Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 91
Found at i:3991063 original size:33 final size:33
Alignment explanation
Indices: 3991021--3991090 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
3991011 GTGATGAAAA
3991021 TCGGGACATTTAATGTCCCGAATTTTCTGGTAT
1 TCGGGACATTTAATGTCCCGAATTTTCTGGTAT
*
3991054 TCGGGACATTTAATGTCCTGAATTTTCTGGTAT
1 TCGGGACATTTAATGTCCCGAATTTTCTGGTAT
3991087 TCGG
1 TCGG
3991091 TAGGTTTAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (33 bp):
TCGGGACATTTAATGTCCCGAATTTTCTGGTAT
Found at i:3992535 original size:21 final size:21
Alignment explanation
Indices: 3992510--3992573 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
3992500 TTCGTCCTAC
3992510 TAGGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTCCTAAAAA
* ** *
3992531 TAGGA-T-AAAAT--T-TTAC
1 TAGGATTCAAACTCCTAAAAA
3992547 TAGGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTCCTAAAAA
3992568 TAGGAT
1 TAGGAT
3992574 AGAGTTCTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 4 0.13
19 4 0.13
20 2 0.07
21 12 0.40
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.28
Consensus pattern (21 bp):
TAGGATTCAAACTCCTAAAAA
Found at i:3992557 original size:37 final size:37
Alignment explanation
Indices: 3992506--3992610 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
3992496 CATTTTCGTC
3992506 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
3992543 TTACTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
3992580 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
3992611 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:3992990 original size:2 final size:2
Alignment explanation
Indices: 3992983--3993063 Score: 59
Period size: 2 Copynumber: 43.5 Consensus size: 2
3992973 TTATTCATGC
*
3992983 TA TA TA TA TA -A T- TA TA TA TA TA TA TA TA TA TA -A T- TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
3993021 TA TT TA TT TA T- TT TA CTA TA TT TA T- TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
3993061 TA T
1 TA T
3993064 TTCTTTAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
1 7 0.11
2 53 0.85
3 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:3993063 original size:22 final size:22
Alignment explanation
Indices: 3992983--3993065 Score: 82
Period size: 22 Copynumber: 3.7 Consensus size: 22
3992973 TTATTCATGC
*
3992983 TATATATATAAT-TATATATATA
1 TATATATATAATATTTAT-TATA
3993005 TATATATATAATTATTTATT-TA
1 TATATATATAA-TATTTATTATA
* *
3993027 TTTAT-TTTACTATATTTATTATA
1 TATATATATA--ATATTTATTATA
3993050 TATATATATAATATTT
1 TATATATATAATATTT
3993066 CTTTAATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.06
22 31 0.62
23 9 0.18
24 7 0.14
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATATATAATATTTATTATA
Found at i:3993385 original size:23 final size:24
Alignment explanation
Indices: 3993355--3993417 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
3993345 TAGAGGGCCC
*
3993355 ATTTTTTTGTCTTATTTCTTAC-T
1 ATTTTTTTATCTTATTTCTTACTT
*
3993378 ATTTTTTTTTCTTA--TCTTACTT
1 ATTTTTTTATCTTATTTCTTACTT
*
3993400 ATTTATTTTATTTTATTT
1 ATTT-TTTTATCTTATTT
3993418 TCTCTTGATC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.18
22 5 0.15
23 21 0.64
25 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTTTTTATCTTATTTCTTACTT
Found at i:3997641 original size:179 final size:180
Alignment explanation
Indices: 3997341--3997681 Score: 562
Period size: 179 Copynumber: 1.9 Consensus size: 180
3997331 TCCGTAAAGC
*
3997341 TGAGCTATTCCACTAAGGTAATGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGATT
1 TGAGCTATTCCACTAAGGCAATGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGATT
** *
3997406 ATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTTTGTCAG
66 ACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCTTTTGTCAG
3997471 GCCAAAGACTTTGTGATGAGACGAA-CCTTCAGTGATTGTCCCTCTAAGA
131 GCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTGTCCCTCTAAGA
* *
3997520 TGAGCTATTCCACTGAGGCAATTGGTTATAGAGGAAACTCGAAAGCCTTGGCTTTATG-ATAGAT
1 TGAGCTATTCCACTAAGGCAA-TGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGAT
*
3997584 TACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCTTTTGTC
65 TACATTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCTTTTGTC
* *
3997648 AGGTCAAAGACTTTGTGATGAGATGAACCCTTCA
129 AGGCCAAAGACTTTGTGATGAGACGAACCCTTCA
3997682 ATTAAACCTG
Statistics
Matches: 150, Mismatches: 9, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
178 1 0.01
179 108 0.72
180 41 0.27
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (180 bp):
TGAGCTATTCCACTAAGGCAATGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGATT
ACATTCAAACTATGACACTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCTTTTGTCAG
GCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTGTCCCTCTAAGA
Found at i:3998894 original size:72 final size:75
Alignment explanation
Indices: 3998805--3998965 Score: 197
Period size: 72 Copynumber: 2.2 Consensus size: 75
3998795 ATGCAGATGA
* * ** *
3998805 TTATCTCACTCAA-ATTGTTTTTCTTAAAACATA-CTTTGTCTCACATGAGATTGTTTT-TCTCG
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACA-AGATTTGTCTCACATGAGACCGTTTTCACTCG
3998867 AAAGAA-G-AT
65 AAAGAAGGCAT
** *
3998876 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTTGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACATGAGACCGTTTTCACTCGA
3998941 AAGAAGGCAT
66 AAGAAGGCAT
3998951 TTCATTTCACTCAAG
1 TT-ATTTCACTCAAG
3998966 GCTGTTGTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
71 13 0.17
72 36 0.47
73 10 0.13
74 1 0.01
75 4 0.05
76 12 0.16
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACATGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:3998911 original size:36 final size:36
Alignment explanation
Indices: 3998805--3998913 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 36
3998795 ATGCAGATGA
*
3998805 TTATCTCACTCAA-ATTGTTTTTCTTAAAACATA-CT
1 TTATCTCACTCAAGATTGTTTTTCTTAAAACA-AGAT
* * ** *
3998840 TTGTCTCACAT-GAGATTGTTTTTCTCGAAAGAAGAT
1 TTATCTCAC-TCAAGATTGTTTTTCTTAAAACAAGAT
*
3998876 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGAT
1 TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
3998912 TT
1 TT
3998914 GTCTTGCTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
35 11 0.19
36 47 0.81
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (36 bp):
TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
Found at i:3998995 original size:76 final size:73
Alignment explanation
Indices: 3998863--3999002 Score: 176
Period size: 76 Copynumber: 1.9 Consensus size: 73
3998853 GATTGTTTTT
* *
3998863 CTCGAAAGAAGATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTTGCTTGAGAC
1 CTCGAAAGAAGATTTATTTCACTCAAGACTGTTTTTCTTAAAACAAGATTTATCTTGCTTGAGAC
3998928 CGTTTTCA
66 CGTTTTCA
* * *
3998936 CTCGAAAGAAGGCATTTCATTTCACTCAAGGCTGTTGTTTTTTAAGAA-AA-TTTTATCTTGCTT
1 CTCGAAAGAA-G-ATTT-ATTTCACTCAAGACTGTT-TTTCTTAA-AACAAGATTTATCTTGCTT
3998999 GAGA
61 GAGA
3999003 TAGTTTCCTC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
73 10 0.18
74 1 0.02
75 4 0.07
76 31 0.54
77 9 0.16
78 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (73 bp):
CTCGAAAGAAGATTTATTTCACTCAAGACTGTTTTTCTTAAAACAAGATTTATCTTGCTTGAGAC
CGTTTTCA
Found at i:3999309 original size:36 final size:36
Alignment explanation
Indices: 3999266--3999337 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
3999256 GAAAACATTT
* * *
3999266 CCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTC
*
3999302 CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTC
1 CCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTC
3999338 TCTCCAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (36 bp):
CCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTC
Found at i:3999351 original size:100 final size:101
Alignment explanation
Indices: 3999048--3999362 Score: 422
Period size: 100 Copynumber: 3.1 Consensus size: 101
3999038 GACAGTTCTC
* * * *
3999048 TTGAAAACATTTCCATTGAAATTAATTTTTTCTCTCATGAGATAGTTTCCCTCGAAACATAAAAT
1 TTGAAAACATTTCC-TTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAAC--AGAAT
* *
3999113 TTTGTCTCCCTTAAGACAATTTCTCTTGAAACATAAACA
63 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
3999152 TTGAAAACATTTCCCTTGAAATGATTTTTTTTCTCTCTTGAGATAGTTTCTCTTGAAACAGAAAA
1 TTGAAAACATTT-CCTTGAAATGA-ATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAG--AA
3999217 TTTTG--TCCCTTGAGAC-GTTTCTCTTGAAACATAAACA
62 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
3999254 TTGAAAACATTTCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-GAATTTT
1 TTGAAAACATTTCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTT
** *
3999318 GTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 GTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
3999354 TTGAAAACA
1 TTGAAAACA
3999363 ATTTAACGAA
Statistics
Matches: 189, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
97 7 0.04
99 12 0.06
100 57 0.30
101 11 0.06
102 32 0.17
103 11 0.06
104 20 0.11
105 39 0.21
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (101 bp):
TTGAAAACATTTCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTT
GTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:3999814 original size:205 final size:210
Alignment explanation
Indices: 3999458--3999896 Score: 640
Period size: 205 Copynumber: 2.1 Consensus size: 210
3999448 GAGAATAGAT
* *
3999458 TTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCACTTCACGACGAAGGGACCGCTGCT
1 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCACTCCACGACGAAGGGACCGCTGCT
3999523 TGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
66 TGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
* * *
3999588 GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TCT
131 GACAACACAAGTTCAACTTCACAACGAAGGGACCGCGGCTTGTCAACAAACAACTTCCCAATTCT
3999651 CAGAGCCAATTTCAAC
196 -AGAGCCAATTTCAAC
*
3999667 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTTC
1 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTC-ACTCCACGACGAAGGGACCGCTGC
* * * * *
3999732 TTGTCAATAA-AA-TT-TC-AT-TCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
