Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_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: 1849635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:1062416 original size:186 final size:183
Alignment explanation
Indices: 1061949--1062361 Score: 505
Period size: 187 Copynumber: 2.3 Consensus size: 183
1061939 TTAAAGTTTT
* * *
1061949 CAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATT-TAGTGAAGCAGA-
1 CAAGATTGGATTTCAACTTCACAACGAAGGACATCCAACTCAAAGCCAATTCGA-AGAAGCA-AT
* * *
1062012 A-GATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCGATTTGGTGAAGCACAAGA
64 ACCA--CGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA-CACAAGA
* *
1062076 TTGGATTTCAACTTGACAACGAAGGATATCTAACTCAAAACCAATTTGGTGAAACTTACA
126 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAA--TACA
* * * * **
1062136 CAAGCTTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCGATTTGGTGAAGCAATAC
1 CAAGATTGGATTTCAACTTCACAACGAAGGACATCCAACTCAAAGCCAATTCGAAGAAGCAATAC
*** *
1062201 TTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAA-ACAATATTGGA
66 CACGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAACACAAGATTGGA
* * *
1062265 TTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCGATTTGGTG-AA-GCA
131 TTTCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAATACA
* * *
1062316 CAAGATTGGATTTCCACTTCACAATGAAGGACATCCAATTCAAAGC
1 CAAGATTGGATTTCAACTTCACAACGAAGGACATCCAACTCAAAGC
1062362 TTAACTTCAC
Statistics
Matches: 205, Mismatches: 18, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
180 43 0.21
183 2 0.01
184 52 0.25
186 51 0.25
187 57 0.28
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (183 bp):
CAAGATTGGATTTCAACTTCACAACGAAGGACATCCAACTCAAAGCCAATTCGAAGAAGCAATAC
CACGATTTCAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGTGAACACAAGATTGGA
TTTCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAATACA
Found at i:1062720 original size:231 final size:231
Alignment explanation
Indices: 1062315--1062886 Score: 769
Period size: 231 Copynumber: 2.5 Consensus size: 231
1062305 TTGGTGAAGC
* * * *
1062315 ACAAGATTGGATTTCCACTTCACAATGAAGGACATCCAATTCAAAGCTTAACTTCACAACGAAGG
1 ACAAGATTGGATTTCAACTTCACAACGAAAGACATCCAATTCAAAGCTCAACTTCACAACGAAGG
* * *
1062380 AGCCATCCACGATTTCAACTTCATGAAGAAGGATATCGTGCCCAAAAGATTTACCAAACTTCACG
66 AGCCATCCACGATTTCAACTTCATCAAGAAGGATATCGTACCCAAAAGATTGACCAAACTTCACG
* * *
1062445 ACTAATGAGTTATCTGTGACACAACAATGAAAAACTAGTTTTATTCAAAGTCAATTTCAACTTCA
131 ACTAATGAGTCATCTATGACACAACAATGAAAAACTAATTTTATTCAAAGTCAATTTCAACTTCA
*
1062510 CAACGAAAGATATTGAACTCGAAAGTGATGCAATTT
196 CAACGAAAGATATTGAACTCGAAAGAGATGCAATTT
* * * * *
1062546 ACAAGATTGGATTTTAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACATCTAATG
1 ACAAGATTGGATTTCAACTTCACAACGAAAGACATCCAATTCAAAGCTCAACTTCACAACGAAGG
* * *
1062611 AGTCATTCACGATTTCAACTTCA-CAACGAAGGATATCGTACCCAAAAGATTGACCCAACTTCAC
66 AGCCATCCACGATTTCAACTTCATCAA-GAAGGATATCGTACCCAAAAGATTGACCAAACTTCAC
* *
1062675 GA-TGAATGAGTCATCTATGACACAATAATGAAAAA-TCAATTTTATTCAGAGTCAATTTCAACT
130 GACT-AATGAGTCATCTATGACACAACAATGAAAAACT-AATTTTATTCAAAGTCAATTTCAACT
*
1062738 TCACAATGAAAGATATTGAACTCGAAAGAGATGCAATTT
193 TCACAACGAAAGATATTGAACTCGAAAGAGATGCAATTT
** * * * ** *
1062777 ACAAGCGTGGATTTCAACTTCACGACGAAAGATATCCAACTCAAAGCTCAACTTCATGAGGAAGG
1 ACAAGATTGGATTTCAACTTCACAACGAAAGACATCCAATTCAAAGCTCAACTTCACAACGAAGG
*
1062842 A-CC-TACACACGATTTCAACTTCA-CAAAGAAGGATATCGTGCCCAA
66 AGCCAT-C-CACGATTTCAACTTCATC-AAGAAGGATATCGTACCCAA
1062887 TGGATCGACT
Statistics
Matches: 298, Mismatches: 37, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
229 1 0.00
230 5 0.02
231 290 0.97
232 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (231 bp):
ACAAGATTGGATTTCAACTTCACAACGAAAGACATCCAATTCAAAGCTCAACTTCACAACGAAGG
AGCCATCCACGATTTCAACTTCATCAAGAAGGATATCGTACCCAAAAGATTGACCAAACTTCACG
ACTAATGAGTCATCTATGACACAACAATGAAAAACTAATTTTATTCAAAGTCAATTTCAACTTCA
CAACGAAAGATATTGAACTCGAAAGAGATGCAATTT
Found at i:1063381 original size:22 final size:22
Alignment explanation
Indices: 1063356--1063424 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
1063346 TACCCACTAT
1063356 CCACCACTAAAACCCACTCAAACCA
1 CCACCACTAAAACCCACTC-AA--A
* *
1063381 CCACCACTCAAACCCACTCAAT
1 CCACCACTAAAACCCACTCAAA
*
1063403 CCACCACTAAATCCCACTCAAA
1 CCACCACTAAAACCCACTCAAA
1063425 ATACCTACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 19 0.49
24 2 0.05
25 18 0.46
ACGTcount: A:0.41, C:0.48, G:0.00, T:0.12
Consensus pattern (22 bp):
CCACCACTAAAACCCACTCAAA
Found at i:1063387 original size:25 final size:23
Alignment explanation
Indices: 1063356--1063425 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 23
1063346 TACCCACTAT
1063356 CCACCACTAAAACCCACTCAAACCA
1 CCACCACTAAAACCCACTCAAA--A
* *
1063381 CCACCACTCAAACCCACTC-AAT
1 CCACCACTAAAACCCACTCAAAA
*
1063403 CCACCACTAAATCCCACTCAAAA
1 CCACCACTAAAACCCACTCAAAA
1063426 TACCTACTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 17 0.44
23 2 0.05
24 2 0.05
25 18 0.46
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.11
Consensus pattern (23 bp):
CCACCACTAAAACCCACTCAAAA
Found at i:1066358 original size:22 final size:22
Alignment explanation
Indices: 1066330--1066383 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
1066320 AATCCAGCCA
1066330 TTTGTAACTCATGCAATAAAGC
1 TTTGTAACTCATGCAATAAAGC
* ***
1066352 TTTGTAACTCTTGTTTTAAAGC
1 TTTGTAACTCATGCAATAAAGC
1066374 TTTGTAACTC
1 TTTGTAACTC
1066384 TTGTATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (22 bp):
TTTGTAACTCATGCAATAAAGC
Found at i:1066384 original size:22 final size:22
Alignment explanation
Indices: 1066346--1066387 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1066336 ACTCATGCAA
1066346 TAAAGCTTTGTAACTCTTGTTT
1 TAAAGCTTTGTAACTCTTGTTT
1066368 TAAAGCTTTGTAACTCTTGT
1 TAAAGCTTTGTAACTCTTGT
1066388 ATTCATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (22 bp):
TAAAGCTTTGTAACTCTTGTTT
Found at i:1072503 original size:26 final size:28
Alignment explanation
Indices: 1072458--1072509 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
1072448 AGAAAATTTT
1072458 AAGAGGAAAATATAAGAAAAAATGCTAA
1 AAGAGGAAAATATAAGAAAAAATGCTAA
*
1072486 AAGA-GAAAATATAA-AAAAAGTGCT
1 AAGAGGAAAATATAAGAAAAAATGCT
1072510 TTTGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 10 0.43
28 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.17, T:0.15
Consensus pattern (28 bp):
AAGAGGAAAATATAAGAAAAAATGCTAA
Found at i:1073116 original size:16 final size:17
Alignment explanation
Indices: 1073091--1073123 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1073081 TCATCGCGTC
1073091 TTCTCGCTTC-CCGACG
1 TTCTCGCTTCTCCGACG
*
1073107 TTCTCTCTTCTCCGACG
1 TTCTCGCTTCTCCGACG
1073124 ATGCTCGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.42, G:0.15, T:0.36
Consensus pattern (17 bp):
TTCTCGCTTCTCCGACG
Found at i:1073706 original size:15 final size:16
Alignment explanation
Indices: 1073686--1073746 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
1073676 GACCTGGACC
*
1073686 AAAAATGAAAAT-AAT
1 AAAAATAAAAATGAAT
1073701 AAAAATAAAAATGAAT
1 AAAAATAAAAATGAAT
1073717 AAATAA-ATAAAATGAAT
1 AAA-AATA-AAAATGAAT
1073734 AAATAATATAAAA
1 AAA-AATA-AAAA
1073747 AATTAAAACT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 11 0.27
16 7 0.17
17 17 0.41
18 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAAATAAAAATGAAT
Found at i:1073730 original size:17 final size:17
Alignment explanation
Indices: 1073703--1073746 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
1073693 AAAATAATAA
1073703 AAATAAAAATGAATAAAT
1 AAAT-AAAATGAATAAAT
1073721 AAATAAAATGAATAAAT
1 AAATAAAATGAATAAAT
1073738 AATATAAAA
1 AA-ATAAAA
1073747 AATTAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (17 bp):
AAATAAAATGAATAAAT
Found at i:1073797 original size:2 final size:2
Alignment explanation
Indices: 1073790--1073820 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1073780 AATCATTTAA
1073790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1073821 CGTTTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1073913 original size:61 final size:60
Alignment explanation
Indices: 1073841--1074173 Score: 358
Period size: 61 Copynumber: 5.5 Consensus size: 60
1073831 ACATTTTTTC
* * * *
1073841 TTTTTAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGACATTTTCAAAAATA
1 TTTTCAAAACTATATATTATATATTTTCAAAAC-TTATAAAACTATATATTTTCAAAAATA
* * * * *
1073902 TTTTCAAAACTATATA-AAAATATTTT-AAAAC-TAT-ATATTATATATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATTTTCAAAACTTATAAAACTATATATTTTCAAAAATA
* *
1073958 TTTTCAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGATATTTTCAAAAATA
1 TTTTCAAAACTATATATTATATATTTTCAAAAC-TTATAAAACTATATATTTTCAAAAATA
* * *
1074019 TTTTCAAAACTATATATTATATATATTTTCAAAAC-TATATATA-TATATATATTCAAAAAAACA
1 TTTTCAAAACTATATA-T-TATATATTTTCAAAACTTATA-AAACTATATATTTTC--AAAAATA
** *
1074082 TTTT-AAAACTATATATTATATATTTTCAAAACTATATATTA-TATATATTTTTAAAAATA
1 TTTTCAAAACTATATATTATATATTTTCAAAACT-TATAAAACTATATATTTTCAAAAATA
* *
1074141 TTTTCAAAGCTATATATTACATATTTTCGAAAA
1 TTTTCAAAACTATATATTATATATTTTC-AAAA
1074174 ATATTTTCAA
Statistics
Matches: 231, Mismatches: 27, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
56 33 0.14
57 10 0.04
58 5 0.02
59 15 0.06
60 47 0.20
61 77 0.33
62 18 0.08
63 26 0.11
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (60 bp):
TTTTCAAAACTATATATTATATATTTTCAAAACTTATAAAACTATATATTTTCAAAAATA
Found at i:1073931 original size:21 final size:22
Alignment explanation
Indices: 1073895--1073954 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
1073885 AGACATTTTC
1073895 AAAAATATTTTCAAAACTATAT
1 AAAAATATTTTCAAAACTATAT
1073917 AAAAATATTTT-AAAACTATAT
1 AAAAATATTTTCAAAACTATAT
* *
1073938 ATTATATATTTTCAAAA
1 A-AAAATATTTTCAAAA
1073955 ATGTTTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATATTTTCAAAACTATAT
Found at i:1073968 original size:35 final size:34
Alignment explanation
Indices: 1073917--1074201 Score: 208
Period size: 36 Copynumber: 8.9 Consensus size: 34
1073907 AAAACTATAT
1073917 AAAAATATTTTAAAACTATATATTATATATTTTC
1 AAAAATATTTTAAAACTATATATTATATATTTTC
*
1073951 AAAAATGTTTTCAAAACTATATATTATATATTTTC
1 AAAAATATTTT-AAAACTATATATTATATATTTTC
* *
1073986 -AAAACATTTTAAAAC-------TAGATATTTTC
1 AAAAATATTTTAAAACTATATATTATATATTTTC
1074012 AAAAATATTTTCAAAACTATATATTATATA---T-
1 AAAAATATTTT-AAAACTATATATTATATATTTTC
* *
1074043 ----AT-TTTCAAAACTATATATATATATATATTC
1 AAAAATATTTTAAAACTATATAT-TATATATTTTC
*
1074073 AAAAAAACATTTTAAAACTATATATTATATATTTTC
1 --AAAAATATTTTAAAACTATATATTATATATTTTC
* *
1074109 AAAACTA---T---A-TAT-TA-TATATATTTTT
1 AAAAATATTTTAAAACTATATATTATATATTTTC
* *
1074134 AAAAATATTTTCAAAGCTATATATTACATATTTTC
1 AAAAATATTTT-AAAACTATATATTATATATTTTC
**
1074169 GAAAAATATTTTCAAAACTATATAACATATATT
1 -AAAAATATTTT-AAAACTATATATTATATATT
1074202 ATATATACTA
Statistics
Matches: 197, Mismatches: 21, Indels: 64
0.70 0.07 0.23
Matches are distributed among these distances:
25 28 0.14
26 21 0.11
27 14 0.07
28 7 0.04
29 1 0.01
31 1 0.01
32 1 0.01
33 8 0.04
34 25 0.13
35 37 0.19
36 39 0.20
37 15 0.08
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (34 bp):
AAAAATATTTTAAAACTATATATTATATATTTTC
Found at i:1073974 original size:117 final size:121
Alignment explanation
Indices: 1073842--1074173 Score: 455
Period size: 117 Copynumber: 2.8 Consensus size: 121
1073832 CATTTTTTCT
*
1073842 TTTTAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGACATTTTCAAAAATATTTTC
1 TTTTAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGATATTTTCAAAAATATTTTC
* **
1073907 AAAACTATATA-A-AAATATTTT-AAAACTATATAT-TATATATTTTC-AAAAATG
66 AAAACTATATATATAAATATTTTCAAAACTATATATATATATATATTCAAAAAACA
1073958 TTTTCAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGATATTTTCAAAAATATTTT
1 TTTT-AAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGATATTTTCAAAAATATTTT
*
1074023 CAAAACTATATATTATATATATTTTCAAAACTATATATATATATATATTCAAAAAAACA
65 CAAAACTATATA-TATAAATATTTTCAAAACTATATATATATATATATTC-AAAAAACA
* ** * *
1074082 TTTTAAAACTATATATTATATATTTTCAAAAC-TATATATTA-TATATATTTTTAAAAATATTTT
1 TTTTAAAACTATATATTATATATTTTCAAAACAT-TTTAAAACTAGATATTTTCAAAAATATTTT
* *
1074145 CAAAGCTATATAT-TACATATTTTCGAAAA
