Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007770.1 Hibiscus syriacus cultivar Beakdansim tig00110050_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: 1450453
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:204284 original size:35 final size:36
Alignment explanation
Indices: 204245--204325 Score: 137
Period size: 35 Copynumber: 2.3 Consensus size: 36
204235 TTTTATATGA
204245 ATATTTTGGTGACTATTGTCTCCAA-TTTTCTCTCT
1 ATATTTTGGTGACTATTGTCTCCAATTTTTCTCTCT
* *
204280 ATATTTTGGTGGCTATTGTCTCCAATTTTTTTCTCT
1 ATATTTTGGTGACTATTGTCTCCAATTTTTCTCTCT
204316 ATATTTTGGT
1 ATATTTTGGT
204326 ACGTTATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 24 0.56
36 19 0.44
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (36 bp):
ATATTTTGGTGACTATTGTCTCCAATTTTTCTCTCT
Found at i:204674 original size:6 final size:6
Alignment explanation
Indices: 204663--205132 Score: 807
Period size: 6 Copynumber: 79.0 Consensus size: 6
204653 ATTTCGGTGC
204663 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
204711 AATATA AATATA AATAT- AATATA AATATA AATATA AATATA AATAT-
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
204757 AATATA AATATA AATATA AATATA AATAT- AA-ATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
204803 AATAT- AATATA AATATA AATAT- AATATA AATATA AATAAATA AATAT-
1 AATATA AATATA AATATA AATATA AATATA AATATA AAT--ATA AATATA
204850 AA-ATA AATATA AATATA AATAT- AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
*
204896 TATAATA TAA-ATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AAT-ATA -AATATA AATATA AATATA AATATA AATATA AATATA AATATA
204945 AATAATA TAATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AAT-ATA -AATATA AATATA AATATA AATATA AATATA AATATA AATATA
204995 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
205043 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
205091 AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA
205133 GTTAGACAAT
Statistics
Matches: 446, Mismatches: 2, Indels: 32
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.01
5 35 0.08
6 388 0.87
7 9 0.02
8 10 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:205367 original size:30 final size:30
Alignment explanation
Indices: 205331--205399 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
205321 AAAAGAATCT
205331 TTATTATAAATATAATAATAATTATTATTA
1 TTATTATAAATATAATAATAATTATTATTA
205361 TTATTATAAATATAATAATAATTATTATTA
1 TTATTATAAATATAATAATAATTATTATTA
205391 TTATTATAA
1 TTATTATAA
205400 GAATTTTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TTATTATAAATATAATAATAATTATTATTA
Found at i:205866 original size:33 final size:33
Alignment explanation
Indices: 205811--205875 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
205801 GTGCTCCATT
** *
205811 AAAAAATACACACTCATGTAGTGTGTGCAAATA
1 AAAAAATACACACTCACATAGTGTGTCCAAATA
205844 AAAAAATACACA-TGCACATAGTGTGTCCAAAT
1 AAAAAATACACACT-CACATAGTGTGTCCAAAT
205876 TCAAGTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (33 bp):
AAAAAATACACACTCACATAGTGTGTCCAAATA
Found at i:206343 original size:24 final size:23
Alignment explanation
Indices: 206234--206333 Score: 164
Period size: 23 Copynumber: 4.3 Consensus size: 23
206224 ATCTCATTCC
*
206234 TTCTACGTGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAT
206257 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
206280 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
* *
206303 TTCTATGTGGTCTTTCGGGACAAT
1 TTCTACGTGGTCCTTCGGGAC-AT
206327 TTCTACG
1 TTCTACG
206334 CGGCACTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 64 0.89
24 8 0.11
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAT
Found at i:207796 original size:19 final size:19
Alignment explanation
