Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 30
Found at i:5238283 original size:40 final size:39
Alignment explanation
Indices: 5238223--5238487 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 39
5238213 GCGATTCTCT
** * *
5238223 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCC
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCA-TTTCG
* *
5238263 CATTGCGATAGTTATTTTCGCGTTGCGATAGTCATTGTCG
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATT-TCG
*
5238303 CGTTGCGATAGTCATTTTCGCGCATTGCGAT--TC---TCT
1 CGTTGCGATAGTCATTTTCGCG--TTGCGATAGTCATTTCG
* * * *
5238339 CGTTGCGATAGTCAAATTT-GCATTACGATAGTCAAATTCG
1 CGTTGCGATAGTC-ATTTTCGCGTTGCGATAGTC-ATTTCG
* * *
5238379 CATTGCGATAGTCATTTCCACGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTC-G
*
5238419 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTC-G
*
5238459 TGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATAGTCATTTTCGCGTTGCGAT
5238488 TTTAAGTTTC
Statistics
Matches: 189, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
34 6 0.03
36 19 0.10
37 4 0.02
39 9 0.05
40 144 0.76
42 7 0.04
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (39 bp):
CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTCG
Found at i:5238316 original size:60 final size:60
Alignment explanation
Indices: 5238223--5238487 Score: 273
Period size: 60 Copynumber: 4.5 Consensus size: 60
5238213 GCGATTCTCT
* * *
5238223 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCC-CATTGCGATAGTTATTTTCG
1 CGTTGCGATAGTC-ATTTCGCGTTGCGATAGTCATTTTCCGCATTGCGATAGTCATTTTCG
*
5238283 CGTTGCGATAGTCATTGTCGCGTTGCGATAGTCATTTTCGCGCATTGCGAT--TC----TCT
1 CGTTGCGATAGTCATT-TCGCGTTGCGATAGTCATTTTC-CGCATTGCGATAGTCATTTTCG
* * ** * *
5238339 CGTTGCGATAGTCAAATTT-GCATTACGATAGTCAAATT-CGCATTGCGATAGTCATTTCCA
1 CGTTGCGATAGTC--ATTTCGCGTTGCGATAGTCATTTTCCGCATTGCGATAGTCATTTTCG
*
5238399 CGTTGCGATAGTCATTTCTGCGTTGCGATAGTCA-TTTCCGCGTTGCGATAGTCA-TTTCTG
1 CGTTGCGATAGTCATTTC-GCGTTGCGATAGTCATTTTCCGCATTGCGATAGTCATTTTC-G
*
5238459 TGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATAGTCA-TTTCGCGTTGCGAT
5238488 TTTAAGTTTC
Statistics
Matches: 172, Mismatches: 17, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
54 11 0.06
56 32 0.19
57 1 0.01
58 7 0.04
59 7 0.04
60 100 0.58
61 5 0.03
62 9 0.05
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (60 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATAGTCATTTTCCGCATTGCGATAGTCATTTTCG
Found at i:5238411 original size:116 final size:114
Alignment explanation
Indices: 5238207--5238447 Score: 367
Period size: 116 Copynumber: 2.1 Consensus size: 114
5238197 AAATGAAAAT
* **
5238207 CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCCCATTGCGAT
1 CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTACGATAGTCAAATTCCCATTGCGAT
* * *
5238272 AGTTATTTTCGCGTTGCGATAGTCATTGTC-GCGTTGCGATAGTCATTTTC
66 AGTCATTTCCACGTTGCGATAGTCATT-TCTGCGTTGCGATAGTCA-TTTC
* *
5238322 GCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTTGCATTACGATAGTCAAATTCGCATTGCGA
1 -CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTACGATAGTCAAATTCCCATTGCGA
5238387 TAGTCATTTCCACGTTGCGATAGTCATTTCTGCGTTGCGATAGTCATTTC
65 TAGTCATTTCCACGTTGCGATAGTCATTTCTGCGTTGCGATAGTCATTTC
*
5238437 CGCGTTGCGAT
1 CGCATTGCGAT
5238448 AGTCATTTCT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 10 0.09
115 6 0.05
116 99 0.86
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (114 bp):
CGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTACGATAGTCAAATTCCCATTGCGAT
AGTCATTTCCACGTTGCGATAGTCATTTCTGCGTTGCGATAGTCATTTC
Found at i:5239062 original size:21 final size:21
Alignment explanation
Indices: 5238971--5239075 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
5238961 GACTCACCTG
*
5238971 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
5238993 T-ATCGTTCAAGAGACCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
5239013 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
5239034 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
5239055 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
5239076 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:5239068 original size:42 final size:42
Alignment explanation
Indices: 5238968--5239078 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
5238958 CCCGACTCAC
* * * *
5238968 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGACCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGACCA
* ** *
5239010 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGACCA
*
5239052 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
5239079 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGACCA
Found at i:5240479 original size:14 final size:14
Alignment explanation
Indices: 5240460--5240509 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
5240450 ATTGTTTAAT
5240460 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
5240474 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
5240488 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
5240502 TGATTTGT
1 TGATTTGT
5240510 TTAATTGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5240646 original size:14 final size:14
Alignment explanation
Indices: 5240627--5240680 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
5240617 AGAAATGACT
5240627 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
5240641 ATCGCAATACGAAATGAAA
1 ATCGC-A-ACG--A-GAGA
5240660 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
5240674 ATCGCAA
1 ATCGCAA
5240681 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 15 0.45
15 2 0.06
16 3 0.09
17 3 0.09
18 2 0.06
19 8 0.24
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:5240695 original size:34 final size:33
Alignment explanation
Indices: 5240618--5240702 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
5240608 TCGCAACGCA
**
5240618 GAAATGACTATCGCAACGAGAGAATCGCAATAC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATAC
*
5240651 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATAC
5240684 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
5240703 CGAAACTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.65
34 17 0.35
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATAC
Found at i:5240776 original size:20 final size:20
Alignment explanation
Indices: 5240751--5240804 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
5240741 GCGATTCTCT
5240751 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
5240771 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
5240791 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
5240805 AATGAATGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:5243283 original size:24 final size:24
Alignment explanation
Indices: 5243232--5243283 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
5243222 ATTCGAGTAT
** *
5243232 TGACCAAGATCAAAGTCTGGGTAT
1 TGACCAAGATCAAAGTCTGAATAC
* *
5243256 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCTGAATAC
5243280 TGAC
1 TGAC
5243284 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCTGAATAC
Found at i:5244156 original size:20 final size:20
Alignment explanation
Indices: 5244090--5244143 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
5244080 AAATTCAGTA
5244090 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
5244110 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
5244130 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
5244144 TTCGCGTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:5244166 original size:20 final size:20
Alignment explanation
Indices: 5244143--5244275 Score: 230
Period size: 20 Copynumber: 6.7 Consensus size: 20
5244133 CGATAGTCAG
* *
5244143 ATTCGCGTTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
5244163 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5244183 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5244203 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
5244223 ATTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
5244243 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
5244263 ATTTGCATTGCGA
1 ATTCGCATTGCGA
5244276 ATTAGGAAAA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 108 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:5244937 original size:24 final size:24
Alignment explanation
Indices: 5244905--5244950 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
5244895 TGACAAAAGC
5244905 ATTATAAAAGGATTAAATATTCTA
1 ATTATAAAAGGATTAAATATTCTA
5244929 ATTATAAAAGGATTAAATATTC
1 ATTATAAAAGGATTAAATATTC
5244951 AAACAAGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (24 bp):
ATTATAAAAGGATTAAATATTCTA
Found at i:5245830 original size:27 final size:26
Alignment explanation
Indices: 5245800--5245876 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
5245790 GTGTAACCGG
5245800 TTTCGGTTTGTAAAAAACCCGGATTTT
1 TTTCGGTTTGTAAAAAA-CCGGATTTT
*
5245827 TTTCGG---ATAAAAAACC-GATTTT
1 TTTCGGTTTGTAAAAAACCGGATTTT
*
5245849 TTATCCGGTTTGAAAAAAACCGG-TTTT
1 TT-T-CGGTTTGTAAAAAACCGGATTTT
5245876 T
1 T
5245877 AATCCGGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
22 8 0.20
23 3 0.07
24 10 0.24
27 19 0.46
28 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (26 bp):
TTTCGGTTTGTAAAAAACCGGATTTT
Found at i:5245893 original size:24 final size:26
Alignment explanation
Indices: 5245835--5245896 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
5245825 TTTTTCGGAT
* *
5245835 AAAAAACCGATTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTAATCCGG-TTGA
5245862 AAAAAACCGGTTTTTAATCCGG-T-A
1 AAAAAACCGGTTTTTAATCCGGTTGA
5245886 AAAAAACCGGT
1 AAAAAACCGGT
5245897 CGTTCAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 12 0.36
25 1 0.03
27 20 0.61
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (26 bp):
AAAAAACCGGTTTTTAATCCGGTTGA
Found at i:5249027 original size:90 final size:89
Alignment explanation
Indices: 5248875--5249047 Score: 310
Period size: 90 Copynumber: 1.9 Consensus size: 89
5248865 ACACACCCTT
5248875 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
5248940 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
5248964 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
5249029 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
5249048 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 30 0.38
90 50 0.62
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:5252615 original size:23 final size:22
Alignment explanation
Indices: 5252585--5252655 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
5252575 GTTTTCAAAA
5252585 TATA-TTTTTAAAACTATATAT
1 TATACTTTTTAAAACTATATAT
* * * * *
5252606 TATACGTTTTCAAAACCACACAC
1 TATAC-TTTTTAAAACTATATAT
5252629 TATACTTTTTCAAAACTATATAT
1 TATACTTTTT-AAAACTATATAT
5252652 TATA
1 TATA
5252656 TATATGTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 29 0.78
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.42
Consensus pattern (22 bp):
TATACTTTTTAAAACTATATAT
Found at i:5252765 original size:37 final size:37
Alignment explanation
Indices: 5252635--5252952 Score: 342
Period size: 36 Copynumber: 8.6 Consensus size: 37
5252625 ACACTATACT
*
5252635 TTTTCAAAACTATATATTATATATATGTTTTAAAAAAATG
1 TTTTCAAAACTATATA-T-TATATATGTTTT-CAAAAATG
* ***
5252675 TTTTCAAAATTATATA-T-TATAT-TTTTCAAAAGCA
1 TTTTCAAAACTATATATTATATATGTTTTCAAAAATG
*
5252709 TTTTCAAAAGTTATATATTATATATGTTTTCAAAAATG
1 TTTTCAAAA-CTATATATTATATATGTTTTCAAAAATG
* * * *
5252747 TTTTCAAAACCATTTATTATATATGCTTTAAAAGAATG
1 TTTTCAAAACTATATATTATATATGTTTTCAAA-AATG
* **
5252785 TTTTCAAAAATTATATAACATATATGTTTTCAAAAATG
1 TTTTC-AAAACTATATATTATATATGTTTTCAAAAATG
5252823 TTTTCAAAACTATATA--ATATATGTCTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATGT-TTTCAAAAATG
* *
5252859 TTTTCAAAACTATATATTATATACGTTTTCAAAAA-A
1 TTTTCAAAACTATATATTATATATGTTTTCAAAAATG
** * **
5252895 AATTCAAAATTATATATTATATACATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATGTTTTCAAAAATG
*
5252932 TTTTCAAAACCATATATTATA
1 TTTTCAAAACTATATATTATA
5252953 CACGTCAAAA
Statistics
Matches: 236, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
34 13 0.06
35 19 0.08
36 64 0.27
37 61 0.26