65 TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * * **
3999792 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCGGGTTGTCAACAAACAATTTCCCGGTTC
130 AGACAACACAAGTTCAACTTCACAACGAAGGGACCGCGGCTTGTCAACAAACAACTTCCCAATTC
*
3999857 TAGAGCTAATTTCAAC
195 TAGAGCCAATTTCAAC
* *
3999873 TTCACGACGGAGGATATTGGACTC
1 TTCACAACGAAGGATATTGGACTC
3999897 GGAACAATGC
Statistics
Matches: 208, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
205 82 0.39
206 48 0.23
207 4 0.02
208 2 0.01
209 41 0.20
210 31 0.15
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (210 bp):
TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCACTCCACGACGAAGGGACCGCTGCT
TGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
GACAACACAAGTTCAACTTCACAACGAAGGGACCGCGGCTTGTCAACAAACAACTTCCCAATTCT
AGAGCCAATTTCAAC
Found at i:3999820 original size:100 final size:105
Alignment explanation
Indices: 3999458--3999896 Score: 640
Period size: 105 Copynumber: 4.2 Consensus size: 105
3999448 GAGAATAGAT
*
3999458 TTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTC-ACTTCACGACGAAGGGACCGCTGC
1 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
3999522 TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAAC
66 TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAAC
3999562 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
1 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
3999627 TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAAC
66 TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAAC
* *
3999667 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTTC
1 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
* * *
3999732 TTGTCAATAA-AA-TT-TC-AT-TCAGAGTCAATTTCAAC
66 TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAAC
* * * * * * *
3999767 TTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCGGG
1 TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
* ** *
3999832 TTGTCAACAAACAATTTCCCGGT-TCTAGAGCTAATTTCAAC
66 TTGTCAAC-AACAACTTCCCAATCTC-AGAGCCAATTTCAAC
* *
3999873 TTCACGACGGAGGATATTGGACTC
1 TTCACAACGAAGGATATTGGACTC
3999897 GGAACAATGC
Statistics
Matches: 305, Mismatches: 23, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
100 79 0.26
101 4 0.01
102 3 0.01
103 4 0.01
104 42 0.14
105 139 0.46
106 34 0.11
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
TTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC
TTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAAC
Found at i:4004902 original size:51 final size:50
Alignment explanation
Indices: 4004837--4004969 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 50
4004827 CACTCTTAGC
* * **
4004837 AGTAAAGCGCGCCCCCTGCACTGCGCTATACGATGATTTGGCGCCACGTGG
1 AGTATAGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGT-G
* * *
4004888 GGTATAGCGCGCCCCCTACACCGCGCTATACGGTGAGCTGGCGCCACGTG
1 AGTATAGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTG
* * *
4004938 AGTATAGCGCGACCCCTGCAGCGCACTATACG
1 AGTATAGCGCGCCCCCTGCACCGCGCTATACG
4004970 CCACGTAGGG
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 28 0.40
51 42 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.17
Consensus pattern (50 bp):
AGTATAGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTG
Found at i:4006492 original size:18 final size:18
Alignment explanation
Indices: 4006469--4006507 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4006459 AAGGCGATGA
4006469 CGGCATCATATATGGCTG
1 CGGCATCATATATGGCTG
4006487 CGGCATCATATATGGCTG
1 CGGCATCATATATGGCTG
4006505 CGG
1 CGG
4006508 TGGCTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (18 bp):
CGGCATCATATATGGCTG
Found at i:4008282 original size:19 final size:19
Alignment explanation
Indices: 4008258--4008296 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4008248 TCGAATGCAT
4008258 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
4008277 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
4008296 T
1 T
4008297 GAATACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:4008312 original size:65 final size:64
Alignment explanation
Indices: 4008195--4008404 Score: 201
Period size: 65 Copynumber: 3.2 Consensus size: 64
4008185 TATTCAAAGG
* ** * **
4008195 CATGCACCGATGCATCAATTCATGCATCGATGCATCGATGAAT-TAATT-AAACATCGAATGCAT
1 CATGCATCGATGCA-CAAGCCATGCATCGATGCA-CCA-GAATATCTTTCAAACATCGAATGCAT
*
4008258 TC
63 TT
* *** *
4008260 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-CTTTCAAAACATCGAATGCATT
1 CATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGAATATCTTTC-AAACATCGAATGCATT
4008324 T
64 T
* ** *
4008325 GATGCATCGATGCACAAGCCATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATCTTTCAAACATCGAATGCATTT
*
4008389 CATGCATCGATACACA
1 CATGCATCGATGCACA
4008405 CTTGGTGCAC
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
63 7 0.06
64 51 0.42
65 63 0.52
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATCTTTCAAACATCGAATGCATTT
Found at i:4014209 original size:44 final size:44
Alignment explanation
Indices: 4014153--4014254 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
4014143 TTTGTGCTTC
* * *
4014153 ATGCACCGATGCATTTAACA-ATGCATCGATGCATCCCTTTGAAT
1 ATGCATCGATGCATTCAACAGATGCACCGATGCATCCC-TTGAAT
* * *
4014197 ATGTATCGATGCA-TCACCATGATGCACCGATGCATGCCTTGAAT
1 ATGCATCGATGCATTCAACA-GATGCACCGATGCATCCCTTGAAT
4014241 ATGCATCGATGCAT
1 ATGCATCGATGCAT
4014255 AAGACCATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.08
44 29 0.60
45 15 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ATGCATCGATGCATTCAACAGATGCACCGATGCATCCCTTGAAT
Found at i:4016487 original size:19 final size:19
Alignment explanation
Indices: 4016463--4016501 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4016453 TCGAATGCAT
4016463 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
4016482 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
4016501 T
1 T
4016502 GAATACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:4016536 original size:65 final size:63
Alignment explanation
Indices: 4016400--4016528 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 63
4016390 TATTCAAAGG
4016400 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAATTAATTAAACATCGAATGCATTC
1 CATGCACCGATGCATCA-TCCATGCATCGATGCATC-ATGAATTAATTAAACATCGAATGCATTC
*
4016465 CATGCACCGATGCACTC-TCCATGCATCGATGCACTC-TGAA-TACTTTCAAAACATCGAATGCA
1 CATGCACCGATGCA-TCATCCATGCATCGATGCA-TCATGAATTA-ATT--AAACATCGAATGCA
4016527 TT
61 TT
4016529 TGATGCACAA
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
62 2 0.03
63 6 0.10
64 16 0.28
65 32 0.55
66 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (63 bp):
CATGCACCGATGCATCATCCATGCATCGATGCATCATGAATTAATTAAACATCGAATGCATTC
Found at i:4016548 original size:57 final size:56
Alignment explanation
Indices: 4016483--4016591 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
4016473 GATGCACTCT
* *
4016483 CCATGCATCGATGCACTCTGAATA-CTTTCAAAACATCGAATGCATTTGATGCACAAG
1 CCATGCATCGATGCAC-CAGAATATCTTTC-AAACATCGAATGCATTTCATGCACAAG
** *
4016540 CCATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCATTTCATGCA
1 CCATGCATCGATGCACCAGAATATCTTTCAAACATCGAATGCATTTCATGCA
4016592 TCGATCCACA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 26 0.57
57 20 0.43
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (56 bp):
CCATGCATCGATGCACCAGAATATCTTTCAAACATCGAATGCATTTCATGCACAAG
Found at i:4017593 original size:110 final size:111
Alignment explanation
Indices: 4017396--4017608 Score: 365
Period size: 110 Copynumber: 1.9 Consensus size: 111
4017386 ATTACAAAAA
* * * *
4017396 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
4017461 AATTAAAACGTTAAAATTTTACCGTATCAGCAAAGTGTCGAAATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAAATAT
*
4017507 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
4017571 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
4017609 AGAGATATAT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 63 0.66
111 33 0.34
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAAATAT
Found at i:4017996 original size:51 final size:50
Alignment explanation
Indices: 4017890--4018021 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 50
4017880 AGATATACAG
* * **
4017890 GTATAGCGCGCTGCAGGGGCCGCGCTATAC-CCACGTGGTGCCAGCTCATC
1 GTATAGCGCGGTGCAGGGG-CGCGCTATACTCCACGTGGCGCCAAATCATC
4017940 GTATAGCGCGGTGCAGTGGGCGCGCTATACTCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAG-GGGCGCGCTATACTCCACGTGGCGCCAAATCATC
*
4017991 GTATAGCGCGGTGCAGGAGGCGCGCTTTACT
1 GTATAGCGCGGTGCAGG-GGCGCGCTATACT
4018022 GCTAAGGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
50 26 0.35
51 48 0.65
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGCGCGCTATACTCCACGTGGCGCCAAATCATC
Found at i:4019671 original size:63 final size:63
Alignment explanation
Indices: 4019594--4019722 Score: 186
Period size: 63 Copynumber: 2.0 Consensus size: 63
4019584 CATCCTGCAA
* * * * *
4019594 GATAAACTCTTAAAATGGTTGCTTGAAACCAGTTGGAAGCAACTTATGTATACAAGACGGAAG
1 GATAAACTCGTAAAATGGTCGCTTGAAACAAGTAGGAAGCAACTCATGTATACAAGACGGAAG
* * *
4019657 GATAAACTCGTAAAATGGTCGCTTGAAACAAGTAGGAAGCAACTCATGTTTACAGGAGGGAAG
1 GATAAACTCGTAAAATGGTCGCTTGAAACAAGTAGGAAGCAACTCATGTATACAAGACGGAAG
4019720 GAT
1 GAT
4019723 TTACCATCAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (63 bp):
GATAAACTCGTAAAATGGTCGCTTGAAACAAGTAGGAAGCAACTCATGTATACAAGACGGAAG
Found at i:4021036 original size:41 final size:41
Alignment explanation
Indices: 4020971--4021056 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
4020961 CTTTAGCGGT
* **
4020971 GTTTGTATACAAATGCCACGAAAGTCTGAGTCTATAGCAGC
1 GTTTATATACAAATGCCACGAAAGTAAGAGTCTATAGCAGC
* * *
4021012 GTTTATATAC-AATCGCCACTAAAGTAAGAGTCTTTTGCAGC
1 GTTTATATACAAAT-GCCACGAAAGTAAGAGTCTATAGCAGC
4021053 GTTT
1 GTTT
4021057 GTTCAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 3 0.08
41 35 0.92
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (41 bp):
GTTTATATACAAATGCCACGAAAGTAAGAGTCTATAGCAGC
Found at i:4023735 original size:17 final size:17
Alignment explanation