Indices: 207772--207837 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
207762 AAGACAAAAG
207772 ATCAATGAAAGTCAAAGCA
1 ATCAATGAAAGTCAAAGCA
*
207791 ATCAATTAAAG-C----CA
1 ATCAATGAAAGTCAAAGCA
207805 A--AATGAAAGTCAAAGCA
1 ATCAATGAAAGTCAAAGCA
* *
207822 ATCAATTAAAGCCAAA
1 ATCAATGAAAGTCAAA
207838 ATGAAAGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
12 7 0.19
13 1 0.03
14 3 0.08
17 3 0.08
18 1 0.03
19 21 0.58
ACGTcount: A:0.55, C:0.17, G:0.12, T:0.17
Consensus pattern (19 bp):
ATCAATGAAAGTCAAAGCA
Found at i:207811 original size:31 final size:31
Alignment explanation
Indices: 207775--207848 Score: 148
Period size: 31 Copynumber: 2.4 Consensus size: 31
207765 ACAAAAGATC
207775 AATGAAAGTCAAAGCAATCAATTAAAGCCAA
1 AATGAAAGTCAAAGCAATCAATTAAAGCCAA
207806 AATGAAAGTCAAAGCAATCAATTAAAGCCAA
1 AATGAAAGTCAAAGCAATCAATTAAAGCCAA
207837 AATGAAAGTCAA
1 AATGAAAGTCAA
207849 CATTCTCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.16
Consensus pattern (31 bp):
AATGAAAGTCAAAGCAATCAATTAAAGCCAA
Found at i:208593 original size:37 final size:37
Alignment explanation
Indices: 208483--208599 Score: 116
Period size: 37 Copynumber: 3.1 Consensus size: 37
208473 ACATTGCATG
*
208483 GTTTT-GAAA-ATACGTTTTTAAAAGACATATATTATATA
1 GTTTTGGAAACATA-GTTTTT-AAA-ACATATAATATATA
* * *
208521 ATTTTGAAAACAT--TTTTGAAAACATATATATTATATA
1 GTTTTGGAAACATAGTTTTTAAAACATATA-A-TATATA
*
208558 GTTTTGGAAACATAGTTTTTAAAACGTATAATATATA
1 GTTTTGGAAACATAGTTTTTAAAACATATAATATATA
208595 GTTTT
1 GTTTT
208600 TAGATTTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
35 7 0.11
36 3 0.05
37 32 0.49
38 5 0.08
39 16 0.25
40 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (37 bp):
GTTTTGGAAACATAGTTTTTAAAACATATAATATATA
Found at i:208612 original size:75 final size:75
Alignment explanation
Indices: 208533--208674 Score: 171
Period size: 75 Copynumber: 1.9 Consensus size: 75
208523 TTTGAAAACA
* ** * * *
208533 TTTTTG-AAAACATATATATTATATAGTTTT-GGAAACATAGTTTTTAAAACGTATAATATATAG
1 TTTTTGAAAAACATATA-A-TATATACTTTTAAAAAAAATA-TTTTAAAAACGTATAATATATAA
208596 TTTTTAGATTTGT
63 TTTTTAGATTTGT
* *
208609 TTTTTGAAAAACGTATAATATATACTTTTAAAAAAAATATTTTAAAAACGTATATTATATAATTT
1 TTTTTGAAAAACATATAATATATACTTTTAAAAAAAATATTTTAAAAACGTATAATATATAATTT
208674 T
66 T
208675 GAAAACACAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
75 34 0.61
76 13 0.23
77 9 0.16
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (75 bp):
TTTTTGAAAAACATATAATATATACTTTTAAAAAAAATATTTTAAAAACGTATAATATATAATTT
TTAGATTTGT
Found at i:208847 original size:23 final size:22
Alignment explanation
Indices: 208804--208858 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
208794 AACCTATATA
*
208804 ATATATTATTTTTAGTGTTTATT
1 ATATA-TATTTTTAGTATTTATT
*
208827 ATATATATTTTCTATTATTTATT
1 ATATATATTTT-TAGTATTTATT
*
208850 -TATTTATTT
1 ATATATATTT
208859 CATTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
ATATATATTTTTAGTATTTATT
Found at i:209858 original size:4 final size:4
Alignment explanation
Indices: 209849--209875 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
209839 AAAATTATCT
209849 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
209876 TTACAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:210694 original size:12 final size:10
Alignment explanation
Indices: 210651--210692 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
210641 ATTATAAAAA
210651 TATATATAAT
1 TATATATAAT
210661 TATATATAAT
1 TATATATAAT
*
210671 TATATATATT
1 TATATATAAT
210681 TATATGATAAT
1 TATAT-ATAAT
210692 T
1 T
210693 TAAAACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
TATATATAAT
Found at i:211899 original size:3 final size:3
Alignment explanation
Indices: 211865--211934 Score: 56