38 43 0.18
39 21 0.09
40 15 0.06
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATATGTTTTCAAAAATG
Found at i:5252925 original size:73 final size:74
Alignment explanation
Indices: 5252635--5252952 Score: 306
Period size: 73 Copynumber: 4.3 Consensus size: 74
5252625 ACACTATACT
* ** *
5252635 TTTTCAAAACTATATATTATATATATGTTTTAAAAAAATGTTTTCAAAATTATATA-T-TATAT-
1 TTTTCAAAACTATATA-T-TATATATGTTTT-CAAAAATAATTTCAAAACTATATATTATATATG
***
5252697 TTTTCAAAAGCA
63 TTTTCAAAAATG
* ** * * *
5252709 TTTTCAAAAGTTATATATTATATATGTTTTCAAAAATGTTTTCAAAACCATTTATTATATATGCT
1 TTTTCAAAA-CTATATATTATATATGTTTTCAAAAATAATTTCAAAACTATATATTATATATGTT
*
5252774 TTAAAAGAATG
65 TTCAAA-AATG
* ** **
5252785 TTTTCAAAAATTATATAACATATATGTTTTCAAAAATGTTTTCAAAACTATATA--ATATATGTC
1 TTTTC-AAAACTATATATTATATATGTTTTCAAAAATAATTTCAAAACTATATATTATATATGT-
5252848 TTTCAAAAATG
64 TTTCAAAAATG
* * * **
5252859 TTTTCAAAACTATATATTATATACGTTTTCAAAAA-AAATTCAAAATTATATATTATATACATTT
1 TTTTCAAAACTATATATTATATATGTTTTCAAAAATAATTTCAAAACTATATATTATATATGTTT
5252923 TCAAAAATG
66 TCAAAAATG
*
5252932 TTTTCAAAACCATATATTATA
1 TTTTCAAAACTATATATTATA
5252953 CACGTCAAAA
Statistics
Matches: 208, Mismatches: 27, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
72 33 0.16
73 70 0.34
74 37 0.18
75 18 0.09
76 46 0.22
77 4 0.02
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (74 bp):
TTTTCAAAACTATATATTATATATGTTTTCAAAAATAATTTCAAAACTATATATTATATATGTTT
TCAAAAATG
Found at i:5257865 original size:11 final size:11
Alignment explanation
Indices: 5257840--5257895 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
5257830 GACTTGAGAG
*
5257840 AAAAAA-AAGA
1 AAAAAATAATA
*
5257850 AATAAATAATA
1 AAAAAATAATA
*
5257861 AATAAATACTATA
1 AAAAAATA--ATA
5257874 AAAAATATAATA
1 AAAAA-ATAATA
5257886 AAAAAATAAT
1 AAAAAATAAT
5257896 GTTAATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 5 0.13
11 16 0.41
12 8 0.21
13 7 0.18
14 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:5257999 original size:36 final size:36
Alignment explanation
Indices: 5257951--5258485 Score: 221
Period size: 37 Copynumber: 14.5 Consensus size: 36
5257941 ATGTTTCAAA
*
5257951 AAAATATTTTTTTTAAAAAC-ACATA-TATATGTTTTC
1 AAAATA-TGTTTTT-AAAACTACATATTATATGTTTTC
**
5257987 AAAATATGTTTTTAAAACTGTATATTATATGTTTTC
1 AAAATATGTTTTTAAAACTACATATTATATGTTTTC
* * *
5258023 -AAA-ACGTTTTCAAAACTATATATTATATATGTTTT-
1 AAAATATGTTTTTAAAACTACATA-T-TATATGTTTTC
* *
5258058 AAAAAATG-TTTT----CGA-A-ATTATATGTTTTC
1 AAAATATGTTTTTAAAACTACATATTATATGTTTTC
** * *
5258087 AAAA-GCGTTTTCAAAATCTATATATTATATATGTTTTCAAAAC
1 AAAATATGTTTTTAAAA-CTACATA-T-TATATGTTTT-----C
* *
5258130 TATATATTATATATGTTTTCAAAACTATATATTATATATGTTTTC
1 ---A-A--A-ATATGTTTTTAAAACTACATATTA--TATGTTTTC
** * *
5258175 AAAA-ATGTTTTCGAAAGTATATATTATATGTTTTC
1 AAAATATGTTTTTAAAACTACATATTATATGTTTTC
* * *
5258210 AAAA-GTGTTTTCCAAAACTATATATTATATGTTTTC
1 AAAATATGTTTT-TAAAACTACATATTATATGTTTTC
* * *
5258246 AAAA-ATGTTTTCAAAACCATATATTATATATGTTTT-
1 AAAATATGTTTTTAAAACTACATA-T-TATATGTTTTC
* * * * *
5258282 AAAACAATGTTTTCAAAATTATATAACATATATGTTTTC
1 AAAA-TATGTTTTTAAAACTACAT-A-TTATATGTTTTC
* * *
5258321 AAAA-ATGTTTTCAAAACTATATAATATATGTCTTTC
1 AAAATATGTTTTTAAAACTACATATTATATGT-TTTC
* *
5258357 AAAA-ATGTTTTCAAAACTATATATTATATACGTTTTC
1 AAAATATGTTTTTAAAACTACATATTATAT--GTTTTC
* * * *
5258394 AAAA-ATATTTTCAAAACTATATATTCCATACGTTTTC
1 AAAATATGTTTTTAAAACTACATATT--ATATGTTTTC
* * * *
5258431 AAAA-ATGTTTTCAAAACTATATATTGTATAGATTTTGA
1 AAAATATGTTTTTAAAACTACATATTATAT-G-TTTT-C
*
5258469 AAAAAATGTTTTTAAAA
1 AAAATATGTTTTTAAAA
5258486 TTATATTATA
Statistics
Matches: 416, Mismatches: 35, Indels: 93
0.76 0.06 0.17
Matches are distributed among these distances:
28 11 0.03
29 8 0.02
30 1 0.00
31 1 0.00
32 2 0.00
34 23 0.06
35 54 0.13
36 105 0.25
37 112 0.27
38 43 0.10
39 20 0.05
41 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 2 0.00
49 2 0.00
50 16 0.04
51 10 0.02
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAATATGTTTTTAAAACTACATATTATATGTTTTC
Found at i:5258082 original size:28 final size:29
Alignment explanation
Indices: 5258048--5258109 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
5258038 CTATATATTA
* *
5258048 TATATGTTTTAAAAAATGTTTTCGAAAT-
1 TATATGTTTTAAAAAACGTTTTCAAAATC
* *
5258076 TATATGTTTTCAAAAGCGTTTTCAAAATC
1 TATATGTTTTAAAAAACGTTTTCAAAATC
5258105 TATAT
1 TATAT
5258110 ATTATATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (29 bp):
TATATGTTTTAAAAAACGTTTTCAAAATC
Found at i:5258138 original size:25 final size:25
Alignment explanation
Indices: 5258093--5258178 Score: 163
Period size: 25 Copynumber: 3.4 Consensus size: 25
5258083 TTTCAAAAGC
5258093 GTTTTCAAAATCTATATATTATATAT
1 GTTTTCAAAA-CTATATATTATATAT
5258119 GTTTTCAAAACTATATATTATATAT
1 GTTTTCAAAACTATATATTATATAT
5258144 GTTTTCAAAACTATATATTATATAT
1 GTTTTCAAAACTATATATTATATAT
5258169 GTTTTCAAAA
1 GTTTTCAAAA
5258179 ATGTTTTCGA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 50 0.83
26 10 0.17
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (25 bp):
GTTTTCAAAACTATATATTATATAT
Found at i:5258156 original size:116 final size:118
Alignment explanation
Indices: 5258028--5258360 Score: 344
Period size: 116 Copynumber: 2.9 Consensus size: 118
5258018 TTTTCAAAAC
5258028 GTTTTCAAAACTATATATTATATATGTTTTAAAAAATGTTTTC-G-A-A-ATTATATGTTTTCAA
1 GTTTTCAAAACTATATATTATATATGTTTTAAAAAATGTTTTCAGTATATATTATATGTTTTCAA
5258089 AAGCGTTTT-CAAAATCTATATATTATATATGTTTTCAAAACTATATATTATATAT
66 AAGCGTTTTCCAAAA-CTATATA-T-TATATGTTTTCAAAACTATATATTATATAT
*
5258144 GTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCGAAAGTATATATTATATGTTTT
1 GTTTTCAAAACTATATATTATATATGTTTTAAAAAATGTTTTC---AGTATATATTATATGTTTT
*
5258209 CAAAAGTGTTTTCCAAAACTATATATTATATGTTTT-----C---A-A--A-A-AT
63 CAAAAGCGTTTTCCAAAACTATATATTATATGTTTTCAAAACTATATATTATATAT
* * *
5258252 GTTTTCAAAACCATATATTATATATGTTTTAAAACAATGTTTTCAAAATTATATAACATATATGT
1 GTTTTCAAAACTATATATTATATATGTTTTAAAA-AATGTTTTC---AGTATAT-A-TTATATGT
** *
5258317 TTTCAAAAATGTTTT-CAAAACTATATAATATATGTCTTTCAAAA
60 TTTCAAAAGCGTTTTCCAAAACTATATATTATATGT-TTTCAAAA
5258361 ATGTTTTCAA
Statistics
Matches: 191, Mismatches: 9, Indels: 34
0.82 0.04 0.15
Matches are distributed among these distances:
108 34 0.18
109 18 0.09
110 21 0.11
111 24 0.13
112 1 0.01
113 1 0.01
116 43 0.23
120 1 0.01
121 11 0.06
122 2 0.01
123 30 0.16
124 5 0.03
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (118 bp):
GTTTTCAAAACTATATATTATATATGTTTTAAAAAATGTTTTCAGTATATATTATATGTTTTCAA
AAGCGTTTTCCAAAACTATATATTATATGTTTTCAAAACTATATATTATATAT
Found at i:5258183 original size:37 final size:37
Alignment explanation
Indices: 5258142--5258496 Score: 449
Period size: 37 Copynumber: 9.7 Consensus size: 37
5258132 TATATTATAT
5258142 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
* *
5258179 ATGTTTTCGAAAGTATATA-T-TATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
*
5258214 GTGTTTTCCAAAACTATATA-T-TATATGTTTTCAAAA
1 ATGTTTT-CAAAACTATATATTATATATGTTTTCAAAA
* *
5258250 ATGTTTTCAAAACCATATATTATATATGTTTTAAAACA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAA-A
* **
5258288 ATGTTTTCAAAATTATATAACATATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
5258325 ATGTTTTCAAAACTATATA--ATATATGTCTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGT-TTTCAAAA
*
5258361 ATGTTTTCAAAACTATATATTATATACGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
* ** *
5258398 ATATTTTCAAAACTATATATTCCATACGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
* *
5258435 ATGTTTTCAAAACTATATATTGTATA-GATTTTGAAAAAA
1 ATGTTTTCAAAACTATATATTATATATG-TTTT--CAAAA
*
5258474 ATGTTTTTAAAA-T-TATATTATAT
1 ATGTTTTCAAAACTATATATTATAT
5258497 TATCATTATA
Statistics
Matches: 284, Mismatches: 24, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
35 40 0.14
36 62 0.22
37 127 0.45
38 40 0.14
39 15 0.05
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (37 bp):
ATGTTTTCAAAACTATATATTATATATGTTTTCAAAA
Found at i:5258231 original size:73 final size:72
Alignment explanation
Indices: 5258142--5258496 Score: 450
Period size: 73 Copynumber: 4.9 Consensus size: 72
5258132 TATATTATAT
* *
5258142 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCGAAAGTATATATTATATGTT
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATATTATATGTT
5258207 TTCAAAA
66 TTCAAAA
* *
5258214 GTGTTTTCCAAAACTATATA-T-TATATGTTTTCAAAAATGTTTTCAAAACCATATATTATATAT
1 ATGTTTT-CAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATA-T-TATAT
*
5258277 GTTTTAAAACA
63 GTTTTCAAA-A
* ** *
5258288 ATGTTTTCAAAATTATATAACATATATGTTTTCAAAAATGTTTTCAAAACTATATAATATATGTC
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATATTATATGT-
5258353 TTTCAAAA
65 TTTCAAAA
* * *
5258361 ATGTTTTCAAAACTATATATTATATACGTTTTCAAAAATATTTTCAAAACTATATATTCCATACG
1 ATGTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATATT--ATATG
5258426 TTTTCAAAA
64 TTTTCAAAA
* * *
5258435 ATGTTTTCAAAACTATATATTGTATA-GATTTTGAAAAAAATGTTTTTAAAA-T-TATATTATAT
1 ATGTTTTCAAAACTATATATTATATATG-TTTT--CAAAAATGTTTTCAAAACTATATATTATAT
5258497 TATCATTATA
Statistics
Matches: 248, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
71 31 0.12
72 11 0.04
73 97 0.39
74 56 0.23
75 39 0.16
76 14 0.06
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (72 bp):
ATGTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATATTATATGTT
TTCAAAA
Found at i:5258566 original size:2 final size:2
Alignment explanation
Indices: 5258547--5258737 Score: 69
Period size: 2 Copynumber: 100.0 Consensus size: 2
5258537 GAGTGACTAC
5258547 AT AT AGT AT -T AT -T AT AT AT AT -T AT A- AT AT AT -T AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
5258585 -T GT AT GGT AT AT AT -T AT AT TT AT AT CAC AT AGT AT -T AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT AT AT
*
5258625 AT AT AT AT -T AT AGT AT A- AT TT AT AT -T AT AT AT AT AT AGT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
5258666 AT -T AT CAT GGT GT -T AT AT AT AT -T AT AT AT AT GGT AT AT AT
1 AT AT AT -AT -AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* *
5258706 -T AT AGT AT TT GT AT -T AT AT -T AT AT -T AT -T AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5258738 TTATTTATTA
Statistics
Matches: 145, Mismatches: 16, Indels: 56
0.67 0.07 0.26
Matches are distributed among these distances:
1 19 0.13
2 110 0.76
3 16 0.11
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5258582 original size:5 final size:5
Alignment explanation
Indices: 5258556--5258748 Score: 85
Period size: 5 Copynumber: 40.2 Consensus size: 5
5258546 CATATAGTAT
* *
5258556 TATTA TA-TA TATTA TAATA TATTA TA-TA T-TGTA TGGTATA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA T-AT-TA TATTA
* * *
5258601 TATTTA TATCA CA-TA GTATTA TA-TA TA-TA TATTA TAGTA TAATTTA
1 TA-TTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA T-A-TTA
* ** *
5258647 TATTA TA-TA TA-TA TAGTA TATTA TCATGG TGTTA TA-TA TATTA TA-TA
1 TATTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA TATTA TATTA
** * *
5258694 TATGG TA-TA TATTA TAGTA T-TTG TATTA TATTA TA-T- TATTA TATT-
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
5258739 TATT- TATTA T
1 TATTA TATTA T
5258749 TTTGATTTTA
Statistics
Matches: 143, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
3 2 0.01
4 46 0.32
5 75 0.52
6 13 0.09
7 7 0.05
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:5258637 original size:21 final size:22
Alignment explanation
Indices: 5258547--5258737 Score: 93
Period size: 21 Copynumber: 8.6 Consensus size: 22
5258537 GAGTGACTAC
5258547 ATATAGTATTAT-TATATATATT
1 ATATAGTATTATATATATATA-T
*
5258569 ATAATA-TATTATATAT-TGTAT
1 AT-ATAGTATTATATATATATAT
*
5258590 GGTATA-TATTATAT-T-TATAT
1 -ATATAGTATTATATATATATAT
*
5258610 CACATAGTATTATATATATATAT
1 -ATATAGTATTATATATATATAT
*
5258633 -TATAGTATAATTTATATTATATAT
1 ATATAGTAT--TATATA-TATATAT
* *
5258657 ATATAGTA-TAT-TATCATGGTGTT
1 ATATAGTATTATATAT-AT-AT-AT
5258680 ATATA-TATTATATATATGGTATAT
1 ATATAGTATTATATATA---TATAT
*
5258704 ATTATAGTATT-TGTAT-TATAT
1 A-TATAGTATTATATATATATAT
*
5258725 -TATATTATTATAT
1 ATATAGTATTATAT
5258738 TTATTTATTA
Statistics
Matches: 132, Mismatches: 16, Indels: 44
