061--6408099 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6408051 TAATTTAGTC
6408061 ATTTATTTTA-TATGTTTTA
1 ATTTATTTTATTAT-TTTTA
6408080 ATTTATTTTATTATTTTTA
1 ATTTATTTTATTATTTTTA
6408099 A
1 A
6408100 AAAATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTATTTTATTATTTTTA
Found at i:6408158 original size:21 final size:20
Alignment explanation
Indices: 6408126--6408167 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6408116 AGAATTTTTC
**
6408126 TTTTATTATATTGTTAAATA
1 TTTTATTATATTCATAAATA
6408146 TTTTATATATATTCATAAATA
1 TTTTAT-TATATTCATAAATA
6408167 T
1 T
6408168 ATATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATTATATTCATAAATA
Found at i:6413508 original size:23 final size:24
Alignment explanation
Indices: 6413461--6413527 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
6413451 TCAAATTTGA
* * *
6413461 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
6413485 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACATGG
6413508 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
6413528 TTGAATTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:6418086 original size:23 final size:24
Alignment explanation
Indices: 6418039--6418105 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
6418029 TCAAATTTGA
* * *
6418039 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
6418063 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACATGG
6418086 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
6418106 TTGAATTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:6420972 original size:137 final size:140
Alignment explanation
Indices: 6420726--6420989 Score: 383
Period size: 137 Copynumber: 1.9 Consensus size: 140
6420716 TCACATCAAA
6420726 TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAA
1 TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAA
* *
6420791 AAATTATACTATCAGAACCATTTCTCTCTATTTTTAGTGTCAAAAAAGTTATATAGTAACAAAAT
66 AAATTATACTATCAGAAACATTTCTCCCTATTTTTAGTGTCAAAAAAGTTATATAGTAACAAAAT
6420856 ATATTGTAAT
131 ATATTGTAAT
* * * *
6420866 TAATAAAATTTAAG-TTTTTTGTAATTAATTATTTTTGTA-TTGTATATTTTAATCATTAT-GAA
1 TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAA
* * * * * *
6420928 AACTTATACTATTAGAAATATTTCTCCCTATTTTTTG-GTGCAAAAATGTTATATAGTGACAA
66 AAATTATACTATCAGAAACATTTCTCCCTATTTTTAGTGT-CAAAAAAGTTATATAGTAACAA
6420990 GTTTTGTAAC
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
136 2 0.02
137 53 0.48
138 19 0.17
139 24 0.22
140 13 0.12
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (140 bp):
TAATAAAATTCAAGTTTTTTTGTAATTAATTATTTTTATACTTATATATTTTAATCATTATAAAA
AAATTATACTATCAGAAACATTTCTCCCTATTTTTAGTGTCAAAAAAGTTATATAGTAACAAAAT
ATATTGTAAT
Found at i:6426321 original size:13 final size:13
Alignment explanation
Indices: 6426303--6426334 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
6426293 TTGGGTTTGA
6426303 TGTTCCTATGCTT
1 TGTTCCTATGCTT
6426316 TGTTCCTATGCTT
1 TGTTCCTATGCTT
6426329 TGTTCC
1 TGTTCC
6426335 AACTTCCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (13 bp):
TGTTCCTATGCTT
Found at i:6428291 original size:22 final size:22
Alignment explanation
Indices: 6428266--6428317 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
6428256 AAAGCATAGT
*
6428266 CACCAGCAGCAAATAGCATGGG
1 CACCAGCAGCAAAGAGCATGGG
6428288 CACCAGCAGCAAAGAGCATGGG
1 CACCAGCAGCAAAGAGCATGGG
6428310 CACCAGCA
1 CACCAGCA
6428318 TGGGATGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.31, G:0.27, T:0.06
Consensus pattern (22 bp):
CACCAGCAGCAAAGAGCATGGG
Found at i:6429664 original size:38 final size:39
Alignment explanation
Indices: 6429564--6429985 Score: 259
Period size: 38 Copynumber: 10.8 Consensus size: 39
6429554 TTAAAATAAT
* * * *
6429564 TGTTTTCAAAACCATATAATATA-ATATATTTTCAAAAA
1 TGTTTTAAAAACTATATATTATATATATATTTTTAAAAA
* *
6429602 TATTTT-AAAATTATATA-T-TATATATATTTTTAAAAA
1 TGTTTTAAAAACTATATATTATATATATATTTTTAAAAA
*
6429638 TGTTTT-AAAACTATATATTATATATATATTTTTTCAAAA
1 TGTTTTAAAAACTATATATTATATATATA-TTTTTAAAAA
* * *
6429677 TGTTTTAAAAATTATATATTATATATAT-GTTTTCAAAA
1 TGTTTTAAAAACTATATATTATATATATATTTTTAAAAA
**
6429715 TGTTTTAAAAACTATATATTATATATAT-TTTTCCAAAA
1 TGTTTTAAAAACTATATATTATATATATATTTTTAAAAA
* * *
6429753 TGTTTTCAAAATTATAAATATTTTAAAACTATATATTATATAAGTTTTCAAAA
1 TGTTTTAAAAACTAT--ATA---T-----TATATA-TATAT---TTTTAAAAA
*
6429806 TGTTTTAAAAAC-A-ATA-TAT-TATATA-TTTTCAAAA
1 TGTTTTAAAAACTATATATTATATATATATTTTTAAAAA
* * *
6429840 TGTTTTTAAAAACCATATA-T-TATATA-AGTTTTCAAAA
1 TG-TTTTAAAAACTATATATTATATATATATTTTTAAAAA
* * * *
6429877 TGATTTCAAAAA-TCTATA--ATATATACATTTTCAAAAA
1 TG-TTTTAAAAACTATATATTATATATATATTTTTAAAAA
* * **
6429914 TCGTTTTCAAAAGTATATATTATATATATATTTCAAAAAA
1 T-GTTTTAAAAACTATATATTATATATATATTTTTAAAAA
** **
6429954 TCATTTGCAAACTAATATATATATATATATAT
1 TGTTTTAAAAACT-ATATAT-TATATATATAT
6429986 ATAATAAAAA
Statistics
Matches: 316, Mismatches: 35, Indels: 63
0.76 0.08 0.15
Matches are distributed among these distances:
34 11 0.03
35 12 0.04
36 43 0.14
37 53 0.17
38 80 0.25
39 24 0.08
40 49 0.16
41 11 0.03
43 1 0.00
48 6 0.02
49 6 0.02
50 1 0.00
52 1 0.00
53 18 0.06
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (39 bp):
TGTTTTAAAAACTATATATTATATATATATTTTTAAAAA
Found at i:6429698 original size:76 final size:75
Alignment explanation
Indices: 6429527--6429983 Score: 287
Period size: 76 Copynumber: 5.8 Consensus size: 75
6429517 TAAAACATTA
* * *
6429527 TTAAAATTATATATCATATA-AGCGTTTTTAAAATAATTGTTTTCAAAACCATATA-ATATA-AT
1 TTAAAATTATATATTATATATA---TTTTT-AAA-AA-TGTTTTAAAAACTATATATATATATAT
* *
6429589 ATATTTTCAAAAATATT
60 ATTTTTTC-AAAATGTT
6429606 TTAAAATTATATATTATATATATTTTTAAAAATGTTTT-AAAACTATATATTATATATATATTTT
1 TTAAAATTATATATTATATATATTTTTAAAAATGTTTTAAAAACTATATA-TATATATATATTTT
6429670 TTCAAAATGTT
65 TTCAAAATGTT
*
6429681 TTAAAAATTATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATATAT-TATATATATTT
1 TT-AAAATTATATATTATATATAT-TTTTAAAAATGTTTTAAAAACTATATATATATATATATTT
*
6429745 TTCCAAAATGTT
64 TTTCAAAATGTT
* *
6429757 TTCAAAATTATAAATATTTTAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAAC-A-A
1 TT-AAAATTAT--ATA--TT---A-TATATATT-TTTAA---A----AATGTTTTAAAAACTATA
6429820 TATAT-TATATA--TTTTCAAAATGTTT
49 TATATATATATATTTTTTCAAAATG-TT
** * * * * *
6429845 TTAAAAACCATATATTATATA-AGTTTTCAAAATGATTTCAAAAA-TCTATA-ATATATACA--T
1 TT-AAAATTATATATTATATATATTTTTAAAAATG-TTTTAAAAACTATATATATATATATATTT
6429905 TTTCAAAAATCGTT
64 TTTC-AAAAT-GTT
* * ** **
6429919 TTCAAAAGTATATATTATATATATATTTCAAAAAATCATTTGCAAACTAATATATATATATATAT
1 TT-AAAATTATATATTATATATAT-TTT-TAAAAATGTTTTAAAAACT-ATATATATATATATAT
6429984 ATATAATAAA
Statistics
Matches: 306, Mismatches: 34, Indels: 75
0.74 0.08 0.18
Matches are distributed among these distances:
71 4 0.01
72 10 0.03
73 23 0.08
74 31 0.10
75 18 0.06
76 73 0.24
77 26 0.08
78 21 0.07
79 29 0.09
80 7 0.02
81 1 0.00
83 2 0.01
84 12 0.04
86 3 0.01
87 10 0.03
88 10 0.03
89 10 0.03
90 2 0.01
91 14 0.05
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (75 bp):
TTAAAATTATATATTATATATATTTTTAAAAATGTTTTAAAAACTATATATATATATATATTTTT
TCAAAATGTT
Found at i:6429802 original size:91 final size:90
Alignment explanation
Indices: 6429674--6429850 Score: 261
Period size: 91 Copynumber: 2.0 Consensus size: 90
6429664 TATTTTTTCA
* * *
6429674 AAATGTTTTAAAAATTATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATATATTATAT
1 AAATATTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACAATATA-T-TAT
6429739 ATATTTTTCCAAAATGTTTTCAAAATTAT
64 ATA-TTTT-CAAAATGTTTTCAAAATTAT
6429768 AAATATTTT-AAAACTATATATTATATA-A-GTTTTCAAAATGTTTTAAAAACAATATATTATAT
1 AAATATTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACAATATATTATAT
*
6429830 ATTTTCAAAATGTTTTTAAAA
66 ATTTTCAAAATGTTTTCAAAA
6429851 ACCATATATT
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
87 15 0.19
88 4 0.05
89 6 0.08
90 1 0.01
91 27 0.34
92 1 0.01
93 17 0.22
94 8 0.10
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (90 bp):
AAATATTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACAATATATTATAT
ATTTTCAAAATGTTTTCAAAATTAT
Found at i:6429807 original size:53 final size:56
Alignment explanation
Indices: 6429712--6429816 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 56
6429702 TATGTTTTCA
* * *
6429712 AAATGTTTTAAAAACTATATATTATATATATTTTTCCAAAATGTTTTCAAAATTAT
1 AAATATTTTAAAAACTATATATTATATATAGTTTTCCAAAATGTTTTAAAAATTAT
6429768 AAATATTTT-AAAACTATATATTATATA-AGTTTT-CAAAATGTTTTAAAAA
1 AAATATTTTAAAAACTATATATTATATATAGTTTTCCAAAATGTTTTAAAAA
6429817 CAATATATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
53 15 0.33
54 5 0.11
55 18 0.39
56 8 0.17
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (56 bp):
AAATATTTTAAAAACTATATATTATATATAGTTTTCCAAAATGTTTTAAAAATTAT
Found at i:6429823 original size:36 final size:35
Alignment explanation
Indices: 6429768--6429951 Score: 187
Period size: 35 Copynumber: 5.1 Consensus size: 35
6429758 TCAAAATTAT
* *
6429768 AAATATTTTAAAAC-TATATATTATATAAGTTTTCA
1 AAATGTTTTAAAAACTATATATTATATAA-TTTTCA
*
6429803 AAATGTTTTAAAAACAATATATTATAT-ATTTTCA
1 AAATGTTTTAAAAACTATATATTATATAATTTTCA
*
6429837 AAATGTTTTTAAAAACCATATATTATATAAGTTTTCA
1 AAATG-TTTTAAAAACTATATATTATATAA-TTTTCA
*
6429874 AAATGATTTCAAAAATCTATA-A-TATATACATTTTCAA
1 AAATG-TTTTAAAAA-CTATATATTATATA-ATTTTC-A
* *
6429911 AAATCGTTTTCAAAAGTATATATTATATATATATTTCA
1 AAAT-GTTTTAAAAACTATATATTATATA-AT-TTTCA
6429949 AAA
1 AAA
6429952 AATCATTTGC
Statistics
Matches: 127, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
34 11 0.09
35 34 0.27
36 27 0.21
37 34 0.27
38 17 0.13
39 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (35 bp):
AAATGTTTTAAAAACTATATATTATATAATTTTCA
Found at i:6429876 original size:71 final size:73
Alignment explanation
Indices: 6429773--6429939 Score: 218
Period size: 71 Copynumber: 2.3 Consensus size: 73
6429763 ATTATAAATA
* *
6429773 TTTTAAAACTATATATTATATAAGTTTTCAAAATG-TTTTAAAAA-CAAT-ATATTATATATTTT
1 TTTTAAAACTATATATTATATAAGTTTTCAAAATGATTTCAAAAATCAATAATA-TATACATTTT
6429835 C-AAAAT-G
65 CAAAAATCG
* *
6429842 TTTTTAAAAACCATATATTATATAAGTTTTCAAAATGATTTCAAAAATCTATAATATATACATTT
1 -TTTT-AAAACTATATATTATATAAGTTTTCAAAATGATTTCAAAAATCAATAATATATACATTT
6429907 TCAAAAATCG
64 TCAAAAATCG
*
6429917 TTTTCAAAAGTATATATTATATA
1 TTTT-AAAACTATATATTATATA
6429940 TATATTTCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 4 0.05
71 30 0.36