Period size: 3 Copynumber: 23.0 Consensus size: 3
211855 TCTATAAAAA
*
211865 TAT TTT TAT T-T TAT TA- TAT ATAT ATAT ATAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TAT TA-T TAT TAT TAT TAT
* *
211912 TTT TAT TAT T-T TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
211935 AGGCCCCGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 36 0.64
4 14 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:211925 original size:8 final size:8
Alignment explanation
Indices: 211870--211931 Score: 52
Period size: 8 Copynumber: 6.9 Consensus size: 8
211860 AAAAATATTT
211870 TTATTTTA
1 TTATTTTA
211878 TTATATATATA
1 TTAT-T-T-TA
*
211889 TATATATTA
1 T-TATTTTA
211898 TTTATTATTA
1 -TTATT-TTA
211908 TTATTTTTA
1 TTA-TTTTA
211917 TTATTTTA
1 TTATTTTA
211925 TTATTTT
1 TTATTTT
211932 TATAGGCCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
8 16 0.36
9 15 0.33
10 8 0.18
11 3 0.07
12 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTATTTTA
Found at i:212021 original size:33 final size:33
Alignment explanation
Indices: 211979--212080 Score: 143
Period size: 33 Copynumber: 3.1 Consensus size: 33
211969 TTTAAAAAAT
* *
211979 AAACCAACGTATTTAAGTCCTATTAAAACACTA
1 AAACCAACGTATTTGAGTTCTATTAAAACACTA
*
212012 AAACCAACGTATTTGAGTTCTATTAAAATACTA
1 AAACCAACGTATTTGAGTTCTATTAAAACACTA
* *
212045 AAACCGAA-GCATTTGAGTTCTATTGAAACACTA
1 AAACC-AACGTATTTGAGTTCTATTAAAACACTA
212078 AAA
1 AAA
212081 TCGAAGCATT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
33 60 0.97
34 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTTCTATTAAAACACTA
Found at i:212086 original size:33 final size:32
Alignment explanation
Indices: 211989--212096 Score: 126
Period size: 33 Copynumber: 3.2 Consensus size: 32
211979 AAACCAACGT
* * * *
211989 ATTTAAGTCCTATTAAAACACTAAAACCAACGT
1 ATTTGAGTTCTATTAAAACACTAAAACGAA-GC
*
212022 ATTTGAGTTCTATTAAAATACTAAAACCGAAGC
1 ATTTGAGTTCTATTAAAACACTAAAA-CGAAGC
*
212055 ATTTGAGTTCTATTGAAACACTAAAATCGAAGC
1 ATTTGAGTTCTATTAAAACACTAAAA-CGAAGC
212088 ATTTTGAGT
1 A-TTTGAGT
212097 CCAAGTATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
33 55 0.85
34 10 0.15
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (32 bp):
ATTTGAGTTCTATTAAAACACTAAAACGAAGC
Found at i:212505 original size:39 final size:38
Alignment explanation
Indices: 212428--212515 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
212418 TCTCCTAATT
* * *
212428 TTAATATTTTTTATTTCTTTTTTACATTGTTATATATA
1 TTAATATTTTTTATTTATTTTTTACAATATTATATATA
*
212466 -TATATATTTATTTATTTATTTTTTATTAATATTAT-TATA
1 TTA-ATATTT-TTTATTTATTTTTTA-CAATATTATATATA
212505 TTAATATTTTT
1 TTAATATTTTT
212516 ATTATTCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 2 0.05
38 8 0.19
39 24 0.57
40 8 0.19
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (38 bp):
TTAATATTTTTTATTTATTTTTTACAATATTATATATA
Found at i:216287 original size:110 final size:109
Alignment explanation
Indices: 216098--216859 Score: 1074
Period size: 110 Copynumber: 7.0 Consensus size: 109
216088 GATGGTGGTT
* *
216098 GCTCAACTTCACAGCAAAGGG-G-C-GACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
1 GCTCAACTTCACAACGAAGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* *
216160 ATTTCAACTTCAAAGCGAAGAATATTGGACTTGAGACAACACAA
66 ATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
216204 GCTCAACTTCACAACGAATGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * *
216269 AATTTCAACTTCACAGCGAATAATATTAGACTCGAGATAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* * * *
216314 GCTCGACTTCACAACGAAGGGACGACCGACTGTTAACAAGCAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAACGAAGGG-CGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
216379 AATTTTAACTTCATAGCGAAGAATATTGGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* * *