65 CAAAACTATATATATAAATATTTTC-AAAA
1074174 ATATTTTCAA
Statistics
Matches: 194, Mismatches: 12, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
116 4 0.02
117 71 0.37
119 1 0.01
120 18 0.09
121 17 0.09
122 42 0.22
123 32 0.16
124 9 0.05
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (121 bp):
TTTTAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGATATTTTCAAAAATATTTTC
AAAACTATATATATAAATATTTTCAAAACTATATATATATATATATTCAAAAAACA
Found at i:1074014 original size:26 final size:28
Alignment explanation
Indices: 1073978--1074036 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
1073968 TATATATTAT
1073978 ATATTTTC-AAAACATTTT-AAAACTAG
1 ATATTTTCAAAAACATTTTCAAAACTAG
* *
1074004 ATATTTTCAAAAATATTTTCAAAACTAT
1 ATATTTTCAAAAACATTTTCAAAACTAG
1074032 ATATT
1 ATATT
1074037 ATATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.28
27 9 0.31
28 12 0.41
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (28 bp):
ATATTTTCAAAAACATTTTCAAAACTAG
Found at i:1074077 original size:25 final size:25
Alignment explanation
Indices: 1074016--1074076 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
1074006 ATTTTCAAAA
1074016 ATATTTTCAAAACTATATATTATAT
1 ATATTTTCAAAACTATATATTATAT
1074041 ATATTTTCAAAACTATATA-TATAT
1 ATATTTTCAAAACTATATATTATAT
*
1074065 ATATATTCAAAA
1 ATATTTTCAAAA
1074077 AAACATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 16 0.46
25 19 0.54
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTTTCAAAACTATATATTATAT
Found at i:1074122 original size:85 final size:83
Alignment explanation
Indices: 1073958--1074137 Score: 247
Period size: 85 Copynumber: 2.1 Consensus size: 83
1073948 TTCAAAAATG
* *
1073958 TTTTCAAAACTATATATTATATATTTTCAAAACATTTTAAAACTAGATATTTTCAAAAATATTTT
1 TTTTCAAAACTATATATTATATATATTCAAAACATTTTAAAACTA-ATATATT--AAAATATTTT
1074023 CAAAACTATATATTATATATA
63 CAAAACTATATATTATATATA
*
1074044 TTTTCAAAACTATATATATATATATATTCAAAAAAACATTTTAAAACT-ATATATT-ATATATTT
1 TTTTCAAAACTATATAT-TATATATATTC---AAAACATTTTAAAACTAATATATTAAAATATTT
1074107 TCAAAACTATATATTATATATA
62 TCAAAACTATATATTATATATA
*
1074129 TTTTTAAAA
1 TTTTCAAAA
1074138 ATATTTTCAA
Statistics
Matches: 86, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
85 37 0.43
86 17 0.20
87 10 0.12
88 6 0.07
90 16 0.19
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (83 bp):
TTTTCAAAACTATATATTATATATATTCAAAACATTTTAAAACTAATATATTAAAATATTTTCAA
AACTATATATTATATATA
Found at i:1074124 original size:21 final size:22
Alignment explanation
Indices: 1074081--1074127 Score: 85
Period size: 23 Copynumber: 2.1 Consensus size: 22
1074071 TCAAAAAAAC
1074081 ATTTTAAAACTATATATTATAT
1 ATTTTAAAACTATATATTATAT
1074103 ATTTTCAAAACTATATATTATAT
1 ATTTT-AAAACTATATATTATAT
1074126 AT
1 AT
1074128 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTAAAACTATATATTATAT
Found at i:1074141 original size:23 final size:23
Alignment explanation
Indices: 1074082--1074141 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
1074072 CAAAAAAACA
*
1074082 TTTTAAAACTATATATTATATAT
1 TTTTAAAAATATATATTATATAT
* *
1074105 TTTCAAAACTATATATTATATATAT
1 TTTTAAAAATATATA-T-TATATAT
1074130 TTTTAAAAATAT
1 TTTTAAAAATAT
1074142 TTTCAAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 14 0.44
24 1 0.03
25 17 0.53
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTAAAAATATATATTATATAT
Found at i:1081935 original size:3 final size:3
Alignment explanation
Indices: 1081927--1081985 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
1081917 CCATTTTAAA
*
1081927 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
1081973 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
1081986 AATAAAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 51 0.96
4 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1081962 original size:25 final size:25
Alignment explanation
Indices: 1081933--1081980 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
1081923 TAAAATTATT
1081933 ATTATTATTATTATTATTATTATAA
1 ATTATTATTATTATTATTATTATAA
1081958 ATTATTATTATTATTATTATTAT
1 ATTATTATTATTATTATTATTAT
1081981 TATTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTATTATTATTATTATTATTATAA
Found at i:1089027 original size:11 final size:11
Alignment explanation
Indices: 1089007--1089055 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
1088997 ATTCATCGGA
1089007 AAAAATAAAAAG
1 AAAAA-AAAAAG
1089019 AAAAAAAAAAGG
1 AAAAAAAAAA-G
*
1089031 AAAAAAGAAAG
1 AAAAAAAAAAG
* *
1089042 AAGAAAAGAAG
1 AAAAAAAAAAG
1089053 AAA
1 AAA
1089056 TTGAATCAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 16 0.52
12 15 0.48
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:1089028 original size:12 final size:13
Alignment explanation
Indices: 1089005--1089055 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 13
1088995 TCATTCATCG
*
1089005 GAAAAAATAAAAA
1 GAAAAAAGAAAAA
*
1089018 GAAAAAA-AAAAG
1 GAAAAAAGAAAAA
1089030 GAAAAAAGAAAGAA
1 GAAAAAAGAAA-AA
1089044 GAAAAGAAGAAA
1 GAAAA-AAGAAA
1089056 TTGAATCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 11 0.33
13 10 0.30
14 6 0.18
15 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:1090540 original size:118 final size:116
Alignment explanation
Indices: 1090380--1090609 Score: 363
Period size: 116 Copynumber: 2.0 Consensus size: 116
1090370 ATATTGAGGT
* *
1090380 ATCTCGAAAGCCCATTTCAGACAGAAATGATCCATGTGGGGCATTTTGAAGGCCCACGTCAGTAT
1 ATCTCGAAAGCCCATTTCAGACAGAAATGATCCATGTAGGGCATTTTGAA-GACC-CGTCAGTAT
*
1090445 GAATATTTGGGCATTTTTGAAAGCTCAGT-TTAGCAAGAAGCAAATGTTGGGGC
64 GAATATTTGGGCATTTTTGAAAGCTCA-TATCAGCAAGAAGCAAATGTTGGGGC
*
1090498 ATCTCGAAAGCCCATTTCAGACAGAAATGATCCATGTAGGGCATTTTGAAGACCCGTCAGTGTGA
1 ATCTCGAAAGCCCATTTCAGACAGAAATGATCCATGTAGGGCATTTTGAAGACCCGTCAGTATGA
* * *
1090563 ATATTTGGGCATTTTTGAAATCTCATATCATCAGGAAGCAAATGTTG
66 ATATTTGGGCATTTTTGAAAGCTCATATCAGCAAGAAGCAAATGTTG
1090610 AAGCATTTTG
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
115 1 0.01
116 51 0.49
117 3 0.03
118 49 0.47
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (116 bp):
ATCTCGAAAGCCCATTTCAGACAGAAATGATCCATGTAGGGCATTTTGAAGACCCGTCAGTATGA
ATATTTGGGCATTTTTGAAAGCTCATATCAGCAAGAAGCAAATGTTGGGGC
Found at i:1091464 original size:22 final size:22
Alignment explanation
Indices: 1091436--1091512 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
1091426 ATCTACATTT
*
1091436 TTCAAAGATGATAGATT-TATTC
1 TTCAAAGATGATAGATTCT-CTC
1091458 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTC
* *
1091480 TTCAAATATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTC
*
1091502 TTTAAAGATGA
1 TTCAAAGATGA
1091513 AAGTTGTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 48 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTC
Found at i:1092251 original size:42 final size:42
Alignment explanation
Indices: 1092141--1092670 Score: 261
Period size: 42 Copynumber: 12.0 Consensus size: 42
1092131 CTCAAATTTC
* * * *
1092141 TAAATCCTCCGGGTCATCCATAGGACCTCCAGTGTAGGATGTT
1 TAAATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATG-T
** *
1092184 TAAAATCCT-TCGGGTCATCTGTAAGACCTCTAGTGCAAGATGT
1 T-AAATCCTCT-GGGTCATCCATAAGACCTCCAGTGCAAGATGT
*
1092227 TAAATCCTCTGGGTCATCCATAAGACCTCTAGTGCAAGATGT
1 TAAATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATGT
** * *
1092269 TAAATCCTCCAGGTCATCCATAATG-CCTCCAGTGTAGGATGTT
1 TAAATCCTCTGGGTCATCCATAA-GACCTCCAGTGCAAGATG-T
** * *
1092312 TAAAATCCT-TCGGGTCATCTGTAAGACCTTCAGTGCAAGATGA
1 T-AAATCCTCT-GGGTCATCCATAAGACCTCCAGTGCAAGATGT
* *
1092355 TAAGA-CCTAC-GGGCCATCCATAAGACCTCCAATGCATA-ATGTTTTTTT
1 TAA-ATCCT-CTGGGTCATCCATAAGACCTCCAGTGCA-AGATG------T
* ** ** *
1092403 TAAATCCTCTAGGTCATCTGTAAGACCTTTAGTGCAAGATGA
1 TAAATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATGT
* *
1092445 TAAGA-CCT-TCGGGCCATCCATAAGACCTCCAGTGCAGGATGCTTTTTT
1 TAA-ATCCTCT-GGGTCATCCATAAGACCTCCAGTGCAAGATG------T
* ** * * *
1092493 TAAAAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGAAGA
1 T---AAATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATGT
* * *
1092538 TAAGA-CCTCCGGGCCATCCATAAGACCTCCAGTGCAGGATGCCCTTTTTT
1 TAA-ATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATG--------T
* ** * *
1092588 TAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGA
1 TAAATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATGT
* * * *
1092630 TAAGA-CGTCCGGGCCATCCATAAGACCTCCAGTGCAGGATG
1 TAA-ATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATG
1092671 CATTTTTTAA
Statistics
Matches: 371, Mismatches: 71, Indels: 91
0.70 0.13 0.17
Matches are distributed among these distances:
41 1 0.00
42 195 0.53
43 14 0.04
44 62 0.17
45 1 0.00
47 3 0.01
48 29 0.08
49 1 0.00
50 35 0.09
51 30 0.08
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (42 bp):
TAAATCCTCTGGGTCATCCATAAGACCTCCAGTGCAAGATGT
Found at i:1092373 original size:128 final size:128
Alignment explanation
Indices: 1092141--1092383 Score: 386
Period size: 128 Copynumber: 1.9 Consensus size: 128
1092131 CTCAAATTTC
*
1092141 TAAATCCTCCGGGTCATCCATAGGACCTCCAGTGTAGGATGTTTAAAATCCTTCGGGTCATCTGT
1 TAAATCCTCCAGGTCATCCATAGGACCTCCAGTGTAGGATGTTTAAAATCCTTCGGGTCATCTGT
* *
1092206 AAGACCTCTAGTGCAAGATGTTAAATCCTCTGGGTCATCCATAAGACCTCTAGTGCAAGATGT
66 AAGACCTCTAGTGCAAGATGATAAATCCTCTGGGCCATCCATAAGACCTCTAGTGCAAGATGT
*
1092269 TAAATCCTCCAGGTCATCCATAATG-CCTCCAGTGTAGGATGTTTAAAATCCTTCGGGTCATCTG
1 TAAATCCTCCAGGTCATCCAT-AGGACCTCCAGTGTAGGATGTTTAAAATCCTTCGGGTCATCTG
1092333 TAAGACCT-TCAGTGCAAGATGATAAGA-CCTAC-GGGCCATCCATAAGACCTC
65 TAAGACCTCT-AGTGCAAGATGATAA-ATCCT-CTGGGCCATCCATAAGACCTC
1092384 CAATGCATAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
127 1 0.01
128 102 0.95
129 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (128 bp):
TAAATCCTCCAGGTCATCCATAGGACCTCCAGTGTAGGATGTTTAAAATCCTTCGGGTCATCTGT
AAGACCTCTAGTGCAAGATGATAAATCCTCTGGGCCATCCATAAGACCTCTAGTGCAAGATGT
Found at i:1092542 original size:93 final size:91
Alignment explanation
Indices: 1092228--1092730 Score: 632
Period size: 92 Copynumber: 5.5 Consensus size: 91
1092218 GCAAGATGTT
* ** * * *
1092228 AAATCCTCTGGGTCATCCATAAGACC-TCTAGTGCAAGATGTTAA-ATCCTCCAGGTCATCCATA
1 AAATCCTCCGGGTCATCTGTAAGACCTTC-AGTGCAAGATGATAAGA-CCTCCGGGCCATCCATA
*
1092291 ATG-CCTCCAGTGTAGGATG-----TTTA
64 A-GACCTCCAGTGCAGGATGCTTTTTTTA
* *
1092314 AAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTACGGGCCATCCATAAG
1 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATAAG
* ** *
1092379 ACCTCCAATGCATAATG-TTTTTTTT
66 ACCTCCAGTGCAGGATGCTTTTTTTA
** * *
1092404 AAATCCTCTAGGTCATCTGTAAGACCTTTAGTGCAAGATGATAAGACCTTCGGGCCATCCATAAG
1 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATAAG
1092469 ACCTCCAGTGCAGGATGCTTTTTTTAAA
66 ACCTCCAGTGCAGGATGCTTTTTTT--A
*
1092497 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGAAGATAAGACCTCCGGGCCATCCATAAG
1 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATAAG
1092562 ACCTCCAGTGCAGGATGCCCTTTTTTT-
66 ACCTCCAGTGCAGGATG--CTTTTTTTA
*
1092589 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACGTCCGGGCCATCCATAAG
1 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATAAG
*
1092654 ACCTCCAGTGCAGGATGCATTTTTTAAA
66 ACCTCCAGTGCAGGATGC-TTTTTT-TA
* * * *
1092682 AAATCCTCCGGGTCATCTATAAG-TCTTCCGAGCAAGATGATAAGACCTC
1 AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTC
1092731 TGGACCATTC
Statistics
Matches: 367, Mismatches: 35, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
85 1 0.00
86 63 0.17
87 3 0.01
90 78 0.21
91 13 0.04
92 102 0.28
93 99 0.27
95 8 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (91 bp):
AAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATAAG
ACCTCCAGTGCAGGATGCTTTTTTTA
Found at i:1092657 original size:185 final size:182
Alignment explanation
Indices: 1092226--1092730 Score: 679
Period size: 185 Copynumber: 2.8 Consensus size: 182
1092216 GTGCAAGATG
** * * *
1092226 TTAAATCCTCTGGGTCATCCATAAGACC-TCTAGTGCAAGATGTTAA-ATCCTCCAGGTCATCCA
1 TTAAATCCTCTGGGTCATCTGTAAGACCTTC-AGTGCAAGATGATAAGA-CCTCCGGGCCATCCA
* *
1092289 TAATG-CCTCCAGTGTAGGATG----TTT--AAAATCCTTCGGGTCATCTGTAAGACCTTCAGTG
64 TAA-GACCTCCAGTGCAGGATGCTTTTTTAAAAAATCCTCCGGGTCATCTGTAAGACCTTCAGTG
* * *
1092347 CAAGATGATAAGACCTACGGGCCATCCATAAGACCTCCAATGCATAATGTTTTTT
128 CAAGATGATAAGACCTCCGGGCCATCCATAAGACCTCCAATGCAGAATGCTTTTT