72 8 0.10
73 13 0.15
74 28 0.33
75 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (73 bp):
TTTTAAAACTATATATTATATAAGTTTTCAAAATGATTTCAAAAATCAATAATATATACATTTTC
AAAAATCG
Found at i:6429953 original size:40 final size:39
Alignment explanation
Indices: 6429825--6429987 Score: 126
Period size: 37 Copynumber: 4.2 Consensus size: 39
6429815 AACAATATAT
* * *
6429825 TATATAT-TTTC-AAAAT-GTTTTTAAAAACCATATATTA
1 TATATATATTTCAAAAATCATTTTCAAAAA-TATATATTA
* * *
6429862 TATA-AGT-TTTC-AAAATGA-TTTCAAAAATCTATAATA
1 TATATA-TATTTCAAAAATCATTTTCAAAAATATATATTA
* * *
6429898 TATACAT-TTTCAAAAATCGTTTTCAAAAGTATATATTA
1 TATATATATTTCAAAAATCATTTTCAAAAATATATATTA
*
6429936 TATATATATTTCAAAAAATCATTTGCAAACTAATATATATATA
1 TATATATATTTC-AAAAATCATTTTCAAA--AATATATAT-TA
6429979 TATATATAT
1 TATATATAT
6429988 AATAAAAAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
36 16 0.16
37 28 0.27
38 21 0.21
39 4 0.04
40 14 0.14
42 8 0.08
43 11 0.11
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (39 bp):
TATATATATTTCAAAAATCATTTTCAAAAATATATATTA
Found at i:6432039 original size:49 final size:48
Alignment explanation
Indices: 6431986--6432086 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 48
6431976 TATATATATT
*
6431986 TTTAAAAAA-AATTAA-ACT-ATATATTATATATATATATTTTTTCAAAATG
1 TTTAAAAAACAATTAACA-TAATATA-TAT-TATATATA-TTTTTAAAAATG
*
6432035 TTTAAAAAACTAATTTACATAATATATATTATATATATTTTTAAAAATG
1 TTTAAAAAAC-AATTAACATAATATATATTATATATATTTTTAAAAATG
6432084 TTT
1 TTT
6432087 TAAACTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
49 23 0.50
50 8 0.17
51 9 0.20
52 6 0.13
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.47
Consensus pattern (48 bp):
TTTAAAAAACAATTAACATAATATATATTATATATATTTTTAAAAATG
Found at i:6432100 original size:35 final size:35
Alignment explanation
Indices: 6432057--6432160 Score: 199
Period size: 35 Copynumber: 3.0 Consensus size: 35
6432047 ATTTACATAA
6432057 TATATATTATATATATTTTTAAAAATGTTTTAAAC
1 TATATATTATATATATTTTTAAAAATGTTTTAAAC
*
6432092 TATATATTATATATATTTCTAAAAATGTTTTAAAC
1 TATATATTATATATATTTTTAAAAATGTTTTAAAC
6432127 TATATATTATATATATTTTTAAAAATGTTTTAAA
1 TATATATTATATATATTTTTAAAAATGTTTTAAA
6432161 AATGTTTTGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (35 bp):
TATATATTATATATATTTTTAAAAATGTTTTAAAC
Found at i:6432174 original size:11 final size:11
Alignment explanation
Indices: 6432143--6432168 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6432133 TTATATATAT
6432143 TTTTAAAAATG
1 TTTTAAAAATG
6432154 TTTTAAAAATG
1 TTTTAAAAATG
6432165 TTTT
1 TTTT
6432169 GGAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TTTTAAAAATG
Found at i:6432259 original size:34 final size:36
Alignment explanation
Indices: 6432186--6432275 Score: 141
Period size: 34 Copynumber: 2.6 Consensus size: 36
6432176 AAAAAAATAA
*
6432186 TTTGAAAACTTATATAATATATGGTTTTTAAAAACAT
1 TTTGAAAAC-TATATAATATACGGTTTTTAAAAACAT
6432223 TTTGAAAA-TATATAATATACGGTTTTT-AAAACAT
1 TTTGAAAACTATATAATATACGGTTTTTAAAAACAT
6432257 TTTGAAAACT-TATAATATA
1 TTTGAAAACTATATAATATA
6432276 TATATATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
34 24 0.47
35 19 0.37
37 8 0.16
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (36 bp):
TTTGAAAACTATATAATATACGGTTTTTAAAAACAT
Found at i:6434233 original size:13 final size:12
Alignment explanation
Indices: 6434184--6434388 Score: 53
Period size: 13 Copynumber: 16.6 Consensus size: 12
6434174 TAAAAATAAT
*
6434184 TTTTAAATTATA
1 TTTTAAAATATA
* *
6434196 TATT-ATATATA
1 TTTTAAAATATA
*
6434207 TTTTTAAAAAATA
1 -TTTTAAAATATA
6434220 TTTTAAAACTATA
1 TTTTAAAA-TATA
* *
6434233 TATT-ATATATA
1 TTTTAAAATATA
*
6434244 TTTTCAAAATGT-
1 TTTT-AAAATATA
*
6434256 TTTAAAAACTATA
1 TTTTAAAA-TATA
* * *
6434269 TATTATATATATG
1 TTTTA-AAATATA
*
6434282 TTTTCAAAATGT-
1 TTTT-AAAATATA
*
6434294 TTTAAAAACTATA
1 TTTTAAAA-TATA
* *
6434307 TATTATATATATA
1 TTTTA-AAATATA
*
6434320 TTTTTAAAATGT-
1 -TTTTAAAATATA
* *
6434332 TTTCAAAAACATA
1 TTT-TAAAATATA
* *
6434345 TATTATATATATA
1 TTTTA-AAATATA
* *
6434358 TTTTCAAA-ATG
1 TTTTAAAATATA
6434369 TTTTAAAACTATA
1 TTTTAAAA-TATA
*
6434382 TATTAAA
1 TTTTAAA
6434389 TAAGTTTTCA
Statistics
Matches: 132, Mismatches: 43, Indels: 35
0.63 0.20 0.17
Matches are distributed among these distances:
11 32 0.24
12 34 0.26
13 57 0.43
14 9 0.07
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.48
Consensus pattern (12 bp):
TTTTAAAATATA
Found at i:6434271 original size:36 final size:36
Alignment explanation
Indices: 6434192--6434547 Score: 375
Period size: 36 Copynumber: 9.7 Consensus size: 36
6434182 ATTTTTAAAT
* *
6434192 TATATATTATATATATTTTTAAAAAATATTTT-AAAAC
1 TATATATTATATATA-TTTT-CAAAATGTTTTAAAAAC
6434229 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
6434265 TATATATTATATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATA--TTTTCAAAATGTTTTAAAAAC
*
6434303 TATATATTATATATATATTTTTAAAATGTTTTCAAAAAC
1 TATATA-T-TATATATATTTTCAAAATGTTTT-AAAAAC
6434342 -ATATATTATATATATATTTTCAAAATGTTTT-AAAAC
1 TATATA-T-TATATATATTTTCAAAATGTTTTAAAAAC
* *
6434378 TATATATTAAATA-AGTTTTCAAAATTTTTTAAAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTTAAAAAC
* *
6434414 CATATA-T-TATATATTTTCAAAATGTTTTTAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
* * *
6434448 CATATATTATATA-AGTTTTCAAAATGATTTCAAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTTAAAAAC
* ** * * *
6434484 TATATAATATATACGTTTTAAAAATTATTTTCAAAAC
1 TATATATTATATATATTTTCAAAA-TGTTTTAAAAAC
*
6434521 TATATATATTTTATATATATTTCAAAA
1 --TATATATTATATATAT-TTTCAAAA
6434548 ATCATTTGCA
Statistics
Matches: 278, Mismatches: 23, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
34 29 0.10
35 32 0.12
36 82 0.29
37 30 0.11
38 71 0.26
39 19 0.07
40 15 0.05
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATTATATATATTTTCAAAATGTTTTAAAAAC
Found at i:6434280 original size:38 final size:38
Alignment explanation
Indices: 6434192--6434580 Score: 382
Period size: 38 Copynumber: 10.5 Consensus size: 38
6434182 ATTTTTAAAT
* *
6434192 TATATATTATATATAT-TTTTAAAAAATATTTT-AAAAC
1 TATATATTATATATATATTTT-CAAAATGTTTTAAAAAC
6434229 TATATA-T-TATATATATTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTTAAAAAC
*
6434265 TATATATTATATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTTAAAAAC
*
6434303 TATATATTATATATATATTTTTAAAATGTTTTCAAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTT-AAAAAC
6434342 -ATATATTATATATATATTTTCAAAATGTTTT-AAAAC
1 TATATATTATATATATATTTTCAAAATGTTTTAAAAAC
*
6434378 TATATATTA-A-ATA-AGTTTTCAAAATTTTTTAAAAAC
1 TATATATTATATATATA-TTTTCAAAATGTTTTAAAAAC
* *
6434414 --CATA-TAT-TATATATTTTCAAAATGTTTTTAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTTAAAAAC
* * * *
6434448 CATATATTATATA-A-GTTTTCAAAATGATTTCAAAAC
1 TATATATTATATATATATTTTCAAAATGTTTTAAAAAC
** * * *
6434484 TATATA--ATATATACGTTTTAAAAATTATTTTCAAAAC
1 TATATATTATATATATATTTTCAAAA-TGTTTTAAAAAC
* ** **
6434521 TATATA-TATTTTATATATATTTCAAAAATCATTTGCAAAC
1 TATATATTA-TATATATAT-TTTC-AAAATGTTTTAAAAAC
6434561 TATAATATATATATATATAT
1 TAT-ATAT-TATATATATAT
6434581 ATATATATAT
Statistics
Matches: 300, Mismatches: 27, Indels: 45
0.81 0.07 0.12
Matches are distributed among these distances:
33 2 0.01
34 31 0.10
35 35 0.12
36 63 0.21
37 35 0.12
38 91 0.30
39 12 0.04
40 14 0.05
41 7 0.02
42 8 0.03
43 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (38 bp):
TATATATTATATATATATTTTCAAAATGTTTTAAAAAC
Found at i:6434529 original size:70 final size:66
Alignment explanation
Indices: 6434194--6434529 Score: 267
Period size: 70 Copynumber: 4.6 Consensus size: 66
6434184 TTTTAAATTA
* * * *
6434194 TATATTATATATATTTTTAAAAAATATTTTAAAACTATATATTATATATATTTTCAAAATGTTTT
1 TATATAATATATA-TTTT-CAAAATTTTTTAAAACTATATA-TATA-A-GTTTTCAAAATGTTTT
*
6434259 AAAAAC
61 CAAAAC
* * *
6434265 TATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATATATTATATATATATTTTTAAAAT
1 TATATA--ATATATA--TTTTCAAAAT-TTTTTAAAAC--TATA-TATATA-A-GTTTTCAAAAT
6434330 GTTTTCAAAAAC
56 GTTTTC-AAAAC
* *
6434342 ATATATTATATATATATTTTCAAAATGTTTTAAAACTATATATTAAATAAGTTTTCAAAATTTTT
1 -TATA-TA-ATATATATTTTCAAAATTTTTTAAAACTATATA-T--ATAAGTTTTCAAAATGTTT
*
6434407 TAAAAAC
60 TCAAAAC
* * *
6434414 CATATATTATATATTTTCAAAATGTTTTTAAAACCATATATTATATAAGTTTTCAAAATGATTTC
1 TATATAATATATATTTTCAAAAT-TTTTTAAAA-C-TATA-TATATAAGTTTTCAAAATGTTTTC
6434479 AAAAC
62 AAAAC
*
6434484 TATATAATATATACGTTTTAAAAATTATTTTCAAAACTATATATAT
1 TATATAATATATA--TTTTCAAAATT-TTTT-AAAACTATATATAT
6434530 TTTATATATA
Statistics
Matches: 222, Mismatches: 22, Indels: 43
0.77 0.08 0.15
Matches are distributed among these distances:
69 16 0.07
70 49 0.22
71 14 0.06
72 26 0.12
73 36 0.16
74 13 0.06
75 11 0.05
76 36 0.16
77 7 0.03
78 12 0.05
79 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (66 bp):
TATATAATATATATTTTCAAAATTTTTTAAAACTATATATATAAGTTTTCAAAATGTTTTCAAAA
C
Found at i:6434572 original size:2 final size:2
Alignment explanation
Indices: 6434561--6434591 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6434551 ATTTGCAAAC
6434561 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6434592 AATAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6436625 original size:38 final size:36
Alignment explanation
Indices: 6436565--6436793 Score: 327
Period size: 38 Copynumber: 6.2 Consensus size: 36
6436555 CTAAAAATAA
* *
6436565 TTTTTAAACTATATATTATATATATTTTTAAAAATG
1 TTTTAAAACTATATATTATATATATTTTTCAAAATG
*
6436601 TTTTAAAACTATATATTATATATATTTTGCAAAATG
1 TTTTAAAACTATATATTATATATATTTTTCAAAATG
6436637 TTTTAAAAACTATATATTATATATATGTTTTCAAAATG
1 TTTT-AAAACTATATATTATATATAT-TTTTCAAAATG
*
6436675 TTTTAAAAACTATAT-TATATATATATATATTCAAAATG
1 TTTT-AAAACTATATAT-TATATATAT-TTTTCAAAATG
*
6436713 TTTTCAAAATTATATATTATATATATATTTTCAAAATG
1 TTTT-AAAACTATATATTATATATAT-TTTTCAAAATG
*
6436751 TTTTAAAACTATATATTATATA-AGTTTTCAAAATG
1 TTTTAAAACTATATATTATATATATTTTTCAAAATG
6436786 TTTTAAAA
1 TTTTAAAA
6436794 ACAATAACAA
Statistics
Matches: 178, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
35 19 0.11
36 38 0.21
37 39 0.22
38 81 0.46
39 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTTAAAACTATATATTATATATATTTTTCAAAATG
Found at i:6439740 original size:34 final size:34
Alignment explanation
Indices: 6439677--6439757 Score: 128
Period size: 34 Copynumber: 2.4 Consensus size: 34
6439667 TTCGAAAACT
6439677 TATATAATATATGATTTTTAAAAACATTTTGAAAA