0.69 0.08 0.23
Matches are distributed among these distances:
19 8 0.06
20 11 0.08
21 36 0.27
22 18 0.14
23 26 0.20
24 12 0.09
25 16 0.12
26 5 0.04
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATAGTATTATATATATATAT
Found at i:5258738 original size:24 final size:23
Alignment explanation
Indices: 5258701--5258764 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
5258691 ATATATGGTA
5258701 TATATTA-TAGTATTTGTATTATAT
1 TATATTATTA-TATTTGTATT-TAT
5258725 TATATTATTATA-TT-TATTTAT
1 TATATTATTATATTTGTATTTAT
* *
5258746 TATTTTGATTTTATTTGTA
1 TATATT-ATTATATTTGTA
5258765 GGTCCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.24
22 9 0.26
23 4 0.12
24 11 0.32
25 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (23 bp):
TATATTATTATATTTGTATTTAT
Found at i:5264724 original size:23 final size:23
Alignment explanation
Indices: 5264697--5264743 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5264687 CAAGAGACCT
5264697 ACAACAATGAGTTGGTTAGAAAG
1 ACAACAATGAGTTGGTTAGAAAG
5264720 ACAACAATGAGTTGGTTAGAAAG
1 ACAACAATGAGTTGGTTAGAAAG
5264743 A
1 A
5264744 GTTTAGCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.26, T:0.21
Consensus pattern (23 bp):
ACAACAATGAGTTGGTTAGAAAG
Found at i:5266519 original size:201 final size:201
Alignment explanation
Indices: 5266052--5266610 Score: 615
Period size: 201 Copynumber: 2.8 Consensus size: 201
5266042 AACCTTTCAC
* * * * * * * *
5266052 AGCATACCTCAAGGCGAGAAGAGCTATATGTCAACGAAAAATTTTGAGTTTGATTCCATTCAGCT
1 AGCATAACTTAAGTCGAGAAAAGATATATATCAACGAAAACTTTCGAGTTTGATTCCATTCAGCT
* * * * *
5266117 CGAGGGCGTATCAACCGAATGGTAGCA-ACATGGAACTAATTTCC-AGTTAAATTTTAAACTGAG
66 CGAGGGTGTATCAACCGCATGGTAGCAGAGA-GGAACTACTTTCCGA-TTAAATTTTAAACCGAG
* * * *
5266180 GTCTTTAAG-CCATAAGAAGACCTAGGTTGGCTACGATTTAGCAACAATGAATTATCTCCTAGCC
129 GTCTTTAAGCCCAGAAGAAGACCTAGGTTGGCTACGATTTAACAACAATGAACTATCTCCTAACC
5266244 AAATTTAT
194 AAATTTAT
* * * * * * * *
5266252 GGTATAGCTTAAGTCGGGAAAAGATATATGTAAACAAAAACTTTCGAGTTCGATTCCATTCAGCT
1 AGCATAACTTAAGTCGAGAAAAGATATATATCAACGAAAACTTTCGAGTTTGATTCCATTCAGCT
* * *
5266317 CGAGGGTGTATCAACCGCATGGTAGTAGTGAGGAACTACTTTCCGATTGAATTTTAAACCGAGGT
66 CGAGGGTGTATCAACCGCATGGTAGCAGAGAGGAACTACTTTCCGATTAAATTTTAAACCGAGGT
* * * * *
5266382 CTTTAAGCCCAGAAGAAGTCTTAGGTTGGCTGCGATTTAACAACAATGAACTAT-TTCTCAACCT
131 CTTTAAGCCCAGAAGAAGACCTAGGTTGGCTACGATTTAACAACAATGAACTATCTCCT-AACCA
5266446 AATTTAT
195 AATTTAT
* * * *
5266453 AGCATAACTTAAGTCGAGAAAAGGTTTTTATCAACGAAAACTTTCGAGTTTGATTTCATTCAGCT
1 AGCATAACTTAAGTCGAGAAAAGATATATATCAACGAAAACTTTCGAGTTTGATTCCATTCAGCT
* * * * * * * * *
5266518 CGAGGATGCATCAACCACATTGTAGCAGCGAGGAACTAC-TTCTTGGTTAAATTTTAAACCAAAG
66 CGAGGGTGTATCAACCGCATGGTAGCAGAGAGGAACTACTTTC-CGATTAAATTTTAAACCGAGG
* *
5266582 TCTTTAAGCCAAGAAGAAGACCAAGGTTG
130 TCTTTAAGCCCAGAAGAAGACCTAGGTTG
5266611 AGTACAATTC
Statistics
Matches: 297, Mismatches: 57, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
200 118 0.40
201 179 0.60
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (201 bp):
AGCATAACTTAAGTCGAGAAAAGATATATATCAACGAAAACTTTCGAGTTTGATTCCATTCAGCT
CGAGGGTGTATCAACCGCATGGTAGCAGAGAGGAACTACTTTCCGATTAAATTTTAAACCGAGGT
CTTTAAGCCCAGAAGAAGACCTAGGTTGGCTACGATTTAACAACAATGAACTATCTCCTAACCAA
ATTTAT
Found at i:5267500 original size:6 final size:6
Alignment explanation
Indices: 5267485--5267533 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
5267475 TCGTTCAGGA
* *
5267485 ATTT-T ATTTAT ATTTAT ATTTAT ATATA- ATATAT ATATTAT ATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT-TTAT ATTTAT
5267532 AT
1 AT
5267534 AGTATTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 9 0.23
6 25 0.64
7 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATTTAT
Found at i:5267512 original size:2 final size:2
Alignment explanation
Indices: 5267493--5267711 Score: 96
Period size: 2 Copynumber: 113.5 Consensus size: 2
5267483 GAATTTTATT
* * *
5267493 TA TA TT TA TA TT TA TA TA TA -A TA TA TA TA T- TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5267533 TA GTA T- TA T- TA TA TA TA T- TA TA -A TA TA T- TA TA TA T- TG
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5267570 TA TGG TA TA TA TA TA -A TA TA TA T- TA TA GTA TA GTT TA TA T-
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA
* * *
5267610 TT TA TA TA TA TA GTA TA TA T- TA TCA TGG TG T- TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA T-A T-A TA TA TA TA TA TA TA
* * * *
5267651 TA TA TA TGG TG TA TA T- TA TA GTA TA TG TA T- TA TA T- TA GA GTA
1 TA TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
*
5267693 T- TA TA TT TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
5267712 TTATTTATTA
Statistics
Matches: 168, Mismatches: 22, Indels: 54
0.69 0.09 0.22
Matches are distributed among these distances:
1 18 0.11
2 135 0.80
3 15 0.09
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5267630 original size:37 final size:38
Alignment explanation
Indices: 5267498--5267708 Score: 144
Period size: 37 Copynumber: 5.8 Consensus size: 38
5267488 TTATTTATAT
*
5267498 TTATATT-TATATATAATA-TATATATTATA-TTTA-TA
1 TTATATTATATATAT-ATAGTATATATTATAGTATAGTA
* *
5267533 -TAGTATTAT-TATATATA-T-TATAATATATTATA-TA
1 TTA-TATTATATATATATAGTATATATTATAGTATAGTA
* ** *
5267567 TTGTATGGTATATATATAATATATATTATAGTATAGT-
1 TTATATTATATATATATAGTATATATTATAGTATAGTA
* * * *
5267604 TTATATTTTATATATATAGTATATATTAT--CATGGTG
1 TTATATTATATATATATAGTATATATTATAGTATAGTA
* *
5267640 TTATATATATATATATATGGTGTATATTATAGTATATGTA
1 TTATAT-TATATATATATAGTATATATTATAGTATA-GTA
* *
5267680 TTATATTAGAGTAT-TATA-TTTATATTATA
1 TTATATTATA-TATATATAGTATATATTATA
5267709 TATTTATTTA
Statistics
Matches: 140, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
33 8 0.06
34 15 0.11
35 22 0.16
36 8 0.06
37 57 0.41
38 11 0.08
39 8 0.06
40 11 0.08
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (38 bp):
TTATATTATATATATATAGTATATATTATAGTATAGTA
Found at i:5267651 original size:22 final size:21
Alignment explanation
Indices: 5267616--5267676 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 21
5267606 ATATTTTATA
5267616 TATATAGTATATATTATCATGGTG
1 TATATA-TATATA-TAT-ATGGTG
5267640 TTATATATATATATATATGGTG
1 -TATATATATATATATATGGTG
5267662 TATAT-TATAGTATAT
1 TATATATATA-TATAT
5267677 GTATTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.11
21 10 0.29
22 6 0.17
23 3 0.09
24 6 0.17
25 6 0.17
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (21 bp):
TATATATATATATATATGGTG
Found at i:5267651 original size:35 final size:33
Alignment explanation
Indices: 5267493--5267657 Score: 132
Period size: 33 Copynumber: 5.0 Consensus size: 33
5267483 GAATTTTATT
5267493 TATATT-TATA-T-TTATATATA-ATATATATA
1 TATATTATATAGTGTTATATATATATATATATA
*
5267522 TTATATTTATATAGTATTAT-TATATATAT-TATAA
1 -TATA-TTATATAGTGTTATATATATATATATAT-A
* *
5267556 TATATTATATATTG-TATGGTATATATATA-ATA
1 TATATTATATAGTGTTAT-ATATATATATATATA
*
5267588 TATATTATAGTA-TAGTTTATATTTTATATATATAGTA
1 TATATTATA-TAGT-G-TTATA-TATATATATATA-TA
*
5267625 TATATTATCATGGTGTTATATATATATATATAT
1 TATATTAT-ATAGTGTTATATATATATATATAT
5267658 GGTGTATATT
Statistics
Matches: 111, Mismatches: 6, Indels: 32
0.74 0.04 0.21
Matches are distributed among these distances:
30 4 0.04
31 5 0.05
32 23 0.21
33 26 0.23
34 10 0.09
35 23 0.21
36 6 0.05
37 12 0.11
38 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (33 bp):
TATATTATATAGTGTTATATATATATATATATA
Found at i:5267684 original size:19 final size:18
Alignment explanation
Indices: 5267504--5267722 Score: 96
Period size: 19 Copynumber: 12.5 Consensus size: 18
5267494 ATATTTATAT
*
5267504 TTATA-TATAATATATATA
1 TTATATTAT-ATATATGTA
5267522 TTATATT-TATATA-GTA
1 TTATATTATATATATGTA
5267538 -T-TATTATATATAT-TA
1 TTATATTATATATATGTA
5267553 TAATATATTATATAT-TGTA
1 T--TATATTATATATATGTA
** *
5267572 TGGTA-TATATATA-ATA
1 TTATATTATATATATGTA
5267588 -TATATTATAGTATA-GT-
1 TTATATTATA-TATATGTA
* *
5267604 TTATATTTTATATATATA
1 TTATATTATATATATGTA
* *
5267622 GTATA-TAT-TATCATGGTG
1 TTATATTATATAT-AT-GTA
* *
5267640 TTATATATATATATATATGG
1 TTATAT-TATATATATGT-A
5267660 TGTATATTATAGTATATGTA
1 T-TATATTATA-TATATGTA
* *
5267680 TTATATTAGAGTAT-TATA
1 TTATATTATA-TATATGTA
5267698 TTTATATTATATAT-T-TA
1 -TTATATTATATATATGTA
5267715 TT-TATTAT
1 TTATATTAT
5267723 TTTGATTTTA
Statistics
Matches: 158, Mismatches: 20, Indels: 49
0.70 0.09 0.22
Matches are distributed among these distances:
14 4 0.03
15 17 0.11
16 24 0.15
17 27 0.17
18 24 0.15
19 36 0.23
20 12 0.08
21 14 0.09
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
TTATATTATATATATGTA
Found at i:5267723 original size:11 final size:13
Alignment explanation
Indices: 5267489--5267724 Score: 74
Period size: 13 Copynumber: 18.4 Consensus size: 13
5267479 TCAGGAATTT
5267489 TATTTATATT-TA
1 TATTTATATTATA
5267501 TATTTATA-TATAA
1 TATTTATATTAT-A
*
5267514 TATATATATTATA
1 TATTTATATTATA
*
5267527 T-TTATATAGTAT-
1 TATT-TATATTATA
5267539 TA-TTATA-TATA
1 TATTTATATTATA
*
5267550 TTATAATATATTATA
1 -TAT-TTATATTATA
**
5267565 TATTGTATGGTATA
1 TATT-TATATTATA
*
5267579 TA--TATAATATA
1 TATTTATATTATA
*
5267590 TA-TTATAGTATA
1 TATTTATATTATA
* *
5267602 -GTTTATATTTTA
1 TATTTATATTATA
* *
5267614 TATATATAGTATA
1 TATTTATATTATA
*
5267627 TA-TTATCATGGTGT-
1 TATTTAT-AT--TATA
*
5267641 TATATATATATATA
1 TATTTATAT-TATA
5267655 TATGGTGTATATTATA
1 TAT--T-TATATTATA
* *
5267671 GTATATGTA-T-TA
1 -TATTTATATTATA
* *
5267683 TA-TTAGAGTATTA
1 TATTTATATTA-TA
5267696 TATTTATATTATA
1 TATTTATATTATA
5267709 TATTTAT-TTAT-
1 TATTTATATTATA
5267720 TATTT
1 TATTT
5267725 TGATTTTATT
Statistics
Matches: 166, Mismatches: 31, Indels: 55
0.66 0.12 0.22
Matches are distributed among these distances:
10 5 0.03
11 22 0.13
12 39 0.23
13 44 0.27
14 35 0.21
15 9 0.05
16 4 0.02
17 8 0.05
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (13 bp):
TATTTATATTATA
Found at i:5268266 original size:22 final size:22
Alignment explanation
Indices: 5268241--5268284 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5268231 AACAAAAAAA
5268241 AAACCAGAATCAAT-GCCAAATC
1 AAACCA-AATCAATGGCCAAATC
*
5268263 AAACCAAATCAGTGGCCAAATC
1 AAACCAAATCAATGGCCAAATC
5268285 TCAAAGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.48, C:0.27, G:0.11, T:0.14
Consensus pattern (22 bp):
AAACCAAATCAATGGCCAAATC
Found at i:5271610 original size:4 final size:5
Alignment explanation
Indices: 5271585--5271613 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
5271575 TCCTCTAAGT
5271585 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
5271614 AATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:5271619 original size:19 final size:19
Alignment explanation
Indices: 5271586--5271622 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5271576 CCTCTAAGTT
**
5271586 TTTATTTTATTTTATTTTA
1 TTTATTTTAAATTATTTTA
5271605 TTTATTTTAAATTATTTT
1 TTTATTTTAAATTATTTT
5271623 TTACTTCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTAAATTATTTTA
Found at i:5271667 original size:23 final size:23
Alignment explanation
Indices: 5271641--5271685 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
5271631 TATAGCTACT
5271641 TTTAA-AATTTAACACTTTTTTTC
1 TTTAATAATTTAACA-TTTTTTTC
*
5271664 TTTAATTTATTTAACATTTTTT
1 TTTAA-TAATTTAACATTTTTT
5271686 AATTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 6 0.32
25 8 0.42
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTAATAATTTAACATTTTTTTC
Found at i:5271704 original size:9 final size:9
Alignment explanation
Indices: 5271682--5271730 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
5271672 ATTTAACATT
*
5271682 TTTTAATTTG
1 TTTT-ATTTA
5271692 TTTTATTTA
1 TTTTATTTA
*
5271701 TTTTGTTT-
1 TTTTATTTA
*
5271709 TTGTATTTA
1 TTTTATTTA
5271718 TTTTATTTA
1 TTTTATTTA
5271727 TTTT
1 TTTT
5271731 TCCTTGAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
8 6 0.18
9 23 0.70
10 4 0.12
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (9 bp):
TTTTATTTA
Found at i:5275425 original size:95 final size:95
Alignment explanation
Indices: 5275260--5275515 Score: 334
Period size: 95 Copynumber: 2.7 Consensus size: 95
5275250 TATATTATTT
* * **