216424 GCTCAACATCACAACGAATGGGCGACTGGCTGTCAACAAACAACTTTTCAATTTCATTCAGAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
216489 AATTTCAACTTCACTGCGAATG-ATATTGGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAA-GAATATTGGACTCGAGACAACACAA
*
216534 GCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
216599 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* *
216644 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
** * * *
216709 AATTTCAACTTCGGAGTGAAGGATATTTGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* * * * *
216754 GCTCAACTTCACTACGAAAGGCTGGCTGGCTGTCAACAAACAACTTTCCAG--T--TTCAGAGTC
1 GCTCAACTTCACAACGAAGGGC-GACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * * *
216815 AATTTCAACTTCACGGCGAAGGATATT-GACCTTGAAACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGA-CTCGAGACAACACAA
216860 ATATTTGGAT
Statistics
Matches: 594, Mismatches: 52, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
105 2 0.00
106 61 0.10
107 3 0.01
108 2 0.00
109 7 0.01
110 515 0.87
111 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (109 bp):
GCTCAACTTCACAACGAAGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
ATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
Found at i:217229 original size:84 final size:83
Alignment explanation
Indices: 216966--217732 Score: 748
Period size: 84 Copynumber: 9.3 Consensus size: 83
216956 AATCATGCCC
* *
216966 ACCAAAGGCCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
217031 CAAGAAGGGTTATCTACCA
66 CGAGAAGGGTTATCT-GCA
* * * * * * * * *
217050 ATCGAAGACCATCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
* * **
217115 GCTAGAAGGGTTATCTGTG
65 TCGAGAAGGGTTATCTGCA
* * *
217134 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATAATTTGCAGTATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
*
217199 TCGAGAAAGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-CA
* *
217219 ACCAAAGACCTTCGAGTTCGA-TACGCTCAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
217283 CGAGAAGGGTTATCT---
66 CGAGAAGGGTTATCTGCA
* * * * * * * * *
217298 ACCAAAGACCCTCGAGTTTGATTACACTAAGCTTCGAGAGCACATCATTTACAGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-GCACATCATTTGCAGCATAACTTAAG
* * * **
217363 GCTAGAAGAGTTATCTGTG
65 TCGAGAAGGGTTATCTGCA
* * *
217382 ACCAAAAGACCTTCGAGTTCGACTATGTTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
* *
217447 TCAAAAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-CA
** *
217467 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATACACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
217532 CGAGAAGGGTTATGTGC-
66 CGAGAAGGGTTATCTGCA
* * * * * * * * *
217549 A--AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACGGTATAACTTAA-
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
*
217611 TGCTAGAAGGGTTATCTGTCA
65 T-CGAGAAGGGTTATCTG-CA
* * * * * * *
217632 A-CAAAGATCTTCGAGTTTGACTCCACTCAGCTCAAAGGCATCATCATTTGCAGCATAGCTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAG
* * *
217696 GCAAAAAGGGTTATCT---
65 TCGAGAAGGGTTATCTGCA
*
217712 TCCAAAGACCTTCGAGTTCGA
1 ACCAAAGACCTTCGAGTTCGA
217733 TTTCATTAAG
Statistics
Matches: 556, Mismatches: 109, Indels: 39
0.79 0.15 0.06
Matches are distributed among these distances:
79 19 0.03
80 38 0.07
81 89 0.16
82 2 0.00
83 62 0.11
84 247 0.44
85 99 0.18
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGCA
Found at i:217627 original size:249 final size:249
Alignment explanation
Indices: 216961--217732 Score: 1117
Period size: 248 Copynumber: 3.1 Consensus size: 249
216951 AAGGGAATCA
* * * *
216961 TGCCCACCAAAGGCCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* * *
217026 TAAGTCAAGAAGGGTTATCTACCAATCGAAGACCATCGAGTTCGATTACACTCAGCTTCGAGGGC