1 TATATAATATATGATTTTTAAAAACATTTTG-AAA
*
6439712 TATATAATATATGGTTTTT-AAAACATTTTGAAA
1 TATATAATATATGATTTTTAAAAACATTTTGAAA
6439745 TATTATAATATAT
1 TA-TATAATATAT
6439758 ATATATATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 5 0.11
34 21 0.48
35 18 0.41
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (34 bp):
TATATAATATATGATTTTTAAAAACATTTTGAAA
Found at i:6439759 original size:2 final size:2
Alignment explanation
Indices: 6439744--6439825 Score: 141
Period size: 2 Copynumber: 42.0 Consensus size: 2
6439734 ACATTTTGAA
6439744 AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6439784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6439826 GTACAACTAA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
1 2 0.03
2 74 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6441773 original size:36 final size:37
Alignment explanation
Indices: 6441717--6441856 Score: 196
Period size: 36 Copynumber: 3.8 Consensus size: 37
6441707 TAAATCATTC
*
6441717 TAAAAATAATTTT-TAAACTATATATTATATATATTTT
1 TAAAAAT-ATTTTAAAAACTATATATTATATATATTTT
*
6441754 TAAAAATGTTTT-AAAACTATATATTATATATA-TTT
1 TAAAAATATTTTAAAAACTATATATTATATATATTTT
* *
6441789 TCAAAATGTTTTAAAAACTATATATTATATATATATTT
1 TAAAAATATTTTAAAAACTATATATTATATATAT-TTT
*
6441827 TCAAAATATTTTAAAAACTATATATTATAT
1 TAAAAATATTTTAAAAACTATATATTATAT
6441857 TTTTTTTGAG
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
35 14 0.15
36 43 0.45
37 7 0.07
38 32 0.33
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
TAAAAATATTTTAAAAACTATATATTATATATATTTT
Found at i:6441843 original size:11 final size:11
Alignment explanation
Indices: 6441751--6441843 Score: 51
Period size: 11 Copynumber: 7.8 Consensus size: 11
6441741 TTATATATAT
*
6441751 TTTTAAAAATG
1 TTTTAAAAATA
6441762 TTTTAAAACTATA
1 TTTTAAAA--ATA
* * *
6441775 TATTATATATA
1 TTTTAAAAATA
* *
6441786 TTTTCAAAATG
1 TTTTAAAAATA
6441797 TTTTAAAAACTA
1 TTTTAAAAA-TA
*
6441809 TATATTATATATATA
1 T-T-TTA-A-AAATA
*
6441824 TTTTCAAAATA
1 TTTTAAAAATA
6441835 TTTTAAAAA
1 TTTTAAAAA
6441844 CTATATATTA
Statistics
Matches: 60, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
11 37 0.62
12 3 0.05
13 10 0.17
14 4 0.07
15 4 0.07
16 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:6442175 original size:20 final size:21
Alignment explanation
Indices: 6442130--6442382 Score: 265
Period size: 20 Copynumber: 12.4 Consensus size: 21
6442120 GATTCTGACT
*
6442130 ATCGCAACGAGTATCCGTAAAA
1 ATCGCAACGCGTATCCGT-AAA
6442152 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
* *
6442172 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGTAAA
6442193 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
* * *
6442213 ATCGCAACGAGAATACGT-AA
1 ATCGCAACGCGTATCCGTAAA
* * *
6442233 ATCGCAACGTG-ATTC-TGAA
1 ATCGCAACGCGTATCCGTAAA
* *
6442252 ATCGCAACGAGAATCCGTAAA
1 ATCGCAACGCGTATCCGTAAA
6442273 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
* *
6442293 ATCGCAACGAGAATCCGTAAA
1 ATCGCAACGCGTATCCGTAAA
6442314 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
* *
6442334 ATCGCAACGAC-AATTCGTAAA
1 ATCGCAACG-CGTATCCGTAAA
*
6442355 ATCACAACGCGTATCCGT-AA
1 ATCGCAACGCGTATCCGTAAA
6442375 ATCGCAAC
1 ATCGCAAC
6442383 ACGGTTTTTA
Statistics
Matches: 196, Mismatches: 25, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
18 1 0.01
19 15 0.08
20 93 0.47
21 70 0.36
22 17 0.09
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGTATCCGTAAA
Found at i:6442206 original size:41 final size:41
Alignment explanation
Indices: 6442130--6442382 Score: 386
Period size: 41 Copynumber: 6.2 Consensus size: 41
6442120 GATTCTGACT
*
6442130 ATCGCAACGAGTATCCGTAAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGT-AAAATCGCAACGCGTATCCGTAA
* *
6442172 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
* * *
6442213 ATCGCAACGAGAATACGT-AAATCGCAACGTG-ATTC-TGAA
1 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGT-AA
6442252 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
6442293 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
* * *
6442334 ATCGCAACGACAATTCGTAAAATCACAACGCGTATCCGTAA
1 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
6442375 ATCGCAAC
1 ATCGCAAC
6442383 ACGGTTTTTA
Statistics
Matches: 195, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 22 0.11
40 24 0.12
41 132 0.68
42 16 0.08
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAA
Found at i:6442312 original size:121 final size:123
Alignment explanation
Indices: 6442107--6442365 Score: 414
Period size: 121 Copynumber: 2.1 Consensus size: 123
6442097 CGCGAACATA
* * *
6442107 TAAATCTCAACGCGATTCTGACTATCGCAACGAGTATCCGTAAAAATCGCAACGCGTATCCGTAA
1 TAAATCACAACGCGATTCTGACAATCGCAACGAGAATCCGTAAAAATCGCAACGCGTATCCGTAA
*
6442172 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACG
66 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACG
* *
6442230 TAAATCGCAACGTGATTCTGA-AATCGCAACGAGAATCCGT-AAAATCGCAACGCGTATCCGTAA
1 TAAATCACAACGCGATTCTGACAATCGCAACGAGAATCCGTAAAAATCGCAACGCGTATCCGTAA
* * *
6442293 ATCGCAACGAGAATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATTCG
66 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACG
6442351 TAAAATCACAACGCG
1 T-AAATCACAACGCG
6442366 TATCCGTAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
121 78 0.62
122 28 0.22
123 19 0.15
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (123 bp):
TAAATCACAACGCGATTCTGACAATCGCAACGAGAATCCGTAAAAATCGCAACGCGTATCCGTAA
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACG
Found at i:6442984 original size:21 final size:21
Alignment explanation
Indices: 6442943--6443001 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
6442933 TTCTAAACTT
6442943 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
6442963 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
*
6442984 AAAATCACAACGAGAGAA
1 AAAATCGCAACGAGAGAA
6443002 TCGCAACGCG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.10
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:6443075 original size:33 final size:33
Alignment explanation
Indices: 6443038--6443152 Score: 158
Period size: 33 Copynumber: 3.5 Consensus size: 33
6443028 GCAATTTTGG
6443038 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
* ** *
6443071 TTTCGCGTTGCGATTCTATATTTGAGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
**
6443104 TTTCGCGTTGCGATTCTCTCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
6443137 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
6443153 TTCATTTCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
33 58 0.83
34 12 0.17
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:6445017 original size:94 final size:94
Alignment explanation
Indices: 6444856--6445235 Score: 674
Period size: 94 Copynumber: 4.1 Consensus size: 94
6444846 TAGATTGCTT
* *
6444856 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
6444921 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
6444950 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
6445015 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
6445044 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
6445109 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
6445138 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
6445203 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
6445231 AGTAA
1 AGTAA
6445236 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 26 0.09
94 252 0.91
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:6445360 original size:14 final size:14
Alignment explanation
Indices: 6445341--6445411 Score: 70
Period size: 14 Copynumber: 4.7 Consensus size: 14
6445331 GCGAAACGAA
6445341 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6445355 AATCGCAACGAGAAATGAG
1 AATCGCAAC--G--A-GAG
*
6445374 AATTGCAACGAGAG
1 AATCGCAACGAGAG
* *
6445388 AATCGCAACGACAA
1 AATCGCAACGAGAG
6445402 AATCGCAACG
1 AATCGCAACG
6445412 CGAAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
14 33 0.69
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 11 0.23
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6445382 original size:33 final size:33
Alignment explanation
Indices: 6445323--6445398 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
6445313 AAAAATGACT
*
6445323 ATCGCAACGCGAAACGAAAATCGCAACGAGAGA
1 ATCGCAACGAGAAACGAAAATCGCAACGAGAGA
* * *
6445356 ATCGCAACGAGAAATGAGAATTGCAACGAGAGA
1 ATCGCAACGAGAAACGAAAATCGCAACGAGAGA
6445389 ATCGCAACGA
1 ATCGCAACGA
6445399 CAAAATCGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.09
Consensus pattern (33 bp):
ATCGCAACGAGAAACGAAAATCGCAACGAGAGA
Found at i:6445445 original size:19 final size:18
Alignment explanation
Indices: 6445423--6445552 Score: 68
Period size: 19 Copynumber: 7.7 Consensus size: 18
6445413 GAAACCAAAA
6445423 TCGCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTC-TT
* *
6445442 TCGCATTACGATTTTC--
1 TCGCGTTGCGATTTTCTT
6445458 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
6445475 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCTT
* * *
6445489 TCTCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
6445508 TCTCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCTT
*
6445522 TCTCGTTGCGATTTTCGTT
1 TCGCGTTGCGATTTTC-TT
*
6445541 TCGTGTTGCGAT
1 TCGCGTTGCGAT
6445553 AGTCATTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 30 0.35
16 7 0.08
17 7 0.08
19 41 0.48
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:6445467 original size:14 final size:14
Alignment explanation
Indices: 6445450--6445537 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
6445440 TTTCGCATTA
6445450 CGATTTTCTCGTTG
1 CGATTTTCTCGTTG
6445464 CGATTTTCATTTCGCGTTG
1 CGATTTTC---T--CGTTG
* *
6445483 CGATTCTCTCATTG
1 CGATTTTCTCGTTG
*
6445497 CAATTTTCATTTCTCGTTG
1 CGA--TT--TT-CTCGTTG
*
6445516 CGATTCTCTCGTTG
1 CGATTTTCTCGTTG
6445530 CGATTTTC
1 CGATTTTC
6445538 GTTTCGTGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 20
0.67 0.10 0.24
Matches are distributed among these distances:
14 28 0.50
15 1 0.02
16 3 0.05
17 3 0.05
18 1 0.02
19 20 0.36
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (14 bp):
CGATTTTCTCGTTG
Found at i:6445468 original size:33 final size:33
Alignment explanation
Indices: 6445426--6445552 Score: 173
Period size: 33 Copynumber: 3.8 Consensus size: 33
6445416 ACCAAAATCG
* * * *