Indices: 4023708--4023746 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4023698 AGTTTACAAT
4023708 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
4023724 TAATTATAAATAATATC
1 TAATTATAAATAATATC
4023741 TAATTA
1 TAATTA
4023747 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:4025727 original size:8 final size:8
Alignment explanation
Indices: 4025689--4025747 Score: 73
Period size: 8 Copynumber: 7.1 Consensus size: 8
4025679 TATTAAATTT
4025689 TAAAAAAA
1 TAAAAAAA
4025697 TAATAAACAA
1 TAA-AAA-AA
* *
4025707 GAAACAAA
1 TAAAAAAA
*
4025715 GAAAAAAA
1 TAAAAAAA
4025723 TAAAAAAA
1 TAAAAAAA
4025731 TAAAAAAA
1 TAAAAAAA
4025739 TAAAAAAA
1 TAAAAAAA
4025747 T
1 T
4025748 GTGAATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 36 0.80
9 5 0.11
10 4 0.09
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:4026491 original size:11 final size:11
Alignment explanation
Indices: 4026475--4026500 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4026465 TGGTCGGAGC
4026475 CCCTAAACCAT
1 CCCTAAACCAT
4026486 CCCTAAACCAT
1 CCCTAAACCAT
4026497 CCCT
1 CCCT
4026501 TTTTCCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (11 bp):
CCCTAAACCAT
Found at i:4027123 original size:21 final size:21
Alignment explanation
Indices: 4027083--4027125 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
4027073 TTTGGGCTAA
4027083 GTTTAGGGTTTATTTTATTTG
1 GTTTAGGGTTTATTTTATTTG
4027104 GTTT-GGG-TTATGTTTCATTTG
1 GTTTAGGGTTTAT-TTT-ATTTG
4027125 G
1 G
4027126 GCTCTGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.12, C:0.02, G:0.28, T:0.58
Consensus pattern (21 bp):
GTTTAGGGTTTATTTTATTTG
Found at i:4027578 original size:132 final size:132
Alignment explanation
Indices: 4027336--4027817 Score: 592
Period size: 132 Copynumber: 3.7 Consensus size: 132
4027326 AATGACAATA
* * * *
4027336 TTGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGGTGCTT-ATCTACATTCTTCTGTT
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTG-TTGATCTACCTCCTTCTGTG
* * * * * *
4027400 TTAGGATAGA-ACAAAAAAATGATACTGATCCTACTCCTTATGCGATGGATTTGAGCGAAATAAA
65 ATAGAATCGAGA-AAAAAATTGATACTGATCCAACTCCTTATACGATGGATTTGAGCGAAATAAA
*
4027464 AATT
129 AATG
* *
4027468 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATG-CATGTGTTGATCTACCTCCTTTTGTG
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTC-GGTGTTGATCTACCTCCTTCTGTG
* * *
4027532 ATACAATCGAGAAAAAAATTGATACTGATCCAACTCTTTATACGATGGATTTGAGTGAAATAAAA
65 ATAGAATCGAGAAAAAAATTGATACTGATCCAACTCCTTATACGATGGATTTGAGCGAAATAAAA
4027597 ATG
130 ATG
*** *
4027600 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGAACTGATCTACCTCCTTCTATGA
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGA
* * * * *
4027665 TAGAATCAAGCAAAAAATTGATGCTGATCCAACTCCTTATACGATGAATTTGAGCGAAATGAAAA
66 TAGAATCGAGAAAAAAATTGATACTGATCCAACTCCTTATACGATGGATTTGAGCGAAATAAAAA
*
4027730 CG
131 TG
* * * * * * *
4027732 TCGATCCATCTCCTTCTGTGATGGAATCGAACGAGATATCGGTGCTGATCTACCTCATTATGGGA
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGA
* * *
4027797 TAGAATCCAGCAAAAAGTTGA
66 TAGAATCGAGAAAAAAATTGA
4027818 ACAATCTCTT
Statistics
Matches: 304, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
131 3 0.01
132 299 0.98
133 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (132 bp):
TTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGA
TAGAATCGAGAAAAAAATTGATACTGATCCAACTCCTTATACGATGGATTTGAGCGAAATAAAAA
TG
Found at i:4027623 original size:44 final size:44
Alignment explanation
Indices: 4027425--4027629 Score: 130
Period size: 44 Copynumber: 4.7 Consensus size: 44
4027415 AAAATGATAC
* * * *
4027425 TGATCCTA-CTCCTTATGCGATGGATTTGAGCGAAATAAAAATTT
1 TGATCC-ACCTCCTTATGTGATGGAATCGAGCGAAATAAAAATGT
* * * ** **
4027469 TGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGCATGTGT
1 TGATCCACCTCCTTATGTGATGGAATCGAGCGAAATAAAAATGT
* * ** *
4027513 TGATCTACCTCCTTTTGTGATACAATCGA--GAAA-AAAATTGAT
1 TGATCCACCTCCTTATGTGATGGAATCGAGCGAAATAAAAATG-T
* * ** * * *
4027555 ACTGATCCAACTCTTTATACGATGGATTTGAGTGAAATAAAAATGT
1 --TGATCCACCTCCTTATGTGATGGAATCGAGCGAAATAAAAATGT
*
4027601 TGATCCACCTCCTTCTGTGATGGAATCGA
1 TGATCCACCTCCTTATGTGATGGAATCGA
4027630 ACGAGATGTC
Statistics
Matches: 116, Mismatches: 38, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
41 3 0.03
42 4 0.03
43 1 0.01
44 97 0.84
46 5 0.04
47 6 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
TGATCCACCTCCTTATGTGATGGAATCGAGCGAAATAAAAATGT
Found at i:4028910 original size:6 final size:6
Alignment explanation
Indices: 4028894--4028961 Score: 72
Period size: 6 Copynumber: 11.5 Consensus size: 6
4028884 GAACTTCTCA
*
4028894 TTTTC- TTTTCT TTTTCTTT TTTTCT TTTTCT TTTTCT TTTTC- TTCT-T
1 TTTTCT TTTTCT TTTTC--T TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
4028941 TTTTCT TATTTC- TTTTCT TTT
1 TTTTCT T-TTTCT TTTTCT TTT
4028962 AGGCATAGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
5 15 0.28
6 29 0.54
7 4 0.07
8 6 0.11
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:4028916 original size:19 final size:19
Alignment explanation
Indices: 4028894--4028961 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 19
4028884 GAACTTCTCA
4028894 TTTTCTTTTCTTTTTCTTT
1 TTTTCTTTTCTTTTTCTTT
4028913 TTTTCTTTTTCTTTTTCTTT
1 TTTTC-TTTTCTTTTTCTTT
* *
4028933 TTCTTCTTTT-TTCTTATTT
1 TT-TTCTTTTCTTTTTCTTT
4028952 CTTTTCTTTT
1 -TTTTCTTTT
4028962 AGGCATAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 19 0.43
20 22 0.50
21 3 0.07
ACGTcount: A:0.01, C:0.16, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTCTTT
Found at i:4035422 original size:37 final size:38
Alignment explanation
Indices: 4035349--4035425 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 38
4035339 TGACCACCGA
* *
4035349 TCCAGTTAGATTGTCCTGGAAGTAATGTATCAGAAGCT
1 TCCAGTCAGATTGTCCTGGAAGCAATGTATCAGAAGCT
4035387 TCCAGTCAGATTGTCCT-GAAGCAATGTATCAGAAGCT
1 TCCAGTCAGATTGTCCTGGAAGCAATGTATCAGAAGCT
4035424 TC
1 TC
4035426 TCATTTTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
37 21 0.57
38 16 0.43
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (38 bp):
TCCAGTCAGATTGTCCTGGAAGCAATGTATCAGAAGCT
Found at i:4038306 original size:15 final size:14
Alignment explanation
Indices: 4038286--4038384 Score: 90
Period size: 14 Copynumber: 6.9 Consensus size: 14
4038276 TCCAATCACT
4038286 GAGTCAACTCAGTCC
1 GAGTCAACTC-GTCC
*
4038301 GAGTCAACTCGATCT
1 GAGTCAACTCG-TCC
4038316 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
* * *
4038330 GAGTCAACCCATCT
1 GAGTCAACTCGTCC
* **
4038344 GAATCAACTCGATTT
1 GAGTCAACTCG-TCC
* *
4038359 GAGTTAACTCGTCT
1 GAGTCAACTCGTCC
4038373 GAGTCAACTCGT
1 GAGTCAACTCGT
4038385 TGACATTAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
14 35 0.51
15 34 0.49
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:4038337 original size:29 final size:29
Alignment explanation
Indices: 4038284--4038384 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
4038274 GATCCAATCA
4038284 CTGAGTCAACTCAGTCCGAGTCAACTCGAT
1 CTGAGTCAACTC-GTCCGAGTCAACTCGAT
*
4038314 CTGAGTCAACTCGTCCGAGTCAAC-CCAT
1 CTGAGTCAACTCGTCCGAGTCAACTCGAT
* ** *
4038342 CTGAATCAACTCGATTTGAGTTAACTCG-T
1 CTGAGTCAACTCG-TCCGAGTCAACTCGAT
4038371 CTGAGTCAACTCGT
1 CTGAGTCAACTCGT
4038385 TGACATTAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
28 16 0.26
29 33 0.53
30 13 0.21
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (29 bp):
CTGAGTCAACTCGTCCGAGTCAACTCGAT
Found at i:4038354 original size:43 final size:44
Alignment explanation
Indices: 4038286--4038380 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
4038276 TCCAATCACT
* *
4038286 GAGTCAACTCAGTCCGAGTCAACTCGATCTGAGTCAACTCGTCC
1 GAGTCAACCCAGTCCGAATCAACTCGATCTGAGTCAACTCGTCC
* * * *
4038330 GAGTCAACCCA-TCTGAATCAACTCGATTTGAGTTAACTCGTCT
1 GAGTCAACCCAGTCCGAATCAACTCGATCTGAGTCAACTCGTCC
4038373 GAGTCAAC
1 GAGTCAAC
4038381 TCGTTGACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 35 0.78
44 10 0.22
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (44 bp):
GAGTCAACCCAGTCCGAATCAACTCGATCTGAGTCAACTCGTCC
Found at i:4047109 original size:3 final size:3
Alignment explanation
Indices: 4047101--4047150 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
4047091 TAAACCATTA
4047101 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
*
4047145 AGT ATT
1 ATT ATT
4047151 TATATCTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4049526 original size:20 final size:20
Alignment explanation
Indices: 4049501--4049546 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4049491 GATCAAGGTA
4049501 GTTTATTCATGCAACATCTT
1 GTTTATTCATGCAACATCTT
*
4049521 GTTTATTCCTGCAACATCTT
1 GTTTATTCATGCAACATCTT
4049541 GTTTAT
1 GTTTAT
4049547 CCGAATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (20 bp):
GTTTATTCATGCAACATCTT
Found at i:4059366 original size:2 final size:2
Alignment explanation
Indices: 4059359--4059385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4059349 TCCCTACTTC
4059359 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4059386 CTTTAGGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4059560 original size:18 final size:18
Alignment explanation
Indices: 4059537--4059575 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4059527 CATTTAAACC
4059537 ATTAATTATTATTATTA-T
1 ATTAATTA-TATTATTAGT
4059555 ATTAATTATATTATTAGT
1 ATTAATTATATTATTAGT
4059573 ATT
1 ATT
4059576 TATATCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTAATTATATTATTAGT
Found at i:4060797 original size:5 final size:5
Alignment explanation
Indices: 4060782--4060840 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
4060772 TCAAAAGGAA
* * *
4060782 AAAATT AAAAT AAAAT AACAT AAATT AAAAA AAAAT AAAAGT --AAT AAAAT
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT
4060832 AAAAT AAAA
1 AAAAT AAAA
4060841 CCCATAATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 36 0.82
6 5 0.11
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:4060806 original size:20 final size:21
Alignment explanation
Indices: 4060783--4060840 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