* * *
1092402 TTAAATCCTCTAGGTCATCTGTAAGACCTTTAGTGCAAGATGATAAGACCTTCGGGCCATCCATA
1 TTAAATCCTCTGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATA
1092467 AGACCTCCAGTGCAGGATGCTTTTTTTAAAAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCA
66 AGACCTCCAGTGCAGGATGC-TTTTTTAAAAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCA
* * *
1092532 AGAAGATAAGACCTCCGGGCCATCCATAAGACCTCCAGTGCAGGATGCCCTTTTT
130 AGATGATAAGACCTCCGGGCCATCCATAAGACCTCCAATGCAGAATG--CTTTTT
* *
1092587 TTAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACGTCCGGGCCATCCATA
1 TTAAATCCTCTGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATA
* * * *
1092652 AGACCTCCAGTGCAGGATGCATTTTTTAAAAAATCCTCCGGGTCATCTATAAG-TCTTCCGAGCA
66 AGACCTCCAGTGCAGGATGC-TTTTTTAAAAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCA
1092716 AGATGATAAGACCTC
130 AGATGATAAGACCTC
1092731 TGGACCATTC
Statistics
Matches: 290, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
175 1 0.00
176 69 0.24
177 2 0.01
181 3 0.01
183 77 0.27
184 22 0.08
185 116 0.40
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (182 bp):
TTAAATCCTCTGGGTCATCTGTAAGACCTTCAGTGCAAGATGATAAGACCTCCGGGCCATCCATA
AGACCTCCAGTGCAGGATGCTTTTTTAAAAAATCCTCCGGGTCATCTGTAAGACCTTCAGTGCAA
GATGATAAGACCTCCGGGCCATCCATAAGACCTCCAATGCAGAATGCTTTTT
Found at i:1092902 original size:3 final size:3
Alignment explanation
Indices: 1092894--1092956 Score: 92
Period size: 3 Copynumber: 21.3 Consensus size: 3
1092884 ATATTTTAAA
* * *
1092894 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT ATT ATT ATA AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1092942 ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
1092957 AATAAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1095592 original size:19 final size:20
Alignment explanation
Indices: 1095555--1095593 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1095545 AAACCATTCA
1095555 GGGGGGAATCGGTACTCCCTT
1 GGGGGGAATCGGTA-TCCCTT
1095576 GGGGGGAATCGGT-TCCCT
1 GGGGGGAATCGGTATCCCT
1095594 CTGGACATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (20 bp):
GGGGGGAATCGGTATCCCTT
Found at i:1096039 original size:216 final size:219
Alignment explanation
Indices: 1095729--1096165 Score: 835
Period size: 216 Copynumber: 2.0 Consensus size: 219
1095719 TTTGGAGTAA
*
1095729 TATTTTGATATTCAAATAATTTTATCGAATATACTTAGAAAATCTTTTTGGAAAATCTTAAAATT
1 TATTTTGATATTCAAATAATTATATCGAATATACTTAGAAAATCTTTTTGGAAAATCTTAAAATT
*
1095794 CATTTATCTTAATTTGTTATATTGAAATATCAAAATGTTTTCAACAATTTCCCCCTTTTTGATAT
66 CATTTATCTTAATTTGTTATATCGAAATATCAAAATGTTTTCAACAATTTCCCCCTTTTTGATAT
1095859 AACAAAACATTTTAGTAATTTTAAGATTTTAAAATCAAGTTTTGAAATTACTCCCCCTTACTTTA
131 AACAAAACATTTTAGTAATTTTAAGATTTTAAAATCAAGTTTTGAAATTACTCCCCCTTACTTTA
1095924 ACAC-T-TCCCGTTTAAAACACTT
196 ACACTTATCCCGTTTAAAACACTT
1095946 TATTTTGATATTC-AATAATTATATCGAATATACTTAGAAAATCTTTTTGGAAAATCTTAAAATT
1 TATTTTGATATTCAAATAATTATATCGAATATACTTAGAAAATCTTTTTGGAAAATCTTAAAATT
1096010 CATTTATCTTAATTTGTTATATCGAAATATCAAAATGTTTTCAACAATTTCCCCCTTTTTGATAT
66 CATTTATCTTAATTTGTTATATCGAAATATCAAAATGTTTTCAACAATTTCCCCCTTTTTGATAT
1096075 AACAAAACATTTTAGTAATTTTAAGATTTTAAAATCAAGTTTTGAAATTACTCCCCCTTACTTTA
131 AACAAAACATTTTAGTAATTTTAAGATTTTAAAATCAAGTTTTGAAATTACTCCCCCTTACTTTA
1096140 ACACTTATCCCGTTTAAAACACTT
196 ACACTTATCCCGTTTAAAACACTT
1096164 TA
1 TA
1096166 ACATTTCTCC
Statistics
Matches: 216, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
216 183 0.85
217 14 0.06
218 19 0.09
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (219 bp):
TATTTTGATATTCAAATAATTATATCGAATATACTTAGAAAATCTTTTTGGAAAATCTTAAAATT
CATTTATCTTAATTTGTTATATCGAAATATCAAAATGTTTTCAACAATTTCCCCCTTTTTGATAT
AACAAAACATTTTAGTAATTTTAAGATTTTAAAATCAAGTTTTGAAATTACTCCCCCTTACTTTA
ACACTTATCCCGTTTAAAACACTT
Found at i:1098407 original size:20 final size:22
Alignment explanation
Indices: 1098384--1098457 Score: 82
Period size: 23 Copynumber: 3.5 Consensus size: 22
1098374 CGTGGGGGTT
1098384 ATCGATTCCCC-T-AAGGGGGA
1 ATCGATTCCCCTTCAAGGGGGA
*
1098404 ATCGGTTCCCCTTCAAAGGGGGA
1 ATCGATTCCCCTTC-AAGGGGGA
* * *
1098427 ATAGGTTCCCCTTCAA-GGGGT
1 ATCGATTCCCCTTCAAGGGGGA
1098448 ATCGATTCCC
1 ATCGATTCCC
1098458 TCTGCACCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.22
21 13 0.28
22 2 0.04
23 21 0.46
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (22 bp):
ATCGATTCCCCTTCAAGGGGGA
Found at i:1098444 original size:22 final size:22
Alignment explanation
Indices: 1098389--1098446 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
1098379 GGGTTATCGA
*
1098389 TTCCCC-T-AAGGGGGAATCGG
1 TTCCCCTTCAAGGGGGAATAGG
1098409 TTCCCCTTCAAAGGGGGAATAGG
1 TTCCCCTTC-AAGGGGGAATAGG
1098432 TTCCCCTTCAAGGGG
1 TTCCCCTTCAAGGGG
1098447 TATCGATTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.18
21 1 0.03
22 6 0.18
23 21 0.62
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.22
Consensus pattern (22 bp):
TTCCCCTTCAAGGGGGAATAGG
Found at i:1102312 original size:22 final size:21
Alignment explanation
Indices: 1102270--1102309 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1102260 GAGTTTATTT
*
1102270 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1102291 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1102310 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1105895 original size:26 final size:25
Alignment explanation
Indices: 1105839--1105901 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
1105829 GCCTTTATAT
*
1105839 ATTCTTCCAATTTCTTTTTCTTCTC
1 ATTCTTCCAATTTCTTCTTCTTCTC
*
1105864 ATTTCTTCCATTTTCCTTCTTCTTCCTC
1 A-TTCTTCCAATTT-CTTCTTCTT-CTC
1105892 -TTCTCTCCAA
1 ATTCT-TCCAA
1105902 AGTTTAGCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 15 0.48
27 12 0.39
28 3 0.10
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTCTTCCAATTTCTTCTTCTTCTC
Found at i:1106287 original size:7 final size:7
Alignment explanation
Indices: 1106275--1106299 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1106265 AATTAAAAAA
1106275 AAAACTC
1 AAAACTC
1106282 AAAACTC
1 AAAACTC
1106289 AAAACTC
1 AAAACTC
1106296 AAAA
1 AAAA
1106300 TACAACTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAACTC
Found at i:1107986 original size:27 final size:27
Alignment explanation
Indices: 1107951--1108038 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
1107941 AAGGCGATAA
* *
1107951 AAAACCGCATGACGATTGTTGCGGTCT
1 AAAACCGCATCACGACTGTTGCGGTCT
1107978 AAAACCGCATCACGACTGTTGCGGTCT
1 AAAACCGCATCACGACTGTTGCGGTCT
*
1108005 AAAACCGCATCACGACTGTTGCAGTCT
1 AAAACCGCATCACGACTGTTGCGGTCT
1108032 AAAACCG
1 AAAACCG
1108039 TTACGTAACA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (27 bp):
AAAACCGCATCACGACTGTTGCGGTCT
Found at i:1109026 original size:205 final size:197
Alignment explanation
Indices: 1108621--1109028 Score: 611
Period size: 197 Copynumber: 2.0 Consensus size: 197
1108611 ACAAAAAAAG
* * * *
1108621 GTGTAAGTAAAAGTAGTAGAGTATGTAGTTAATGATGTAGGCGTGTAAGAAAGTACTAAAGCAAA
1 GTGTAAGTAAAAATAGTAAAGCATGTAGTTAATAATGTAGGCGTGTAAGAAAGTACTAAAGCAAA
*
1108686 TAGTAGATAATTTTTTGGAAGTGTTAAAAATAATTGAAAAATGAATTTAAAAATCAAAATATTAA
66 TAGTAGAGAATTTTTTGGAAGTGTTAAAAATAATTGAAAAATGAATTTAAAAATCAAAATATTAA
* * * * *
1108751 AAAATTCACAATCAAAGTAAGAAGTTAAGAAGGCAACGAGAGGAAGCATAGAAACTCTAGTTTCA
131 AAAAATCACAACCAAAGTAAGAAGTAAAGAAGGCAACGAGAGGAAGAAGAGAAACTCTAGTTTCA
1108816 AA
196 AA
*
1108818 GTGTAAGTAAAAATAGTAAAGCATGTAG-TAGATAATGTAGGCGTGTAAGAAAGTACTAAAGTAA
1 GTGTAAGTAAAAATAGTAAAGCATGTAGTTA-ATAATGTAGGCGTGTAAGAAAGTACTAAAGCAA
1108882 ATAGTAGAGAATTTGTTTGGAAGTGTTAAAAATAATTGATAAAAAATGAATTTAAAAATCAAAAT
65 ATAGTAGAGAATTT-TTTGGAAGTGTTAAAAATAATTG---AAAAATGAATTTAAAAATCAAAAT
*
1108947 ATTAGAAAAAGAAATCACAACCAAAGTAAGAAGTAAAGAAGGCAACGGGAGGAAGAAGAGAAACT
126 ATT---AAAA-AAATCACAACCAAAGTAAGAAGTAAAGAAGGCAACGAGAGGAAGAAGAGAAACT
*
1109012 TTAGTTTCAAA
187 CTAGTTTCAAA
1109023 GTGTAA
1 GTGTAA
1109029 ACCTTTCATC
Statistics
Matches: 189, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
196 2 0.01
197 69 0.37
198 23 0.12
201 27 0.14
204 4 0.02
205 64 0.34
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (197 bp):
GTGTAAGTAAAAATAGTAAAGCATGTAGTTAATAATGTAGGCGTGTAAGAAAGTACTAAAGCAAA
TAGTAGAGAATTTTTTGGAAGTGTTAAAAATAATTGAAAAATGAATTTAAAAATCAAAATATTAA
AAAAATCACAACCAAAGTAAGAAGTAAAGAAGGCAACGAGAGGAAGAAGAGAAACTCTAGTTTCA
AA
Found at i:1113486 original size:21 final size:20
Alignment explanation
Indices: 1113433--1113487 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
1113423 TCGGTAGAGC
*
1113433 ATTATCTAAAATGTTATTTT
1 ATTACCTAAAATGTTATTTT
* **
1113453 TTCTACCGGAAATGTTAATTTT
1 AT-TACCTAAAATGTT-ATTTT
1113475 ATTACCTAAAATG
1 ATTACCTAAAATG
1113488 AATATTTCTA
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
20 1 0.04
21 19 0.73
22 6 0.23
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (20 bp):
ATTACCTAAAATGTTATTTT
Found at i:1123988 original size:16 final size:17
Alignment explanation
Indices: 1123964--1124004 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1123954 ATAATAATGG
*
1123964 AAATTATATTTGT-TTT
1 AAATAATATTTGTATTT
*
1123980 AAATAATATTTTTATTT
1 AAATAATATTTGTATTT
1123997 AAA-AATAT
1 AAATAATAT
1124005 CAAATGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AAATAATATTTGTATTT
Found at i:1125497 original size:3 final size:3
Alignment explanation
Indices: 1125489--1125560 Score: 58
Period size: 3 Copynumber: 23.0 Consensus size: 3
1125479 GGCATGTTTG
*
1125489 TAA TAA TAA TAA TAT TAA TAA TAA -AA -AA TAAA TAAA TAAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA T-AA TAA
* *
1125536 TAA TAA TAAA CAA AAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA
1125561 AAAAAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
2 4 0.07
3 40 0.66
4 17 0.28
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:1125523 original size:4 final size:4
Alignment explanation
Indices: 1125508--1125571 Score: 52
Period size: 4 Copynumber: 17.5 Consensus size: 4
1125498 TAATATTAAT
* *
1125508 AATA AA-A AATA AATA AATA AATA AAT- AAT- AAT- AATA AACA AAAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
1125552 TAAT- AATA AA-A AA-A AATA AA
1 -AATA AATA AATA AATA AATA AA
1125572 ATGAAAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
3 21 0.40
4 29 0.56
5 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:1125535 original size:35 final size:35
Alignment explanation
Indices: 1125496--1125570 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 35
1125486 TTGTAATAAT
*
1125496 AATAATATTAATAATA-AAAAAT-A-AATAAATAAATA
1 AATAATAATAATAA-ACAAAAATAATAATAAA-AAA-A
1125531 AATAATAATAATAAACAAAAATAATAATAAAAAAA
1 AATAATAATAATAAACAAAAATAATAATAAAAAAA
1125566 AATAA
1 AATAA
1125571 AATGAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 1 0.03
35 25 0.69
36 4 0.11
37 6 0.17
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (35 bp):
AATAATAATAATAAACAAAAATAATAATAAAAAAA
Found at i:1125536 original size:29 final size:28
Alignment explanation
Indices: 1125490--1125572 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 28
1125480 GCATGTTTGT
*
1125490 AATAATAATAATATTAATAATAAAAA-ATA
1 AATAATAATAA-A-TAATAATAAAAACAAA
1125519 AATAAATAAATAAATAATAATAATAAACAAA
1 AAT-AAT-AATAAATAATAATAA-AAACAAA
* *
1125550 AATAATAATAAAAAAAAATAAAA
1 AATAATAATAAATAATAATAAAA
1125573 TGAAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.04
29 25 0.53
30 10 0.21
31 10 0.21
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (28 bp):
AATAATAATAAATAATAATAAAAACAAA
Found at i:1125572 original size:22 final size:22
Alignment explanation
Indices: 1125504--1125572 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
1125494 ATAATAATAT
1125504 TAATAATAAAAAATAAATAAATAAA
1 TAATAATAAAAAA-AAAT-AA-AAA
* * *
1125529 TAAATAATAATAATAAACAAAAA
1 T-AATAATAAAAAAAAATAAAAA
1125552 TAATAATAAAAAAAAATAAAA
1 TAATAATAAAAAAAAATAAAA
1125573 TGAAAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
22 17 0.46
23 4 0.11
24 2 0.05
25 4 0.11
26 10 0.27
ACGTcount: A:0.77, C:0.01, G:0.00, T:0.22
Consensus pattern (22 bp):
TAATAATAAAAAAAAATAAAAA
Found at i:1125578 original size:16 final size:16
Alignment explanation
Indices: 1125504--1125582 Score: 92
Period size: 16 Copynumber: 4.9 Consensus size: 16