6445426 CGTTGCGATTTTCGTTTCGCATTACGATTTTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
6445459 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* * *
6445492 CATTGCAATTTTCATTTCTCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
6445525 CGTTGCGATTTTCGTTTCGTGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
6445553 AGTCATTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:6445522 original size:12 final size:13
Alignment explanation
Indices: 6445505--6445540 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
6445495 TGCAATTTTC
6445505 ATTTCTCGTTGCG
1 ATTTCTCGTTGCG
6445518 ATTCTCTCGTTGCG
1 ATT-TCTCGTTGCG
6445532 ATTT-TCGTT
1 ATTTCTCGTT
6445541 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 4 0.18
14 13 0.59
ACGTcount: A:0.08, C:0.22, G:0.19, T:0.50
Consensus pattern (13 bp):
ATTTCTCGTTGCG
Found at i:6446053 original size:21 final size:21
Alignment explanation
Indices: 6446029--6446095 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6446019 TCATTCCTCG
6446029 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
6446050 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
6446071 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
6446092 AGAG
1 AGAG
6446096 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:6446053 original size:42 final size:42
Alignment explanation
Indices: 6445977--6446095 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
6445967 GACTCGCCTG
* * * * * * *
6445977 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
6446019 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
6446061 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
6446096 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:6446460 original size:190 final size:190
Alignment explanation
Indices: 6446137--6446519 Score: 730
Period size: 190 Copynumber: 2.0 Consensus size: 190
6446127 TTGAGAAACC
6446137 CTCTGACGTGCCGGACATGATGGATGAGAGTTGGCTCTCGTATAAGTTACCGGCCAGTACCATTC
1 CTCTGACGTGCCGGACATGATGGATGAGAGTTGGCTCTCGTATAAGTTACCGGCCAGTACCATTC
* ** *
6446202 CGGTATCTGAAGTGGAGAGGAGACAACTACTGGACACAATTCTGGATAACACCGTTTGGGCTAAG
66 CGGTATCTGAAGTGGAGAAGAGACAACTACCAGACACAATTCTGGATAACACCCTTTGGGCTAAG
6446267 ACCGCAGTTGATTTTTATCTACATGAGCGGAGCCAGGGGTGTTTCACTGACATATGTAAG
131 ACCGCAGTTGATTTTTATCTACATGAGCGGAGCCAGGGGTGTTTCACTGACATATGTAAG
6446327 CTCTGACGTGCCGGACATGATGGATGAGAGTTGGCTCTCGTATAAGTTACCGGCCAGTACCATTC
1 CTCTGACGTGCCGGACATGATGGATGAGAGTTGGCTCTCGTATAAGTTACCGGCCAGTACCATTC
6446392 CGGTATCTGAAGTGGAGAAGAGACAACTACCAGACACAATTCTGGATAACACCCTTTGGGCTAAG
66 CGGTATCTGAAGTGGAGAAGAGACAACTACCAGACACAATTCTGGATAACACCCTTTGGGCTAAG
6446457 ACCGCAGTTGATTTTTATCTACATGAGCGGAGCCAGGGGTGTTTCACTGACATATGTAAG
131 ACCGCAGTTGATTTTTATCTACATGAGCGGAGCCAGGGGTGTTTCACTGACATATGTAAG
6446517 CTC
1 CTC
6446520 AACGATGATA
Statistics
Matches: 189, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 189 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (190 bp):
CTCTGACGTGCCGGACATGATGGATGAGAGTTGGCTCTCGTATAAGTTACCGGCCAGTACCATTC
CGGTATCTGAAGTGGAGAAGAGACAACTACCAGACACAATTCTGGATAACACCCTTTGGGCTAAG
ACCGCAGTTGATTTTTATCTACATGAGCGGAGCCAGGGGTGTTTCACTGACATATGTAAG
Found at i:6447658 original size:14 final size:14
Alignment explanation
Indices: 6447639--6447674 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6447629 ATTGTTTAAT
6447639 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
6447653 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
6447667 TGATTTGT
1 TGATTTGT
6447675 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6447847 original size:19 final size:19
Alignment explanation
Indices: 6447781--6447847 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
6447771 AAAAATGACT
*
6447781 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAACGAAA
*
6447800 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAACGAAA
6447814 ATCGCAATGCGAAACGAAA
1 ATCGCAATGCGAAACGAAA
*
6447833 ATCGCAACGCGAAAC
1 ATCGCAATGCGAAAC
6447848 TAAATTCGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
ATCGCAATGCGAAACGAAA
Found at i:6447968 original size:20 final size:19
Alignment explanation
Indices: 6447922--6448063 Score: 88
Period size: 20 Copynumber: 7.8 Consensus size: 19
6447912 GCGATTCTCT
**
6447922 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
6447941 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
* *
6447961 CGTTGCGATATTGATATTCG
1 CGTTGCGATAGTCAT-TTCG
*
6447981 CGTTGCG--A-T--TTTCA
1 CGTTGCGATAGTCATTTCG
**
6447995 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
6448014 CATTGCGAT--TC---TCT
1 CGTTGCGATAGTCATTTCG
*
6448028 CGTTGCGATAGTAATTTCCG
1 CGTTGCGATAGTCATTT-CG
6448048 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
6448064 AAGATGATTG
Statistics
Matches: 95, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
14 20 0.21
15 1 0.01
16 1 0.01
17 4 0.04
18 1 0.01
19 27 0.28
20 39 0.41
21 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:6448000 original size:14 final size:14
Alignment explanation
Indices: 6447981--6448008 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6447971 TTGATATTCG
6447981 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
6447995 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
6448009 TTTCGCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:6448000 original size:106 final size:106
Alignment explanation
Indices: 6447854--6448063 Score: 314
Period size: 106 Copynumber: 2.0 Consensus size: 106
6447844 AAACTAAATT
* *
6447854 CGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATATTCATTTCGCATTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATTC
** *
6447919 TCTCGTTGCGATTTTCATTT-CGCATTGCGATAGTCATTTC
66 TCTCGTTGCGATAGTAATTTCCGCATTGCGATAGTCATTTC
* * **
6447959 CGCGTTGCGATATTGATATTCGCGTTGCGATTTTCACGTTGCGATTTTCATTTCGCATTGCGATT
1 CGCGTTGCGATATTCAT-TTCGCATTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATT
*
6448024 CTCTCGTTGCGATAGTAATTTCCGCGTTGCGATAGTCATT
65 CTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGTCATT
6448064 AAGATGATTG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
105 15 0.16
106 61 0.66
107 17 0.18
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (106 bp):
CGCGTTGCGATATTCATTTCGCATTGCGATTCCCACGTTGCGATTTTCATTTCGCATTGCGATTC
TCTCGTTGCGATAGTAATTTCCGCATTGCGATAGTCATTTC
Found at i:6448007 original size:73 final size:66
Alignment explanation
Indices: 6447856--6448056 Score: 231
Period size: 73 Copynumber: 2.9 Consensus size: 66
6447846 ACTAAATTCG
* *
6447856 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATATTCATTTCGCATTGCGATTCTC
*
6447921 T
66 A
* *
6447922 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATATTGATATTCGCGTTGC
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCGCGTTGCGATATTCAT-TTCGCATTGC
*
6447987 GATTTTCA
59 GATTCTCA
* * * * *
6447995 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATATTCATTT-CGCATTGCGAT
6448057 AGTCATTAAG
Statistics
Matches: 117, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
66 30 0.26
67 25 0.21
68 2 0.02
71 2 0.02
72 15 0.13
73 43 0.37
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATATTCATTTCGCATTGCGATTCTC
A
Found at i:6448045 original size:33 final size:33
Alignment explanation
Indices: 6447856--6448036 Score: 236
Period size: 33 Copynumber: 5.3 Consensus size: 33
6447846 ACTAAATTCG
*
6447856 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
6447889 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
6447922 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * * *
6447961 CGTTGCGATATTGATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
6447995 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
6448028 CGTTGCGAT
1 CGTTGCGAT
6448037 AGTAATTTCC
Statistics
Matches: 129, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
33 84 0.65
34 14 0.11
35 3 0.02
38 2 0.02
39 14 0.11
40 12 0.09
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:6450597 original size:24 final size:24
Alignment explanation
Indices: 6450563--6450616 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
6450553 CTGAAACATC
6450563 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
6450587 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
6450611 ATCAAA
1 ATCAAA
6450617 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:6450630 original size:24 final size:24
Alignment explanation
Indices: 6450563--6450630 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
6450553 CTGAAACATC
* * *
6450563 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
6450587 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
6450611 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
6450631 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:6450763 original size:12 final size:12
Alignment explanation
Indices: 6450742--6450775 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6450732 GGTTGTGGGT
*
6450742 TTTGAGATTGTG
1 TTTGATATTGTG
6450754 TTTGATATTGTG
1 TTTGATATTGTG
*
6450766 TTTGGTATTG
1 TTTGATATTG
6450776 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:6451463 original size:20 final size:20
Alignment explanation
Indices: 6451438--6451770 Score: 257
Period size: 20 Copynumber: 16.4 Consensus size: 20
6451428 AAATTTCAGT
6451438 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
* *
6451458 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCTC
**
6451478 GTTGCGATTTACTTATTCTC
1 GTTGCGATTTACAGATTCTC
6451498 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACAGATTCTC
6451518 GTTGCGATTTTAC-GTATTCTC
1 GTTGCGA-TTTACAG-ATTCTC
* * *
6451539 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTC
*
6451559 ATTGCGATTTAC-GTATTCTC
1 GTTGCGATTTACAG-ATTCTC
* *
6451579 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACAGATTCTC
* *
6451599 ATTGCGATTTAC-GTATTCTT
1 GTTGCGATTTACAG-ATTCTC
** * *
6451619 GTTGCGATTTATGGATACGC
1 GTTGCGATTTACAGATTCTC
*
6451639 GTTGCGATTTTAC-GTATTGTC
1 GTTGCGA-TTTACAG-ATTCTC
* * *
6451660 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACAGATTCTC
*
6451680 GTTGCGATTTTTAC-GAATACTC
1 GTTGCGA--TTTACAG-ATTCTC
* * *
6451702 GTTGCGATAGT-CAGAATCGC
1 GTTGCGAT-TTACAGATTCTC
* *
6451722 GTTGCGATTTATATG-TTCGC
1 GTTGCGATTTACA-GATTCTC
* * *
6451742 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACAGATTCTC
6451762 GTTGCGATT
1 GTTGCGATT
6451771 CTAAAACTGA
Statistics