4060773 CAAAAGGAAA
*
4060783 AAATTAAAATAAAATAACA-T
1 AAATTAAAATAAAATAAAAGT
*
4060803 AAATTAAAAAAAAATAAAAGT
1 AAATTAAAATAAAATAAAAGT
4060824 -AA-TAAAATAAAATAAAA
1 AAATTAAAATAAAATAAAA
4060841 CCCATAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.41
20 19 0.56
21 1 0.03
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATTAAAATAAAATAAAAGT
Found at i:4061991 original size:3 final size:3
Alignment explanation
Indices: 4061983--4062033 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
4061973 GTATATAAAG
* *
4061983 TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4062030 TAA T
1 TAA T
4062034 TTTTTTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4062608 original size:84 final size:83
Alignment explanation
Indices: 4062359--4062648 Score: 350
Period size: 84 Copynumber: 3.5 Consensus size: 83
4062349 TGGTTGATAC
* * * ** *
4062359 GCCCTCGAGCTGAATGGAATCGAACTCGAAGGT-TTGTGTTGATAGATAACCCTTCTAGCCTTGA
1 GCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG-GTTGGCAGATAGCCCTTCTAGCCTTGA
4062423 GTTATGCTGCAAATGATGT
65 GTTATGCTGCAAATGATGT
* * * * * * *
4062442 GCCCTCGAAGTTGAGTGTAATCAAACTCGAAGGTCTTTGGTTGGCATATAGCCCTTCTCGACTTA
1 GCCCTTG-AGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGGCAGATAGCCCTTCTAGCCTTG
*
4062507 AGCTATGCTGCAAATGATGT
64 AGTTATGCTGCAAATGATGT
* * * *
4062527 GCCCATTGAGCTGAGCGTAGTCGAACTCGAAGGTCTAGGTTGGCAGATAGCCCTTCTTGCCTTGA
1 GCCC-TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTAGCCTTGA
4062592 GTTATGCTGCAAATGATGT
65 GTTATGCTGCAAATGATGT
* *
4062611 GCCTTTGAGCTGAGTGTAACCGAACTCGAAGGT-TTGGT
1 GCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGT
4062649 GTTTCAAGAG
Statistics
Matches: 175, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
82 4 0.02
83 33 0.19
84 68 0.39
85 65 0.37
86 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (83 bp):
GCCCTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTAGCCTTGAG
TTATGCTGCAAATGATGT
Found at i:4062734 original size:37 final size:36
Alignment explanation
Indices: 4062684--4063075 Score: 334
Period size: 36 Copynumber: 11.1 Consensus size: 36
4062674 TTTTTTTTTG
* *
4062684 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
4062721 TGTTTCAAGAGAAACATAT-TC-A-A-AG------TT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
4062748 TGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 T-GT-TT-CAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
4062788 TGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
4062824 TGTTTCAAGAGAAACTGTCTCAAGATAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * **
4062861 AGTTCCAAAAGAAACTGTCTCAAGGGAGATTAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
4062897 TGTTTCAAG-GAAAATATATTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTGT-CTCAAGAGAGACAAAATT
* *
4062926 TGTTTGAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
4062962 TGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
4062998 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
4063034 TGTTTCAAGAGAAATTGTTTCAAGAGACTCAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
4063071 TGTTT
1 TGTTT
4063076 TGAGTAAATT
Statistics
Matches: 294, Mismatches: 35, Indels: 52
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.01
28 2 0.01
29 17 0.06
30 19 0.06
31 2 0.01
32 3 0.01
33 4 0.01
34 2 0.01
35 7 0.02
36 146 0.50
37 80 0.27
38 4 0.01
39 2 0.01
40 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:4062844 original size:73 final size:73
Alignment explanation
Indices: 4062751--4063075 Score: 373
Period size: 73 Copynumber: 4.6 Consensus size: 73
4062741 CAAAGTTTGG
*
4062751 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTTTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
4062816 ACAAAATT
66 ACAAAATT
* * * ** *
4062824 TGTTTCAAGAGAAACTGTCTCAAGATAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
**
4062889 ATTAAATT
66 ACAAAATT
* * * * *
4062897 TGTTTCAAG-GAAAATATATTC-A-A-AG-----ATTTTGTTTGAAGGGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTGT-CTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGA
4062953 GACAAAATT
65 GACAAAATT
* * * *
4062962 TGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAATTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
4063026 ACAAAATT
66 ACAAAATT
* * **
4063034 TGTTTCAAGAGAAATTGTTTCAAGAGACTCAAAACTTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
4063076 TGAGTAAATT
Statistics
Matches: 209, Mismatches: 32, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
65 41 0.20
66 7 0.03
67 1 0.00
68 2 0.01
70 2 0.01
71 1 0.00
72 72 0.34
73 83 0.40
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:4062965 original size:138 final size:138
Alignment explanation
Indices: 4062786--4063047 Score: 382
Period size: 138 Copynumber: 1.9 Consensus size: 138
4062776 GAGACAAAAC
* *
4062786 TTTGTTTCAAGGGAAACTTTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGATA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* **
4062851 GACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGATTAAATTTGTTTCAAG-GAAAATATA
66 GACAAAA-TTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAATATA
4062915 TTCAAAGAT
130 TTCAAAGAT
* * * *
4062924 TTTGTTTGAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGGAAATTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
* * ** *
4062989 GACAAAATTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
66 GACAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
4063048 TTGTTTCAAG
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 39 0.36
138 70 0.64
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (138 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
GACAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAATATAT
TCAAAGAT
Found at i:4063005 original size:21 final size:21
Alignment explanation
Indices: 4062945--4063045 Score: 91
Period size: 21 Copynumber: 5.4 Consensus size: 21
4062935 GGAAACTGTC
4062945 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
4062966 TTAAG-G-G---AAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
4062981 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
4063002 TCAAG-G-G---AAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
4063017 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
4063038 TCAAGAGA
1 TCAAGAGA
4063046 AATTGTTTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
15 17 0.27
16 8 0.13
17 2 0.03
19 2 0.03
20 8 0.13
21 25 0.40
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:4063085 original size:36 final size:36
Alignment explanation
Indices: 4062924--4063102 Score: 234
Period size: 36 Copynumber: 4.9 Consensus size: 36
4062914 ATTCAAAGAT
* *
4062924 TTTGTTTGAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
4062960 TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
*
4062996 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
* * * **
4063032 TTTGTTTCAAGAGAAATTGTTTCAAGAGACTCAAAA
1 TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
* * *
4063068 CTTTGTTTTGA-GTAAATTAGTCTCAAGCGAGACAA
1 -TTTGTTTTAAGGGAAATT-GTCTCAAGAGAGACAA
4063103 CCCTTTATTT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
36 106 0.84
37 20 0.16
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (36 bp):
TTTGTTTTAAGGGAAATTGTCTCAAGAGAGACAAAA
Found at i:4066171 original size:16 final size:17
Alignment explanation
Indices: 4066150--4066182 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4066140 AATAAAAGTC
4066150 CTACCCCACATG-ATAT
1 CTACCCCACATGCATAT
4066166 CTACCCCACATGCATAT
1 CTACCCCACATGCATAT
4066183 TATTCCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.30, C:0.39, G:0.06, T:0.24
Consensus pattern (17 bp):
CTACCCCACATGCATAT
Found at i:4066625 original size:5 final size:5
Alignment explanation
Indices: 4066599--4066681 Score: 52
Period size: 5 Copynumber: 17.6 Consensus size: 5
4066589 AAAAAATATT
* * * *
4066599 AAAT- AAATCA AAAGA AAA-A AAATA AAAT- AAATA ACATA ACATA ACAT-
1 AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
* * *
4066646 AAATT AAA-A AAAT- AAATG TAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
4066682 CCCATAATGT
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
4 22 0.34
5 40 0.62
6 3 0.05
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:4067861 original size:3 final size:3
Alignment explanation
Indices: 4067853--4067917 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
4067843 GTATATAAAT
*
4067853 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4067901 TAA T-A TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA T
4067918 TTTTTTTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4075817 original size:2 final size:2
Alignment explanation
Indices: 4075810--4075834 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4075800 CGACCTTTCT
4075810 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
4075835 TTTGATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4081183 original size:23 final size:23
Alignment explanation
Indices: 4081157--4081204 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4081147 ATTAAGTACA
*
4081157 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4081180 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
4081203 AT
1 AT
4081205 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4081621 original size:23 final size:23
Alignment explanation
Indices: 4081595--4081656 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
4081585 ATATAACCAC
4081595 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
4081618 TACCTATTACA-TATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
4081640 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4081657 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4082111 original size:39 final size:39
Alignment explanation
Indices: 4082057--4082143 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4082047 TCAAGTTGTA
*
4082057 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
4082096 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
4082135 GATTTTGAT