1125494 ATAATAATAT
1125504 TAATAATAAAAAATAAA
1 TAATAATAAAAAA-AAA
*
1125521 T-A-AATAAATAAATAA
1 TAATAATAAA-AAAAAA
*
1125536 TAATAATAAACAAAAA
1 TAATAATAAAAAAAAA
1125552 TAATAATAAAAAAAAA
1 TAATAATAAAAAAAAA
1125568 TAA-AATGAAAAAAAA
1 TAATAAT-AAAAAAAA
1125583 CTAGTGTCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.22
16 35 0.65
17 7 0.13
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (16 bp):
TAATAATAAAAAAAAA
Found at i:1125816 original size:29 final size:29
Alignment explanation
Indices: 1125779--1125837 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1125769 CAAAATTTGA
**
1125779 AAAGTACTAAGAATGAAAATTATCAAATT
1 AAAGTACTAAGAACAAAAATTATCAAATT
*
1125808 AAAGTACTAAGAACAAAAATTATCCAATT
1 AAAGTACTAAGAACAAAAATTATCAAATT
1125837 A
1 A
1125838 GAACATAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (29 bp):
AAAGTACTAAGAACAAAAATTATCAAATT
Found at i:1126435 original size:35 final size:36
Alignment explanation
Indices: 1126389--1126472 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 36
1126379 GTTATGACTT
* *
1126389 ATTGATTGAATTTGCATCTA-TATTTGTTCGGATTA
1 ATTGATTGAATTTGCATCCATTATTTGTTCGAATTA
*
1126424 ATTGATTGAATTTGTATCCATTATTTGTTCGAATTA
1 ATTGATTGAATTTGCATCCATTATTTGTTCGAATTA
* *
1126460 ACTGATTTAATTT
1 ATTGATTGAATTT
1126473 TTAGTTCTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 18 0.42
36 25 0.58
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.50
Consensus pattern (36 bp):
ATTGATTGAATTTGCATCCATTATTTGTTCGAATTA
Found at i:1127615 original size:161 final size:161
Alignment explanation
Indices: 1127350--1127671 Score: 644
Period size: 161 Copynumber: 2.0 Consensus size: 161
1127340 AAAAGATTTG
1127350 TACAATGATTAACTGTAATCTAACCACCGACTTTGATTCTCTATCCAAATTAAAAGAGATGAACC
1 TACAATGATTAACTGTAATCTAACCACCGACTTTGATTCTCTATCCAAATTAAAAGAGATGAACC
1127415 GTTTATAGTCATCCAAATTAAAATTTTACCATCAAGAAGATGAAAACAGTGTGTAATACCTTAAT
66 GTTTATAGTCATCCAAATTAAAATTTTACCATCAAGAAGATGAAAACAGTGTGTAATACCTTAAT
1127480 TTTGTCCAACGACCTTCACTTGTGAGCAAAA
131 TTTGTCCAACGACCTTCACTTGTGAGCAAAA
1127511 TACAATGATTAACTGTAATCTAACCACCGACTTTGATTCTCTATCCAAATTAAAAGAGATGAACC
1 TACAATGATTAACTGTAATCTAACCACCGACTTTGATTCTCTATCCAAATTAAAAGAGATGAACC
1127576 GTTTATAGTCATCCAAATTAAAATTTTACCATCAAGAAGATGAAAACAGTGTGTAATACCTTAAT
66 GTTTATAGTCATCCAAATTAAAATTTTACCATCAAGAAGATGAAAACAGTGTGTAATACCTTAAT
1127641 TTTGTCCAACGACCTTCACTTGTGAGCAAAA
131 TTTGTCCAACGACCTTCACTTGTGAGCAAAA
1127672 AAATGGTCCC
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (161 bp):
TACAATGATTAACTGTAATCTAACCACCGACTTTGATTCTCTATCCAAATTAAAAGAGATGAACC
GTTTATAGTCATCCAAATTAAAATTTTACCATCAAGAAGATGAAAACAGTGTGTAATACCTTAAT
TTTGTCCAACGACCTTCACTTGTGAGCAAAA
Found at i:1128425 original size:3 final size:3
Alignment explanation
Indices: 1128417--1128478 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
1128407 AAATACGTAT
1128417 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1128465 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
1128479 GATGATGATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1130892 original size:448 final size:444
Alignment explanation
Indices: 1130111--1131006 Score: 1597
Period size: 448 Copynumber: 2.0 Consensus size: 444
1130101 AGCCTCAGGC
*
1130111 TTTCAACTTTGACTCAGTTTTCTCAGATCATCGAAATAGATTTTACTTCAAGATTCATGTCGGTT
1 TTTCAACTTTGACTCAATTTTCTCAGATCATCGAAATAGATTTTACTTCAAGATTCATGTCGGTT
1130176 ACTTGTCTACAAGGACAAATCCTTGTCACTATGCTTTGTATACCGAATACCCAAGTGCAATCTTC
66 ACTTGTCTACAAGGACAAATCCTTGTCACTATGCTTTGTATACCGAATACCCAAGTGCAATCTTC
1130241 AATATCGGTTTGTGAATTGATCTATGCAACAATGTTGTAGATATAAAATGTTGAGGATTGAAAAG
131 AATATCGGTTTGTGAATTGATCTATGCAACAATGTTGTAGATATAAAATGTTGAGGATTGAAAAG
*
1130306 CTGGTTGACCGGATTATGTTGTTCCAAATAACTGATTTCGATCTCAGTTTCCTCTTAGCAAACAA
196 CTGGTCGACCGGATTATGTTGTTCCAAATAACTGATTTCGATCTCAGTTTCCTCTTAGCAAACAA
1130371 TTTTGCTATGTTTGTTCCTAGGAAGTCGAATGTGCTTCAACAAACCAGTCTTTCCTCCCACGTTA
261 TTTTGCTATGTTTGTTCCTAGGAAGTCGAATGTGCTTCAACAAACCAGTCTTTCCTCCCACGTTA
*
1130436 ACCATAACAACATCCA-GCCAACGTCGACTTTTGGTTTTG-AAAATTGTTTTGA-TTGAAAATAA
326 ACCATAACAACATCCAGGCCAACGTCGACTTTTGGTTTTGAAAAATT-ATTTGATTTGAAAATAA
*
1130498 GCCCAGAAAA-ATAGAGAG-ATCCGAAGCGATTTTAAGTGCCTTATAATTCTCTCG
390 GCCCAGAAAACAGAGAGAGAATCCGAAGCGA-TTTAAGTGCCTTATAATTCTCTCG
*
1130552 TTTCAACTTTGACTCAATTTTCTCGGATCATCGAAATAGATCTTTACTTCAAGATTCATGTCGGT
1 TTTCAACTTTGACTCAATTTTCTCAGATCATCGAAATAGAT-TTTACTTCAAGATTCATGTCGGT
*
1130617 TACTTGTCTACAAGGACAAATCCTTGTGACTATGCTTTGTATACCGAATACCCAAGTGCAATCTT
65 TACTTGTCTACAAGGACAAATCCTTGTCACTATGCTTTGTATACCGAATACCCAAGTGCAATCTT
1130682 CAATATCGGTTTGTGAATTGATCTATGCAACAACAATGTTGTAGATATAAAAATGTTGAGGATTG
130 CAATATCGGTTTGTGAATTGATCTATG---CAACAATGTTGTAGATAT-AAAATGTTGAGGATTG
1130747 AAAAGCT-GTCGACTCGGATTATGTTGTTCCAACAATAACTGATTTCGATCTCAGTTTCCTCTTA
191 AAAAGCTGGTCGAC-CGGATTATGTTGTTCC-A-AATAACTGATTTCGATCTCAGTTTCCTCTTA
1130811 GCAAACAATTTTGCTATGTTTGTTCCTAGGAAGTCGAATGTGCTTCAACAAACCAGTCTTTCCTC
253 GCAAACAATTTTGCTATGTTTGTTCCTAGGAAGTCGAATGTGCTTCAACAAACCAGTCTTTCCTC
1130876 CCACGTTAACCATAACAACATCCAGGCCAACGTCGACTTTTGGTTTTGAAAAATTATTTGATTTG
318 CCACGTTAACCATAACAACATCCAGGCCAACGTCGACTTTTGGTTTTGAAAAATTATTTGATTTG
1130941 AAAATAAGCCCAGAAAACAGAGAGAGATATCCGAAGCGATTTAAGTGCCTTATAATTCTCTCG
383 AAAATAAGCCCAGAAAACAGAGAGAGA-ATCCGAAGCGATTTAAGTGCCTTATAATTCTCTCG
1131004 TTT
1 TTT
1131007 GGAATTGAGC
Statistics
Matches: 435, Mismatches: 6, Indels: 17
0.95 0.01 0.04
Matches are distributed among these distances:
441 39 0.09
442 114 0.26
445 23 0.05
446 39 0.09
447 1 0.00
448 120 0.28
449 28 0.06
450 26 0.06
451 7 0.02
452 27 0.06
453 11 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (444 bp):
TTTCAACTTTGACTCAATTTTCTCAGATCATCGAAATAGATTTTACTTCAAGATTCATGTCGGTT
ACTTGTCTACAAGGACAAATCCTTGTCACTATGCTTTGTATACCGAATACCCAAGTGCAATCTTC
AATATCGGTTTGTGAATTGATCTATGCAACAATGTTGTAGATATAAAATGTTGAGGATTGAAAAG
CTGGTCGACCGGATTATGTTGTTCCAAATAACTGATTTCGATCTCAGTTTCCTCTTAGCAAACAA
TTTTGCTATGTTTGTTCCTAGGAAGTCGAATGTGCTTCAACAAACCAGTCTTTCCTCCCACGTTA
ACCATAACAACATCCAGGCCAACGTCGACTTTTGGTTTTGAAAAATTATTTGATTTGAAAATAAG
CCCAGAAAACAGAGAGAGAATCCGAAGCGATTTAAGTGCCTTATAATTCTCTCG
Found at i:1133695 original size:25 final size:25
Alignment explanation
Indices: 1133636--1133684 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
1133626 TTGCCTCCCA
1133636 AAAAATAAATCAAAGAAAAATAAAAC
1 AAAAATAAATC-AAGAAAAATAAAAC
1133662 AAAAATAAATC-AGAAAAATAAAA
1 AAAAATAAATCAAGAAAAATAAAA
1133685 TTGAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 12 0.52
26 11 0.48
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.12
Consensus pattern (25 bp):
AAAAATAAATCAAGAAAAATAAAAC
Found at i:1144043 original size:22 final size:23
Alignment explanation
Indices: 1144013--1144057 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1144003 CCTTTTCTCT
1144013 ATCTCTTTTTCTCTTTTTCGAAC
1 ATCTCTTTTTCTCTTTTTCGAAC
*
1144036 ATCT-TTTTTCTCTTTTTTGAAC
1 ATCTCTTTTTCTCTTTTTCGAAC
1144058 TGCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.13, C:0.22, G:0.04, T:0.60
Consensus pattern (23 bp):
ATCTCTTTTTCTCTTTTTCGAAC
Found at i:1144066 original size:22 final size:22
Alignment explanation
Indices: 1144019--1144066 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1144009 CTCTATCTCT
*
1144019 TTTTCTCTTTTTCGAACATCTT
1 TTTTCTCTTTTTCGAACATCTA
*
1144041 TTTTCTCTTTTTTGAAC-TGCTA
1 TTTTCTCTTTTTCGAACAT-CTA
1144063 TTTT
1 TTTT
1144067 TTTAATGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.12, C:0.19, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTTCTCTTTTTCGAACATCTA
Found at i:1158008 original size:102 final size:103
Alignment explanation
Indices: 1157832--1158040 Score: 411
Period size: 102 Copynumber: 2.0 Consensus size: 103
1157822 ACAATTTGCC
1157832 AAAATACTTGTGGGCGAAAGCAACAAATACTACTTGTTATGTGATTAATAGAGTAATGATTAGGC
1 AAAATACTTGTGGGCGAAAGCAACAAATACTACTTGTTATGTGATTAATAGAGTAATGATTAGGC
1157897 CTATTTTAAAG-AAACTCCATATGAACTGTTCAAAAAT
66 CTATTTTAAAGAAAACTCCATATGAACTGTTCAAAAAT
1157934 AAAATACTTGTGGGCGAAAGCAACAAATACTACTTGTTATGTGATTAATAGAGTAATGATTAGGC
1 AAAATACTTGTGGGCGAAAGCAACAAATACTACTTGTTATGTGATTAATAGAGTAATGATTAGGC
1157999 CTATTTTAAAGAAAACTCCATATGAACTGTTCAAAAAT
66 CTATTTTAAAGAAAACTCCATATGAACTGTTCAAAAAT
1158037 AAAA
1 AAAA
1158041 AGCCTAACAA
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 76 0.72
103 30 0.28
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (103 bp):
AAAATACTTGTGGGCGAAAGCAACAAATACTACTTGTTATGTGATTAATAGAGTAATGATTAGGC
CTATTTTAAAGAAAACTCCATATGAACTGTTCAAAAAT
Found at i:1160256 original size:20 final size:20
Alignment explanation
Indices: 1160227--1160304 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
1160217 GTGCATTCAA
* *
1160227 TACCGGTATTGTTCATCTAG
1 TACCGATATTGTTCTTCTAG
*
1160247 TACCGATATTGTTCTTTGTCAG
1 TACCGATATTGTTC-TTCT-AG
** *
1160269 TATTGATATTGTTCTTCAAG
1 TACCGATATTGTTCTTCTAG
1160289 TACCGATATTGTTCTT
1 TACCGATATTGTTCTT
1160305 GCAGTCTCGA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 29 0.62
21 4 0.09
22 14 0.30
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.46
Consensus pattern (20 bp):
TACCGATATTGTTCTTCTAG
Found at i:1160315 original size:20 final size:20
Alignment explanation
Indices: 1160250--1160317 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
1160240 CATCTAGTAC
*
1160250 CGATATTGTTCTTTGTCAGTAT
1 CGATATTGTTC-TTG-CAGTCT
*
1160272 TGATATTGTTCTT-CAAGTAC-
1 CGATATTGTTCTTGC-AGT-CT
1160292 CGATATTGTTCTTGCAGTCT
1 CGATATTGTTCTTGCAGTCT
1160312 CGATAT
1 CGATAT
1160318 CGATATCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 24 0.62
21 3 0.08
22 10 0.26
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.46
Consensus pattern (20 bp):
CGATATTGTTCTTGCAGTCT
Found at i:1162805 original size:43 final size:42
Alignment explanation
Indices: 1162739--1163160 Score: 368
Period size: 43 Copynumber: 9.9 Consensus size: 42
1162729 TTTTTTCACA
*
1162739 AAAAACGCCGCAA-AGGTATTGATATTTAGCGGCGTTTGTGTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGT-TG
* * * *
1162781 AAAAACGTCGCAATAGGTGTTGATATTTAGTGGTGTTTGTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTT-G
* * * *
1162824 AAAAAAGCCACAATAGGTGTTGATATTTAGTGGCGTTTGTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTT-G
* * *
1162867 AAAAATGCCGCAATAGGTATTGATATTTAGCAGCGTTTGTCAT-
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGT--TG
* * *
1162910 AAAAACGCTGCAATAGGTGTTGATATTTAGCAGCGTTT-TTC
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTTG
* * * * * * *
1162951 AAAAAAGCTGTAATAGGTGTTGATATTTAGTGGTGTTTTTTAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTT-G
*
1162994 AAAAACGCCGCAATAGGTGTTGATATTTCGCGGCGTTTGTCAT-
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGT--TG
* * * * *
1163037 AAAAATGCCGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGT-TG
* * * * *
1163080 ACAAACGCCGTAATATGT-TATGATGTTTAGCGGCGTTTTTTG
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTGTTG
* * * * *
1163122 TTAAAACGCCACAGTAGGTGTTGATGTTTTGCGGCGTTT
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTT
1163161 CTGCTAAAAA
Statistics
Matches: 314, Mismatches: 53, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.00
41 33 0.11
42 18 0.06
43 259 0.82
44 1 0.00
45 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTTG
Found at i:1162979 original size:170 final size:169
Alignment explanation
Indices: 1162739--1163119 Score: 523
Period size: 170 Copynumber: 2.2 Consensus size: 169
1162729 TTTTTTCACA
* *
1162739 AAAAACGCCGCAA-AGGTATTGATATTTAGCGGCGTTTGTGTGAAAAACGTCGCAATAGGTGTTG
1 AAAAACGCCGCAATAGGT-TTGATATTTAGCGGCGTTT-T-TCAAAAAAGTCGCAATAGGTGTTG
* *
1162803 ATATTTAGTGGTGTTTGTTATAAAAAAGCCACAATAGGTGTTGATATTTAGTGGCGTTTGTTATA
63 ATATTTAGTGGTGTTTGTTATAAAAAAGCCACAATAGGTGTTGATATTTAGCGGCGTTTGTCATA
* * *
1162868 AAAATGCCGCAATAGGTATTGATATTTAGCAGCGTTTGTCAT
128 AAAATGCCGCAATAGGTATTAATATTTAGCAGCGTTTCTCAG
* * *
1162910 AAAAACGCTGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAAAAAAG-CTGTAATAGGTGTTGA
1 AAAAACGCCGCAATAGGT-TTGATATTTAGCGGCGTTTTTCAAAAAAGTC-GCAATAGGTGTTGA
* * * *
1162974 TATTTAGTGGTGTTTTTTATAAAAACGCCGCAATAGGTGTTGATATTTCGCGGCGTTTGTCATAA
64 TATTTAGTGGTGTTTGTTATAAAAAAGCCACAATAGGTGTTGATATTTAGCGGCGTTTGTCATAA
*