Matches: 253, Mismatches: 42, Indels: 36
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.01
20 193 0.76
21 40 0.16
22 17 0.07
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACAGATTCTC
Found at i:6451496 original size:40 final size:38
Alignment explanation
Indices: 6451438--6451709 Score: 303
Period size: 40 Copynumber: 6.7 Consensus size: 38
6451428 AAATTTCAGT
6451438 GTTGCGATTTACAG-ATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTAC-GTATTCTCGTTGCGATTTACGGA-TA-C
* * *
6451478 GTTGCGATTTACTTATTCTCGTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGTATTCTCGTTGCGATTTACGGA-T-AC
6451518 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATAC
1 GTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATAC
*
6451557 GCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATAC
1 G--TTGCGATTTACGTATTCTCGTTGCGATTTACGGATAC
* *
6451597 GCATTGCGATTTACGTATTCTTGTTGCGATTTATGGATACGC
1 G--TTGCGATTTACGTATTCTCGTTGCGATTTACGGATA--C
*
6451639 GTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 GTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATA--C
* *
6451680 GTTGCGATTTTTACGAATACTCGTTGCGAT
1 GTTGCGA--TTTACGTATTCTCGTTGCGAT
6451710 AGTCAGAATC
Statistics
Matches: 207, Mismatches: 16, Indels: 16
0.87 0.07 0.07
Matches are distributed among these distances:
39 2 0.01
40 115 0.56
41 69 0.33
42 21 0.10
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (38 bp):
GTTGCGATTTACGTATTCTCGTTGCGATTTACGGATAC
Found at i:6451604 original size:121 final size:120
Alignment explanation
Indices: 6451439--6451770 Score: 404
Period size: 121 Copynumber: 2.7 Consensus size: 120
6451429 AATTTCAGTG
*
6451439 TTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATCG-TTGCGATTTACTTATTCTCGTTGC
1 TTGCGATTTAC-GATTCTCGTTGCGATTTACAGA-TATCGCTTGCGATTTACTTATTCTCGTTGC
*
6451503 GATTTACAGATTCTCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
64 GATTTACAGATTCGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
* *
6451560 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATA-CGCATTGCGATTTACGTATTCTTGTTGC
1 TTGCGATTTACG-ATTCTCGTTGCGATTTACAGATATCGC-TTGCGATTTACTTATTCTCGTTGC
** * * *
6451624 GATTTATGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
64 GATTTACAGATTCGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
* * * *
6451681 TTGCGATTTTTACGAATACTCGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTA-TATGTTCGCG
1 TTGCGA--TTTACG-ATTCTCGTTGCGAT-TTACAGATATCGC-TTGCGATTTACT-TATTCTCG
* *
6451743 TTGCGATTTTCATATTCGCGTTGCGATT
60 TTGCGATTTACAGATTCGCGTTGCGATT
6451771 CTAAAACTGA
Statistics
Matches: 181, Mismatches: 22, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
119 2 0.01
120 3 0.02
121 110 0.61
122 1 0.01
123 64 0.35
124 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (120 bp):
TTGCGATTTACGATTCTCGTTGCGATTTACAGATATCGCTTGCGATTTACTTATTCTCGTTGCGA
TTTACAGATTCGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
Found at i:6451762 original size:40 final size:40
Alignment explanation
Indices: 6451438--6451770 Score: 291
Period size: 40 Copynumber: 8.2 Consensus size: 40
6451428 AAATTTCAGT
* * * *
6451438 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTA-TC
1 GTTGCGATTTATATATTCTCGTTGCGATTTACAGA-TACGC
* *
6451478 GTTGCGATTTACT-TATTCTCGTTGCGATTTACAGATTCTC
1 GTTGCGATTTA-TATATTCTCGTTGCGATTTACAGATACGC
*
6451518 GTTGCGATTT-TACGTATTCTCGTTGCGATTTACGGATACGC
1 GTTGCGATTTATA--TATTCTCGTTGCGATTTACAGATACGC
* **
6451559 ATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGC
1 GTTGCGATTTATATATTCTCGTTGCGATTTACAGATACGC
* ** * **
6451599 ATTGCGATTTACGTATTCTTGTTGCGATTTATGGATACGC
1 GTTGCGATTTATATATTCTCGTTGCGATTTACAGATACGC
* *
6451639 GTTGCGATTT-TACGTATTGTCGTTGCGATTTACGGATACGC
1 GTTGCGATTTATA--TATTCTCGTTGCGATTTACAGATACGC
* * * *
6451680 GTTGCGATTTTTACGAATACTCGTTGCGATAGT-CAGA-ATCGC
1 GTTGCGATTTATA--TATTCTCGTTGCGAT-TTACAGATA-CGC
* * * * *
6451722 GTTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGC
1 GTTGCGATTTATATATTCTCGTTGCGATTTACAGATACGC
6451762 GTTGCGATT
1 GTTGCGATT
6451771 CTAAAACTGA
Statistics
Matches: 247, Mismatches: 33, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 141 0.57
41 68 0.28
42 34 0.14
43 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (40 bp):
GTTGCGATTTATATATTCTCGTTGCGATTTACAGATACGC
Found at i:6451807 original size:20 final size:20
Alignment explanation
Indices: 6451782--6451831 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6451772 TAAAACTGAT
6451782 TTGCGATTTTGGAGATCGCA
1 TTGCGATTTTGGAGATCGCA
* **
6451802 TTGCGATTTT-TATTTCGCA
1 TTGCGATTTTGGAGATCGCA
6451821 TTGCGATTTTG
1 TTGCGATTTTG
6451832 TTGGTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTGGAGATCGCA
Found at i:6462353 original size:24 final size:24
Alignment explanation
Indices: 6462323--6462369 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6462313 CATGTCCACA
6462323 TGTGATGCCATTTCATCAAACATG
1 TGTGATGCCATTTCATCAAACATG
*
6462347 TGTGATGTCATTTCATCAAACAT
1 TGTGATGCCATTTCATCAAACAT
6462370 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (24 bp):
TGTGATGCCATTTCATCAAACATG
Found at i:6462959 original size:7 final size:7
Alignment explanation
Indices: 6462928--6462986 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
6462918 GAGATTATGT
6462928 AATTT-A
1 AATTTAA
6462934 AATTTAA
1 AATTTAA
6462941 TAATTTATA
1 -AATTTA-A
6462950 AATTTAA
1 AATTTAA
6462957 AATTAATTAA
1 AA-T--TTAA
6462967 AATTTAA
1 AATTTAA
*
6462974 AATAT-A
1 AATTTAA
6462980 AATTTAA
1 AATTTAA
6462987 TTAGAGAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
6 10 0.23
7 13 0.30
8 13 0.30
9 2 0.05
10 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:6462981 original size:24 final size:26
Alignment explanation
Indices: 6462937--6462989 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
6462927 TAATTTAAAT
*
6462937 TTAATAATTTATAAATTTAAAATTAA
1 TTAATAATTTATAAATATAAAATTAA
*
6462963 TTAA-AATTTA-AAATATAAATTTAA
1 TTAATAATTTATAAATATAAAATTAA
6462987 TTA
1 TTA
6462990 GAGAGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 6 0.24
26 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAATAATTTATAAATATAAAATTAA
Found at i:6464341 original size:26 final size:26
Alignment explanation
Indices: 6464301--6464363 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
6464291 ATAAAGGAAA
**
6464301 CTTA-GTGTA-TATGGTAGGCATGAC
1 CTTATGTGTATTATGGTAGGCACAAC
* *
6464325 CTTGTGTGTATTATGGTGGGCACAAC
1 CTTATGTGTATTATGGTAGGCACAAC
6464351 CTTATGTGTATTA
1 CTTATGTGTATTA
6464364 GCACTTCGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.09
25 5 0.16
26 24 0.75
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (26 bp):
CTTATGTGTATTATGGTAGGCACAAC
Found at i:6467741 original size:27 final size:27
Alignment explanation
Indices: 6467710--6467771 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
6467700 TGGAGTTTGC
6467710 GTGGTGCTAGCTGCGTGGAAGCCATGA
1 GTGGTGCTAGCTGCGTGGAAGCCATGA
*
6467737 GTGGTACTAGCTGCGTGGAAGCCATGA
1 GTGGTGCTAGCTGCGTGGAAGCCATGA
6467764 GTGGTGCT
1 GTGGTGCT
6467772 CCCACTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.40, T:0.24
Consensus pattern (27 bp):
GTGGTGCTAGCTGCGTGGAAGCCATGA
Found at i:6468982 original size:29 final size:29
Alignment explanation
Indices: 6468924--6468991 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
6468914 AAAAAACCTC
* * *
6468924 AAGGACTAAACTGAAAAAATAGAATCTT-
1 AAGGACTAAAATAAAAAAACAGAATCTTA
6468952 AAGGACTAAAATAAATAAAACAGAAAT-TTA
1 AAGGACTAAAATAAA-AAAACAG-AATCTTA
*
6468982 AAGGGCTAAA
1 AAGGACTAAA
6468992 TTAGGAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 13 0.39
29 8 0.24
30 12 0.36
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (29 bp):
AAGGACTAAAATAAAAAAACAGAATCTTA
Found at i:6469496 original size:2 final size:2
Alignment explanation
Indices: 6469489--6469514 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6469479 CGTTTCGTGT
6469489 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6469515 ACAAACAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6470452 original size:3 final size:3
Alignment explanation
Indices: 6470440--6470500 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
6470430 ATATTTGTAT
6470440 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6470487 -AA TTAA TAA TAA TA
1 TAA -TAA TAA TAA TA
6470501 TTAAAATTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.07
3 49 0.89
4 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6470886 original size:39 final size:40
Alignment explanation
Indices: 6470842--6471074 Score: 143
Period size: 40 Copynumber: 5.6 Consensus size: 40
6470832 TATCAAAGGT
*
6470842 TGACACAGCTCCCACGTGATGAGGAGATCAGGTC-GGTGA
1 TGACACAGCTCCTACGTGATGAGGAGATCAGGTCAGGTGA
* * * * * *
6470881 TGACACGGCTCATACGTGATGAAGAGTTCTGGTCATGTGA
1 TGACACAGCTCCTACGTGATGAGGAGATCAGGTCAGGTGA
* *
6470921 TAACACAGTTCCTACGTGATGAGGACGA-CAGGTCATCTATAGGTGA
1 TGACACAGCTCCTACGTGATGAGGA-GATCAGG---TC---AGGTGA
* * ** *
6470967 TAACACAGTTCCTACGTGATGAGGACTTCTGGTTATCTAGG-G-
1 TGACACAGCTCCTACGTGATGAGGAGATCAGG---TC-AGGTGA
* * *
6471009 TAGACACAGTTCCTACGTGATGAGGAAATCAGGTTGAGG-GA
1 T-GACACAGCTCCTACGTGATGAGGAGATCAGG-TCAGGTGA
* *
6471050 TGACACGGCTCATACGTGATGAGGA
1 TGACACAGCTCCTACGTGATGAGGA
6471075 CGTCTGGCCA
Statistics
Matches: 155, Mismatches: 28, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
39 28 0.18
40 52 0.34
41 3 0.02
42 1 0.01
43 30 0.19
44 4 0.03
46 37 0.24
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (40 bp):
TGACACAGCTCCTACGTGATGAGGAGATCAGGTCAGGTGA
Found at i:6471030 original size:43 final size:45
Alignment explanation
Indices: 6470917--6471034 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 45
6470907 TTCTGGTCAT
6470917 GTGATAACACAGTTCCTACGTGATGAGGACGACAGGTCATCTATAG
1 GTGATAACACAGTTCCTACGTGATGAGGACGACAGGTCATC-ATAG
** * *
6470963 GTGATAACACAGTTCCTACGTGATGAGGACTTCTGGTTATC-TAG
1 GTGATAACACAGTTCCTACGTGATGAGGACGACAGGTCATCATAG
6471007 G-G-TAGACACAGTTCCTACGTGATGAGGA
1 GTGATA-ACACAGTTCCTACGTGATGAGGA
6471035 AATCAGGTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
42 2 0.03
43 24 0.36
44 4 0.06
46 37 0.55
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (45 bp):
GTGATAACACAGTTCCTACGTGATGAGGACGACAGGTCATCATAG
Found at i:6471444 original size:31 final size:30
Alignment explanation
Indices: 6471406--6471465 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