1 GATTTTGAT
4082144 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:4082424 original size:18 final size:18
Alignment explanation
Indices: 4082401--4082437 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4082391 CGAAATATAT
4082401 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4082419 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
4082437 A
1 A
4082438 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4082779 original size:25 final size:23
Alignment explanation
Indices: 4082731--4082779 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
4082721 TTTTTCCAAA
*
4082731 TAATGTACCCATAAATGTTCAAT
1 TAATGTACCCAAAAATGTTCAAT
*
4082754 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCA-AA-AATGTTCAAT
4082779 T
1 T
4082780 GATTTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
TAATGTACCCAAAAATGTTCAAT
Found at i:4083070 original size:21 final size:22
Alignment explanation
Indices: 4083045--4083096 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
4083035 ACACTTTACA
*
4083045 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
4083068 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
4083091 ATATAA
1 ATATAA
4083097 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:4083081 original size:23 final size:23
Alignment explanation
Indices: 4083055--4083117 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4083045 ATATAACCAC
4083055 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
4083078 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
4083101 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4083118 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4083461 original size:25 final size:25
Alignment explanation
Indices: 4083404--4083469 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
4083394 CACTCAAAAG
*
4083404 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
4083429 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
4083454 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
4083470 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:4085504 original size:199 final size:199
Alignment explanation
Indices: 4085164--4086527 Score: 2492
Period size: 199 Copynumber: 6.9 Consensus size: 199
4085154 TTTAAATTAG
4085164 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4085229 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
***
4085294 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGGA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
4085359 AAAA
196 AAAA
4085363 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
4085428 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGCTCGGTGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
4085493 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
4085558 AAAA
196 AAAA
4085562 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4085627 ATTGTGCCGGTTAGATTGAAAAATTACATATTACA-T-TACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
4085690 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
4085755 AAAA
196 AAAA
4085759 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4085824 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
4085889 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-GAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
4085953 AAAA
196 AAAA
4085957 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4086022 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
4086087 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
4086152 AAAA
196 AAAA
4086156 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4086221 ATTGTACTGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
4086285 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
4086348 AAAA
196 AAAA
*
4086352 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4086417 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
4086480 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
4086528 GGCCATATTG
Statistics
Matches: 1133, Mismatches: 25, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
196 177 0.16
197 201 0.18
198 253 0.22
199 502 0.44
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:4085898 original size:396 final size:398
Alignment explanation
Indices: 4085164--4086527 Score: 2519
Period size: 396 Copynumber: 3.4 Consensus size: 398
4085154 TTTAAATTAG
4085164 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4085229 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** ***
4085294 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGGA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
4085359 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* *
4085424 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGCTCGGTGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
4085489 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
4085554 GAAAAAAA
391 GAAAAAAA
4085562 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4085627 ATTGTGCCGGTTAGATTGAAAAATTACATATTACA-T-TACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
4085690 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
4085755 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
4085820 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
4085885 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
4085950 G-AAAAAA
391 GAAAAAAA
4085957 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4086022 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
4086087 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
4086152 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
4086217 TATAATTGTACTGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
4086281 GGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
*
4086344 AAAAAAAA
391 GAAAAAAA
*
4086352 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4086417 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
4086480 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
4086528 GGCCATATTG
Statistics
Matches: 945, Mismatches: 16, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
394 90 0.10
395 243 0.26
396 334 0.35
397 179 0.19
398 99 0.10
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
GAAAAAAA
Found at i:4086351 original size:594 final size:595
Alignment explanation
Indices: 4085164--4086527 Score: 2515
Period size: 594 Copynumber: 2.3 Consensus size: 595
4085154 TTTAAATTAG
4085164 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4085229 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
4085294 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGGA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAA
4085359 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
4085424 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGCTCGGTGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGCTCGATGATTTTG
*
4085489 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGG
*
4085554 GAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
*
4085619 CCGGTATAATTGTGCCGGTTAGATTGAAAAATTACATATTACATTACTTTTGGGTTCGATGATTT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTACTTTTGGGTTCGATGATTT
* *
4085684 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
521 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCT
4085749 GGAAAAAAAA
586 GGAAAAAAAA
4085759 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
4085824 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
4085889 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GGGAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAA
4085953 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
4086018 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGCTCGATGATTTTG
*
4086083 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGG
4086148 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
*
4086213 CCGGTATAATTGTACTGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACA-T-TACTTTTGGGTTCGATGAT
*
4086277 TTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
519 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATT
4086340 CTGGAAAAAAAA
584 CTGGAAAAAAAA
*
4086352 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
4086417 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
4086480 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
4086528 GGCCATATTG
Statistics
Matches: 750, Mismatches: 15, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
592 42 0.06
593 198 0.26
594 288 0.38
595 222 0.30
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (595 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGCTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGG
AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTACTTTTGGGTTCGATGATTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATTCT
GGAAAAAAAA
Found at i:4086689 original size:19 final size:19
Alignment explanation
Indices: 4086643--4086691 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4086633 TTATATTCAC
*
4086643 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
4086662 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
4086681 ATACAAAATTA
1 ATACAAAATTA
4086692 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:4088502 original size:32 final size:33
Alignment explanation
Indices: 4088465--4088526 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
4088455 ACCATCTTAA
*
4088465 TCACCCCTTAACACCCCAACTTC-TTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
4088497 TCACCCCTCAACACCTCTACTTCTTTCACC
1 TCACCCCTCAACACCCCAACTTCTTTCACC
4088527 TCCATCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:4088600 original size:21 final size:21
Alignment explanation
Indices: 4088560--4088601 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4088550 CCCCTTATGC
*
4088560 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTGTATCTACGACT
* *
4088581 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTGTATCTACGACT
4088602 TGATCAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTCGAGTGTATCTACGACT
Found at i:4090829 original size:17 final size:18