1163039 AAATGCCGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAG
129 AAATGCCGCAATAGGTATTAATATTTAGCAGCGTTTCTCAG
* * * *
1163080 ACAAACGCCGTAATATGTTATGATGTTTAGCGGCGTTTTT
1 AAAAACGCCGCAATAGGTT-TGATATTTAGCGGCGTTTTT
1163120 TGTTAAAACG
Statistics
Matches: 185, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
169 2 0.01
170 148 0.80
171 13 0.07
172 22 0.12
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (169 bp):
AAAAACGCCGCAATAGGTTTGATATTTAGCGGCGTTTTTCAAAAAAGTCGCAATAGGTGTTGATA
TTTAGTGGTGTTTGTTATAAAAAAGCCACAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAA
ATGCCGCAATAGGTATTAATATTTAGCAGCGTTTCTCAG
Found at i:1163086 original size:86 final size:86
Alignment explanation
Indices: 1162739--1163117 Score: 426
Period size: 86 Copynumber: 4.4 Consensus size: 86
1162729 TTTTTTCACA
* * * *
1162739 AAAAACGCCGCAA-AGGTATTGATATTTAGCGGCGTTTGT-GTGAAAAACGTCGCAATAGGTGTT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAT-AAAAATGCCGCAATAGGTGTT
** * *
1162802 GATATTTAGTGGTGTTTGTTAT
65 GATATTTAGCAGCGTTTGTCAT
* * * * *
1162824 AAAAAAGCCACAATAGGTGTTGATATTTAGTGGCGTTTGTTATAAAAATGCCGCAATAGGTATTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTG
1162889 ATATTTAGCAGCGTTTGTCAT
66 ATATTTAGCAGCGTTTGTCAT
* * * * *
1162910 AAAAACGCTGCAATAGGTGTTGATATTTAGCAGCGTTTTTCA-AAAAA-GCTGTAATAGGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTG
** * * *
1162973 ATATTTAGTGGTGTTTTTTAT
66 ATATTTAGCAGCGTTTGTCAT
* *
1162994 AAAAACGCCGCAATAGGTGTTGATATTTCGCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTA
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTG
* *
1163059 ATATTTAGCAGCGTTTCTCAG
66 ATATTTAGCAGCGTTTGTCAT
* * * *
1163080 ACAAACGCCGTAATATGT-TATGATGTTTAGCGGCGTTT
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTT
1163118 TTTGTTAAAA
Statistics
Matches: 244, Mismatches: 45, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
84 67 0.27
85 22 0.09
86 154 0.63
87 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (86 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAATGCCGCAATAGGTGTTG
ATATTTAGCAGCGTTTGTCAT
Found at i:1163169 original size:129 final size:127
Alignment explanation
Indices: 1162723--1163171 Score: 429
Period size: 129 Copynumber: 3.5 Consensus size: 127
1162713 ACTAAAGTTT
* * * * * *
1162723 GCGGCGTTTTTTCACAAAAAACGCCGCAA-AGGTATTGATATTTAGCGGCGTTTGT-GTGAAAAA
1 GCGGCGTTTTTT-A-TAAAAACGCCACAATAGGTGTTGATATTTCGCGGCGTTTCTCAT-AAAAA
* * ** * * * **
1162786 CGTCGCAATAGGTGTTGATATTTAGTGGTGTTTGTTATAAAAAAGCCACAATAGGTGTTGATATT
63 CGCCGCAATAGGTGTTAATATTTAGCAGCGTTT-CT-CAAAAAAGCCGTAATAGGTGTTGATATT
1162851 TA
126 TA
* * * * * * * *
1162853 GTGGCGTTTGTTATAAAAATGCCGCAATAGGTATTGATATTTAGCAGCGTTTGTCATAAAAACGC
1 GCGGCGTTTTTTATAAAAACGCCACAATAGGTGTTGATATTTCGCGGCGTTTCTCATAAAAACGC
* * * *
1162918 TGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAAAAAAGCTGTAATAGGTGTTGATATTTA
66 CGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAAAAAAGCCGTAATAGGTGTTGATATTTA
* * * * *
1162980 GTGGTGTTTTTTATAAAAACGCCGCAATAGGTGTTGATATTTCGCGGCGTTTGTCATAAAAATGC
1 GCGGCGTTTTTTATAAAAACGCCACAATAGGTGTTGATATTTCGCGGCGTTTCTCATAAAAACGC
* * *
1163045 CGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAGACAAACGCCGTAATATGT-TATGATGTTTA
66 CGCAATAGGTGTTAATATTTAGCAGCGTTTCTCA-A-AAAAGCCGTAATAGGTGT-TGATATTTA
* * * * *
1163109 GCGGCGTTTTTTGTTAAAACGCCACAGTAGGTGTTGATGTTTTGCGGCGTTTCTGC-TAAAAAC
1 GCGGCGTTTTTTATAAAAACGCCACAATAGGTGTTGATATTTCGCGGCGTTTCT-CATAAAAAC
1163172 AATGGTATAG
Statistics
Matches: 274, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
127 115 0.42
128 16 0.06
129 131 0.48
130 12 0.04
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (127 bp):
GCGGCGTTTTTTATAAAAACGCCACAATAGGTGTTGATATTTCGCGGCGTTTCTCATAAAAACGC
CGCAATAGGTGTTAATATTTAGCAGCGTTTCTCAAAAAAGCCGTAATAGGTGTTGATATTTA
Found at i:1163315 original size:37 final size:37
Alignment explanation
Indices: 1163265--1163340 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
1163255 ACGTTGCTAA
1163265 ATAACACAGAATTTAACAATCCTAAAAATTATGTTTG
1 ATAACACAGAATTTAACAATCCTAAAAATTATGTTTG
1163302 ATAACACAGAATTTAACAATCCTAAAAATTATGTTTG
1 ATAACACAGAATTTAACAATCCTAAAAATTATGTTTG
1163339 AT
1 AT
1163341 TACCCCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (37 bp):
ATAACACAGAATTTAACAATCCTAAAAATTATGTTTG
Found at i:1163689 original size:21 final size:21
Alignment explanation
Indices: 1163647--1163689 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1163637 CTATGTGTTA
* * *
1163647 CCGCTGCTTCTTTCTTTTCTT
1 CCGCTGCTGCTTTCGTTGCTT
*
1163668 CCGCTGCTGCTTTGGTTGCTT
1 CCGCTGCTGCTTTCGTTGCTT
1163689 C
1 C
1163690 TGTTGTTGCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.33, G:0.19, T:0.49
Consensus pattern (21 bp):
CCGCTGCTGCTTTCGTTGCTT
Found at i:1172232 original size:43 final size:41
Alignment explanation
Indices: 1172157--1172269 Score: 163
Period size: 43 Copynumber: 2.7 Consensus size: 41
1172147 CTGCCCTAGC
* * * *
1172157 CTATAGCGGCGTTTTTATAAAAACGCCGCAAAATATTATAT
1 CTATTGCGGCGTTTATCTAAAAACGCCACAAAATATTATAT
*
1172198 CTATTGCGGTGTTTATCTTAAGAAACGCCACAAAATATTATAT
1 CTATTGCGGCGTTTATC-TAA-AAACGCCACAAAATATTATAT
1172241 CTATTGCGGCGTTTATCTAAAAACGCCAC
1 CTATTGCGGCGTTTATCTAAAAACGCCAC
1172270 TAAGGGTATG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
41 22 0.34
42 6 0.09
43 36 0.56
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (41 bp):
CTATTGCGGCGTTTATCTAAAAACGCCACAAAATATTATAT
Found at i:1172338 original size:83 final size:81
Alignment explanation
Indices: 1172152--1172520 Score: 289
Period size: 83 Copynumber: 4.5 Consensus size: 81
1172142 CGTTACTGCC
* * * * * * * * *
1172152 CTAGCCTATAGCGGCGTTTTTATAAAAACGCCGC-AAAATATTATATCTATTGCGGTGTTTATCT
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTATGA-GTCTATAGCGGCGTTT-T-A
* *
1172216 TAAGAAACGCCAC-AAAATA
63 TAA-AAGCGCCACTAAAGTA
* * * * * *
1172235 TTATATCTATTGCGGCGTTTATCTAAAAACGCCACTAAGGGTATGAGTCTATAGCGGCATTTGTA
1 CTA-GTCTATAGCGGCGTTTATATAAAAACGCCACTAA-AGTATGAGTCTATAGCGGCGTTT-TA
1172300 TAAAAGCGCCACTAAAGTA
63 TAAAAGCGCCACTAAAGTA
* ** * *
1172319 CTAGTCTATAGCGTCGTTTATATAAAAACGCTGCTAAAGTACGAGTCTTTAGCGGCGTTTTCATT
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTT-A-T
*
1172384 CAAAATG-TCC-CTAAAGTA
64 -AAAA-GCGCCACTAAAGTA
* * ** * * *
1172402 CGAGTTTATAGTAGCGTTTAGATCAAAACGCCACTAAAGTATGAGTATATAGCGGCGTTTATATA
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTT-TATA
1172467 GAAA-CGCCACTAAAGTA
65 -AAAGCGCCACTAAAGTA
* * *
1172484 CTAGTATATAGTGGCGTTTGTATAAAAACGCCACTAA
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAA
1172521 CGTACGTACC
Statistics
Matches: 225, Mismatches: 49, Indels: 25
0.75 0.16 0.08
Matches are distributed among these distances:
81 4 0.02
82 63 0.28
83 96 0.43
84 42 0.19
85 16 0.07
86 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (81 bp):
CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTTATAA
AAGCGCCACTAAAGTA
Found at i:1172343 original size:41 final size:41
Alignment explanation
Indices: 1172152--1172543 Score: 285
Period size: 41 Copynumber: 9.5 Consensus size: 41
1172142 CGTTACTGCC
* * * *
1172152 CTAGCCTATAGCGGCGTTTTTATAAAAACGCCGC-AAAATA
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* * * * * *
1172192 TTATATCTATTGCGGTGTTTATCTTAAGAAACGCCAC-AAAATA
1 CTA-GTCTATAGCGGCGTTTAT-ATAA-AAACGCCACTAAAGTA
* * * * *
1172235 TTATATCTATTGCGGCGTTTATCTAAAAACGCCACTAAGGGTA
1 CTA-GTCTATAGCGGCGTTTATATAAAAACGCCACTAA-AGTA
* * *
1172278 -TGAGTCTATAGCGGCATTTGTATAAAAGCGCCACTAAAGTA
1 CT-AGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* **
1172319 CTAGTCTATAGCGTCGTTTATATAAAAACGCTGCTAAAGTA
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* * * *
1172360 CGAGTCTTTAGCGGCGTTT-TCATTCAAAATGTCC-CTAAAGTA
1 CTAGTCTATAGCGGCGTTTAT-A-TAAAAACG-CCACTAAAGTA
* * ** * *
1172402 CGAGTTTATAGTAGCGTTTAGATCAAAACGCCACTAAAGTA
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* *
1172443 -TGAGTATATAGCGGCGTTTATATAGAAACGCCACTAAAGTA
1 CT-AGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* * * *
1172484 CTAGTATATAGTGGCGTTTGTATAAAAACGCCACTAACGTA
1 CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* *
1172525 CGTA-CCTATAACGGCGTTT
1 C-TAGTCTATAGCGGCGTTT
1172544 CTGGATACAA
Statistics
Matches: 285, Mismatches: 52, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
40 5 0.02
41 170 0.60
42 71 0.25
43 39 0.14
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
CTAGTCTATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
Found at i:1173097 original size:43 final size:40
Alignment explanation
Indices: 1173067--1173147 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
1173057 ATTTAACATT
1173067 TTGTGGCGTTTATACAAAAAAACGCCACTATTGATTACACTA
1 TTGTGGCGTTTAT--AAAAAAACGCCACTATTGATTACACTA
* *
1173109 TTGTGGCGTTTGTTAAAAAACGCCACTATTGATTA-ACTA
1 TTGTGGCGTTTATAAAAAAACGCCACTATTGATTACACTA
1173148 CTAAAAACGC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 4 0.11
40 21 0.57
42 12 0.32
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (40 bp):
TTGTGGCGTTTATAAAAAAACGCCACTATTGATTACACTA
Found at i:1173175 original size:25 final size:26
Alignment explanation
Indices: 1173124--1173175 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1173114 GCGTTTGTTA
1173124 AAAAACGCCACTATTGATTAACTACT
1 AAAAACGCCACTATTGATTAACTACT
1173150 AAAAACGCCACTATTGATTAAC-ACT
1 AAAAACGCCACTATTGATTAACTACT
1173175 A
1 A
1173176 TTGCGGCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (26 bp):
AAAAACGCCACTATTGATTAACTACT
Found at i:1173195 original size:67 final size:66
Alignment explanation
Indices: 1173084--1173210 Score: 209
Period size: 67 Copynumber: 1.9 Consensus size: 66
1173074 GTTTATACAA
* *
1173084 AAAAACGCCACTATTGATTACACTATTGTGGCGTTTGTTAAAAAACGCCACTATTGATTAACTAC
1 AAAAACGCCACTATTGATTACACTATTGCGGCGTTTATTAAAAAACGCCACTATTGATTAACTAC
1173149 T
66 T
* *
1173150 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTATTTAAAAACGCCACTATTTATTA
1 AAAAACGCCACTATTGATT-ACACTATTGCGGCGTTTATTAAAAAACGCCACTATTGATTA
1173211 TCACTATTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
66 19 0.34
67 37 0.66
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (66 bp):
AAAAACGCCACTATTGATTACACTATTGCGGCGTTTATTAAAAAACGCCACTATTGATTAACTAC
T
Found at i:1173300 original size:42 final size:40
Alignment explanation
Indices: 1173253--1173393 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 40
1173243 TATATGTGTA
1173253 ATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACC
1 ATCTATTGCGGCGTTT-TGGTATAAACGCCGCTAATTTACC
*
1173294 TATCTATTGCGGCGTTTTGGCTA-AAACGCCACTATATGTTA--
1 -ATCTATTGCGGCGTTTTGG-TATAAACGCCGCTA-AT-TTACC
*
1173335 ATCTATTGCGGTGTTTATGGTATAAACGCCGCTAATTTACC
1 ATCTATTGCGGCGTTT-TGGTATAAACGCCGCTAATTTACC
*
1173376 ACTCTATTACGGCGTTTT
1 A-TCTATTGCGGCGTTTT
1173394 TTAACAAACG
Statistics
Matches: 86, Mismatches: 5, Indels: 17
0.80 0.05 0.16
Matches are distributed among these distances:
39 3 0.03
40 19 0.22
41 28 0.33
42 33 0.38
43 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (40 bp):
ATCTATTGCGGCGTTTTGGTATAAACGCCGCTAATTTACC
Found at i:1173362 original size:41 final size:41
Alignment explanation
Indices: 1173152--1173364 Score: 181
Period size: 41 Copynumber: 5.2 Consensus size: 41
1173142 TAACTACTAA
* * *
1173152 AAACGCCACTAT-TGATTAACACTATTGCGGCGTTTAT-TTAA
1 AAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTATGGTAT
* * * * *
1173193 AAACGCCACTATTTATT-ATCACTATTACGGCGTTTA-AGAAT
1 AAACGCCACTATATGTTAAT--CTATTGCGGCGTTTATGGTAT
* *
1173234 AAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTAT
1 AAACGCCACTATATGT-TAATCTATTGCGGCGTTTATGGTAT
*
1173276 AAACGCCGCTA-AT-TTACCTATCTATTGCGGCGTTT-TGGCTA-
1 AAACGCCACTATATGTTA---ATCTATTGCGGCGTTTATGG-TAT
*
1173317 AAACGCCACTATATGTTAATCTATTGCGGTGTTTATGGTAT
1 AAACGCCACTATATGTTAATCTATTGCGGCGTTTATGGTAT
1173358 AAACGCC
1 AAACGCC
1173365 GCTAATTTAC
Statistics
Matches: 140, Mismatches: 17, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
39 2 0.01
40 19 0.14
41 80 0.57
42 34 0.24
43 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
AAACGCCACTATATGTTAATCTATTGCGGCGTTTATGGTAT
Found at i:1173365 original size:82 final size:83
Alignment explanation
Indices: 1173151--1173393 Score: 266
Period size: 82 Copynumber: 3.0 Consensus size: 83