6471396 AGAGATAAAA
*
6471406 TTTTGTTTCAAAAGAAACAGACTCAAAGATC
1 TTTTGTTTCAAAAGAAAC-GACTAAAAGATC
6471437 TTTTGTTTCAAAAGAAACGACTAAAAGAT
1 TTTTGTTTCAAAAGAAACGACTAAAAGAT
6471466 GATGGATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACGACTAAAAGATC
Found at i:6471746 original size:27 final size:27
Alignment explanation
Indices: 6471682--6471753 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 27
6471672 GAGAGACAAA
*
6471682 ATTTTGTTTCAGAAGAAACAGACTCGAAG
1 ATTTT-TTTCAAAAGAAACAGACTC-AAG
6471711 ATTTTTTTCAAAAGAAACA-ACTC-AG
1 ATTTTTTTCAAAAGAAACAGACTCAAG
6471736 ATTTTTATTTCAAAAGAA
1 A-TTTT-TTTCAAAAGAA
6471754 TTTGACACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
25 3 0.08
26 4 0.10
27 15 0.38
28 13 0.32
29 5 0.12
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (27 bp):
ATTTTTTTCAAAAGAAACAGACTCAAG
Found at i:6472188 original size:36 final size:34
Alignment explanation
Indices: 6472138--6472211 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 34
6472128 GTATCTCAGA
6472138 GAAAAAATGTCTCAAGAGAGACAAAATTTGTTTT
1 GAAAAAATGTCTCAAGAGAGACAAAATTTGTTTT
*
6472172 GAAAGAAATTGTCTCAAGCGAGACAAAATTTGTTTT
1 GAAA-AAA-TGTCTCAAGAGAGACAAAATTTGTTTT
6472208 -AAAA
1 GAAAA
6472212 TTCTCAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 5 0.14
35 6 0.16
36 26 0.70
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.28
Consensus pattern (34 bp):
GAAAAAATGTCTCAAGAGAGACAAAATTTGTTTT
Found at i:6472587 original size:16 final size:16
Alignment explanation
Indices: 6472566--6472605 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6472556 CTCATGTAAC
* *
6472566 ATGTATGTATGTGCTG
1 ATGTATGTAAGTACTG
*
6472582 ATGTATGTAAGTATTG
1 ATGTATGTAAGTACTG
6472598 ATGTATGT
1 ATGTATGT
6472606 TTTCTCGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.45
Consensus pattern (16 bp):
ATGTATGTAAGTACTG
Found at i:6472755 original size:14 final size:14
Alignment explanation
Indices: 6472725--6472766 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6472715 ATTTGTTTTC
*
6472725 TTTGCCCCATTAAAT
1 TTTGCCCCA-AAAAT
6472740 TTTGCCCCAAAAAT
1 TTTGCCCCAAAAAT
*
6472754 TTGGCCCCAAAAA
1 TTTGCCCCAAAAA
6472767 CTTGGCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (14 bp):
TTTGCCCCAAAAAT
Found at i:6472765 original size:13 final size:14
Alignment explanation
Indices: 6472736--6472772 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6472726 TTGCCCCATT
*
6472736 AAATTTTGCCCCAA
1 AAATTTGGCCCCAA
6472750 AAATTTGGCCCCAA
1 AAATTTGGCCCCAA
*
6472764 AAACTTGGC
1 AAATTTGGC
6472773 TTTCTCTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (14 bp):
AAATTTGGCCCCAA
Found at i:6478471 original size:29 final size:30
Alignment explanation
Indices: 6478398--6478477 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
6478388 AGTTAATGGG
* *
6478398 CTAAAAAGTAAAAAATAGAAACCTCAAGGA
1 CTAAAATGAAAAAAATAGAAACCTCAAGGA
* *
6478428 CTAAAATGAAAAAAATA-AAATCTTAAGGA
1 CTAAAATGAAAAAAATAGAAACCTCAAGGA
* *
6478457 TTAAAAT-AAATAAAACAGAAA
1 CTAAAATGAAA-AAAATAGAAA
6478478 TTCAAAGGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 3 0.07
29 21 0.50
30 18 0.43
ACGTcount: A:0.64, C:0.09, G:0.10, T:0.17
Consensus pattern (30 bp):
CTAAAATGAAAAAAATAGAAACCTCAAGGA
Found at i:6479944 original size:3 final size:3
Alignment explanation
Indices: 6479932--6479971 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
6479922 ATATTTGTAT
6479932 TAA T-A TAA TAA TAA TAA TAA TAA TAA -AA TTAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA
6479972 TTAAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6479974 original size:12 final size:12
Alignment explanation
Indices: 6479932--6479975 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
6479922 ATATTTGTAT
6479932 TAATA-TAATAA
1 TAATATTAATAA
*
6479943 TAATAATAATAA
1 TAATATTAATAA
*
6479955 TAAAATTAATAA
1 TAATATTAATAA
6479967 TAATATTAA
1 TAATATTAA
6479976 AATTAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 5 0.17
12 24 0.83
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:6479976 original size:18 final size:18
Alignment explanation
Indices: 6479943--6479981 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6479933 AATATAATAA
6479943 TAATAATAATAATAAAAT
1 TAATAATAATAATAAAAT
*
6479961 TAATAATAATATTAAAAT
1 TAATAATAATAATAAAAT
6479979 TAA
1 TAA
6479982 ATAGAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAATAATAATAAAAT
Found at i:6480408 original size:40 final size:40
Alignment explanation
Indices: 6480264--6480413 Score: 153
Period size: 39 Copynumber: 3.7 Consensus size: 40
6480254 ATCTTTAGGA
*
6480264 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGTTATC
1 AGGTGATGACACGGCTCATACGTGATGAAGAGTTCTGG---TC
** * * *
6480307 AAAGGT--TGACACGGCTCCCACGTGATGAGGAGATCAGGTC
1 --AGGTGATGACACGGCTCATACGTGATGAAGAGTTCTGGTC
6480347 -GGTGATGACACGGCTCATACGTGATGAAGAGTTCTGGTC
1 AGGTGATGACACGGCTCATACGTGATGAAGAGTTCTGGTC
** *
6480386 AGGTGATGACACGATTCCTACGTGATGA
1 AGGTGATGACACGGCTCATACGTGATGA
6480414 GGACGACAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
37 3 0.03
39 29 0.33
40 26 0.30
43 26 0.30
45 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (40 bp):
AGGTGATGACACGGCTCATACGTGATGAAGAGTTCTGGTC
Found at i:6480476 original size:46 final size:43
Alignment explanation
Indices: 6480264--6480502 Score: 131
Period size: 43 Copynumber: 5.7 Consensus size: 43
6480254 ATCTTTAGGA
* * * *
6480264 AGGTGATAACACGGCTCATACGTGATGAAGAGTTCTGGTTATCAA
1 AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGG-TATC-T
* * * * ** *
6480309 AGGT--TGACACGGCTCCCACGTGATGAGGAGATCAGG--TC-
1 AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGGTATCT
* * * *
6480347 -GGTGATGACACGGCTCATACGTGATGAAGAGTTCTGG--TC-
1 AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGGTATCT
* * * ** **
6480386 AGGTGATGACACGATTCCTACGTGATGAGGACGACAAGTCATCTAT
1 AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGGT-ATC--T
6480432 AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGGTTATCT
1 AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGG-TATCT
*
6480476 AGG-G-TAGACACAGTTCCTACGTGATGA
1 AGGTGATA-ACACGGTTCCTACGTGATGA
6480503 GGAAATCAGG
Statistics
Matches: 155, Mismatches: 28, Indels: 24
0.75 0.14 0.12
Matches are distributed among these distances:
37 3 0.02
39 29 0.19
40 30 0.19
42 2 0.01
43 48 0.31
44 4 0.03
45 4 0.03
46 34 0.22
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
AGGTGATAACACGGTTCCTACGTGATGAAGACTTCTGGTATCT
Found at i:6481210 original size:27 final size:29
Alignment explanation
Indices: 6481147--6481221 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
6481137 TCAAGAGAGA
* *
6481147 CAAA-ATTTTGTTTCAGAAGAAACAGACT
1 CAAAGATTTTATTTCAAAAGAAACAGACT
6481175 CAAAGATTTT-TTTCAAAAGAAACA-ACT
1 CAAAGATTTTATTTCAAAAGAAACAGACT
6481202 CAAAGATTTTTATTTCAAAA
1 CAAAGA-TTTTATTTCAAAA
6481222 TAATTTGACT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 9 0.21
28 21 0.49
29 13 0.30
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTATTTCAAAAGAAACAGACT
Found at i:6481270 original size:94 final size:95
Alignment explanation
Indices: 6481079--6481272 Score: 270
Period size: 94 Copynumber: 2.1 Consensus size: 95
6481069 AGCTTTGCTA
* ** * *
6481079 TCAAAGATTTTGTATTTCAACAGAAATTACTCAAAGATTTTTTTTTCAAAAAATTGTCTCAAGAG
1 TCAAAGATTTTGTATTTCAAAAGAAACAACTCAAAGATTTTTATTTCAAAAAATTGACTCAAGAG
*
6481144 AGACAAAATTTTGTTTCAGAAGAAACAGAC
66 AGACAAAATTTTGTTTCAGAAGAAACAAAC
6481174 TCAAAGA-TTT-T-TTTCAAAAGAAACAACTCAAAGATTTTTATTTCAAAATAATTTGACTCAAG
1 TCAAAGATTTTGTATTTCAAAAGAAACAACTCAAAGATTTTTATTTCAAAA-AA-TTGACTCAAG
*
6481236 GGAGACAAAATTTTGTTTCCA-AAGAAACAAAC
64 AGAGACAAAATTTTGTTT-CAGAAGAAACAAAC
6481268 TCAAA
1 TCAAA
6481273 TATGGGATAC
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
92 33 0.37
93 3 0.03
94 44 0.49
95 9 0.10
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (95 bp):
TCAAAGATTTTGTATTTCAAAAGAAACAACTCAAAGATTTTTATTTCAAAAAATTGACTCAAGAG
AGACAAAATTTTGTTTCAGAAGAAACAAAC
Found at i:6481660 original size:36 final size:34
Alignment explanation
Indices: 6481610--6481683 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 34
6481600 GTATCTCAGA
*
6481610 GAAAAAATGTCTCAAGTGAGACAAAATTTGTTTT
1 GAAAAAATGTCTCAAGCGAGACAAAATTTGTTTT
6481644 GAAAGAAATTGTCTCAAGCGAGACAAAATTTGTTTT
1 GAAA-AAA-TGTCTCAAGCGAGACAAAATTTGTTTT
6481680 -AAAA
1 GAAAA
6481684 TTCTCAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 5 0.14
35 6 0.16
36 26 0.70
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (34 bp):
GAAAAAATGTCTCAAGCGAGACAAAATTTGTTTT
Found at i:6482237 original size:13 final size:14
Alignment explanation
Indices: 6482208--6482244 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6482198 TTTCCCCATC
*
6482208 AAATTTTGCCCCAA
1 AAATTTGGCCCCAA
6482222 AAATTTGGCCCCAA
1 AAATTTGGCCCCAA
*
6482236 AAACTTGGC
1 AAATTTGGC
6482245 TTTCTCTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (14 bp):
AAATTTGGCCCCAA
Found at i:6487914 original size:30 final size:29
Alignment explanation
Indices: 6487880--6487944 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
6487870 AGTTAATGGG
*
6487880 CTAAAAAGTAAAAAACAGAAACCTTAAGGA
1 CTAAAAAGAAAAAAACAG-AACCTTAAGGA
* * *
6487910 CTAAAATGAAAAAAATAGAATCTTAAGGA
1 CTAAAAAGAAAAAAACAGAACCTTAAGGA
6487939 CTAAAA
1 CTAAAA
6487945 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.60, C:0.11, G:0.12, T:0.17
Consensus pattern (29 bp):
CTAAAAAGAAAAAAACAGAACCTTAAGGA
Found at i:6487923 original size:29 final size:28
Alignment explanation
Indices: 6487880--6487959 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
6487870 AGTTAATGGG
*
6487880 CTAAAAAGTAAAAAACAGAAACCTTAAGGA
1 CTAAAATG-AAAAAA-AGAAACCTTAAGGA
* *
6487910 CTAAAATGAAAAAAATAGAATCTTAAGGA
1 CTAAAATGAAAAAAAGA-AACCTTAAGGA
*
6487939 CTAAAATAAATAAAAAAGAAA
1 CTAAAAT-GA-AAAAAAGAAA
6487960 TTTAAAGGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 2 0.05
29 23 0.55
30 10 0.24
31 7 0.17
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.16
Consensus pattern (28 bp):
CTAAAATGAAAAAAAGAAACCTTAAGGA
Found at i:6487973 original size:30 final size:29
Alignment explanation
Indices: 6487902--6487958 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6487892 AAACAGAAAC
*
6487902 CTTAAGGACTAAAATGAAAAAAATAGAAT
1 CTTAAGGACTAAAATGAAAAAAAAAGAAT
6487931 CTTAAGGACTAAAAT-AAATAAAAAAGAA