Alignment explanation
Indices: 4090807--4090849 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
4090797 ATATATCCGG
4090807 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
4090824 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
4090844 TATCAT
1 TATCAT
4090850 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:4090839 original size:20 final size:20
Alignment explanation
Indices: 4090812--4090858 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
4090802 TCCGGTATCA
4090812 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
4090831 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
4090852 TTTTACC
1 TTTTACC
4090859 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:4091019 original size:19 final size:18
Alignment explanation
Indices: 4090977--4091020 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
4090967 CACTTTTAAA
*
4090977 TTTACCGGTTTATCATTT
1 TTTACCGGTTTATCATAT
4090995 TGTTACCGGTTTTATCATAT
1 T-TTACCGG-TTTATCATAT
4091015 TTTACC
1 TTTACC
4091021 TGGTAATCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (18 bp):
TTTACCGGTTTATCATAT
Found at i:4094127 original size:20 final size:20
Alignment explanation
Indices: 4094102--4094140 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4094092 AGACTTGATA
4094102 AAATCACCTACGTAAGTGTG
1 AAATCACCTACGTAAGTGTG
*
4094122 AAATCACCTATGTAAGTGT
1 AAATCACCTACGTAAGTGT
4094141 CAAGTATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
AAATCACCTACGTAAGTGTG
Found at i:4098454 original size:82 final size:82
Alignment explanation
Indices: 4098359--4098529 Score: 306
Period size: 82 Copynumber: 2.1 Consensus size: 82
4098349 ATAAGTGATT
4098359 ATATTTTTTTAATAAAAAATTAAATATTATGTTCCCTACCAATATTTAATTTTGGCTCCATCCCT
1 ATATTTTTTTAATAAAAAATTAAATATTATGTTCCCTACCAATATTTAATTTTGGCTCCATCCCT
4098424 AGTAGTATATATTTAAA
66 AGTAGTATATATTTAAA
* * *
4098441 ATGTTTTTTTAATAAAAATTTCAATATTATGTTCCCTACCAATATTTAATTTTGGCTCCATCCCT
1 ATATTTTTTTAATAAAAAATTAAATATTATGTTCCCTACCAATATTTAATTTTGGCTCCATCCCT
*
4098506 AGTAGTATCTATTTAAA
66 AGTAGTATATATTTAAA
4098523 ATATTTT
1 ATATTTT
4098530 AAATCATTTC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (82 bp):
ATATTTTTTTAATAAAAAATTAAATATTATGTTCCCTACCAATATTTAATTTTGGCTCCATCCCT
AGTAGTATATATTTAAA
Found at i:4098998 original size:24 final size:23
Alignment explanation
Indices: 4098920--4098998 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
4098910 AATAAATAAT
4098920 AAAATAATAAATCAAGGGAAAGAAAG
1 AAAATAATAAA--AA-GGAAAGAAAG
*
4098946 AAAA-AGTAAAAAGGAAA-AAAG
1 AAAATAATAAAAAGGAAAGAAAG
** **
4098967 AATTTAATAAAAAATTAAAGAAAG
1 AAAATAAT-AAAAAGGAAAGAAAG
4098991 AAAATAAT
1 AAAATAAT
4098999 GAGGAAAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 6 0.14
22 7 0.17
23 10 0.24
24 10 0.24
25 5 0.12
26 4 0.10
ACGTcount: A:0.70, C:0.01, G:0.14, T:0.15
Consensus pattern (23 bp):
AAAATAATAAAAAGGAAAGAAAG
Found at i:4099036 original size:13 final size:13
Alignment explanation
Indices: 4099020--4099044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4099010 AAAAAAAGTA
4099020 TAAATCAAAAGAG
1 TAAATCAAAAGAG
4099033 TAAATCAAAAGA
1 TAAATCAAAAGA
4099045 ACAAAAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (13 bp):
TAAATCAAAAGAG
Found at i:4099066 original size:24 final size:24
Alignment explanation
Indices: 4099039--4099084 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4099029 AGAGTAAATC
*
4099039 AAAAGAACA-AAAAAAGAAAAAAG
1 AAAAAAACATAAAAAAGAAAAAAG
*
4099062 AAAAAAATATAAAAAAGAAAAAA
1 AAAAAAACATAAAAAAGAAAAAA
4099085 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.04
Consensus pattern (24 bp):
AAAAAAACATAAAAAAGAAAAAAG
Found at i:4099092 original size:9 final size:9
Alignment explanation
Indices: 4099063--4099096 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4099053 AGAAAAAAGA
4099063 AAAAAATAT
1 AAAAAATAT
*
4099072 AAAAAAGA-
1 AAAAAATAT
4099080 AAAAAATAT
1 AAAAAATAT
4099089 AAAAAATA
1 AAAAAATA
4099097 ATATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (9 bp):
AAAAAATAT
Found at i:4099092 original size:24 final size:24
Alignment explanation
Indices: 4099048--4099097 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4099038 CAAAAGAACA
*
4099048 AAAAAAGAAAAAAGAAAAAAATAT
1 AAAAAAGAAAAAAGAAAAAAAAAT
*
4099072 AAAAAAGAAAAAA-ATATAAAAAAT
1 AAAAAAGAAAAAAGA-AAAAAAAAT
4099096 AA
1 AA
4099098 TATAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (24 bp):
AAAAAAGAAAAAAGAAAAAAAAAT
Found at i:4099099 original size:3 final size:3
Alignment explanation
Indices: 4099093--4099154 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
4099083 AAATATAAAA
* *
4099093 AAT AAT -AT AAT AAT AAT AAC AA- AAT AAAT CA- AAT AGAT AAGT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AA-T AAT
4099137 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
4099155 GAAAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
2 6 0.12
3 36 0.73
4 7 0.14
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4099104 original size:17 final size:17
Alignment explanation
Indices: 4099039--4099094 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
4099029 AGAGTAAATC
* *
4099039 AAAAGAACAAAAAAAGAA
1 AAAAGAA-AAAAATATAA
4099057 AAAAGAAAAAAATATAA
1 AAAAGAAAAAAATATAA
4099074 AAAAGAAAAAAATATAA
1 AAAAGAAAAAAATATAA
4099091 AAAA
1 AAAA
4099095 TAATATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 29 0.81
18 7 0.19
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAAATATAA
Found at i:4099177 original size:17 final size:18
Alignment explanation
Indices: 4099034--4099179 Score: 77
Period size: 17 Copynumber: 7.8 Consensus size: 18
4099024 TCAAAAGAGT
4099034 AAATCAAAAGAACAAAAA-A
1 AAAT-AAAAGAA-AAAAATA
4099053 AGAA-AAAAGAAAAAAATA
1 A-AATAAAAGAAAAAAATA
*
4099071 TAA-AAAAGAAAAAAATA
1 AAATAAAAGAAAAAAATA
* * * *
4099088 TAA-AAAATAATATAATA
1 AAATAAAAGAAAAAAATA
* * *
4099105 ATAATAACA-AAATAAATC
1 A-AATAAAAGAAAAAAATA
* *
4099123 AAATAGATAAGTATAATAATA
1 AAATA-A-AAG-AAAAAAATA
4099144 ATAATAATAATGAAAAAAATA
1 A-AATAA-AA-GAAAAAAATA
4099165 AAATAAAAGAAAAAA
1 AAATAAAAGAAAAAA
4099180 GTTTAACTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 21
0.72 0.12 0.15
Matches are distributed among these distances:
17 39 0.39
18 24 0.24
19 7 0.07
20 7 0.07
21 18 0.18
22 5 0.05
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (18 bp):
AAATAAAAGAAAAAAATA
Found at i:4100266 original size:2 final size:2
Alignment explanation
Indices: 4100259--4100305 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
4100249 AAACATAAAC
4100259 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4100300 AA AT AT
1 AT AT AT
4100306 GAGAATGGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4100764 original size:36 final size:37
Alignment explanation
Indices: 4100714--4100791 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 37
4100704 CAAAGATTGG
4100714 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAACTT
* *
4100750 TGTTTC-AGGAGAAACTGTCTCAAGAGTGACAAAACTT
1 TGTTTCAAGG-GAAACTGTCTCAAAAGAGACAAAACTT
4100787 TGTTT
1 TGTTT
4100792 TGAGTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 3 0.08
36 28 0.74
37 7 0.18
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAAACTT
Found at i:4106520 original size:8 final size:8
Alignment explanation
Indices: 4106509--4106544 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
4106499 AGAAAATAGA
4106509 AAAAATAT
1 AAAAATAT
4106517 AAAAATAT
1 AAAAATAT
4106525 AAAAATAT
1 AAAAATAT
4106533 AAAAATAT
1 AAAAATAT
4106541 AAAA
1 AAAA
4106545 TAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:4106520 original size:16 final size:16
Alignment explanation
Indices: 4106501--4106577 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 16
4106491 ACAAAAAAAG
4106501 AAAATAGAAAAAATATA
1 AAAATA-AAAAAATATA
*
4106518 AAAATATAAAAATATA
1 AAAATAAAAAAATATA
4106534 AAAATATAAAATAATAATA
1 AAAATA-AAAA-AAT-ATA
* * *
4106553 ATAATATAATAATAATA
1 AAAATAAAAAAAT-ATA
*
4106570 ATAATAAA
1 AAAATAAA
4106578 TCAAATAGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
16 15 0.29
17 23 0.45
18 5 0.10
19 8 0.16
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (16 bp):
AAAATAAAAAAATATA
Found at i:4106550 original size:8 final size:8
Alignment explanation
Indices: 4106510--4106610 Score: 61
Period size: 8 Copynumber: 12.2 Consensus size: 8
4106500 GAAAATAGAA
4106510 AAAAT-AT
1 AAAATAAT
4106517 AAAA-ATAT
1 AAAATA-AT
4106525 AAAA-ATAT
1 AAAATA-AT
4106533 AAAA-ATAT
1 AAAATA-AT
4106541 AAAATAAT
1 AAAATAAT
4106549 AATAATAAT
1 AA-AATAAT
*
4106558 ATAATAAT
1 AAAATAAT
4106566 AATAATAAT
1 AA-AATAAT
4106575 -AAATCAA-
1 AAAAT-AAT
*
4106582 ATAGATAAGT
1 A-AAATAA-T
4106592 AAAATAAT
1 AAAATAAT
4106600 AATAATAAT
1 AA-AATAAT
4106609 AA
1 AA
4106611 TGGAAAATAA
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
7 7 0.09
8 41 0.52
9 30 0.38
10 1 0.01
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (8 bp):
AAAATAAT
Found at i:4106551 original size:3 final size:3
Alignment explanation
Indices: 4106539--4106611 Score: 82
Period size: 3 Copynumber: 24.7 Consensus size: 3
4106529 ATATAAAAAT
*
4106539 ATA A-A ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATAA ATC A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
4106582 ATA GATA AGTA A-A ATA ATA ATA ATA ATA AT
1 ATA -ATA A-TA ATA ATA ATA ATA ATA ATA AT
4106612 GGAAAATAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
2 7 0.11
3 45 0.74
4 9 0.15
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4108341 original size:30 final size:30
Alignment explanation
Indices: 4108302--4108372 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
4108292 AAAATCGAAT
* * **
4108302 TAAACGGGGATGAGAAAAAATTGTTTATGC
1 TAAATGGGGACGAGAAAAAACCGTTTATGC
*
4108332 TAAATGGGGACGGGAAAAAACCGTTTATGC
1 TAAATGGGGACGAGAAAAAACCGTTTATGC
4108362 TAAATGGGGAC
1 TAAATGGGGAC
4108373 AGGGATGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.23
Consensus pattern (30 bp):
TAAATGGGGACGAGAAAAAACCGTTTATGC
Found at i:4108405 original size:12 final size:12
Alignment explanation