1173141 TTAACTACTA
* * * * **
1173151 AAAACGCCACTAT-TGAT-TAACACTATTGCGGCGTTTAT-TTAAAAACGCCACT-ATTTATTAT
1 AAAACGCCACTATATG-TGTAA-TCTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCA-
* ** *
1173212 CACTATTACGGCGTTTAAG-A
63 CTCTATTACGGCGTTTTGGCT
* *
1173232 ATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCTA-
1 A-AAACGCCACTATATGTGTAATCTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACC-AC
*
1173296 TCTATTGCGGCGTTTTGGCT
64 TCTATTACGGCGTTTTGGCT
*
1173316 AAAACGCCACTATATGT-TAATCTATTGCGGTGTTTATGGTATAAACGCCGCTAATTTACCACTC
1 AAAACGCCACTATATGTGTAATCTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCACTC
1173380 TATTACGGCGTTTT
66 TATTACGGCGTTTT
1173394 TTAACAAACG
Statistics
Matches: 137, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
81 2 0.01
82 83 0.61
83 45 0.33
84 6 0.04
85 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (83 bp):
AAAACGCCACTATATGTGTAATCTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCACTC
TATTACGGCGTTTTGGCT
Found at i:1173423 original size:40 final size:42
Alignment explanation
Indices: 1173358--1173451 Score: 120
Period size: 40 Copynumber: 2.3 Consensus size: 42
1173348 TTTATGGTAT
** * *
1173358 AAACGCCGCTAATTTACCACTCTATTACGGCGTTTTTT-AAC
1 AAACGCCGCTAATAAACCACCCTATTACGGCATTTTTTCAAC
*
1173399 AAACGCCGC-AATAAACCACCCTATTGCGGCATTTTTTCAAC
1 AAACGCCGCTAATAAACCACCCTATTACGGCATTTTTTCAAC
*
1173440 AAACACCGCTAA
1 AAACGCCGCTAA
1173452 AGTATCAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 23 0.51
41 20 0.44
42 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAATAAACCACCCTATTACGGCATTTTTTCAAC
Found at i:1173423 original size:82 final size:81
Alignment explanation
Indices: 1173255--1173428 Score: 190
Period size: 82 Copynumber: 2.1 Consensus size: 81
1173245 TATGTGTAAT
* *
1173255 CTATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCTATCTATTGCGGCGTTTTGGCTAAAA
1 CTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCTATCTATTACGGCGTTTT-GCTAAAA
* **** *
1173320 CGCCACTATATGTTAAT
65 CGCCACAATAAACCAAC
* *
1173337 CTATTGCGGTGTTTATGGTATAAACGCCGCTAATTTACC-ACTCTATTACGGCGTTTT-TTAACA
1 CTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCTA-TCTATTACGGCGTTTTGCT-A-A
* *
1173400 AACGCCGCAATAAACCACC
63 AACGCCACAATAAACCAAC
1173419 CTATTGCGGC
1 CTATTGCGGC
1173429 ATTTTTTCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 1 0.01
81 2 0.03
82 73 0.96
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (81 bp):
CTATTGCGGCGTTTATGGTATAAACGCCGCTAATTTACCTATCTATTACGGCGTTTTGCTAAAAC
GCCACAATAAACCAAC
Found at i:1177740 original size:12 final size:12
Alignment explanation
Indices: 1177723--1177747 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1177713 ATATATTTAA
1177723 AATAATTATTAT
1 AATAATTATTAT
1177735 AATAATTATTAT
1 AATAATTATTAT
1177747 A
1 A
1177748 TTATTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATAATTATTAT
Found at i:1184932 original size:19 final size:18
Alignment explanation
Indices: 1184905--1184973 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 18
1184895 CAGATAAAGT
*
1184905 TAAAAAGAT-TTAATAAAA
1 TAAAAAGATAATAAT-AAA
1184923 TAAAATAGATAATAATAAA
1 TAAAA-AGATAATAATAAA
*
1184942 TAAAAGAGAAAATAATAAAA
1 TAAAA-AGATAATAAT-AAA
*
1184962 TAATAA-ATAATA
1 TAAAAAGATAATA
1184974 GTGGTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.23
19 22 0.51
20 11 0.26
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
TAAAAAGATAATAATAAA
Found at i:1184940 original size:20 final size:20
Alignment explanation
Indices: 1184915--1184964 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
1184905 TAAAAAGATT
* *
1184915 TAATAAAATAAAATAGATAA
1 TAATAAAATAAAAGAGAAAA
1184935 TAAT-AAATAAAAGAGAAAA
1 TAATAAAATAAAAGAGAAAA
1184954 TAATAAAATAA
1 TAATAAAATAA
1184965 TAAATAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (20 bp):
TAATAAAATAAAAGAGAAAA
Found at i:1184988 original size:27 final size:27
Alignment explanation
Indices: 1184923--1184988 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
1184913 TTTAATAAAA
*
1184923 TAAAATAGATAATAATAAATAAAAGAG
1 TAAAATAGAAAATAATAAATAAAAGAG
* * *
1184950 -AAAATAATAAAATAATAAATAATAGTGG
1 TAAAAT-AGAAAATAATAAATAAAAG-AG
1184978 TAAAATA-AAAA
1 TAAAATAGAAAA
1184989 GGGATTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.16
27 20 0.62
28 2 0.06
29 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (27 bp):
TAAAATAGAAAATAATAAATAAAAGAG
Found at i:1185749 original size:15 final size:16
Alignment explanation
Indices: 1185731--1185766 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
1185721 CTAAAATACC
1185731 TAAAACAAATAT-AAA
1 TAAAACAAATATAAAA
1185746 TAAAACAAATATAAAA
1 TAAAACAAATATAAAA
1185762 TAAAA
1 TAAAA
1185767 TATTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAACAAATATAAAA
Found at i:1185873 original size:75 final size:72
Alignment explanation
Indices: 1185752--1185903 Score: 223
Period size: 75 Copynumber: 2.1 Consensus size: 72
1185742 TAAATAAAAC
* * *
1185752 AAATATAAAATAAAATATTATTTAAAATAATATCCTAAATCCTAATTAAAATACTAAAACTTATT
1 AAATACAAAATAAAATATTATTTAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATT
1185817 TAAACTA
66 TAAACTA
* * *
1185824 AAATACAAAGATAAAATATAATATTTAAAATATTATCTTAAAACTTAATTAAAATACTAAAACCT
1 AAATACAAA-ATAAAATAT--TATTTAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCT
1185889 ATTTAAACTA
63 ATTTAAACTA
1185899 AAATA
1 AAATA
1185904 TTTAAAACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
72 8 0.11
73 9 0.13
75 54 0.76
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.34
Consensus pattern (72 bp):
AAATACAAAATAAAATATTATTTAAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATT
TAAACTA
Found at i:1188748 original size:18 final size:18
Alignment explanation
Indices: 1188725--1188761 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1188715 TTCCATTACT
1188725 TCTACTGGATAGATCACA
1 TCTACTGGATAGATCACA
1188743 TCTACTGGATAGATCACA
1 TCTACTGGATAGATCACA
1188761 T
1 T
1188762 ATCGATCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (18 bp):
TCTACTGGATAGATCACA
Found at i:1190911 original size:20 final size:20
Alignment explanation
Indices: 1190886--1190935 Score: 93
Period size: 19 Copynumber: 2.5 Consensus size: 20
1190876 TGAAAAGATT
1190886 TAATAAAATAAAAGGGAAAA
1 TAATAAAATAAAAGGGAAAA
1190906 TAAT-AAATAAAAGGGAAAA
1 TAATAAAATAAAAGGGAAAA
1190925 TAATAAAATAA
1 TAATAAAATAA
1190936 TAAATAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (20 bp):
TAATAAAATAAAAGGGAAAA
Found at i:1199888 original size:33 final size:33
Alignment explanation
Indices: 1199841--1199905 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1199831 ACCTACCCTC
* *
1199841 GCTCGGTTGTCCTCGGATTCCCTCGCATAGCTT
1 GCTCGGTTGCCCTCGGATGCCCTCGCATAGCTT
1199874 GCTCGGTTGCCCTCGGATGCCCTCGCATAGCT
1 GCTCGGTTGCCCTCGGATGCCCTCGCATAGCT
1199906 CGTTCGGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.09, C:0.35, G:0.26, T:0.29
Consensus pattern (33 bp):
GCTCGGTTGCCCTCGGATGCCCTCGCATAGCTT
Found at i:1199894 original size:10 final size:10
Alignment explanation
Indices: 1199875--1199996 Score: 55
Period size: 10 Copynumber: 11.1 Consensus size: 10
1199865 GCATAGCTTG
*
1199875 CTCGGTTGCC
1 CTCGGATGCC
1199885 CTCGGATGCC
1 CTCGGATGCC
*
1199895 CTCGCATAGCTC
1 CTCGGAT-GC-C
*
1199907 GTTCGGATGGCC
1 -CTCGGAT-GCC
*
1199919 TCGGTCGGATGGC
1 -C--TCGGATGCC
*
1199932 CTCGGATGCT
1 CTCGGATGCC
* *
1199942 CTCAGATGGC
1 CTCGGATGCC
*
1199952 CTCGGATGCT
1 CTCGGATGCC
*
1199962 TTCGGATGGCC
1 CTCGGAT-GCC
*
1199973 TCGGTCGGATGGC
1 -C--TCGGATGCC
1199986 CTCGGATGCC
1 CTCGGATGCC
1199996 C
1 C
1199997 AACGTGTTGG
Statistics
Matches: 82, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
10 51 0.62
11 4 0.05
12 4 0.05
13 11 0.13
14 12 0.15
ACGTcount: A:0.10, C:0.32, G:0.34, T:0.25
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:1199926 original size:14 final size:14
Alignment explanation
Indices: 1199904--1199936 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1199894 CCTCGCATAG
*
1199904 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
1199918 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
1199932 CTCGG
1 CTCGG
1199937 ATGCTCTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:1199951 original size:20 final size:20
Alignment explanation
Indices: 1199926--1199976 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1199916 GCCTCGGTCG
1199926 GATGGCCTCGGATGCTCTCA
1 GATGGCCTCGGATGCTCTCA
* *
1199946 GATGGCCTCGGATGCTTTCG
1 GATGGCCTCGGATGCTCTCA
1199966 GATGGCCTCGG
1 GATGGCCTCGG
1199977 TCGGATGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.27, G:0.35, T:0.25
Consensus pattern (20 bp):
GATGGCCTCGGATGCTCTCA
Found at i:1199982 original size:14 final size:14
Alignment explanation
Indices: 1199963--1199990 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1199953 TCGGATGCTT
1199963 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1199977 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1199991 ATGCCCAACG
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:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:1200066 original size:29 final size:29
Alignment explanation
Indices: 1200033--1200090 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1200023 GCAATCTCTT
* *
1200033 GTAGGTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGACGACCTA
*
1200062 GTAGGTCGCCCGGAAGGCATGACGACCTA
1 GTAGGTCGCCCGGAAGACATGACGACCTA
1200091 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAGACATGACGACCTA
Found at i:1204394 original size:42 final size:42
Alignment explanation
Indices: 1204330--1204419 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
1204320 ATTCCAGTAG
*
1204330 CCCCCCGATGGAAGAATTTGTTTCCCATAAAAAGCAATGCCA
1 CCCCCCGATGGAAGAATCTGTTTCCCATAAAAAGCAATGCCA
1204372 CCCCCCGATGGAAGAATCTGTTTCCCATAAAAAGCAATGCCA
1 CCCCCCGATGGAAGAATCTGTTTCCCATAAAAAGCAATGCCA
1204414 CCCCCC
1 CCCCCC
1204420 TAAATATTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.19
Consensus pattern (42 bp):
CCCCCCGATGGAAGAATCTGTTTCCCATAAAAAGCAATGCCA
Found at i:1204613 original size:3 final size:3
Alignment explanation
Indices: 1204605--1204669 Score: 82
Period size: 3 Copynumber: 21.7 Consensus size: 3
1204595 GGGACCTATA
1204605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AA- AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
1204652 AAAT AAAT AAT -AT AAT AA
1 -AAT -AAT AAT AAT AAT AA
1204670 AATGTTTTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 6 0.10
3 42 0.71
4 11 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1205035 original size:84 final size:84
Alignment explanation
Indices: 1204917--1205081 Score: 231
Period size: 84 Copynumber: 2.0 Consensus size: 84
1204907 CTCTTCAGTT
* * ** * * * *
1204917 TTTTGGTGGCAGATAACCCTTCTCGATTTAAGCTATGCTGGAAATGATGTGCCTTTGGGCTGAGT
1 TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTACAAACGATGTGCCTTAGAGCTGAGC
1204982 GTAATCGAACTCGAAGGTC
66 GTAATCGAACTCGAAGGTC
* *
1205001 TTTTGGTGGCAGATAACCCTTCTAGCCTTGAGCTATGCTACAAACGATGTGCCTTAGAGCTGAGC
1 TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTACAAACGATGTGCCTTAGAGCTGAGC
*
1205066 GTAGTCGAACTCGAAG
66 GTAATCGAACTCGAAG
1205082 ATTTGGTGTT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 70 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (84 bp):
TTTTGGTGGCAGATAACCCTTCTAGACTTAAGCTATGCTACAAACGATGTGCCTTAGAGCTGAGC
GTAATCGAACTCGAAGGTC
Found at i:1205205 original size:36 final size:37
Alignment explanation
Indices: 1205136--1205232 Score: 160
Period size: 36 Copynumber: 2.6 Consensus size: 37
1205126 GAAAAATTAT
* *
1205136 CTCAAAAGAGACAAAACTTTGTTTCAAGGGAAACTGC
1 CTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGC
*
1205173 CTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGT
1 CTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGC
1205209 CTCAAGAGAGACAAAACTTTGTTT
1 CTCAAGAGAGACAAAACTTTGTTT
1205233 TGAGTAAATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.61
37 22 0.39
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (37 bp):
CTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGC
Found at i:1205919 original size:254 final size:251
Alignment explanation