5275260 ATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCCCAGCTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTATGGATAA
* * * **
5275325 GATTCAGCTAGCCTGATAAAGGTGATTATA
66 GATTCAACTAGCATAATAAAGGCAATTATA
5275355 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTATGGATAA
*
5275420 TATTCAACTAGCATAATAAAGGCAATTATA
66 GATTCAACTAGCATAATAAAGGCAATTATA
* ** * *
5275450 ATAT-CTATACAGTGATATTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCTCGGCTTTATGG
1 ATATACAATA-A---AGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTATGG
5275514 AT
62 AT
5275516 TCAGCTAGCC
Statistics
Matches: 142, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
94 4 0.03
95 90 0.63
98 48 0.34
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTATGGATAA
GATTCAACTAGCATAATAAAGGCAATTATA
Found at i:5277016 original size:84 final size:84
Alignment explanation
Indices: 5276553--5277845 Score: 1313
Period size: 84 Copynumber: 15.5 Consensus size: 84
5276543 AAAAGAAACT
**
5276553 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
5276618 CTCAGCTCCAAGACATATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
5276637 ATTTGCAGCATAGCTTAAGACAAGAAGGGTTATCT----ACCAAAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
5276698 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * * *
5276718 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCTTTGAGTTTGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
5276782 CTCAGCTCCAAGGCACATA
66 CTCAGCTCCAAGGCACATC
* * * * * *
5276801 ATTTGTAGTATAACTCAAGGCTAAAAGGGTTATCTG-C-AC--AAGACCCTCGAGTTCGATTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
5276862 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * ** *
5276882 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAATACCTTCGTCTTCAACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
5276947 CTTAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
5276966 ATTTGCAACATAGCTCATGGCAAGAAGGGATATTTTCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
5277031 CTCAACTCCAAGGCATATT
66 CTCAGCTCCAAGGCACATC
* * * *
5277050 ATTTGCAGTATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAAGACCTTCGAGTTTGACTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
5277115 TTCAACTCCAAGACACATC
66 CTCAGCTCCAAGGCACATC
** * * * * * * *
5277134 ATTTGCAATATAGCTCAAGGCAAGAATGGATATTTGCCAACAAAAGACCTTCAAGTTTGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
5277199 CTCAGCTCTAAGGAACATC
66 CTCAGCTCCAAGGCACATC
* * * * *
5277218 ATTTGTAACATAACTCAAAGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGACTACA
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
5277283 CTCAGCTCCAAGGAACATC
66 CTCAGCTCCAAGGCACATC
* * * * * * * *
5277302 AATTGCAACATAGCTCATGGCAAGAAGGGCTATTTTCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * * *
5277367 ATAAGATCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
** * *
5277386 ATTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
5277451 ATCAGCTCCAAGTCACATC
66 CTCAGCTCCAAGGCACATC
** * * *
5277470 ATTTATAGCATAACTCAAGGCTAGAAGGGATATATGCCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * *
5277535 CTCAGCTCAAAGACATATC
66 CTCAGCTCCAAGGCACATC
** *
5277554 ATTTGTGGCATAACTCAAGGCTACAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* * * ** *
5277618 ATGAGCTCAAAGGTGCGTC
66 CTCAGCTCCAAGGCACATC
* * * * * *
5277637 ATTTGCAGCATAACTCAAGGCAAGAAGGGCTATATTCCAACAAAAGACCTTCGAGTTCGATTACC
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
*
5277702 CTCAGCTCCGAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * *
5277721 ATTTGCTGCATAGCTCAAGGCGAGAAGGGTTATCTG-C--C-AAAGACCTTCGAGTTCGATTA-G
1 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
* *
5277781 ACTCAGTTCAAAGGCACATC
66 -CTCAGCTCCAAGGCACATC
** * ** * * *
5277801 ACTTT-CAATATAGCTCAAGGAGAGAAGGGCTATATGTCAACAAAA
1 A-TTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAA
5277846 TTATCGAGTT
Statistics
Matches: 1006, Mismatches: 186, Indels: 34
0.82 0.15 0.03
Matches are distributed among these distances:
80 116 0.12
81 89 0.09
82 2 0.00
83 116 0.12
84 661 0.66
85 22 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:5277270 original size:336 final size:334
Alignment explanation
Indices: 5276553--5277845 Score: 1468
Period size: 336 Copynumber: 3.9 Consensus size: 334
5276543 AAAAGAAACT
* *
5276553 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTATCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACG
* * * * * * * *
5276618 CTCAGCTCCAAGACATATCATTTGCAGCATAGCTTAAGACAAGAAGGG---TTAT-CTACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAG
* * * * * *
5276679 ACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAA
131 ACCTTCGAGTTCGACTACGCTCAAC-TCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAA
* * * * * *
5276744 GGGTTATCTGTCAACAAAGACCTTTGAGTTTGATTACACTCAGCTCCAAGGCACATAATTTGTAG
195 GGGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAA
* * * * *
5276809 TATAACTCAAGGCTAA-AAGGGTTATCTG-C-AC--AAGACCCTCGAGTTCGATTACACTCAGCT
260 TATAACTCAAGGC-AAGAAGGGATATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC-
* *
5276869 TCGAGGGCACATC
323 TC-AAGGAACATC
* * ** *
5276882 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAATACCTTCGTCTTCAACTACG
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACG
* * *
5276947 CTTAGCTCCAAGGCACATCATTTGCAACATAGCTCATGGCAAGAAGGGATATTTTCCAACAAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAG
* * * *
5277012 ACCTTTGAGTTCGACTACGCTCAACTCCAAGGCATATTATTTGCAGTATAACTCAAGGCTAGAAG
131 ACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
* * * *
5277077 GGTTATATGCCAACAAAAGACCTTCGAGTTTGACTACATTCAACTCCAAGACACATCATTTGCAA
196 GGTTATCTGCCAAC-AAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAA
* * * * *
5277142 TATAGCTCAAGGCAAGAATGGATATTTGCCAACAAAAGACCTTCAAGTTTGACTACGCTCAGCTC
260 TATAACTCAAGGCAAGAAGGGATATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
5277207 TAAGGAACATC
325 -AAGGAACATC
* * * * *
5277218 ATTTGTAACATAACTCAAAGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGACTACA
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACG
* * *
5277283 CTCAGCTCCAAGGAACATCAATTGCAACATAGCTCATGGCAAGAAGGGCTATTTTCCAACAAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAG
* * * **
5277348 ACCTTCGAGTTCGACTACGAT-AAGATCCAAGGCATATCATTTATAGCATAACTCAAGGCTAGAA
131 ACCTTCGAGTTCGACTACGCTCAA-CTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAA
* **
5277412 GGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGA-TCAGCTCCAAGTCACATCATTTAT
195 GGGTTATCTGCCAA-CAAAGACCTTCGAGTTTGACTAC-ACTCAGCTCCAAGGCACATCATTTGC
** * *
5277476 AGCATAACTCAAGGCTAGAAGGGATATATGCCACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
258 AATATAACTCAAGGCAAGAAGGGATATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
5277541 TCAAAGACATATC
323 TCAAGGA-ACATC
* * *
5277554 ATTTGTGGCATAACTCAAGGCTACAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACG
1 ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACG
* * * ** * * * *
5277618 ATGAGCTCAAAGGTGCGTCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATATTCCAACAAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAG
* * * * * * *
5277683 ACCTTCGAGTTCGATTACCCTCAGCTCCGAGGCACATCATTTGCTGCATAGCTCAAGGCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
* * * * *
5277748 GGTTATCTG-C--CAAAGACCTTCGAGTTCGATTAGACTCAGTTCAAAGGCACATCACTTT-CAA
196 GGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCA-TTTGCAA
* * *
5277809 TATAGCTCAAGG-AGAGAAGGGCTATATGTCAACAAAA
260 TATAACTCAAGGCA-AGAAGGGATATATGCCAACAAAA
5277846 TTATCGAGTT
Statistics
Matches: 819, Mismatches: 127, Indels: 34
0.84 0.13 0.03
Matches are distributed among these distances:
329 101 0.12
330 1 0.00
331 67 0.08
332 55 0.07
333 90 0.11
334 2 0.00
335 143 0.17
336 335 0.41
337 25 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (334 bp):
ATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAG
ACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAG
GGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAAT
ATAACTCAAGGCAAGAAGGGATATATGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCA
AGGAACATC
Found at i:5279195 original size:5 final size:5
Alignment explanation
Indices: 5279185--5279209 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5279175 TCCTCTAAGT
5279185 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
5279210 AATTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:5279290 original size:8 final size:8
Alignment explanation
Indices: 5279277--5279318 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
5279267 ATTTAACATT
5279277 TTTTTTTA
1 TTTTTTTA
5279285 -TTTTTTA
1 TTTTTTTA
5279292 CTTTTTTTA
1 -TTTTTTTA
5279301 TTTTTTTA
1 TTTTTTTA
*
5279309 TTTATTTA
1 TTTTTTTA
5279317 TT
1 TT
5279319 CTTGAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.23
8 17 0.55
9 7 0.23
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:5281547 original size:8 final size:8
Alignment explanation
Indices: 5281532--5281684 Score: 78
Period size: 8 Copynumber: 19.6 Consensus size: 8
5281522 CATATTTATA
5281532 TATT-TTT
1 TATTATTT
5281539 TATTATTT
1 TATTATTT
5281547 TATTATTTT
1 TATTA-TTT
*
5281556 TACTATTT
1 TATTATTT
5281564 TATTATTT
1 TATTATTT
**
5281572 T-TGGTTT
1 TATTATTT
*
5281579 T-TTATTA
1 TATTATTT
5281586 TATTA--T
1 TATTATTT
5281592 TATTATTT
1 TATTATTT
*
5281600 TATT-TAT
1 TATTATTT
5281607 TATCTATTT
1 TAT-TATTT
5281616 TATT-TTAT
1 TATTATT-T
*
5281624 T-TTATTG
1 TATTATTT
*
5281631 T-TTATTCC
1 TATTATT-T
*
5281639 TAATATTT
1 TATTATTT
5281647 TA-TATGTAT
1 TATTAT-T-T
5281656 ATATT-TTT
1 -TATTATTT
5281664 TATT-TTT
1 TATTATTT
5281671 TACTTATTT
1 TA-TTATTT
5281680 TATTA
1 TATTA
5281685 AATATTATAT
Statistics
Matches: 115, Mismatches: 14, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
6 5 0.04
7 40 0.35
8 43 0.37
9 23 0.20
10 3 0.03
11 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (8 bp):
TATTATTT
Found at i:5281557 original size:17 final size:17
Alignment explanation
Indices: 5281535--5281684 Score: 93
Period size: 17 Copynumber: 9.0 Consensus size: 17
5281525 ATTTATATAT
5281535 TTTTTATTATTTTATTA
1 TTTTTATTATTTTATTA
*
5281552 TTTTTACTATTTTATTA
1 TTTTTATTATTTTATTA
*
5281569 TTTTTGGTT-TTTTATTA
1 TTTTT-ATTATTTTATTA
5281586 TATTATTATTATTTTA-T-
1 T-TT-TTATTATTTTATTA
*
5281603 TTATTATCTATTTTATT-
1 TTTTTAT-TATTTTATTA
* *
5281620 TTATT-TTATTGT-TTA
1 TTTTTATTATTTTATTA
** *
5281635 TTCCTAATATTTTA-TA
1 TTTTTATTATTTTATTA
* *
5281651 TGTATA-TATTTT-TTA
1 TTTTTATTATTTTATTA
5281666 TTTTTTACTTATTTTATTA
1 -TTTTTA-TTATTTTATTA
5281685 AATATTATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
14 2 0.02
15 20 0.19
16 23 0.22
17 37 0.36
18 12 0.12
19 10 0.10
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTATTATTTTATTA
Found at i:5281570 original size:25 final size:24
Alignment explanation
Indices: 5281536--5281634 Score: 94
Period size: 25 Copynumber: 3.9 Consensus size: 24
5281526 TTTATATATT
5281536 TTTTATTATTTTATTATTTTTACTA
1 TTTTATTATTTT-TTATTTTTACTA
*
5281561 TTTTATTATTTTTGGT-TTTTTATTA
1 TTTTATTATTTTT--TATTTTTACTA
*
5281586 TATTATTATTATTTTATTTATTATCTA
1 TTTTATTATT-TTTTATTT-TTA-CTA
5281613 TTTTATT-TTATTTTATTGTTTA
1 TTTTATTATT-TTTTATT-TTTA
5281635 TTCCTAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
24 2 0.03
25 32 0.51
26 20 0.32
27 9 0.14
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTTATTATTTTTTATTTTTACTA
Found at i:5281614 original size:16 final size:15
Alignment explanation
Indices: 5281524--5281683 Score: 68
Period size: 15 Copynumber: 10.3 Consensus size: 15
5281514 TTAGTATACA
5281524 TATTTATATATT-TTT
1 TATTTAT-TATTATTT
*
5281539 TATTATTTTATTATTTT
1 TATT-TATTATTA-TTT
5281556 TACTATT-TTATTATTT
1 TA-T-TTATTATTATTT
*
5281572 T-TGGTT-TT-TTATTA
1 TAT--TTATTATTATTT
5281586 TA-TTATTATTATTT
1 TATTTATTATTATTT
5281600 TATTTATTATCTATTT
1 TATTTATTAT-TATTT
5281616 TATTTTATT-TTATTGTT
1 TA-TTTATTATTA-T-TT
* *
5281633 TATTCCTAATATT-TTA
1 TATT--TATTATTATTT
*
5281649 TATGTATATATT-TTT
1 TATTTAT-TATTATTT
*
5281664 TATTTTTTACTTATTT
1 TATTTATTA-TTATTT
5281680 TATT
1 TATT
5281684 AAATATTATA
Statistics
Matches: 114, Mismatches: 11, Indels: 39