Indices: 4108388--4108427 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
4108378 TGGGTATGGT
4108388 GATACCCGGCCC
1 GATACCCGGCCC
4108400 GATACCCGGCCC
1 GATACCCGGCCC
*
4108412 GATACCCAGCCC
1 GATACCCGGCCC
4108424 GATA
1 GATA
4108428 AATATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.45, G:0.23, T:0.10
Consensus pattern (12 bp):
GATACCCGGCCC
Found at i:4111492 original size:24 final size:24
Alignment explanation
Indices: 4111438--4111492 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
4111428 CACAAACATA
*
4111438 TTCATTCA-ACATTTATAAAAATG
1 TTCATTTATACATTTATAAAAATG
* * *
4111461 TTTATTTATACATTTATGAACATG
1 TTCATTTATACATTTATAAAAATG
*
4111485 TTCGTTTA
1 TTCATTTA
4111493 GTGTTCACGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (24 bp):
TTCATTTATACATTTATAAAAATG
Found at i:4118867 original size:33 final size:33
Alignment explanation
Indices: 4118830--4118896 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
4118820 CCGTTTCTTA
* *
4118830 GGTTCACTACTTAGTTTTCGAGAGAAACTAGGT
1 GGTTCAATACTTAGTGTTCGAGAGAAACTAGGT
*
4118863 GGTTCAATACTTAGTGTTCGAGAGGAACTAGGT
1 GGTTCAATACTTAGTGTTCGAGAGAAACTAGGT
4118896 G
1 G
4118897 AAGATCAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTCAATACTTAGTGTTCGAGAGAAACTAGGT
Found at i:4122621 original size:24 final size:24
Alignment explanation
Indices: 4122593--4122639 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4122583 GAGAACCAAG
*
4122593 ATAAACTT-AAATATACCATTAAAA
1 ATAAACTTCAAACAT-CCATTAAAA
*
4122617 ATAAAGTTCAAACATCCATTAAA
1 ATAAACTTCAAACATCCATTAAA
4122640 CCAACCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAAACTTCAAACATCCATTAAAA
Found at i:4123798 original size:11 final size:11
Alignment explanation
Indices: 4123782--4123825 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
4123772 CTTACTACAC
4123782 ATTTTTTTCTT
1 ATTTTTTTCTT
4123793 ATTTTTTTC--
1 ATTTTTTTCTT
4123802 ACTTTTTTTCTT
1 A-TTTTTTTCTT
4123814 ATTTTTTT-TT
1 ATTTTTTTCTT
4123824 AT
1 AT
4123826 GCTGCTACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.03
10 12 0.40
11 16 0.53
12 1 0.03
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (11 bp):
ATTTTTTTCTT
Found at i:4128217 original size:24 final size:24
Alignment explanation
Indices: 4128189--4128235 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4128179 GAGAACCAAG
*
4128189 ATAAA-CTTAAATATACCATTAAAA
1 ATAAAGCTTAAACAT-CCATTAAAA
*
4128213 ATAAAGTTTAAACATCCATTAAA
1 ATAAAGCTTAAACATCCATTAAA
4128236 CCAACCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
ATAAAGCTTAAACATCCATTAAAA
Found at i:4134073 original size:24 final size:23
Alignment explanation
Indices: 4134020--4134075 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
4134010 ATAGAATATG
*
4134020 TATA-AATAATAATAAGTATTAA
1 TATATAATAATAATAAGTAGTAA
* *
4134042 TATAATAATAATAATACATTAGTAC
1 TAT-ATAATAATAATA-AGTAGTAA
4134067 TATATAATA
1 TATATAATA
4134076 TAAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.11
23 1 0.04
24 16 0.57
25 8 0.29
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
TATATAATAATAATAAGTAGTAA
Found at i:4139423 original size:44 final size:44
Alignment explanation
Indices: 4139374--4139471 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
4139364 CCTCCTTCTA
4139374 TGATGGAATCGAACAAAAGGGTG-ATGTTGATTCAAC-TCTTTATG
1 TGATGGAATCGAACAAAAGGG-GAATGTTGATTCAACATC-TTATG
** * * *
4139418 TGATGGAATTTAGCAAAAGGGGAATGTTGATTCATCATCTTCTG
1 TGATGGAATCGAACAAAAGGGGAATGTTGATTCAACATCTTATG
4139462 TGATGGAATC
1 TGATGGAATC
4139472 AAATCTTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.02
44 43 0.93
45 2 0.04
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.33
Consensus pattern (44 bp):
TGATGGAATCGAACAAAAGGGGAATGTTGATTCAACATCTTATG
Found at i:4142207 original size:140 final size:141
Alignment explanation
Indices: 4141905--4142242 Score: 353
Period size: 140 Copynumber: 2.4 Consensus size: 141
4141895 CCTAAAAATG
* * ** * *
4141905 GAGGCTCTAATATTAATCCTAATTTGTTTTAACCAATTATCGAATTGAATAATCAAAACGGTCCT
1 GAGGCTCTAATATTAATCCTAATTTATTTTAACCAATTATTGAATCAAATAATCAAAACGGACCC
* * * * * * *
4141970 TCAGGCATTTTAATGCGAAAACGAAATTGAATTATTTCCTAAATTAAGGGACTAAAGTGAAAATA
66 TCAGACATTTTAACGCGAAAACGAAATCGAATTATTCCCTAAATTAAAGAACTAAAATGAAAATA
*
4142035 AGCATAAGTTG
131 AGCATAAGTTA
* * * * * * *
4142046 GAAGCTCTAATTATTGA-CCTAATTAATTTTTACCAATTGTTGAATCAAATAATCCAAATGGACC
1 GAGGCTCTAA-TATTAATCCTAATTTATTTTAACCAATTATTGAATCAAATAATCAAAACGGACC
** *
4142110 CTCAGACATTTT-ACGCGAGAGCCG-AATCGAATTATTCCCTAAATTAAAGAACTAAAATGAAAT
65 CTCAGACATTTTAACGCGA-AAACGAAATCGAATTATTCCCTAAATTAAAGAACTAAAATGAAAA
4142173 TAAGCATAAAG-TA
129 TAAGCAT-AAGTTA
* * * *
4142186 GAGGCTCTAATAATAATCCTAATTTATCTTGACCAATTATTGAGT-AGAATAATCAAA
1 GAGGCTCTAATATTAATCCTAATTTATTTTAACCAATTATTGAATCA-AATAATCAAA
4142243 CTAATCCTTG
Statistics
Matches: 159, Mismatches: 33, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
139 5 0.03
140 87 0.55
141 62 0.39
142 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (141 bp):
GAGGCTCTAATATTAATCCTAATTTATTTTAACCAATTATTGAATCAAATAATCAAAACGGACCC
TCAGACATTTTAACGCGAAAACGAAATCGAATTATTCCCTAAATTAAAGAACTAAAATGAAAATA
AGCATAAGTTA
Found at i:4142672 original size:3 final size:3
Alignment explanation
Indices: 4142664--4142693 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4142654 TTAATGACTT
*
4142664 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4142694 GGCATATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4143583 original size:18 final size:16
Alignment explanation
Indices: 4143562--4143599 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 16
4143552 AATTGTTTTT
4143562 GGTTAATGGGTTGTAATG
1 GGTTAAT-GGTT-TAATG
4143580 GGTTAATGGTTTAATG
1 GGTTAATGGTTTAATG
4143596 GGTT
1 GGTT
4143600 TAGTTTGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 4 0.20
18 7 0.35
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (16 bp):
GGTTAATGGTTTAATG
Found at i:4145351 original size:12 final size:12
Alignment explanation
Indices: 4145334--4145358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4145324 TCCTCTAAAT
4145334 CATCTATAAGAC
1 CATCTATAAGAC
4145346 CATCTATAAGAC
1 CATCTATAAGAC
4145358 C
1 C
4145359 TTTGAGCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (12 bp):
CATCTATAAGAC
Found at i:4151188 original size:2 final size:2
Alignment explanation
Indices: 4151183--4151233 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
4151173 AACAAAAAAA
4151183 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4151224 AT AT AT -T AT A
1 AT AT AT AT AT A
4151234 ATAAATAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4151251 original size:18 final size:19
Alignment explanation
Indices: 4151228--4151272 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
4151218 ATATATATAT
*
4151228 ATTATAATAA-ATAAATAA
1 ATTATAATAATAAAAATAA
4151246 ATTATAATAATAAAAATAA
1 ATTATAATAATAAAAATAA
4151265 ATATATAA
1 AT-TATAA
4151273 AACCCGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.42
19 9 0.38
20 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTATAATAATAAAAATAA
Found at i:4151931 original size:106 final size:106
Alignment explanation
Indices: 4151722--4152308 Score: 778
Period size: 106 Copynumber: 5.4 Consensus size: 106
4151712 ATTGCTCCGT
* * * * *
4151722 GTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGGAAATTGTTTGTTGACAGT
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAAATTGTTTGTTGACAGT
* * * *
4151787 TAGCCGCCCATTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGA
65 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
* *
4151829 GTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGAGACATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAGTC
*
4151894 AGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
66 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
* * * * *
4151935 GTCCAATATCCTTCACTGTGAAGTTGAAATTAGCTCTGAAATTGAGACATTGTTTATTGATAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAGTC
* *
4152000 AACCACCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
66 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
* * * *
4152041 GTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACATTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAGTC
* * *
4152106 AGCCGCTCCTTTGCTGTGAAGTTGAGCTTGTGCTTTCTTGA
66 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
* * *
4152147 CTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGCTCTGAAATTGGGAAATTTT
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-----T-TG--A----GAAATTGT
4152212 TTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
54 TTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
* *
4152265 GTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTG
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG
4152309 GGAAGCCCCT
Statistics
Matches: 428, Mismatches: 40, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
106 290 0.68
107 36 0.08
111 1 0.00
112 4 0.01
113 1 0.00
118 96 0.22
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (106 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAGTC
AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGA
Found at i:4152188 original size:12 final size:12
Alignment explanation
Indices: 4152171--4152203 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
4152161 GTTGTGAAGT
4152171 TGAAATTGGCTC
1 TGAAATTGGCTC
4152183 TGAAATTGGCTC
1 TGAAATTGGCTC
4152195 TGAAATTGG
1 TGAAATTGG
4152204 GAAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (12 bp):
TGAAATTGGCTC
Found at i:4152214 original size:118 final size:118
Alignment explanation
Indices: 4152065--4152309 Score: 436
Period size: 118 Copynumber: 2.1 Consensus size: 118
4152055 GCTGTGAAGT
* * *
4152065 TGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACATTCAGCCGCTCCTTTGCTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
* *
4152130 AGCTTGTGCTTTCTTGACTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 AGCTTGTGCTGTCTTGACTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTC
4152183 TGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
*
4152248 AGCTTGTGCTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTC
66 AGCTTGTGCTGTCTTGACTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTC
4152301 TGAAATTGG
1 TGAAATTGG
4152310 GAAGCCCCTT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (118 bp):
TGAAATTGGCTCTGAAATTGGGAAATTTTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTG
AGCTTGTGCTGTCTTGACTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTC
Found at i:4156212 original size:12 final size:12
Alignment explanation
Indices: 4156195--4156222 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4156185 TTAATTGCGA
4156195 AAATTAAAATTT
1 AAATTAAAATTT
4156207 AAATTAAAATTT
1 AAATTAAAATTT
4156219 AAAT
1 AAAT
4156223 ATATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:4158109 original size:20 final size:21
Alignment explanation
Indices: 4158064--4158110 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
4158054 ATATATATAT
4158064 TATATAATAATAATAAATAAA
1 TATATAATAATAATAAATAAA
*
4158085 T-TATAATAATAA-AAATAAG
1 TATATAATAATAATAAATAAA
4158104 TATATAA
1 TATATAA
4158111 AACCCGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 16 0.67
21 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TATATAATAATAATAAATAAA
Found at i:4158477 original size:2 final size:2
Alignment explanation
Indices: 4158470--4158503 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4158460 CAACCACTTA
4158470 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4158504 CATAACCTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4158740 original size:24 final size:24
Alignment explanation
Indices: 4158713--4158767 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
4158703 CACCCCAACT
4158713 CGTATAAATTGCACTGAAGTGCCA
1 CGTATAAATTGCACTGAAGTGCCA
4158737 CGTATAAATTGCACTGAAGTGCCA
1 CGTATAAATTGCACTGAAGTGCCA
*
4158761 CATATAA
1 CGTATAA
4158768 TGTCTTGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
CGTATAAATTGCACTGAAGTGCCA
Found at i:4158783 original size:22 final size:21
Alignment explanation
Indices: 4158758--4158804 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4158748 CACTGAAGTG
**
4158758 CCACATATAATGTCTTGAAGGA
1 CCACATA-AATGTCCCGAAGGA
*
4158780 CCACATAGATGTCCCGAAGGA
1 CCACATAAATGTCCCGAAGGA
4158801 CCAC
1 CCAC
4158805 GTAGAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
CCACATAAATGTCCCGAAGGA
Found at i:4161572 original size:27 final size:27
Alignment explanation
Indices: 4161511--4161573 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
4161501 TCAGTCATTG
* * *
4161511 AGACATCATTCCTTTCTTGGTTTTTGC
1 AGACATCGTTCCTTTCTTAGTTCTTGC
*
4161538 AGACATCGTTCCTTTCTTAGTTCTTGT
1 AGACATCGTTCCTTTCTTAGTTCTTGC
4161565 AGACATCGT
1 AGACATCGT
4161574 GACATGCCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (27 bp):
AGACATCGTTCCTTTCTTAGTTCTTGC
Found at i:4173981 original size:16 final size:16
Alignment explanation
Indices: 4173949--4173990 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4173939 AACTCTTATT
*
4173949 CTCTAAAACTCATAAA
1 CTCTAAAATTCATAAA
4173965 CTCTAAAATTC-TCAAA
1 CTCTAAAATTCAT-AAA
4173981 CTCTCAAAAT
1 CTCT-AAAAT
4173991 GGGTTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (16 bp):
CTCTAAAATTCATAAA
Found at i:4176039 original size:22 final size:22
Alignment explanation
Indices: 4176013--4176060 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4176003 TTTCCCTTTT
*
4176013 TTTTTTGAATGG-TCTCCTCTTG
1 TTTTTT-AATGGATCCCCTCTTG
*
4176035 TTTTTTAATGGATCCCCTTTTG
1 TTTTTTAATGGATCCCCTCTTG
4176057 TTTT
1 TTTT
4176061 AATCTGTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (22 bp):
TTTTTTAATGGATCCCCTCTTG
Found at i:4176149 original size:81 final size:82
Alignment explanation
Indices: 4176013--4176174 Score: 274
Period size: 81 Copynumber: 2.0 Consensus size: 82
4176003 TTTCCCTTTT
*
4176013 TTTTTTGAATGGTCTCCTCTTGTTTTTTAATGGATCCCCTTTTGTTTTAATCTGTTACATGCATA
1 TTTTTTGAATGGTCTCCTCTTGTTTTTTAATGGATCCCCTTTTGTTTGAATCTGTTACATGCATA
*
4176078 TATGGTTGAGAATGGCA
66 TATGGCTGAGAATGGCA
*
4176095 TTTTTTGAATGGTCTCCT-TT-TTTTTTAATGGATCCCCCTTTTGTTTGACTCTGTTACATGCAT
1 TTTTTTGAATGGTCTCCTCTTGTTTTTTAATGGAT-CCCCTTTTGTTTGAATCTGTTACATGCAT
4176158 ATATGGCTGAGAATGGC
65 ATATGGCTGAGAATGGC
4176175 GTGCTGCAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
80 13 0.17
81 45 0.59
82 18 0.24
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (82 bp):
TTTTTTGAATGGTCTCCTCTTGTTTTTTAATGGATCCCCTTTTGTTTGAATCTGTTACATGCATA
TATGGCTGAGAATGGCA
Found at i:4176400 original size:23 final size:23
Alignment explanation
Indices: 4176374--4176425 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
4176364 AATAACATAT
* **
4176374 TAGGTAACACTTATATAATGTAA
1 TAGGTAACACCTATATAATAAAA
* *
4176397 TAGGTAGCGCCTATATAATAAAA
1 TAGGTAACACCTATATAATAAAA
4176420 TAGGTA
1 TAGGTA
4176426 TTTAACCGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (23 bp):
TAGGTAACACCTATATAATAAAA
Found at i:4176483 original size:87 final size:87
Alignment explanation
Indices: 4176337--4176499 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
4176327 TATGTTATAT
*
4176337 TATTTAACCGTAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGGT
4176402 AGCGCCTATATAATAAAATAGG
66 AGCGCCTATATAATAAAATAGG
***
4176424 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGGT
*
4176489 AGCGCTTATAT
66 AGCGCCTATAT
4176500 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACACTTATATAATGTAATAGGT
AGCGCCTATATAATAAAATAGG
Found at i:4176867 original size:199 final size:196
Alignment explanation
Indices: 4176517--4177220 Score: 796
Period size: 199 Copynumber: 3.5 Consensus size: 196
4176507 TTTTATAAGT
* * *
4176517 AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCGA
1 AAACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
4176582 TATTTTTTGGATCGATACTTTTTATAAATGTATCGACACTATATACGTTCACCCTTTTGGGCATT
66 TGTTTTTGGGATCGATAC-TTTTA-AAATGTATCGACACTTTATACGTGCACCCGTTTGGGCATT
* *
4176647 CATTCTGGA-AAAACGTATCGACACAATATTAAAAAGTGTCGACACATTATGTAGACCTATTCTC
129 CATTCTGGACAAAA-GTATCGACACAA-ATTAAAAAGTGTCGATACATTATGTAGACCTATTTTC
4176711 ACATA
192 ACATA
* ** * * * *
4176716 AAACTGGTATAAATATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
4176781 TGTTTTTGGGATCGATACTCTTTAAAAGTGTATCGACACTTTATGA-GTGCACCCGTCT-GACAT
66 TGTTTTTGGGATCGATACT-TTTAAAA-TGTATCGACACTTTAT-ACGTGCACCCGTTTGGGCAT
* * * *
4176844 TCATTATGGACAAAATATATCGACACAAATTTAATAAGTGTCGATACTTTATG-ATGACCTATTT
128 TCATTCTGGACAAAA-GTATCGACACAAA-TTAAAAAGTGTCGATACATTATGTA-GACCTATTT
*
4176908 TCTCATA
190 TCACATA
* * *
4176915 AAACCGGTATATTTATACCGGTTATATTGTAAATTTACATATTACATTATAATTATCGGTTTTGA
1 AAACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
4176980 T-TTTATTGGAATCGATACTTTTAATAATTGTATCGACACTTTATACGTGCACCCCGTTTGGGCA
66 TGTTT-TTGGGATCGATACTTTTAA-AA-TGTATCGACACTTTATACGTGCA-CCCGTTTGGGCA
* * * * *
4177044 TTCATTCTGAACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTTGACTTGTTT
127 TTCATTCTGGACAA-AAGTATCGACACAAATTA-AAAAGTGTCGATACATTATGTAGACCTATTT
4177109 TCTA-AT-
190 TC-ACATA
* ** *
4177115 TAACCGGTATATTTATACCGGTTACT-TTGTTAATTTACCTATTACATTATAATTATTGGTTTCG
1 AAACCGGTATATTTATACCGGTTA-TATTGCAAATTTACCTATTACATTATAATTATCGGTTTCG
*
4177179 ATGGTTTTTTTGGG-TTGATACTTTTAAAAAATGTATCGACAC
65 AT-G--TTTTTGGGATCGATACTTTT--AAAATGTATCGACAC
4177221 ATGTTTAGGT
Statistics
Matches: 428, Mismatches: 55, Indels: 41
0.82 0.10 0.08
Matches are distributed among these distances:
198 28 0.07
199 240 0.56
200 69 0.16
201 57 0.13
202 23 0.05
203 6 0.01
204 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (196 bp):
AAACCGGTATATTTATACCGGTTATATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAAAATGTATCGACACTTTATACGTGCACCCGTTTGGGCATTCA
TTCTGGACAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCACAT
A
Found at i:4180754 original size:14 final size:14
Alignment explanation
Indices: 4180732--4180771 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
4180722 CTGACATAAA
*
4180732 ACCGGTATATTTAT
1 ACCGATATATTTAT
4180746 ACCGATATATTTAT
1 ACCGATATATTTAT
4180760 ACCGATTATATT
1 ACCGA-TATATT
4180772 ACAAAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (14 bp):
ACCGATATATTTAT
Found at i:4181221 original size:199 final size:198
Alignment explanation
Indices: 4180751--4181253 Score: 582
Period size: 199 Copynumber: 2.5 Consensus size: 198
4180741 TTTATACCGA
* *
4180751 TATATTTATACCGATTATATTACAAAATTACATATTACATTATAATTATAGGTTTTGATATTTTA
1 TATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTTTTGATGTTTT-
* * *
4180816 GGGATCGATACTGTTTTAAAATGTATCGACACTTTATGGGTGCAACCTTTTTGGATTTTCCTTAT
65 GGGATCGATACT-TTTTAAAATGTATCGACACTTTATGCGTGCAACCTTTTGGGA-TTTCATTAT
* * * * * * * **
4180881 GGACCAAAAGTATCGACACAATTCTAAAATGTGTCGATACATAATGTTCACCTATTTTCTCAAAA
128 GCACAAAAAGTATCGACACAATTCTAAAATGTGTCAACACATAATGTACAACTATTCTAACAAAA
*
4180946 AACCGG
193 AACCAG
* * ** * * *
4180952 TACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTGTTT
1 TATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTTTTGATGT-TTT
* * * *
4181017 GGGATCGATACTTTTTATAAATGTATTGACACTTTATGCGTTCACCCTTTTGGGCA-TTCATTCT
65 GGGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTGCAACCTTTTGGG-ATTTCATTAT
* * *
4181081 GCA-AAAAAGTATCGACACAACATTC-AAAA-GTGTCAACACATTATGTAGAACTATTCTAACAT
128 GCACAAAAAGTATCGACAC-A-ATTCTAAAATGTGTCAACACATAATGTACAACTATTCTAACAA
4181143 AAAACCAG
191 AAAACCAG
* * * * *
4181151 TATATTTATATCGGTTATATTACAAAATTACATATTACATTATATTTATTGATTTCGATGTTTCT
1 TATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTTTTGATGTTT-T
4181216 GGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
65 GGGATCGATACTTTTTAAAA-TGTATCGACACTTTATG
4181254 GGAAACTTTA
Statistics
Matches: 254, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
198 5 0.02
199 128 0.50
200 18 0.07
201 99 0.39
202 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (198 bp):
TATATTTATACCGGTTATATTACAAAATTACATATTACATTATAATTATAGGTTTTGATGTTTTG
GGATCGATACTTTTTAAAATGTATCGACACTTTATGCGTGCAACCTTTTGGGATTTCATTATGCA
CAAAAAGTATCGACACAATTCTAAAATGTGTCAACACATAATGTACAACTATTCTAACAAAAAAC
CAG
Done.