Indices: 1205405--1205873 Score: 595
Period size: 254 Copynumber: 1.9 Consensus size: 251
1205395 CCTTGAATTG
* *
1205405 GATATCCTTCGTCGTGAAGTTGAAATCCAATTTAAAGATGAATGATGCTTGTGTGCACGATTCCC
1 GATATCCTTCGTCGTGAAGTAGAAATCCAATTTAAAGATGAATGATGCTTGGGTGCACGATTCCC
* * *
1205470 TTCGTCGTGAAGTTGAAACCGTGGATGGCCCATCCGTCGTGGAGTTGAGCCTTGAATTGGATATC
66 TTCGTCGTGAAATTGAAACCGTGGATGGCCCATCCGTCGTGAAGTTGAGCCTGGAATTGGATATC
* * * *
1205535 CTTCGTCGTGAAGTTGAAATCCAATGAAAGTTGTGTTGTTTCGAGTCCAATATCATTCGCCGTGA
131 CTTCATCGTGAAGTTGAAATCCAATG--ACTTGTATTGTTTCGAGTCCAATATCATCCGCCGTGA
* * * ** ***
1205600 AGCTGAAATTGACTCTGAAACTGGAAAGTTTGTTGACAGACACTCCTTCTTTGAGTTG
194 AGCTGAAATTGACTCTAAAACTGGAAAGTTAGTTGACAGACACGCCTTCAATGAGCAC
** ** * *
1205658 GATATCCTTTTTCGTGAAGTAGAAATCCAATTATGGAGATGGATGCTGCTTGGGTGCACGATTCC
1 GATATCCTTCGTCGTGAAGTAGAAATCCAATT-TAAAGATGAATGATGCTTGGGTGCACGATTCC
* *
1205723 CTTCGTCGTGAAATTGAAA-C-TGCGAGTGGCCCCTTCGTCGTGAAGTTGAGCCTGGAATTGGAT
65 CTTCGTCGTGAAATTGAAACCGTG-GA-TGGCCCATCCGTCGTGAAGTTGAGCCTGGAATTGGAT
* *
1205786 ATCCTTCATCGTGAAGTTGAAATCCAA-G-CTTGTATTGTTTCGAGTCTAATATCCTCCGCCGTG
128 ATCCTTCATCGTGAAGTTGAAATCCAATGACTTGTATTGTTTCGAGTCCAATATCATCCGCCGTG
* **
1205849 AAGTTGAAATTGGTTCTAAAACTGG
193 AAGCTGAAATTGACTCTAAAACTGG
1205874 GAAGCCCCTT
Statistics
Matches: 190, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
250 51 0.27
252 2 0.01
253 33 0.17
254 104 0.55
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (251 bp):
GATATCCTTCGTCGTGAAGTAGAAATCCAATTTAAAGATGAATGATGCTTGGGTGCACGATTCCC
TTCGTCGTGAAATTGAAACCGTGGATGGCCCATCCGTCGTGAAGTTGAGCCTGGAATTGGATATC
CTTCATCGTGAAGTTGAAATCCAATGACTTGTATTGTTTCGAGTCCAATATCATCCGCCGTGAAG
CTGAAATTGACTCTAAAACTGGAAAGTTAGTTGACAGACACGCCTTCAATGAGCAC
Found at i:1206170 original size:109 final size:109
Alignment explanation
Indices: 1206023--1206308 Score: 423
Period size: 109 Copynumber: 2.6 Consensus size: 109
1206013 TATTGTTTCA
*
1206023 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT-AGCTCTGAATGAAACTGAGAAGTTGTTTGTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGA-CTCTGAATGAAACTGA-AAGTTGTTTGTTG
* * *
1206087 ACAGCCAGCCGCCCCTTCGCTGTGAATTTGAGCTTGTGTTGTCTCG
64 ACAGCCAGCCGCCCATTCGCTCTGAAGTTGAGCTTGTGTTGTCTCG
* * * *
1206133 AGTCCAATATCATTCG-TGTAAAGTTGAAATTGACTCTGAATGAAACTTAAAAATTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAAC-TGAAAGTTGTTTGTTGA
*
1206197 CAGCCAGTCGCCCATTCGCTCTGAAGTTGAGCTTGTGTTGTCTCG
65 CAGCCAGCCGCCCATTCGCTCTGAAGTTGAGCTTGTGTTGTCTCG
* *
1206242 AGTCTAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAGGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA-GTTGTTTGTTGA
1206307 CA
65 CA
1206309 TTTTCCCCTT
Statistics
Matches: 158, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
109 99 0.63
110 59 0.37
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (109 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAGTTGTTTGTTGAC
AGCCAGCCGCCCATTCGCTCTGAAGTTGAGCTTGTGTTGTCTCG
Found at i:1208963 original size:27 final size:27
Alignment explanation
Indices: 1208923--1208974 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1208913 CACATAGTCA
1208923 CCTTATAGACTGTCCTCTGTATTTTCG
1 CCTTATAGACTGTCCTCTGTATTTTCG
*
1208950 CCTTATAGATTGTCCTCTGTATTTT
1 CCTTATAGACTGTCCTCTGTATTTT
1208975 TCATCTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.13, T:0.48
Consensus pattern (27 bp):
CCTTATAGACTGTCCTCTGTATTTTCG
Found at i:1211796 original size:3 final size:3
Alignment explanation
Indices: 1211778--1211831 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
1211768 CATGGGACCT
* *
1211778 ATA AAA ATA A-A ATA ATA ATA ATA ATA ATAA ATA A-A TTA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
1211821 ATA ATA A-A ATA
1 ATA ATA ATA ATA
1211832 TTTTTTAGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 7 0.17
3 32 0.76
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1211806 original size:20 final size:21
Alignment explanation
Indices: 1211778--1211831 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1211768 CATGGGACCT
*
1211778 ATAAAAATAAAATAA-TAATA
1 ATAATAATAAAATAATTAATA
1211798 ATAATAAT-AAATAAATTAATA
1 ATAATAATAAAAT-AATTAATA
1211819 AT-ATAATAAAATA
1 ATAATAATAAAATA
1211832 TTTTTTAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 15 0.50
21 11 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATAATAAAATAATTAATA
Found at i:1213803 original size:162 final size:167
Alignment explanation
Indices: 1213505--1213836 Score: 620
Period size: 163 Copynumber: 2.0 Consensus size: 167
1213495 TCTGAAATTA
1213505 AGCTTGGTGTCTCGTATCATTCCCGGACAACGAACTGTGAGTTTGGTTTCAGATTTTCATTTTGT
1 AGCTTGGTG-CTCGTATCATTCCCGGACAACGAACTGTGAGTTTGGTTTCAGATTTTCATTTTGT
1213570 TGGTTAATCTCATATGTTTTGATAATGTTTCAGTTTAATTAGCCTTTCATCATGATTTCCATGGC
65 TGGTTAATCTCATATGTTTTGATAATGTTTCAGTTTAATTAGCCTTTCATCATGATTTCCATGGC
1213635 TAACTTCTACAGGCTG-TTTTAAAAGATATTTGCGGCC
130 TAACTTCTACAGGCTGTTTTTAAAAGATATTTGCGGCC
1213672 AGCTTGGTG-TC-TATCATTCCCGGAC-ACGAACTGTGAGTTTGGTTTCAGATTTTCATTTTGTT
1 AGCTTGGTGCTCGTATCATTCCCGGACAACGAACTGTGAGTTTGGTTTCAGATTTTCATTTTGTT
1213734 GGTTAATCTCATATG-TTTGATAATGTTTCAGTTTAATTAGCCTTTCATCATGATTTCCATGGCT
66 GGTTAATCTCATATGTTTTGATAATGTTTCAGTTTAATTAGCCTTTCATCATGATTTCCATGGCT
1213798 AACTTCTACAGGCTGTTTTTAAAAGATATTTGCGGCC
131 AACTTCTACAGGCTGTTTTTAAAAGATATTTGCGGCC
1213835 AG
1 AG
1213837 AAAAGGAATA
Statistics
Matches: 164, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
162 64 0.39
163 75 0.46
164 14 0.09
165 2 0.01
167 9 0.05
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (167 bp):
AGCTTGGTGCTCGTATCATTCCCGGACAACGAACTGTGAGTTTGGTTTCAGATTTTCATTTTGTT
GGTTAATCTCATATGTTTTGATAATGTTTCAGTTTAATTAGCCTTTCATCATGATTTCCATGGCT
AACTTCTACAGGCTGTTTTTAAAAGATATTTGCGGCC
Found at i:1236822 original size:19 final size:19
Alignment explanation
Indices: 1236800--1236838 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1236790 CATACATTCT
1236800 TGATACATAAATACATACA
1 TGATACATAAATACATACA
* * *
1236819 TGATGCATACATTCATACA
1 TGATACATAAATACATACA
1236838 T
1 T
1236839 ACTCGTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (19 bp):
TGATACATAAATACATACA
Found at i:1237677 original size:21 final size:21
Alignment explanation
Indices: 1237659--1237727 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
1237649 AAGGCCTTCC
1237659 GATGAAAGGACTTAACCTTTT
1 GATGAAAGGACTTAACCTTTT
* * **
1237680 GATTAAAAGACTTCTCCTTTT
1 GATGAAAGGACTTAACCTTTT
*
1237701 GATGAAAGGGCTTAACCTTTT
1 GATGAAAGGACTTAACCTTTT
*
1237722 CATGAA
1 GATGAA
1237728 GAGAATTATT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (21 bp):
GATGAAAGGACTTAACCTTTT
Found at i:1238193 original size:22 final size:22
Alignment explanation
Indices: 1238168--1238211 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1238158 TCTTTGAAGC
1238168 TGCTCCACTTCACTCTCACATA
1 TGCTCCACTTCACTCTCACATA
1238190 TGCTCCACTTCACTCTCACATA
1 TGCTCCACTTCACTCTCACATA
1238212 GGTGACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.41, G:0.05, T:0.32
Consensus pattern (22 bp):
TGCTCCACTTCACTCTCACATA
Found at i:1239647 original size:51 final size:51
Alignment explanation
Indices: 1239568--1239670 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
1239558 GGACAATAGG
* *
1239568 ATTAAAACCCGAAACAGAACCAATTTCTGTTAAACGACGAGAATTTAATAA
1 ATTAAAACCCGAAACAAAACCAACTTCTGTTAAACGACGAGAATTTAATAA
* * * * **
1239619 ATTAAATCTCGAAACAAAACTAACTTCTGTTGAACGGTGAGAATTTAATAA
1 ATTAAAACCCGAAACAAAACCAACTTCTGTTAAACGACGAGAATTTAATAA
1239670 A
1 A
1239671 ACTCAAAGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.26
Consensus pattern (51 bp):
ATTAAAACCCGAAACAAAACCAACTTCTGTTAAACGACGAGAATTTAATAA
Found at i:1241232 original size:21 final size:21
Alignment explanation
Indices: 1241180--1241255 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
1241170 TCAATGAAAT
*
1241180 GACTTAACATTTTGATTAAAA-
1 GACTTAACCTTTTGA-TAAAAG
**
1241201 GACTTCTCCTTTTGATAAAAG
1 GACTTAACCTTTTGATAAAAG
* *
1241222 GGCTTAACCTTTTCATAAAAG
1 GACTTAACCTTTTGATAAAAG
* *
1241243 GATTTAATCTTTT
1 GACTTAACCTTTT
1241256 CATTAAGAGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 5 0.11
21 39 0.89
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (21 bp):
GACTTAACCTTTTGATAAAAG
Found at i:1246352 original size:26 final size:26
Alignment explanation
Indices: 1246302--1246352 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1246292 CACTTTAATA
* *
1246302 TAAAAATTATATACATATTTTATAAC
1 TAAAAATTACATACATATTTCATAAC
1246328 TAAAAATTACATAC-TATGTTCATAA
1 TAAAAATTACATACATAT-TTCATAA
1246353 TAATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAAATTACATACATATTTCATAAC
Found at i:1249203 original size:42 final size:41
Alignment explanation
Indices: 1249122--1249222 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
1249112 AGATTTTATG
* * * *
1249122 GATGGCCCGAAGGACTTATCATCGTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* * *
1249163 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACA
1249205 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
1249223 TAAATCGTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:1249318 original size:214 final size:214
Alignment explanation
Indices: 1248949--1249979 Score: 1735
Period size: 214 Copynumber: 4.8 Consensus size: 214
1248939 AGGTCTTATG
* *
1248949 GATGACCCGAAAGATTTAAGCACCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
* * * *
1249014 TGTGAAATTTTAAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTC
66 CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTC
* *
1249079 ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGATTTTATGGATGGCCCGAAGGACTTATCAT
131 ATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCAT
*
1249144 CGTGCTCTAAAGGCTTACA
196 CTTGCTCTAAAGGCTTACA
1249163 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
*
1249228 CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTC
66 CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTC
1249293 ATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCAT
131 ATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCAT
*
1249358 CTTGCTCTAAAGGCTTATA
196 CTTGCTCTAAAGGCTTACA
*
1249377 GATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
* *
1249442 CGTGAAATTTTAAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTT
66 CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TTTTT
* * *
1249507 CATTCTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAATGACTTATCA
130 CATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCA
1249572 TCTTGCTCTAAAGGCTTA-A
195 TCTTGCTCTAAAGGCTTACA
*
1249591 GATGACCCGAAGGATTTAAGCATCATCCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
*
1249656 CGTGAAATTTTGAAAATCACATTCTTCG-TTTCAAAAATTTCATCTTCTTAAAACATCATTTTTC
66 CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTC
*
1249720 ACTTTCAAATTCATGA-GAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCA
131 ATTTTCAAATTCAT-ATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCA
1249784 TCTTGCTCTAAAGGCTTACA
195 TCTTGCTCTAAAGGCTTACA
* * *
1249804 GATGACCCAAATGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATAAAT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
* *
1249869 GGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTAATCTTCTTAAAACATCATTTTGT
66 CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA---T-T
* * *
1249934 TTTCATTTTCAAATTCATGTGAAAATATCATACCCGAAGGTTTTAT
127 TTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTAT
1249980 TAATGGATTT
Statistics
Matches: 772, Mismatches: 36, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
212 83 0.11
213 118 0.15
214 443 0.57
215 85 0.11
217 1 0.00
218 42 0.05
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (214 bp):
GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
CGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTC
ATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCAT
CTTGCTCTAAAGGCTTACA
Found at i:1249432 original size:42 final size:41
Alignment explanation
Indices: 1249331--1249436 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
1249321 CCCGAAGGTT
* * * * *
1249331 TTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
* * *
1249372 TTATAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTATAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGAC
1249414 TTACT-GATGGCCCGAAGGACTTA
1 TTA-TAGATGGCCCGAAGGACTTA
1249437 TAAATCGTGA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 19 0.37
42 32 0.62
43 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (41 bp):
TTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGAC
Found at i:1249488 original size:21 final size:21
Alignment explanation
Indices: 1249449--1249489 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1249439 AATCGTGAAA
1249449 TTTTAAAAATTGCATTCTTCG
1 TTTTAAAAATTGCATTCTTCG
*
1249470 TTTTCAAAAATTTCA-TCTTC
1 TTTT-AAAAATTGCATTCTTC
1249490 TTAAAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAAAAATTGCATTCTTCG
Found at i:1249876 original size:427 final size:428
Alignment explanation
Indices: 1248949--1249979 Score: 1782
Period size: 427 Copynumber: 2.4 Consensus size: 428
1248939 AGGTCTTATG
*
1248949 GATGACCCGAAAGATTTAAGCACCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGACCC-AAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
* * *
1249014 TGTGAAATTTTAAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCA-TTTTT
65 CGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTT
*
1249078 CATTTTCAAATTCATGTGAAAACATCCTACCCGAAGATTTTATGGATGGCCCGAAGGACTTATCA
130 CATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCA
*
1249143 TCGTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
195 TCGTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATCCTCGAAAGACTTACTGAT
*
1249208 GGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATC
260 GGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATC
*
1249273 TTCTTAAAACATCATTTTTCATTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGA
325 TTCTTAAAACATCATTTTTCACTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGA
*
1249338 TGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTATA
390 TGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1249377 GATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
1 GATGACCCAAA-GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
*
1249442 CGTGAAATTTTAAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTT
65 CGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTT
* * *
1249507 CATTCTCAAATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAATGACTTATCA
130 CATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCA
*
1249572 TCTTGCTCTAAAGGCTTA-AGATGACCCGAAGGATTTAAGCATCATCCTCGAAAGACTTACTGAT
195 TCGTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATCCTCGAAAGACTTACTGAT
*
1249636 GGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCACATTCTTCG-TTTCAAAAATTTCATC
260 GGCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATC
1249700 TTCTTAAAACATCATTTTTCACTTTCAAATTCATGA-GAAAACATCCTACCCGAAGGTTTTATGG
325 TTCTTAAAACATCATTTTTCACTTTCAAATTCAT-ATGAAAACATCCTACCCGAAGGTTTTATGG
1249764 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
389 ATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
*
1249804 GATGACCCAAATGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTATAAAT
1 GATGACCCAAA-GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAAT
* * *
1249869 GGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTAATCTTCTTAAAACATCATTTTGT
65 CGTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCA--TT-T
* *
1249934 TTTCATTTTCAAATTCATGTGAAAATATCATACCCGAAGGTTTTAT
127 TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTAT
1249980 TAATGGATTT
Statistics
Matches: 572, Mismatches: 25, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
427 236 0.41
428 208 0.36
429 85 0.15
430 43 0.08
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (428 bp):
GATGACCCAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATC
GTGAAATTTTAAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTC
ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCAT
CGTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATCCTCGAAAGACTTACTGATG
GCCCGAAGGACTTATAAATCGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCT
TCTTAAAACATCATTTTTCACTTTCAAATTCATATGAAAACATCCTACCCGAAGGTTTTATGGAT
GGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
Found at i:1250106 original size:36 final size:36
Alignment explanation
Indices: 1249988--1250201 Score: 263
Period size: 36 Copynumber: 5.9 Consensus size: 36
1249978 ATTAATGGAT
*
1249988 TTGCTTCACTACTCTTCGGTGAAGGCTTAAG-GTG-
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGA
* *
1250022 GTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGA
* *
1250058 TTTGCTTCACTACTATTTGGTGAAGGCTTAAGA-TGAA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTG-A
* *
1250095 TTGCTTCACTACTCTTCGGTGAAGGCTGAAGATTGT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGA
* * *
1250131 TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGA
* * *
1250167 TCTACTTCACTCCTCTTTGGTGAAGGCTTAAGATT
1 T-TGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
1250202 AACTTTGCTC
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.19
35 2 0.01
36 63 0.41
37 60 0.39
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGA
Found at i:1250116 original size:73 final size:72
Alignment explanation
Indices: 1249985--1250210 Score: 294
Period size: 73 Copynumber: 3.1 Consensus size: 72
1249975 TTTATTAATG
* *
1249985 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGGTG-GTGCTTCACTACTCTTTGGTGAAGGCT
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGATTGCTTCACTACTCTTTGGTGAAGGCT
1250049 TAAGATT
66 TAAGATT
* * *
1250056 GATTTGCTTCACTACTATTTGGTGAAGGCTTAAGATGAATTGCTTCACTACTCTTCGGTGAAGGC
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-ATTGCTTCACTACTCTTTGGTGAAGGC
*
1250121 TGAAGATT
65 TTAAGATT
* * * * *
1250129 G-TTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGATCTACTTCACTCCTCTTTGGTGAAGG
1 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGAT-TGCTTCACTACTCTTTGGTGAAGG
1250193 CTTAAGATT
64 CTTAAGATT
*
1250202 AACTTTGCT
1 GA-TTTGCT
1250211 CCAATCTCAT
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
71 34 0.26
72 30 0.23
73 63 0.47
75 6 0.05
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (72 bp):
GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGATTGCTTCACTACTCTTTGGTGAAGGCT
TAAGATT
Found at i:1250177 original size:109 final size:107
Alignment explanation
Indices: 1249988--1250200 Score: 309
Period size: 109 Copynumber: 2.0 Consensus size: 107
1249978 ATTAATGGAT
* **
1249988 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGGTGGTGCTTCACTACTCTTTGGTGAAGGCTTAAG
1 TTGCTTCACTACTCTTCGGTGAAGGCTGAAGGTGGTGCTTCACTACTCTCCGGTGAAGGCTTAAG
* *
1250053 ATTGATTTGCTTCACTACTATTTGGTGAAGGCTTAAGATGAA
66 ATTGATCTACTTCACTACTATTTGGTGAAGGCTTAAGATGAA
* * * *
1250095 TTGCTTCACTACTCTTCGGTGAAGGCTGAAGATTGTTTGCTTCACTATTCTCCGGTGAAGGCTTC
1 TTGCTTCACTACTCTTCGGTGAAGGCTGAAG-GTG-GTGCTTCACTACTCTCCGGTGAAGGCTTA
* *
1250160 AGATTGATCTACTTCACTCCTCTTTGGTGAAGGCTTAAGAT
64 AGATTGATCTACTTCACTACTATTTGGTGAAGGCTTAAGAT
1250201 TAACTTTGCT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 30 0.32
108 2 0.02
109 61 0.66
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (107 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTGAAGGTGGTGCTTCACTACTCTCCGGTGAAGGCTTAAG
ATTGATCTACTTCACTACTATTTGGTGAAGGCTTAAGATGAA
Found at i:1251296 original size:125 final size:125
Alignment explanation
Indices: 1251018--1251399 Score: 489
Period size: 125 Copynumber: 3.1 Consensus size: 125
1251008 GTCTTCACTA
* ** * ** *
1251018 GTGCCCCAACATCATCTTGTACTGGTACGGATCTTCAAAATGCCCCAACACCTCAAATTGTAAGG
1 GTGCCCCAACATTATCTCATACAGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGG
* * * * * * * *
1251083 CTCATTCTCCATGTCT-TTTGGTCTGGATCTTGTCATCTCCACATTATGGGGGTTCAATC
66 CTCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTC
* * * *
1251142 ATGCCCCAACATTATCTTATACAGGTACGGGCCTTCAAAATGTCCCAACACCACAATTTGTAAGG
1 GTGCCCCAACATTATCTCATACAGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGG
* * * *
1251207 CTCATTCTTCATGCCTCCTTGGTCTGAATATTGTCATATCAACATGATCTGGGCTCAGTC
66 CTCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTC
** *
1251267 GTGCCCTGACATTATCTCATACTA-GTACGGGCCTTCAAAATGCCCCATCACCTCAATTTGTAAG
1 GTGCCCCAACATTATCTCATAC-AGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAG
*
1251331 GCTCATTCTTCATGCCTCCTTGGTCTGAATCTCGTCATCTCAACATGATGTGGGTTCAGTC
65 GCTCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTC
*
1251392 GTGTCCCA
1 GTGCCCCA
1251400 GAGTGGGTAT
Statistics
Matches: 220, Mismatches: 36, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
124 70 0.32
125 149 0.68
126 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (125 bp):
GTGCCCCAACATTATCTCATACAGGTACGGGCCTTCAAAATGCCCCAACACCTCAATTTGTAAGG
CTCATTCTTCATGCCTCCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTC
Found at i:1252360 original size:39 final size:40
Alignment explanation
Indices: 1252317--1252392 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
1252307 TATTTAGATA
* * *
1252317 AACTTGATT-TAATTTTCCATTGTCTGGCTAGCTGAAATC
1 AACTTGATTGTAATTTGCCATTATCGGGCTAGCTGAAATC
* *
1252356 AACTTTATTGTAATTTGCCTTTATCGGGCTAGCTGAA
1 AACTTGATTGTAATTTGCCATTATCGGGCTAGCTGAA
1252393 GGATTCATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 8 0.26
40 23 0.74
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (40 bp):
AACTTGATTGTAATTTGCCATTATCGGGCTAGCTGAAATC
Found at i:1252690 original size:195 final size:195
Alignment explanation
Indices: 1252358--1252757 Score: 728
Period size: 195 Copynumber: 2.1 Consensus size: 195
1252348 CTGAAATCAA
* *
1252358 CTTTATTGTAATTTGCCTTTATCGGGCTAGCTGAAGGATTCATCTCATCACAAAGTCTTTGACTT
1 CTTTATTGTAATTTGCCTTTATCGGGCTAACTAAAGGATTCATCTCATCACAAAGTCTTTGACTT
* * *
1252423 GAGAATCACAGTGGAGCATACACCGAATTGCCGAGTACCCGATCAAGGTCATGGTTTGAATATAA
66 GACAATCACAGTGGAGCATACACCAAATTGCCAAGTACCCGATCAAGGTCATGGTTTGAATATAA
*
1252488 TCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTTCCTTAGTGGAATAGCTCAG
131 TCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAG
* *
1252553 CTTTATTTTAATTTGCGTTTATCGGGCTAACTAAAGGATTCATCTCATCACAAAGTCTTTGACTT
1 CTTTATTGTAATTTGCCTTTATCGGGCTAACTAAAGGATTCATCTCATCACAAAGTCTTTGACTT
1252618 GACAATCACAGTGGAGCATACACCAAATTGCCAAGTACCCGATCAAGGTCATGGTTTGAATATAA
66 GACAATCACAGTGGAGCATACACCAAATTGCCAAGTACCCGATCAAGGTCATGGTTTGAATATAA
1252683 TCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAG
131 TCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAG
1252748 CTTTATTGTA
1 CTTTATTGTA
1252758 TATACATATT
Statistics
Matches: 196, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
195 196 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (195 bp):
CTTTATTGTAATTTGCCTTTATCGGGCTAACTAAAGGATTCATCTCATCACAAAGTCTTTGACTT
GACAATCACAGTGGAGCATACACCAAATTGCCAAGTACCCGATCAAGGTCATGGTTTGAATATAA
TCTATTCATAAAGCCAGGGCTTTCGAGTTTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAG
Found at i:1259053 original size:26 final size:26
Alignment explanation
Indices: 1259003--1259053 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1258993 CACTTTAATA
* *
1259003 TAAAAATTATATACATATTTTATAAC
1 TAAAAATTACATACATATTTCATAAC
1259029 TAAAAATTACATAC-TATGTTCATAA
1 TAAAAATTACATACATAT-TTCATAA
1259054 TAATATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAAAATTACATACATATTTCATAAC
Found at i:1263596 original size:21 final size:21
Alignment explanation
Indices: 1263567--1263628 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
1263557 AGCTATTTTG
*
1263567 TGTACCGATGCACTGTAGCAA
1 TGTATCGATGCACTGTAGCAA
*
1263588 TGTATCGATGCACTATAGCAA
1 TGTATCGATGCACTGTAGCAA
1263609 TGTATCGATGCACTGTAGCA
1 TGTATCGATGCACTGTAGCA
1263629 CTGTTCATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (21 bp):
TGTATCGATGCACTGTAGCAA
Found at i:1263659 original size:12 final size:12
Alignment explanation
Indices: 1263628--1263682 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
1263618 GCACTGTAGC
*
1263628 ACTGTTCATGAT
1 ACTGTTCATGGT
*
1263640 ACTATTCATGGT
1 ACTGTTCATGGT
*
1263652 ATTGTTCAT--T
1 ACTGTTCATGGT
*
1263662 ACTGTCCATGGT
1 ACTGTTCATGGT
1263674 ACTGTTCAT
1 ACTGTTCAT
1263683 ACCGTATAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
10 8 0.24
12 26 0.76
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (12 bp):
ACTGTTCATGGT
Done.