1 CTTAAGGACTAAAATGAAA-AAAAAAGAA
6487959 ATTTAAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.61, C:0.07, G:0.12, T:0.19
Consensus pattern (29 bp):
CTTAAGGACTAAAATGAAAAAAAAAGAAT
Found at i:6497592 original size:27 final size:27
Alignment explanation
Indices: 6497561--6497613 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6497551 AAATCAGAAA
6497561 TAAATCAATGACCT-AATCATAAAATAC
1 TAAATCAATGACCTAAAT-ATAAAATAC
6497588 TAAATCAATGACCTAAATATAAAATA
1 TAAATCAATGACCTAAATATAAAATA
6497614 TGCATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (27 bp):
TAAATCAATGACCTAAATATAAAATAC
Found at i:6498505 original size:9 final size:9
Alignment explanation
Indices: 6498491--6498516 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6498481 TTCTTGTACT
6498491 TTTTTTTTA
1 TTTTTTTTA
6498500 TTTTTTTTA
1 TTTTTTTTA
6498509 TTTTTTTT
1 TTTTTTTT
6498517 TCAGCCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6498966 original size:55 final size:54
Alignment explanation
Indices: 6498900--6499308 Score: 578
Period size: 55 Copynumber: 7.5 Consensus size: 54
6498890 AGTCTGTTCC
* * **
6498900 CTATTCTTTCAGGGAGTATA-AGACTCGAACCATCTTCGGCAAACGGGTCCGCTCT
1 CTATTC-TTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTCCGCTCT
* * *
6498955 CTATTCATTCAGAGAGTATAAAACTCGAACAATCTTCAATAAATGGGTCCGCTCT
1 CTATTC-TTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
*
6499010 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACAGGTCCGCTCT
1 CTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTCCGCTCT
6499065 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
1 CTATT-CTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
*
6499120 CTATTCATTCGGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
1 CTATTC-TTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
*
6499175 CTATTCTATCAGAGAGTATAGAACTCAAACAATCTTCAACAAACGGGTCCGCTCT
1 CTATTCT-TCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
* *
6499230 CTATTCTATCAGAGAGTATAGAACTCG----ATCTTCAACACACGGGTCCGCTCC
1 CTATTCT-TCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
6499281 CTATTCTATCAGAGAGTATAGAACTCGA
1 CTATTCT-TCAGAGAGTATAGAACTCGA
6499309 TCTTCATAAA
Statistics
Matches: 330, Mismatches: 17, Indels: 17
0.91 0.05 0.05
Matches are distributed among these distances:
51 49 0.15
54 3 0.01
55 275 0.83
56 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (54 bp):
CTATTCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCT
Found at i:6500688 original size:7 final size:7
Alignment explanation
Indices: 6500676--6500885 Score: 106
Period size: 7 Copynumber: 28.9 Consensus size: 7
6500666 CCCCCTTTTA
6500676 TTTCTTT
1 TTTCTTT
6500683 TTTC-TT
1 TTTCTTT
6500689 TTTCTTT
1 TTTCTTT
*
6500696 TCATCACTTT
1 T--T-TCTTT
*
6500706 TTCCTTT
1 TTTCTTT
6500713 TCTTCTTT
1 T-TTCTTT
6500721 TCTTCTTT
1 T-TTCTTT
*
6500729 TTTCATT
1 TTTCTTT
*
6500736 TTTCATT
1 TTTCTTT
*
6500743 TTCCTTT
1 TTTCTTT
*
6500750 TTTCCTT
1 TTTCTTT
6500757 TTTC-TT
1 TTTCTTT
6500763 TTTCATTTT
1 TTTC--TTT
6500772 TTTCTTT
1 TTTCTTT
*
6500779 TTTCTCT
1 TTTCTTT
6500786 TTTCATTAT
1 TTTC-TT-T
*
6500795 TTT-TTC
1 TTTCTTT
*
6500801 ATTCATTT
1 TTTC-TTT
*
6500809 TTT-ATT
1 TTTCTTT
6500815 TTTCATTT
1 TTTC-TTT
*
6500823 TTTAATTT
1 TTT-CTTT
*
6500831 TTTC-AT
1 TTTCTTT
*
6500837 TTTCCTT
1 TTTCTTT
*
6500844 TTCCTTT
1 TTTCTTT
*
6500851 TTCCTTT
1 TTTCTTT
*
6500858 TTCCTTT
1 TTTCTTT
*
6500865 TTTCTCT
1 TTTCTTT
6500872 TTTCATTT
1 TTTC-TTT
*
6500880 CTTCTT
1 TTTCTT
6500886 CAAGAAAAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
6 24 0.15
7 84 0.52
8 36 0.22
9 11 0.07
10 5 0.03
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCTTT
Found at i:6500695 original size:22 final size:21
Alignment explanation
Indices: 6500670--6500885 Score: 78
Period size: 22 Copynumber: 9.5 Consensus size: 21
6500660 TTGAACCCCC
6500670 CTTTTATTTCTTTTTTCTTTTT
1 CTTTT-TTTCTTTTTTCTTTTT
** *
6500692 CTTTTCATCACTTTTTCCTTTTCTT
1 CTTTT--TTTCTTTTTTC-TTT-TT
*
6500717 CTTTTCTTCTTTTTTCATTTTT
1 CTTTTTTTCTTTTTTC-TTTTT
* *
6500739 C-ATTTTCCTTTTTTCCTTTTT
1 CTTTTTTTCTTTTTT-CTTTTT
*
6500760 CTTTTTCAT-TTTTTTCTTTTTT
1 CTTTTT-TTCTTTTTTC-TTTTT
*
6500782 CTCTTTTCATTATTTTTTCATTCATTT
1 CT-TTTT--TTCTTTTTTC-TT--TTT
* *
6500809 TTTATTTTTCATTTTTTAATTTTT
1 CTT-TTTTTC-TTTTTT-CTTTTT
** * *
6500833 -TCATTTTCCTTTTCCTTTTT
1 CTTTTTTTCTTTTTTCTTTTT
* *
6500853 CCTTTTTCCTTTTTTCTCTTTT
1 CTTTTTTTCTTTTTTCT-TTTT
* *
6500875 CATTTCTTCTT
1 CTTTTTTTCTT
6500886 CAAGAAAAAT
Statistics
Matches: 143, Mismatches: 34, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
20 5 0.03
21 31 0.22
22 42 0.29
23 24 0.17
24 7 0.05
25 18 0.13
26 9 0.06
27 7 0.05
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.73
Consensus pattern (21 bp):
CTTTTTTTCTTTTTTCTTTTT
Found at i:6500751 original size:14 final size:13
Alignment explanation
Indices: 6500728--6500771 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
6500718 TTTTCTTCTT
*
6500728 TTTTCATTTTTCA
1 TTTTCCTTTTTCA
*
6500741 TTTTCCTTTTTTCC
1 TTTTCC-TTTTTCA
*
6500755 TTTTTCTTTTTCA
1 TTTTCCTTTTTCA
6500768 TTTT
1 TTTT
6500772 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTCCTTTTTCA
Found at i:6500751 original size:21 final size:22
Alignment explanation
Indices: 6500679--6500782 Score: 79
Period size: 23 Copynumber: 4.7 Consensus size: 22
6500669 CCTTTTATTT
*
6500679 CTTTTTTC-TTTTTCTTTTCATCA
1 CTTTTTTCATTTTTCATTT--TCA
* * *
6500702 CTTTTTCCTTTTCTTC-TTTTCTT
1 CTTTTTTCATTT-TTCATTTTC-A
6500725 CTTTTTTCATTTTTCATTTTC-
1 CTTTTTTCATTTTTCATTTTCA
* *
6500746 CTTTTTTCCTTTTTCTTTTTCA
1 CTTTTTTCATTTTTCATTTTCA
* *
6500768 TTTTTTTCTTTTTTC
1 CTTTTTTCATTTTTC
6500783 TCTTTTCATT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
21 19 0.28
22 18 0.26
23 22 0.32
24 6 0.09
25 3 0.04
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (22 bp):
CTTTTTTCATTTTTCATTTTCA
Found at i:6500824 original size:8 final size:8
Alignment explanation
Indices: 6500703--6500839 Score: 77
Period size: 8 Copynumber: 18.4 Consensus size: 8
6500693 TTTTCATCAC
*
6500703 TTTTTCCT
1 TTTTTCAT
6500711 TTTCTTC-T
1 TTT-TTCAT
6500719 TTTCTTC-T
1 TTT-TTCAT
6500727 TTTTTCA-
1 TTTTTCAT
6500734 TTTTTCA-
1 TTTTTCAT
*
6500741 -TTTTCCT
1 TTTTTCAT
*
6500748 TTTTTC-C
1 TTTTTCAT
6500755 TTTTTC--
1 TTTTTCAT
6500761 TTTTTCATT
1 TTTTTCA-T
6500770 TTTTTC-T
1 TTTTTCAT
6500777 TTTTTC-T
1 TTTTTCAT
*
6500784 CTTTTCAT
1 TTTTTCAT
6500792 TATTTT--T
1 T-TTTTCAT
**
6500799 TCATTCAT
1 TTTTTCAT
6500807 TTTTT-A-
1 TTTTTCAT
6500813 TTTTTCAT
1 TTTTTCAT
*
6500821 TTTTTAAT
1 TTTTTCAT
6500829 TTTTTCAT
1 TTTTTCAT
6500837 TTT
1 TTT
6500840 CCTTTTCCTT
Statistics
Matches: 106, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
6 18 0.17
7 33 0.31
8 42 0.40
9 13 0.12
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:6500845 original size:20 final size:20
Alignment explanation
Indices: 6500822--6500865 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6500812 ATTTTTCATT
*
6500822 TTTTAATTTTTTCATTTTCC
1 TTTTAATTTTTCCATTTTCC
** *
6500842 TTTTCCTTTTTCCTTTTTCC
1 TTTTAATTTTTCCATTTTCC
6500862 TTTT
1 TTTT
6500866 TTCTCTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTAATTTTTCCATTTTCC
Found at i:6512340 original size:27 final size:27
Alignment explanation
Indices: 6512309--6512361 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6512299 AAATCAGAAA
6512309 TAAATCAATGACCT-AATCATAAAATAC
1 TAAATCAATGACCTAAAT-ATAAAATAC
6512336 TAAATCAATGACCTAAATATAAAATA
1 TAAATCAATGACCTAAATATAAAATA
6512362 TGCACAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (27 bp):
TAAATCAATGACCTAAATATAAAATAC
Found at i:6512623 original size:20 final size:18
Alignment explanation
Indices: 6512581--6512623 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6512571 ATTTGGAGGG
*
6512581 CTAAAAACCTAAATTATC
1 CTAAAAACCTAAATTAAC
6512599 CTAAAAACCTAATATATAAC
1 CTAAAAACCTAA-AT-TAAC
6512619 CTAAA
1 CTAAA
6512624 TAAAACACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (18 bp):
CTAAAAACCTAAATTAAC
Found at i:6516162 original size:70 final size:70
Alignment explanation
Indices: 6516087--6516226 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
6516077 ATTTAAACTT
6516087 AGTGTATTATTTGGATGATTTAGGAGCTCCCTTGTATTGTAAACTCAAATTTATTACTTTTTATT
1 AGTGTATTATTTGGATGATTTAGGAGCTCCCTTGTATTGTAAACTCAAATTTATTACTTTTTATT
6516152 TTATA
66 TTATA
***
6516157 AGTGTATTATTTGGATGATTTAGGAGCTTTGTTGTATTGTAAACTCAAATTTATTACTTTTTATT
1 AGTGTATTATTTGGATGATTTAGGAGCTCCCTTGTATTGTAAACTCAAATTTATTACTTTTTATT
6516222 TTATA
66 TTATA
6516227 TTGCTATGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (70 bp):
AGTGTATTATTTGGATGATTTAGGAGCTCCCTTGTATTGTAAACTCAAATTTATTACTTTTTATT
TTATA
Found at i:6519489 original size:11 final size:11
Alignment explanation
Indices: 6519473--6519590 Score: 137
Period size: 11 Copynumber: 10.5 Consensus size: 11
6519463 GAGACTTGAA
*
6519473 CTCGATTGAAG
1 CTCGATTCAAG
**
6519484 CTCGATTTTGAG
1 CTCGA-TTCAAG
*
6519496 CTCGATTCTGAG
1 CTCGATTC-AAG
6519508 CTCGATTCAAG
1 CTCGATTCAAG
* **
6519519 CTTGATTTTGAG
1 CTCGA-TTCAAG
6519531 CTCGATTCAAG
1 CTCGATTCAAG
*
6519542 CTCGATTCAAA
1 CTCGATTCAAG
6519553 CTCGATTCAAG
1 CTCGATTCAAG
6519564 CTCGATTCAAG
1 CTCGATTCAAG
6519575 CTCGATTCAAG
1 CTCGATTCAAG
6519586 CTCGA
1 CTCGA
6519591 CGGGTTAATT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
11 64 0.70
12 28 0.30
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:6519499 original size:12 final size:12
Alignment explanation
Indices: 6519482--6519537 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
6519472 ACTCGATTGA
6519482 AGCTCGATTTTG
1 AGCTCGATTTTG
*
6519494 AGCTCGATTCTG
1 AGCTCGATTTTG
**
6519506 AGCTCGA-TTCA
1 AGCTCGATTTTG
*
6519517 AGCTTGATTTTG
1 AGCTCGATTTTG
6519529 AGCTCGATT
1 AGCTCGATT
6519538 CAAGCTCGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 7 0.20
12 28 0.80
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (12 bp):
AGCTCGATTTTG
Found at i:6519559 original size:22 final size:22
Alignment explanation
Indices: 6519447--6519590 Score: 137
Period size: 22 Copynumber: 6.3 Consensus size: 22
6519437 AAAATTCAAG
* *
6519447 AGCTCGATTGAAGCTCGAGACTTGA
1 AGCTCGATTCAAGCTC--GA-TTCA
* **
6519472 A-CTCGATTGAAGCTCGATTTTG
1 AGCTCGATTCAAGCTCGA-TTCA
*
6519494 AGCTCGATTCTGAGCTCGATTCA
1 AGCTCGATTC-AAGCTCGATTCA
* **
6519517 AGCTTGATTTTGAGCTCGATTCA