0.70 0.07 0.24
Matches are distributed among these distances:
12 2 0.02
13 2 0.02
14 18 0.16
15 34 0.30
16 28 0.25
17 22 0.19
18 5 0.04
19 3 0.03
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTTATTATTATTT
Found at i:5281895 original size:21 final size:21
Alignment explanation
Indices: 5281871--5281917 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5281861 TAGTTATATA
5281871 TATTTTT-ATTTTTTTCATTAT
1 TATTTTTCATTTTTTT-ATTAT
* *
5281892 TATTTTTCCTTTTTTTATTTT
1 TATTTTTCATTTTTTTATTAT
5281913 TATTT
1 TATTT
5281918 AACACTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (21 bp):
TATTTTTCATTTTTTTATTAT
Found at i:5281977 original size:20 final size:21
Alignment explanation
Indices: 5281952--5282000 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
5281942 TTATTCTTTA
5281952 TTTTATTTATT-TTT-TGTTT
1 TTTTATTTATTGTTTCTGTTT
5281971 GTTTTATTT-TTGTTTCTGTTT
1 -TTTTATTTATTGTTTCTGTTT
5281992 TTTTATTTA
1 TTTTATTTA
5282001 ATTCCATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.10, C:0.02, G:0.08, T:0.80
Consensus pattern (21 bp):
TTTTATTTATTGTTTCTGTTT
Found at i:5282036 original size:12 final size:13
Alignment explanation
Indices: 5282021--5282060 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
5282011 TTCTTTTTCC
5282021 TTTGTTTT-TGTT
1 TTTGTTTTCTGTT
*
5282033 TTTGTTTTCTTTT
1 TTTGTTTTCTGTT
5282046 TTTGTTTTCT-TT
1 TTTGTTTTCTGTT
5282058 TTT
1 TTT
5282061 TTCACTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (13 bp):
TTTGTTTTCTGTT
Found at i:5282062 original size:14 final size:13
Alignment explanation
Indices: 5282021--5282061 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
5282011 TTCTTTTTCC
*
5282021 TTTGTTTT-TGTT
1 TTTGTTTTCTTTT
5282033 TTTGTTTTCTTTT
1 TTTGTTTTCTTTT
5282046 TTTGTTTTCTTTT
1 TTTGTTTTCTTTT
5282059 TTT
1 TTT
5282062 TCACTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (13 bp):
TTTGTTTTCTTTT
Found at i:5282083 original size:25 final size:23
Alignment explanation
Indices: 5282014--5282084 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 23
5282004 CCATTACTTC
5282014 TTTTTCCTTTGTTTT-TGTTTTT
1 TTTTTCCTTTGTTTTGTGTTTTT
* *
5282036 GTTTT-CTTT-TTTTGTTTTCTTT
1 TTTTTCCTTTGTTTTGTGTT-TTT
*
5282058 TTTTTCACTTTGTTTTGTGTTATT
1 TTTTTC-CTTTGTTTTGTGTTTTT
5282082 TTT
1 TTT
5282085 ATTTATGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.10
21 7 0.18
22 11 0.28
24 9 0.23
25 8 0.21
ACGTcount: A:0.03, C:0.08, G:0.10, T:0.79
Consensus pattern (23 bp):
TTTTTCCTTTGTTTTGTGTTTTT
Found at i:5282147 original size:23 final size:22
Alignment explanation
Indices: 5282117--5282164 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
5282107 TTCCGTTTTA
*
5282117 TTTTTATTT-TTATTTTTACCTTT
1 TTTTTATTTATT-TTATTA-CTTT
5282140 TTTTTATTTATTTTATTACTTT
1 TTTTTATTTATTTTATTACTTT
5282162 TTT
1 TTT
5282165 ACCATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 14 0.61
24 2 0.09
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTATTTATTTTATTACTTT
Found at i:5286612 original size:85 final size:85
Alignment explanation
Indices: 5286452--5288021 Score: 1956
Period size: 85 Copynumber: 18.4 Consensus size: 85
5286442 AAATATTGGA
* * *
5286452 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
5286517 CAAAGACATATCAAATTTAT
66 CAAAGGCATATCAAATTTAC
* * * * * *
5286537 AACATAACTCAAGGCGAGAAAGGTTATCAGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
5286602 TAAAGGCATATCAAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * * *
5286622 AACATAACTCAAGGCGAAAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
5286687 TAAAGGCATATCAAATTTTAT
66 CAAAGGCATATCAAA-TTTAC
* * * * * * * *
5286708 AACATAACTCAAGGCGAGAAGGGTTATCTATCAACCAATACCTTCAAGTTTGATTACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
5286773 CAAAGGCACATCAAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * * * * *
5286793 AGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCATCGAGTTTGATAACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * *
5286858 TAAAGGAATATCATATTTAC
66 CAAAGGCATATCAAATTTAC
* * * * * *
5286878 ATCATAGTTCAAGGCGAGAAGGGTTATCTATCAATAAAGACCTTTGTGTTCGATTACATTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
**
5286943 CAAAGGCATATCAAATTTGT
66 CAAAGGCATATCAAATTTAC
*
5286963 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
*
5287028 TCAAAGGTATATCAAATTTAC
65 TCAAAGGCATATCAAATTTAC
* * * * * *
5287049 AGTATAACTCAAGGCGACAAGGGTTATCTGTCAATAAAGACCTTCGAGTTTGATTACATTTAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
5287114 GAAAGGCATATCAAATTTGC
66 CAAAGGCATATCAAATTTAC
* * * *
5287134 AGCATAGCTCAAGGCGAGAAGGGATATCTGCCAACAAAAGACCTTCGAGTTCGATTATATTCAAC
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
* *
5287199 TCAAAGGCACATCAAATTTAT
65 TCAAAGGCATATCAAATTTAC
* * *
5287220 ATCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCAATTACACTCAGC
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
5287285 TCAAAGGCATATCAAATTTAC
65 TCAAAGGCATATCAAATTTAC
* * * * *
5287306 AACATAACTCAAGGCGAGAAAGGTTATCTGTCAATAAAGACCTTCGAGTTCGAATACATTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
5287371 CAAAGACATATCAAATTTGC
66 CAAAGGCATATCAAATTTAC
* *
5287391 AGCATAGCTCAAGACGAGAAGGGTTGA-ATGTCAACAAAAGACCTTCGAGTTCGATTACATTCAG
1 AGCATAGCTCAAGGCGAGAAGGGTT-ATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAG
5287455 CTCAAAGGCATATCAAATTTAC
64 CTCAAAGGCATATCAAATTTAC
* * * * * * * * * *
5287477 AGTATAACTCAAGGAGATAAGGGTTATCTATCAATAAAAACCTTTGAGTTCGATTACGTTTAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
5287542 CAAAGGCATATCAAATTTGC
66 CAAAGGCATATCAAATTTAC
* * * *
5287562 AGCATAGCTCAAGGAGGGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
5287627 TCAAAGGCATATCAAATTTAC
65 TCAAAGGCATATCAAATTTAC
* * * * * * *
5287648 AGCATAACTCAATGCTAGAAGGGTTATCTGTCAATAAAGACTTTTGAGTTCGATTATATTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
5287713 CAAAGGCATATCAAATTTGC
66 CAAAGGCATATCAAATTTAC
* * * * *
5287733 AGCATAGCTCAAGGCGAAAAGGGCTATCTGCCAACAAAGACCTTCGGGTTCGATTACATTCAGTT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
*
5287798 CAAAGGAATATCAAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * * *
5287818 AACATAACTCAAGGCAAGAAGGGTTATCTGTCAATAAAGACCTTCGAGTTTGATTACATTCTA-C
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC-AGC
*
5287882 TCAAAGGCATATCAAATTTAA
65 TCAAAGGCATATCAAATTTAC
* * ** * * *
5287903 AGCATAACTCAGGGCGAGAAGATTTACCTATCAACAAAGACCTTCGAGTTCGATTACATTCATCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* *
5287968 CAAGGGCATGTCAAATTTAC
66 CAAAGGCATATCAAATTTAC
* * * *
5287988 AACATAGCTCAAGACGTGAAGGGTTATATGTCAA
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAA
5288022 TAAAAAATTT
Statistics
Matches: 1278, Mismatches: 198, Indels: 18
0.86 0.13 0.01
Matches are distributed among these distances:
84 1 0.00
85 829 0.65
86 448 0.35
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (85 bp):
AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
CAAAGGCATATCAAATTTAC
Found at i:5286788 original size:171 final size:170
Alignment explanation
Indices: 5286452--5288021 Score: 1956
Period size: 171 Copynumber: 9.2 Consensus size: 170
5286442 AAATATTGGA
* * * *
5286452 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * * * * *
5286517 CAAAGACATATCAAATTTATAACATAACTCAAGGCGAGAAAGGTTATCAGTCAACCAAGACCTTC
66 CAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
* *
5286582 GAGTTCGATTACACTCAGCTTAAAGGCATATCAAATTTAC
131 GAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * *
5286622 AACATAACTCAAGGCGAAAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * * * * *
5286687 TAAAGGCATATCAAATTTTATAACATAACTCAAGGCGAGAAGGGTTATCTATCAACCAATACCTT
66 CAAAGGCATATCAAA-TTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
* * * *
5286752 CAAGTTTGATTACACTCAGCTCAAAGGCACATCAAATTTAC
130 CGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * * * * *
5286793 AGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCATCGAGTTTGATAACACTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * * * * * *
5286858 TAAAGGAATATCATATTTACATCATAGTTCAAGGCGAGAAGGGTTATCTATCAATAAAGACCTTT
66 CAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
* **
5286923 GTGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTGT
131 GAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* *
5286963 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
* * * * *
5287028 TCAAAGGTATATCAAATTTACAGTATAACTCAAGGCGACAAGGGTTATCTGTCAATAAAGACCTT
65 TCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
* * * *
5287093 CGAGTTTGATTACATTTAGCTGAAAGGCATATCAAATTTGC
130 CGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * *
5287134 AGCATAGCTCAAGGCGAGAAGGGATATCTGCCAACAAAAGACCTTCGAGTTCGATTATATTCAAC
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGC
* * *
5287199 TCAAAGGCACATCAAATTTATATCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCT
65 TCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCT
* *
5287264 TCGAGTTCAATTACACTCAGCTCAAAGGCATATCAAATTTAC
129 TCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * *
5287306 AACATAACTCAAGGCGAGAAAGGTTATCTGTCAATAAAGACCTTCGAGTTCGAATACATTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * *
5287371 CAAAGACATATCAAATTTGCAGCATAGCTCAAGACGAGAAGGGTTGA-ATGTCAACAAAAGACCT
66 CAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTT-ATCTGTCAAC-AAAGACCT
5287435 TCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
129 TCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * * * * * *
5287477 AGTATAACTCAAGGAGATAAGGGTTATCTATCAATAAAAACCTTTGAGTTCGATTACGTTTAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * *
5287542 CAAAGGCATATCAAATTTGCAGCATAGCTCAAGGAGGGAAGGGCTATCTGTCAACAAAAGACCTT
66 CAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTT
*
5287607 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTAC
130 CGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * * *
5287648 AGCATAACTCAATGCTAGAAGGGTTATCTGTCAATAAAGACTTTTGAGTTCGATTATATTCAGCT
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * * *
5287713 CAAAGGCATATCAAATTTGCAGCATAGCTCAAGGCGAAAAGGGCTATCTGCCAACAAAGACCTTC
66 CAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
* * *
5287778 GGGTTCGATTACATTCAGTTCAAAGGAATATCAAATTTAC
131 GAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * *
5287818 AACATAACTCAAGGCAAGAAGGGTTATCTGTCAATAAAGACCTTCGAGTTTGATTACATTCTA-C
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC-AGC
* * * ** * *
5287882 TCAAAGGCATATCAAATTTAAAGCATAACTCAGGGCGAGAAGATTTACCTATCAACAAAGACCTT
65 TCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
* * *
5287947 CGAGTTCGATTACATTCATCTCAAGGGCATGTCAAATTTAC
130 CGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * *
5287988 AACATAGCTCAAGACGTGAAGGGTTATATGTCAA
1 AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA
5288022 TAAAAAATTT
Statistics
Matches: 1231, Mismatches: 163, Indels: 12
0.88 0.12 0.01
Matches are distributed among these distances:
170 402 0.33
171 755 0.61
172 74 0.06
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (170 bp):
AGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCT
CAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
GAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
Found at i:5286920 original size:256 final size:255
Alignment explanation
Indices: 5286452--5288021 Score: 1974
Period size: 256 Copynumber: 6.1 Consensus size: 255
5286442 AAATATTGGA
* *
5286452 AGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * *
5286517 CAAAGACATATCAAATTTATAACATAACTCAAGGCGAGAAAGGTTATCAGTCAACCAAGACCTTC
66 CAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
* * *
5286582 GAGTTCGATTACACTCAGCTTAAAGGCATATCAAATTTACAACATAACTCAAGGCGAAAAGGGTT
131 GAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTT
** * * *
5286647 ATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCATATCAAATTTTAT
196 ATCTGTCAAAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAA-TTTAC
* * * * * * *
5286708 AACATAACTCAAGGCGAGAAGGGTTATCTATCAACCAATACCTTCAAGTTTGATTACACTCAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* ** * * * *
5286773 CAAAGGCACATCAAATTTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCATC
66 CAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
* * * * * * **
5286838 GAGTTTGATAACACTCAGCTTAAAGGAATATCATATTTACATCATAGTTCAAGGCGAGAAGGGTT
131 GAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTT
* * * * **
5286903 ATCTATCAATAAAGACCTTTGTGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTGT
196 ATCTGTCAAAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
5286963 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGC
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
* ** * *
5287028 TCAAAGGTATATCAAATTTACAGTATAACTCAAGGCGACAAGGGTTATCTGTCAATAAAGACCTT
65 TCAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
* * * * * * *
5287093 CGAGTTTGATTACATTTAGCTGAAAGGCATATCAAATTTGCAGCATAGCTCAAGGCGAGAAGGGA
130 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGT
* * * * *
5287158 TATCTGCCAACAAAAGACCTTCGAGTTCGATTATATTCAACTCAAAGGCACATCAAATTTAT
195 TATCTGTCAA-AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* *
5287220 ATCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCAATTACACTCAGC
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
* *
5287285 TCAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAAGGTTATCTGTCAATAAAGACCTT
65 TCAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTT
* * * * * *
5287350 CGAGTTCGAATACATTCAGCTCAAAGACATATCAAATTTGCAGCATAGCTCAAGACGAGAAGGGT
130 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGT
*
5287415 TGA-ATGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
195 T-ATCTGTCAA-AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * * * * * ** *
5287477 AGTATAACTCAAGGAGATAAGGGTTATCTATCAATAAAAACCTTTGAGTTCGATTACGTTTAGCT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * * *
5287542 CAAAGGCATATCAAATTTGCAGCATAGCTCAAGGAGGGAAGGGCTATCTGTCAACAAAAGACCTT
66 CAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTT
* *
5287607 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAATGCTAGAAGGGT
130 CGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGT
* * * * *
5287672 TATCTGTCAATAAAGACTTTTGAGTTCGATTATATTCAGCTCAAAGGCATATCAAATTTGC
195 TATCTGTCAAAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * * * *
5287733 AGCATAGCTCAAGGCGAAAAGGGCTATCTGCCAACAAAGACCTTCGGGTTCGATTACATTCAGTT
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
5287798 CAAAGGAATATCAAATTTACAACATAACTCAAGGCAAGAAGGGTTATCTGTCAATAAAGACCTTC
66 CAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
* * * * **
5287863 GAGTTTGATTACATTCTA-CTCAAAGGCATATCAAATTTAAAGCATAACTCAGGGCGAGAAGATT
131 GAGTTCGATTACACTC-AGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGT
* * * * * *
5287927 TACCTATCAACAAAGACCTTCGAGTTCGATTACATTCATCTCAAGGGCATGTCAAATTTAC
195 TATCTGTCAAAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
* * * *
5287988 AACATAGCTCAAGACGTGAAGGGTTATATGTCAA
1 AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAA
5288022 TAAAAAATTT
Statistics
Matches: 1138, Mismatches: 170, Indels: 13
0.86 0.13 0.01
Matches are distributed among these distances:
255 178 0.16
256 579 0.51
257 380 0.33
258 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (255 bp):
AGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
CAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTC
GAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTT
ATCTGTCAAAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTAC
Found at i:5289709 original size:12 final size:12
Alignment explanation
Indices: 5289661--5289759 Score: 87
Period size: 12 Copynumber: 8.2 Consensus size: 12
5289651 TATACATATA
*
5289661 TTTT-TTATTAT
1 TTTTATTATTTT
*
5289672 TTTTACTATTTT
1 TTTTATTATTTT
* *
5289684 TTATATT-TGGTT
1 TTTTATTAT-TTT
5289696 TTTTATTATTTT
1 TTTTATTATTTT
5289708 TTTTATTATTTT
1 TTTTATTATTTT
* *
5289720 TATTTATTATCTA
1 T-TTTATTATTTT
5289733 TTTTATT-TTATT
1 TTTTATTATT-TT
*
5289745 TTTTATTATATT
1 TTTTATTATTTT
5289757 TTT
1 TTT
5289760 CCTAATGTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
11 6 0.09
12 52 0.74
13 12 0.17
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTATTATTTT
Found at i:5289877 original size:74 final size:72
Alignment explanation
Indices: 5289696--5289889 Score: 175
Period size: 74 Copynumber: 2.6 Consensus size: 72
5289686 ATATTTGGTT
* *
5289696 TTTTA-TTATTTTTTTTATTATTTTTATTTATTA-TCTATTTTA-TTTTATTTTTTATTATATTT
1 TTTTATTTATATTTTTTA-TATTTTTATT-ATTATTTTATTTTATTTTTATTTTTTATTATATTT
* *
5289758 TTCCTAATG
64 TACCTAATA
* * * *
5289767 TTTTATTTATATGTTTTAATATATATATTACTTTATTTTATTTTATTTTTATTTTGTT-TTGT-T
1 TTTTATTTATAT-TTTTTATATTTTTATTA--TTATTTTATTTTATTTTTATTTT-TTATTATAT
5289830 TTTACCTAATA
62 TTTACCTAATA
*
5289841 TTTTATATGTATATTTTTTATGCTTTTTATTATTATTTT-TATTTATTTT
1 TTTTAT-T-TATATTTTTTAT-ATTTTTATTATTATTTTAT-TTTATTTT
5289890 ATTAAATACT
Statistics
Matches: 100, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
71 6 0.06
72 13 0.13
73 9 0.09
74 39 0.39
75 19 0.19
76 14 0.14
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (72 bp):
TTTTATTTATATTTTTTATATTTTTATTATTATTTTATTTTATTTTTATTTTTTATTATATTTTA
CCTAATA
Found at i:5290175 original size:15 final size:15
Alignment explanation
Indices: 5290155--5290187 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5290145 TATATATTAT
5290155 TTTATTTATTTGTTG
1 TTTATTTATTTGTTG
5290170 TTTATTTATTTGTTG
1 TTTATTTATTTGTTG
5290185 TTT
1 TTT
5290188 TTTGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTGTTG
Found at i:5290193 original size:25 final size:24
Alignment explanation
Indices: 5290163--5290230 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 24
5290153 ATTTTATTTA
5290163 TTTGTTGTTTATTTATTTGTTGTTT
1 TTTGTTGTTT-TTTATTTGTTGTTT
*
5290188 TTTGTT-TTTTTTCATTTTGTTTTTT
1 TTTGTTGTTTTTT-A-TTTGTTGTTT
5290213 TTTG-TGTTATTTTTATTT
1 TTTGTTG-T-TTTTTATTT
5290231 ATGTTACCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
23 3 0.08
24 5 0.14
25 22 0.59
26 2 0.05
27 5 0.14
ACGTcount: A:0.07, C:0.01, G:0.12, T:0.79
Consensus pattern (24 bp):
TTTGTTGTTTTTTATTTGTTGTTT
Found at i:5290325 original size:31 final size:30
Alignment explanation
Indices: 5290254--5290325 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 30
5290244 ATTTATTCTG
**
5290254 TTTTAT-TTTTATTTTTATTTTTACCTTTA
1 TTTTATATTTTATTACTATTTTTACCTTTA
5290283 TTTTATTTATTTTATTACT-TTTTTACCATTATA
1 TTTTA--TATTTTATTACTATTTTTACC-TT-TA
5290316 TTTTATATTT
1 TTTTATATTT
5290326 AGCCATTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
29 5 0.14
31 14 0.39
32 10 0.28
33 7 0.19
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (30 bp):
TTTTATATTTTATTACTATTTTTACCTTTA
Found at i:5293897 original size:23 final size:23
Alignment explanation
Indices: 5293865--5293929 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
5293855 TTTACTTCTG
* *
5293865 TGCTGAATCATTCAACACTATTT
1 TGCTGGATCAGTCAACACTATTT
5293888 TGCTGGATCAGTCAACACTATTT
1 TGCTGGATCAGTCAACACTATTT
*
5293911 TGCTGGATCAGTCAGCACT
1 TGCTGGATCAGTCAACACT
5293930 GAATCATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (23 bp):
TGCTGGATCAGTCAACACTATTT
Found at i:5298200 original size:23 final size:21
Alignment explanation
Indices: 5298146--5298200 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
5298136 GATTTCTGGG
*
5298146 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACACATT
5298167 CAA-GGGAATCGGTACACATT
1 CAAGGGGAATCGGTACACATT
5298187 CAATGGGGGAATCG
1 CAA--GGGGAATCG
5298201 ATACCCCTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 19 0.63
21 3 0.10
23 8 0.27
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACACATT
Found at i:5299747 original size:103 final size:103
Alignment explanation
Indices: 5299568--5299780 Score: 354
Period size: 103 Copynumber: 2.1 Consensus size: 103
5299558 GGGTCTACGC
* *
5299568 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGAAACATATGTGAAGTCTGGTGAGACACATACTTGAT
* *
5299633 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
* *
5299671 GGTCCTTCGGGATATATATGTATTCTTTGAAACATATGTGAAGTCTGGTGAGACACATATTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGAAACATATGTGAAGTCTGGTGAGACACATACTTGAT
*
5299736 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
*
5299774 GATCCTT
1 GGTCCTT
5299781 ATGGACATTA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGAAACATATGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:5299830 original size:23 final size:23
Alignment explanation
Indices: 5299796--5299887 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
5299786 CATTATTATA
*
5299796 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
5299819 CGGCACTCCGGTGTAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
5299842 TGGCACTCCGATGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
5299865 TGGCACTTCGGTGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
5299888 AGCTGTGGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:5305261 original size:3 final size:3
Alignment explanation
Indices: 5305253--5305350 Score: 151
Period size: 3 Copynumber: 32.7 Consensus size: 3
5305243 TTTTTATCCA
* *
5305253 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
5305301 TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5305349 TA
1 TA
5305351 AATATATTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5305868 original size:17 final size:17
Alignment explanation
Indices: 5305839--5305871 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5305829 AGAAACAGAA
5305839 ACAGAAAACGAAAAAAT
1 ACAGAAAACGAAAAAAT
5305856 ACAGAGAAA-GAAAAAA
1 ACAGA-AAACGAAAAAA
5305872 AAACAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.09, G:0.15, T:0.03
Consensus pattern (17 bp):
ACAGAAAACGAAAAAAT
Found at i:5306816 original size:20 final size:21
Alignment explanation
Indices: 5306775--5306819 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
5306765 TGTTTTAGTG
**
5306775 ATATTTTTATTATATTGTTAA
1 ATATTTTTATTATATTCATAA
5306796 ATATTTTTA-TATATTCATAA
1 ATATTTTTATTATATTCATAA
5306816 ATAT
1 ATAT
5306820 ACATATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTTTTATTATATTCATAA
Found at i:5307560 original size:18 final size:18
Alignment explanation
Indices: 5307519--5307553 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5307509 CTTTTTATAT
5307519 ATATTTATTATTTTCATA
1 ATATTTATTATTTTCATA
5307537 ATATTTA-TATGTTTCAT
1 ATATTTATTAT-TTTCAT
5307554 TTTATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
ATATTTATTATTTTCATA
Found at i:5321763 original size:1 final size:1
Alignment explanation
Indices: 5321757--5321806 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
5321747 GCTTGAAGAG
* * * * *
5321757 AAAAAAAAAGAGAAAAAAAAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5321807 GGGGGTCAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (1 bp):
A
Found at i:5321769 original size:12 final size:12
Alignment explanation
Indices: 5321752--5321796 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
5321742 ATTATGCTTG
5321752 AAGAGAAAAAAA
1 AAGAGAAAAAAA
5321764 AAGAGAAAAAAA
1 AAGAGAAAAAAA
5321776 AA-AG-AAAAAA
1 AAGAGAAAAAAA
5321786 AAGA-AAAAAAA
1 AAGAGAAAAAAA
5321797 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.26
11 9 0.29
12 14 0.45
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAGAGAAAAAAA
Found at i:5321774 original size:9 final size:9
Alignment explanation
Indices: 5321771--5321805 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
5321761 AAAAAGAGAA
5321771 AAAAAAAAG
1 AAAAAAAAG
5321780 AAAAAAAAG
1 AAAAAAAAG
5321789 AAAAAAAAG
1 AAAAAAAAG
5321798 AAAAAAAA
1 AAAAAAAA
5321806 AGGGGGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:5321805 original size:10 final size:10
Alignment explanation
Indices: 5321755--5321807 Score: 72
Period size: 11 Copynumber: 5.2 Consensus size: 10
5321745 ATGCTTGAAG
5321755 AGAAAAAAAA
1 AGAAAAAAAA
5321765 AGAGAAAAAAA
1 AGA-AAAAAAA
*
5321776 AAAGAAAAAAA
1 AGA-AAAAAAA
5321787 AG-AAAAAAA
1 AGAAAAAAAA
5321796 AGAAAAAAAA
1 AGAAAAAAAA
5321806 AG
1 AG
5321808 GGGGTCAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 9 0.23
10 12 0.31
11 18 0.46
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:5321806 original size:12 final size:12
Alignment explanation