1 AGCTCGA-TTCAAGCTCGATTCA
*
6519540 AGCTCGATTCAAACTCGATTCA
1 AGCTCGATTCAAGCTCGATTCA
6519562 AGCTCGATTCAAGCTCGATTCA
1 AGCTCGATTCAAGCTCGATTCA
6519584 AGCTCGA
1 AGCTCGA
6519591 CGGGTTAATT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
22 45 0.44
23 33 0.32
24 23 0.23
25 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (22 bp):
AGCTCGATTCAAGCTCGATTCA
Found at i:6519834 original size:16 final size:16
Alignment explanation
Indices: 6519813--6519869 Score: 114
Period size: 16 Copynumber: 3.6 Consensus size: 16
6519803 TGCCACCTTC
6519813 AGCATCATCTGTTGCT
1 AGCATCATCTGTTGCT
6519829 AGCATCATCTGTTGCT
1 AGCATCATCTGTTGCT
6519845 AGCATCATCTGTTGCT
1 AGCATCATCTGTTGCT
6519861 AGCATCATC
1 AGCATCATC
6519870 GGCGAAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (16 bp):
AGCATCATCTGTTGCT
Found at i:6521034 original size:7 final size:7
Alignment explanation
Indices: 6521022--6521094 Score: 74
Period size: 7 Copynumber: 10.4 Consensus size: 7
6521012 ACATAATTGA
6521022 GTTTAGG
1 GTTTAGG
6521029 GTTTAGG
1 GTTTAGG
* *
6521036 ATTTAGT
1 GTTTAGG
*
6521043 GTTTAAG
1 GTTTAGG
* *
6521050 GCTTATG
1 GTTTAGG
*
6521057 GATTAGG
1 GTTTAGG
*
6521064 GATTAGG
1 GTTTAGG
*
6521071 GATTAGG
1 GTTTAGG
6521078 GTTTAGG
1 GTTTAGG
6521085 GTTTAGG
1 GTTTAGG
6521092 GTT
1 GTT
6521095 CATTACAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 56 1.00
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:6525239 original size:23 final size:21
Alignment explanation
Indices: 6525199--6525240 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
6525189 AGTTATGTTC
*
6525199 TTTTATGAAAAATGTTAAGAT
1 TTTTATGAAAAATATTAAGAT
6525220 TTTTCATGAAAAAATATTAAG
1 TTTT-ATG-AAAAATATTAAG
6525241 CCCTTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 11 0.61
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTTATGAAAAATATTAAGAT
Found at i:6531928 original size:6 final size:6
Alignment explanation
Indices: 6531917--6531949 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6531907 CTGATTTAAA
*
6531917 ATTTTT ATTTTT ATTATT -TTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
6531950 AAATCGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:6540316 original size:20 final size:20
Alignment explanation
Indices: 6540291--6540334 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6540281 ACTATGGTGG
6540291 AATTTGATGTTAGAAAGTTA
1 AATTTGATGTTAGAAAGTTA
* **
6540311 AATTTGGTGTTAGATGGTTA
1 AATTTGATGTTAGAAAGTTA
6540331 AATT
1 AATT
6540335 GGATCATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (20 bp):
AATTTGATGTTAGAAAGTTA
Found at i:6544182 original size:19 final size:16
Alignment explanation
Indices: 6544145--6544185 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 16
6544135 TAAAAAGTAC
6544145 ATGAAAAGAAAAGAAT
1 ATGAAAAGAAAAGAAT
6544161 ATGAAAATGAAAATGAAAT
1 ATGAAAA-GAAAA-G-AAT
6544180 ATGAAA
1 ATGAAA
6544186 GTTCTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 1 0.05
19 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
ATGAAAAGAAAAGAAT
Found at i:6544185 original size:7 final size:6
Alignment explanation
Indices: 6544145--6544185 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
6544135 TAAAAAGTAC
*
6544145 ATGAAA A-GAAA A-GAAT ATGAAA ATGAAA ATGAAA TATGAAA
1 ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA ATGAAA -ATGAAA
6544186 GTTCTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 9 0.29
6 16 0.52
7 6 0.19
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
ATGAAA
Found at i:6546325 original size:20 final size:20
Alignment explanation
Indices: 6546300--6546337 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6546290 TATCCATACC
*
6546300 CTGGGTACCGATACCCCTGT
1 CTGGGTACCAATACCCCTGT
*
6546320 CTGGGTATCAATACCCCT
1 CTGGGTACCAATACCCCT
6546338 ATGACTGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.34, G:0.21, T:0.26
Consensus pattern (20 bp):
CTGGGTACCAATACCCCTGT
Found at i:6546334 original size:35 final size:35
Alignment explanation
Indices: 6546265--6546335 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
6546255 AAAATGCAAA
*
6546265 TGGGTACCGATACCCCTTCAAAGGGTATCCATACCC
1 TGGGTACCGATACCCCTTC-AAGGGTATCAATACCC
*
6546301 TGGGTACCGATACCCCTGTC-TGGGTATCAATACCC
1 TGGGTACCGATACCCCT-TCAAGGGTATCAATACCC
6546336 CTATGACTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 13 0.41
36 17 0.53
37 2 0.06
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (35 bp):
TGGGTACCGATACCCCTTCAAGGGTATCAATACCC
Found at i:6546855 original size:33 final size:33
Alignment explanation
Indices: 6546801--6546864 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
6546791 AAGGGGTTTT
* *
6546801 GGTTCTAGCTTAGCCCGTGAAAAGCTAGGGAAA
1 GGTTCTAGCTTAGCCCATGAAAAACTAGGGAAA
* *
6546834 GGTTCTAGTTTATCCCATGAAAAACTAGGGA
1 GGTTCTAGCTTAGCCCATGAAAAACTAGGGA
6546865 GTTGTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (33 bp):
GGTTCTAGCTTAGCCCATGAAAAACTAGGGAAA
Found at i:6550241 original size:8 final size:8
Alignment explanation
Indices: 6550203--6550321 Score: 67
Period size: 8 Copynumber: 13.9 Consensus size: 8
6550193 GAGGGGGAAG
6550203 GAGAGGGA
1 GAGAGGGA
**
6550211 GAGAAAGA
1 GAGAGGGA
* *
6550219 GGGAGAGA
1 GAGAGGGA
*
6550227 AAGAGGGA
1 GAGAGGGA
6550235 GAGAGGGA
1 GAGAGGGA
6550243 GAGAGGGGGA
1 GAGA--GGGA
*
6550253 GAAAGGGA
1 GAGAGGGA
6550261 GAGAGAGAGA
1 GAGAG-G-GA
*
6550271 GAGAGCAAGA
1 GAGAG--GGA
6550281 GAGAGTGAGA
1 GAGAG-G-GA
*
6550291 GGGAGGGA
1 GAGAGGGA
*
6550299 GAGGGGGA
1 GAGAGGGA
*
6550307 GAGAGAGA
1 GAGAGGGA
*
6550315 TAGAGGG
1 GAGAGGG
6550322 TGGGGGAGAT
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
8 55 0.65
9 2 0.02
10 27 0.32
11 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.56, T:0.02
Consensus pattern (8 bp):
GAGAGGGA
Found at i:6550256 original size:28 final size:28
Alignment explanation
Indices: 6550202--6550310 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 28
6550192 AGAGGGGGAA
* *
6550202 GGAGAGGGAGAGAAAGAGGGAGAGAAAG
1 GGAGAGAGAGAGAGAGAGGGAGAGAAAG
* *
6550230 AGG-GAGAGAGGGAGAGAGGGGGAGAAAG
1 -GGAGAGAGAGAGAGAGAGGGAGAGAAAG
** *
6550258 GGAGAGAGAGAGAGAGAGCAAGAGAGAG
1 GGAGAGAGAGAGAGAGAGGGAGAGAAAG
* * * *
6550286 TGAGAGGGAGGGAGAGGGGGAGAGA
1 GGAGAGAGAGAGAGAGAGGGAGAGA
6550311 GAGATAGAGG
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
27 2 0.03
28 60 0.94
29 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.57, T:0.01
Consensus pattern (28 bp):
GGAGAGAGAGAGAGAGAGGGAGAGAAAG
Found at i:6550272 original size:10 final size:10
Alignment explanation
Indices: 6550203--6550400 Score: 89
Period size: 10 Copynumber: 20.0 Consensus size: 10
6550193 GAGGGGGAAG
*
6550203 GAGAGGGAGA
1 GAGAGAGAGA
* *
6550213 GAAAGAGGGA
1 GAGAGAGAGA
* *
6550223 GAGAAAGAGG
1 GAGAGAGAGA
*
6550233 GAGAGAGGGA
1 GAGAGAGAGA
* *
6550243 GAGAGGGGGA
1 GAGAGAGAGA
* *
6550253 GAAAGGGAGA
1 GAGAGAGAGA
6550263 GAGAGAGAGA
1 GAGAGAGAGA
6550273 GAGCA-AGAGA
1 GAG-AGAGAGA
* *
6550283 GAGTGAGAGG
1 GAGAGAGAGA
* *
6550293 GAGGGAGAGG
1 GAGAGAGAGA
*
6550303 GGGAGAGAGA
1 GAGAGAGAGA
* * *
6550313 GATAGAGGGT
1 GAGAGAGAGA
* * *
6550323 GGGGGAGATA
1 GAGAGAGAGA
* *
6550333 GAGAGGGGGA
1 GAGAGAGAGA
**
6550343 GAGAGATCGA
1 GAGAGAGAGA
* *
6550353 GAGAGATAGG
1 GAGAGAGAGA
*
6550363 GAAAGAGA-A
1 GAGAGAGAGA
6550372 TGAGAGAGAG-
1 -GAGAGAGAGA
6550382 GAG-GAGAGA
1 GAGAGAGAGA
*
6550391 AAGAGAGAGA
1 GAGAGAGAGA
6550401 TGTTTATACG
Statistics
Matches: 136, Mismatches: 46, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
8 5 0.04
9 5 0.04
10 125 0.92
11 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.54, T:0.04
Consensus pattern (10 bp):
GAGAGAGAGA
Found at i:6550274 original size:12 final size:12
Alignment explanation
Indices: 6550203--6550400 Score: 89
Period size: 12 Copynumber: 16.7 Consensus size: 12
6550193 GAGGGGGAAG
*
6550203 GAGAGGGAGAGA
1 GAGAGAGAGAGA
* *
6550215 AAGAGGGAGAGA
1 GAGAGAGAGAGA
* *
6550227 AAGAGGGAGAGA
1 GAGAGAGAGAGA
* * *
6550239 GGGAGAGAGGGG
1 GAGAGAGAGAGA
* *
6550251 GAGAAAGGGAGA
1 GAGAGAGAGAGA
6550263 GAGAGAGAGAGA
1 GAGAGAGAGAGA
*
6550275 GCA-AGAGAGAGT
1 G-AGAGAGAGAGA
* *
6550287 GAGAGGGAGGGA
1 GAGAGAGAGAGA
* *
6550299 GAGGGGGAGAGA
1 GAGAGAGAGAGA
* * *
6550311 GAGATAGAGGGT
1 GAGAGAGAGAGA
* * *
6550323 GGGGGAGATAGA
1 GAGAGAGAGAGA
* *
6550335 GAGGGGGAGAGA
1 GAGAGAGAGAGA
**
6550347 GATCGAGAGAGA
1 GAGAGAGAGAGA
* * *
6550359 TAGGGAAAGAGA
1 GAGAGAGAGAGA
6550371 -ATGAGAGAGAG-
1 GA-GAGAGAGAGA
*
6550382 GAG-GAGAGAAA
1 GAGAGAGAGAGA
6550393 GAGAGAGA
1 GAGAGAGA
6550401 TGTTTATACG
Statistics
Matches: 137, Mismatches: 43, Indels: 12
0.71 0.22 0.06
Matches are distributed among these distances:
10 6 0.04
11 6 0.04
12 124 0.91
13 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.54, T:0.04
Consensus pattern (12 bp):
GAGAGAGAGAGA
Found at i:6550319 original size:18 final size:18
Alignment explanation
Indices: 6550190--6550399 Score: 104
Period size: 18 Copynumber: 11.3 Consensus size: 18
6550180 GATATTCCAA
6550190 AGAGAGGGGGA-AG-GAG
1 AGAGAGGGGGAGAGAGAG
* * ** *
6550206 AGGGAGAGAAAGAGGGAG
1 AGAGAGGGGGAGAGAGAG
* * *
6550224 AGAAAGAGGGAGAGAGGG
1 AGAGAGGGGGAGAGAGAG
* *
6550242 AGAGAGGGGGAGAAAGGG
1 AGAGAGGGGGAGAGAGAG
* *
6550260 AGAGAGAGAGAGAGAGCA-
1 AGAGAGGGGGAGAGAG-AG
* * *
6550278 AGAGAGAGTGAGAGGGAG
1 AGAGAGGGGGAGAGAGAG
*
6550296 GGAGAGGGGGAGAGAGAG
1 AGAGAGGGGGAGAGAGAG
* * *
6550314 ATAGAGGGTGG-GGGAGAT
1 AGAGAGGG-GGAGAGAGAG
6550332 AGAGAGGGGGAGAGAGATCG
1 AGAGAGGGGGAGAGAGA--G
*
6550352 AGAGAGATAGGGAAAGAGAATGAG
1 AGAGAG---GGG-GAGAG-A-GAG
* *
6550376 AGAGAGGAGGAGAGAAAG
1 AGAGAGGGGGAGAGAGAG
6550394 AGAGAG
1 AGAGAG
6550400 ATGTTTATAC
Statistics
Matches: 146, Mismatches: 34, Indels: 26
0.71 0.17 0.13
Matches are distributed among these distances:
16 7 0.05
17 5 0.03
18 102 0.70
19 3 0.02
20 10 0.07
21 2 0.01
23 3 0.02
24 11 0.08
25 1 0.01
26 2 0.01
ACGTcount: A:0.41, C:0.01, G:0.54, T:0.03
Consensus pattern (18 bp):
AGAGAGGGGGAGAGAGAG
Found at i:6550346 original size:16 final size:16
Alignment explanation
Indices: 6550309--6550346 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6550299 GAGGGGGAGA
6550309 GAGAGATAGAGGGTGG
1 GAGAGATAGAGGGTGG
*
6550325 GGGAGATAGAGAGG-GG
1 GAGAGATAGAG-GGTGG
6550341 GAGAGA
1 GAGAGA
6550347 GATCGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.58, T:0.08
Consensus pattern (16 bp):
GAGAGATAGAGGGTGG
Done.