Indices: 5321752--5321803 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
5321742 ATTATGCTTG
*
5321752 AAGAGAAAAAAA
1 AAGAAAAAAAAA
5321764 AAGAGAAAAAAAA
1 AAGA-AAAAAAAA
5321777 AAGAAAAAAAAGA
1 AAGAAAAAAAA-A
5321790 AA-AAAAAGAAAA
1 AAGAAAAA-AAAA
5321802 AA
1 AA
5321804 AAAGGGGGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 19 0.53
13 17 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:5323031 original size:52 final size:52
Alignment explanation
Indices: 5322953--5323353 Score: 784
Period size: 52 Copynumber: 7.7 Consensus size: 52
5322943 GAATATGCCA
5322953 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
5323005 ATAGCATCTTCTGGATGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323057 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323109 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323161 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323213 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
5323265 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323317 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
5323354 TGGACAGAAT
Statistics
Matches: 345, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 345 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:5323473 original size:52 final size:52
Alignment explanation
Indices: 5323395--5323535 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
5323385 GAATTTGCCA
5323395 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323447 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
5323499 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
5323536 TGGACAGAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:5323520 original size:182 final size:182
Alignment explanation
Indices: 5323213--5323614 Score: 777
Period size: 182 Copynumber: 2.2 Consensus size: 182
5323203 TGGACAGAAC
5323213 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
5323278 GAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
*
5323343 AGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAATATGAATTTGCCA
131 AGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAGATGAATTTGCCA
5323395 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
*
5323460 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
5323525 AGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAGATGAATTTGCCA
131 AGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAGATGAATTTGCCA
*
5323577 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
5323615 CGAAGAAGTG
Statistics
Matches: 217, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 217 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (182 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
AGTTATCTGATTGGACAGAATCAAGCATTGAATTTAGAAGATGAATTTGCCA
Found at i:5323552 original size:47 final size:48
Alignment explanation
Indices: 5323395--5323552 Score: 221
Period size: 52 Copynumber: 3.1 Consensus size: 48
5323385 GAATTTGCCA
5323395 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA----GTTGGACAGAAC
5323447 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA----GTTGGACAGAAC
5323499 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA-TTGGACAGAATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAGTTGGACAGAA-C
5323547 A-AGCAT
1 ATAGCAT
5323553 TGAATTTAGA
Statistics
Matches: 105, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
47 15 0.14
48 2 0.02
52 88 0.84
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (48 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAGTTGGACAGAAC
Found at i:5324371 original size:113 final size:113
Alignment explanation
Indices: 5324203--5324844 Score: 1043
Period size: 113 Copynumber: 5.7 Consensus size: 113
5324193 TGCAAGGTAG
*
5324203 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *** * * * * * *
5324268 AACCTTTTACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
*
5324316 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
5324381 AACTTTTTGTTTAAATCCATCATTTGGTGGATCATCTTTTCCAGAGAA
66 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
5324429 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
5324494 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
66 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
* *
5324542 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
5324607 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
66 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
* *
5324655 GGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAGGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
5324720 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAA
66 AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
* *
5324768 AGTTCATGAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
5324833 CAAC-CTTTGTTT
65 CAACTTTTTGTTT
5324845 GATATTATAT
Statistics
Matches: 509, Mismatches: 19, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
113 451 0.89
114 58 0.11
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTACCAGAGAA
Found at i:5325143 original size:3 final size:3
Alignment explanation
Indices: 5325135--5325235 Score: 148
Period size: 3 Copynumber: 33.7 Consensus size: 3
5325125 TTTTTATCCA
* * *
5325135 TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
5325183 TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5325231 TAT TA
1 TAT TA
5325236 AATATATTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5325754 original size:17 final size:17
Alignment explanation
Indices: 5325725--5325757 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5325715 AGAAATAGAA
5325725 ACAGAAAATGAAAAAAT
1 ACAGAAAATGAAAAAAT
5325742 ACAGAGAAA-GAAAAAA
1 ACAGA-AAATGAAAAAA
5325758 AAAACAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
ACAGAAAATGAAAAAAT
Found at i:5326712 original size:20 final size:21
Alignment explanation
Indices: 5326671--5326715 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
5326661 TGTTTTAGTG
**
5326671 ATATTTTTATTATATTGTTAA
1 ATATTTTTATTATATTCATAA
5326692 ATATTTTTA-TATATTCATAA
1 ATATTTTTATTATATTCATAA
5326712 ATAT
1 ATAT
5326716 ACATATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTTTTATTATATTCATAA
Found at i:5331670 original size:23 final size:23
Alignment explanation
Indices: 5331639--5331690 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
5331629 GAATAATATA
5331639 TTGAAAGTTGGCAACAATAATGG
1 TTGAAAGTTGGCAACAATAATGG
* *
5331662 TTGATAGTTGGCACCAATAATGG
1 TTGAAAGTTGGCAACAATAATGG
5331685 TTGAAA
1 TTGAAA
5331691 AATAACATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (23 bp):
TTGAAAGTTGGCAACAATAATGG
Found at i:5340084 original size:23 final size:24
Alignment explanation
Indices: 5340021--5340101 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 24
5340011 CACCACTGCT
* * *
5340021 CATAAAATTTGCACCAAAGTGCCA
1 CATAGAATATGCACCGAAGTGCCA
* *
5340045 CGTAGAATACGCACCGAAGTGCCA
1 CATAGAATATGCACCGAAGTGCCA
*
5340069 C-TAGAATATGCTCCGAAGTGCCA
1 CATAGAATATGCACCGAAGTGCCA
5340092 CATAG-ATATG
1 CATAGAATATG
5340102 TCACGAAAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 26 0.53
24 23 0.47
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (24 bp):
CATAGAATATGCACCGAAGTGCCA
Found at i:5340132 original size:24 final size:23
Alignment explanation
Indices: 5340100--5340168 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
5340090 CACATAGATA
* * *
5340100 TGTCACGAAAGACTGCGTAGAATT
1 TGTCCCGAAGGACCGCGTAGAA-T
*
5340124 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCGCGTAGAAT
5340147 TGTCCCGAAGGACCGCGTAGAA
1 TGTCCCGAAGGACCGCGTAGAA
5340169 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (23 bp):
TGTCCCGAAGGACCGCGTAGAAT
Found at i:5340341 original size:30 final size:30
Alignment explanation
Indices: 5340290--5340349 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
5340280 AACACTTCCG
* * * *
5340290 CATAGAGCATTTTCACGTAGAACGCATTCA
1 CATAAAGCACTTTCACATAGAACACATTCA
5340320 CATAAAGCACTTTCACATAGAACACATTCA
1 CATAAAGCACTTTCACATAGAACACATTCA
5340350 TATGTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (30 bp):
CATAAAGCACTTTCACATAGAACACATTCA
Found at i:5340349 original size:15 final size:15
Alignment explanation
Indices: 5340301--5340349 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
5340291 ATAGAGCATT
* *
5340301 TTCACGTAGAACGCA
1 TTCACATAGAACACA
*
5340316 TTCACATA-AAGCACT
1 TTCACATAGAA-CACA
5340331 TTCACATAGAACACA
1 TTCACATAGAACACA
5340346 TTCA
1 TTCA
5340350 TATGTTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (15 bp):
TTCACATAGAACACA
Found at i:5347106 original size:24 final size:23
Alignment explanation
Indices: 5347079--5347139 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
5347069 TACATAGATA
**
5347079 TGTCCCGAAGGACTGCGTAGAATT
1 TGTCCCGAAGGACCACGTAGAA-T
*
5347103 TGTCCCGAATGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
* *
5347126 TATCCCGAATGACC
1 TGTCCCGAAGGACC
5347140 GCATAAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:5347135 original size:23 final size:24
Alignment explanation
Indices: 5347094--5347139 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
5347084 CGAAGGACTG
*
5347094 CGTAGAATTTGTCCCGAATGACCA
1 CGTAGAATTTATCCCGAATGACCA
5347118 CGTAGAA-TTATCCCGAATGACC
1 CGTAGAATTTATCCCGAATGACC
5347140 GCATAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (24 bp):
CGTAGAATTTATCCCGAATGACCA
Found at i:5347281 original size:15 final size:15
Alignment explanation
Indices: 5347263--5347318 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
5347253 CATAAAACAC
*
5347263 TTTCGCATAGAGCAT
1 TTTCACATAGAGCAT
* * *
5347278 TTTCACGTAGAACAC
1 TTTCACATAGAGCAT
* *
5347293 ATTCACATAAAGCAT
1 TTTCACATAGAGCAT
5347308 TTTCACATAGA
1 TTTCACATAGA
5347319 AGACATTCAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (15 bp):
TTTCACATAGAGCAT
Found at i:5347292 original size:30 final size:30
Alignment explanation
Indices: 5347251--5347327 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
5347241 GTCTTTTATC
* * * *
5347251 CACATAAAACACTTTCGCATAGAGCATTTT
1 CACATAGAACACATTCACATAAAGCATTTT
*
5347281 CACGTAGAACACATTCACATAAAGCATTTT
1 CACATAGAACACATTCACATAAAGCATTTT
*
5347311 CACATAGAAGACATTCA
1 CACATAGAACACATTCA
5347328 TATGTTAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.26
Consensus pattern (30 bp):
CACATAGAACACATTCACATAAAGCATTTT
Found at i:5349234 original size:29 final size:28
Alignment explanation
Indices: 5349171--5349234 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
5349161 ATGTTAAAGG
* *
5349171 GGTGAACTTAAAATTTTAAAATTTTAGA
1 GGTGAACTTAAAATTATAAAATTCTAGA
* * *
5349199 GGATGAATTTGAAATTATAAAATTCTATTA
1 GG-TGAACTTAAAATTATAAAATTCTA-GA
5349229 GGTGAA
1 GGTGAA
5349235 AATATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 2 0.07
29 24 0.83
30 3 0.10
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (28 bp):
GGTGAACTTAAAATTATAAAATTCTAGA
Found at i:5356827 original size:250 final size:250
Alignment explanation
Indices: 5356386--5356892 Score: 1014
Period size: 250 Copynumber: 2.0 Consensus size: 250
5356376 CCGTTCATCA
5356386 ATGTAATTTTCCATCAAGACACATATTATCCCTTTGGACTGGATTGTTGCAGGCCGAAAAGGCCC
1 ATGTAATTTTCCATCAAGACACATATTATCCCTTTGGACTGGATTGTTGCAGGCCGAAAAGGCCC
5356451 AGAAACTCACTGTTTATGGAGAAATGAAAAAGCTTGGAAGAGAAATCAAAGCAAATCCCATTGGA
66 AGAAACTCACTGTTTATGGAGAAATGAAAAAGCTTGGAAGAGAAATCAAAGCAAATCCCATTGGA
5356516 TAATGGAAGCTGACATGGCATATTGCCATCAAGAACCAACCTTATCTGTCCCCGTCTCCGTTCAC
131 TAATGGAAGCTGACATGGCATATTGCCATCAAGAACCAACCTTATCTGTCCCCGTCTCCGTTCAC
5356581 CATCCAACCAAATAACAATTATTACACTAAAAAAATGGATGTCCCTTGTTTCCAT
196 CATCCAACCAAATAACAATTATTACACTAAAAAAATGGATGTCCCTTGTTTCCAT
5356636 ATGTAATTTTCCATCAAGACACATATTATCCCTTTGGACTGGATTGTTGCAGGCCGAAAAGGCCC
1 ATGTAATTTTCCATCAAGACACATATTATCCCTTTGGACTGGATTGTTGCAGGCCGAAAAGGCCC
5356701 AGAAACTCACTGTTTATGGAGAAATGAAAAAGCTTGGAAGAGAAATCAAAGCAAATCCCATTGGA
66 AGAAACTCACTGTTTATGGAGAAATGAAAAAGCTTGGAAGAGAAATCAAAGCAAATCCCATTGGA
5356766 TAATGGAAGCTGACATGGCATATTGCCATCAAGAACCAACCTTATCTGTCCCCGTCTCCGTTCAC
131 TAATGGAAGCTGACATGGCATATTGCCATCAAGAACCAACCTTATCTGTCCCCGTCTCCGTTCAC
5356831 CATCCAACCAAATAACAATTATTACACTAAAAAAATGGATGTCCCTTGTTTCCAT
196 CATCCAACCAAATAACAATTATTACACTAAAAAAATGGATGTCCCTTGTTTCCAT
5356886 ATGTAAT
1 ATGTAAT
5356893 GGGGTAAGGG
Statistics
Matches: 257, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
250 257 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (250 bp):
ATGTAATTTTCCATCAAGACACATATTATCCCTTTGGACTGGATTGTTGCAGGCCGAAAAGGCCC
AGAAACTCACTGTTTATGGAGAAATGAAAAAGCTTGGAAGAGAAATCAAAGCAAATCCCATTGGA
TAATGGAAGCTGACATGGCATATTGCCATCAAGAACCAACCTTATCTGTCCCCGTCTCCGTTCAC
CATCCAACCAAATAACAATTATTACACTAAAAAAATGGATGTCCCTTGTTTCCAT
Found at i:5357498 original size:9 final size:9
Alignment explanation
Indices: 5357484--5357516 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
5357474 TAGTCAAATG
5357484 TAAAAATAA
1 TAAAAATAA
5357493 TAAAAATAA
1 TAAAAATAA
5357502 TAAAAATAAA
1 TAAAAAT-AA
5357512 TAAAA
1 TAAAA
5357517 TTTATGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
TAAAAATAA
Found at i:5357628 original size:54 final size:54
Alignment explanation
Indices: 5357569--5357676 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
5357559 GAGGTGATTA
*
5357569 TAAAGTAATATTCATGACCTAATAATCATTCATTTAATCACTGAAGTAATATTG
1 TAAAGTAATATTCATGACCTAATAATCATTCATTTAATCAATGAAGTAATATTG
5357623 TAAAGTAATATTCATGACCTAATAATCATTCATTTAATCAATGAAGTAATATTG
1 TAAAGTAATATTCATGACCTAATAATCATTCATTTAATCAATGAAGTAATATTG
5357677 ACACAAACGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (54 bp):
TAAAGTAATATTCATGACCTAATAATCATTCATTTAATCAATGAAGTAATATTG
Found at i:5364243 original size:2 final size:2
Alignment explanation
Indices: 5364236--5364284 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
5364226 TTTTATGGCT
5364236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5364278 TA TA TA T
1 TA TA TA T
5364285 TGATGGTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5365179 original size:22 final size:22
Alignment explanation
Indices: 5365153--5365222 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 22
5365143 TATCATAACA
5365153 AATTTTATTAAATCAAACCACC
1 AATTTTATTAAATCAAACCACC
*
5365175 AATTTTATTATTTAATCAAA--ACA
1 AATTTTATTA---AATCAAACCACC
5365198 AATTTTATTAAATCAAACCACC
1 AATTTTATTAAATCAAACCACC
5365220 AAT
1 AAT
5365223 ATCAACACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 7 0.17
22 15 0.37
23 12 0.29
25 7 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTTATTAAATCAAACCACC
Found at i:5365211 original size:20 final size:20
Alignment explanation
Indices: 5365144--5365214 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 20
5365134 AATAATTTTT
*
5365144 ATCATAACAAATTTTATTAA
1 ATCAAAACAAATTTTATTAA
*
5365164 ATCAAACCACCAATTTTATTATTTA
1 ATCAAA--ACAAATTTTATTA---A
5365189 ATCAAAACAAATTTTATTAA
1 ATCAAAACAAATTTTATTAA
5365209 ATCAAA
1 ATCAAA
5365215 CCACCAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
20 12 0.28
22 12 0.28
23 12 0.28
25 7 0.16
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (20 bp):
ATCAAAACAAATTTTATTAA
Found at i:5365997 original size:45 final size:46
Alignment explanation
Indices: 5365948--5366046 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 46
5365938 TTGAACATCG
* *
5365948 AATGCATTTTATGCATCGATGCA-CATACCATGCATCGATGCACC-C
1 AATGCATTTGATGCATCGATGCACCA-ACAATGCATCGATGCACCAC
*
5365993 AATGCATTTGATTCATCGATGCACCAACAATGCATCGATGCACCAAC
1 AATGCATTTGATGCATCGATGCACCAACAATGCATCGATGCACC-AC
5366040 AATGCAT
1 AATGCAT
5366047 CGATGCACTC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
45 38 0.79
46 2 0.04
47 8 0.17
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (46 bp):
AATGCATTTGATGCATCGATGCACCAACAATGCATCGATGCACCAC
Found at i:5366030 original size:19 final size:19
Alignment explanation
Indices: 5366006--5366054 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
5365996 GCATTTGATT
5366006 CATCGATGCACCAACAATG
1 CATCGATGCACCAACAATG
5366025 CATCGATGCACCAACAATG
1 CATCGATGCACCAACAATG
5366044 CATCGATGCAC
1 CATCGATGCAC
5366055 TCTGGCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.35, C:0.33, G:0.16, T:0.16
Consensus pattern (19 bp):
CATCGATGCACCAACAATG
Found at i:5374086 original size:2 final size:2
Alignment explanation
Indices: 5374079--5374125 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5374069 GCAGCTTAAG
5374079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5374121 TA TA T
1 TA TA T
5374126 CAATTGGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5384912 original size:15 final size:15
Alignment explanation
Indices: 5384892--5385129 Score: 325
Period size: 15 Copynumber: 15.5 Consensus size: 15
5384882 TAATAAGGTT
5384892 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
5384907 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
5384922 ATTTATTATAAAACA
1 ATTTATTTTAAAATA
*
5384937 ATTTATTTTAAAACA
1 ATTTATTTTAAAATA
*
5384952 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
5384967 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
5384982 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
5384997 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
5385012 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
5385027 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
5385042 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
5385057 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
5385076 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
5385094 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
5385109 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
5385123 ATTTATT
1 ATTTATT
5385130 AGTATGGATT
Statistics
Matches: 202, Mismatches: 14, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
14 12 0.06
15 170 0.84
16 4 0.02
17 2 0.01
18 1 0.00
19 1 0.00
20 2 0.01
21 4 0.02
22 6 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:5385148 original size:22 final size:22
Alignment explanation
Indices: 5385132--5385174 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
5385122 AATTTATTAG
*
5385132 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
5385154 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
5385175 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:5385150 original size:32 final size:32
Alignment explanation
Indices: 5385070--5385346 Score: 251
Period size: 32 Copynumber: 9.7 Consensus size: 32
5385060 TATTATAAAA
5385070 TATGGATTGATTTATTTTAAAATAATTTATT--
1 TATGGATTGATTTATTTT-AAATAATTTATTAG
** * *
5385101 T-TAAAATAATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5385132 TATGGATTGATTTATTTT-AA-AA--TA-T-G
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5385158 -A---ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
5385186 TAT--A--GATTTA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5385208 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
5385240 TATAGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5385262 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5385294 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
5385326 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
5385347 ATATGTATAG
Statistics
Matches: 201, Mismatches: 14, Indels: 61
0.73 0.05 0.22
Matches are distributed among these distances:
22 30 0.15
23 10 0.05
24 3 0.01
25 4 0.02
26 12 0.06
27 8 0.04
28 12 0.06
29 16 0.08
30 15 0.07
31 12 0.06
32 79 0.39
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:5385199 original size:54 final size:54
Alignment explanation
Indices: 5385109--5385314 Score: 376
Period size: 54 Copynumber: 3.8 Consensus size: 54
5385099 TTTTAAAATA
* *
5385109 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
5385163 ATTTATTTTAAATAATTTATTAGTATAGATTTATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
5385217 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
*
5385271 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAA
5385315 TAATTTATTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
Found at i:5385308 original size:18 final size:18
Alignment explanation
Indices: 5385285--5385341 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
5385275 ATTTTAAATA
5385285 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* * *
5385303 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGGATTG
5385317 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
5385335 ATTTATT
1 ATTTATT
5385342 TTAAAATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:5385351 original size:22 final size:22
Alignment explanation
Indices: 5385326--5385368 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5385316 AATTTATTAG
*
5385326 TATGGATTGATTTATTTTAAAA
1 TATGGATAGATTTATTTTAAAA
*
5385348 TATGTATAGATTTATTTTAAA
1 TATGGATAGATTTATTTTAAA
5385369 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATAGATTTATTTTAAAA
Found at i:5385377 original size:86 final size:86
Alignment explanation
Indices: 5385208--5385378 Score: 315
Period size: 86 Copynumber: 2.0 Consensus size: 86
5385198 TATTTTAAAA
*
5385208 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATAGAT
5385273 TTATTTTAAATAATTTATTAG
66 TTATTTTAAATAATTTATTAG
* *
5385294 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGTATAGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATAGAT
5385359 TTATTTTAAATAATTTATTA
66 TTATTTTAAATAATTTATTA
5385379 TTGTAGTTGT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (86 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATAGAT
TTATTTTAAATAATTTATTAG
Found at i:5385427 original size:31 final size:31
Alignment explanation
Indices: 5385392--5385451 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
5385382 TAGTTGTATG
* *
5385392 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
5385423 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
5385452 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:5387108 original size:30 final size:30
Alignment explanation
Indices: 5387074--5387135 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
5387064 GTGCATATAT
5387074 ATACTCGGGTCTTTCTAAACAGTGTCTGAA
1 ATACTCGGGTCTTTCTAAACAGTGTCTGAA
*
5387104 ATACTCGGGTCTTTCTATACAGTGTCTGAA
1 ATACTCGGGTCTTTCTAAACAGTGTCTGAA
5387134 AT
1 AT
5387136 GGGAAATGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (30 bp):
ATACTCGGGTCTTTCTAAACAGTGTCTGAA
Found at i:5389737 original size:36 final size:35
Alignment explanation
Indices: 5389695--5389764 Score: 122
Period size: 36 Copynumber: 2.0 Consensus size: 35
5389685 ATACAAAATC
5389695 TAAAATTAACTAATCATACTAATTATTTACTTTTTT
1 TAAAATTAACTAATCATACTAATTATTTA-TTTTTT
*
5389731 TAAAATTAACTAATCATATTAATTATTTATTTTT
1 TAAAATTAACTAATCATACTAATTATTTATTTTT
5389765 ATACATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 5 0.15
36 28 0.85
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (35 bp):
TAAAATTAACTAATCATACTAATTATTTATTTTTT
Found at i:5390414 original size:13 final size:13
Alignment explanation
Indices: 5390396--5390422 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5390386 AAAAAATTAT
5390396 CCCTTAGCAGCCC
1 CCCTTAGCAGCCC
5390409 CCCTTAGCAGCCC
1 CCCTTAGCAGCCC
5390422 C
1 C
5390423 TTTTTTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.56, G:0.15, T:0.15
Consensus pattern (13 bp):
CCCTTAGCAGCCC
Found at i:5395897 original size:3 final size:3
Alignment explanation
Indices: 5395891--5395937 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
5395881 TATAATAATA
* *
5395891 ATT ATT ATT AAT A-T AAT ATAT ATT ATT ATT ATT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A-TT ATT ATT
5395937 A
1 A
5395938 AATAAATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:5395904 original size:21 final size:21
Alignment explanation
Indices: 5395879--5395956 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
5395869 TTTTTTCATA
5395879 AATATAATA-ATAATTATTATT
1 AATATAATATAT-ATTATTATT
5395900 AATATAATATATATTATTATT
1 AATATAATATATATTATTATT
5395921 -AT-T-AT-TAT-TTATTATT
1 AATATAATATATATTATTATT
5395937 AA-ATAAATATATATATATTA
1 AATAT-AATATATAT-TATTA
5395957 CAAATTACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
16 8 0.16
17 5 0.10
18 2 0.04
19 3 0.06
20 5 0.10
21 19 0.39
22 7 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATAATATATATTATTATT
Done.