66 TAAGTCGAGAAGGGTTATCTA-CAA---AAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGC
217091 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGA
127 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGA
* * *
217156 CTACGCTCAGCTCCAAGGCATATAATTTGCAGTATAACTTAAGTCGAGAAA-GGTTATC
192 CTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTC-AAAAAGGGTTATC
*
217214 TGCCAACCAAAGACCTTCGAGTTCGA-TACGCTCAGCTCCAAGGCACATTATTTGCAGCATAGCT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* * *
217278 TAAGTCGAGAAGGGTTATCTACCAAAGACCCTCGAGTTTGATTACACTAAGCTTCGAGAGCACAT
66 TAAGTCGAGAAGGGTTATCTACAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
* *
217343 CATTTACAGCATAACTCAAGGCTAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAT
131 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
*
217408 GTTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
196 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
**
217462 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATACACATCATTTGCAGCATAGCT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* *
217527 TAAGTCGAGAAGGGTTATGTGCAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
66 TAAGTCGAGAAGGGTTATCTACAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
* * * * * * * * *
217592 CATTTACGGTATAACTTAATGCTAGAAGGGTTATCTGTCAAC-AAAGATCTTCGAGTTTGACTCC
131 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
* * * * *
217656 ACTCAGCTCAAAGGCATCATCATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATC
196 GCTCAGCTCCAAGGCAT-ATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
*
217711 T----TCCAAAGACCTTCGAGTTCGA
1 TGCCAACCAAAGACCTTCGAGTTCGA
217733 TTTCATTAAG
Statistics
Matches: 473, Mismatches: 43, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
245 20 0.04
247 4 0.01
248 203 0.43
249 165 0.35
251 2 0.00
252 56 0.12
253 23 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
TAAGTCGAGAAGGGTTATCTACAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
Found at i:218116 original size:15 final size:14
Alignment explanation
Indices: 218078--218133 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
218068 CAAAAACATT
*
218078 TTATTATATTATATA
1 TTATTATATT-TTTA
218093 TTATT-TATTTTTA
1 TTATTATATTTTTA
218106 TTATTAATATTTTTA
1 TTATT-ATATTTTTA
218121 TT-TTATTATTTTT
1 TTATTA-TATTTTT
218134 GCAGGCCCCG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 9 0.24
14 13 0.35
15 15 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTATATTTTTA
Found at i:218130 original size:20 final size:19
Alignment explanation
Indices: 218076--218130 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
218066 TACAAAAACA
*
218076 TTTTATTATATTA-TATAT
1 TTTTATTTTATTATTATAT
218094 TATTTATTTTTATTATTAATAT
1 T-TTTA-TTTTATTATT-ATAT
218116 TTTTATTTTATTATT
1 TTTTATTTTATTATT
218131 TTTGCAGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.03
19 4 0.12
20 17 0.53
21 5 0.16
22 5 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATTTTATTATTATAT
Found at i:218218 original size:33 final size:33
Alignment explanation
Indices: 218180--218250 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
218170 TTCAGAAAAT
*
218180 AAACCAACGTATTTTAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
*
218213 AAACCAACGTATTTGAGTTCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
218246 AAACC
1 AAACC
218251 GAAGCATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAACACTA
Found at i:219801 original size:4 final size:4
Alignment explanation
Indices: 219792--219818 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
219782 AAAATTATCT
219792 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
219819 TTACAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:220646 original size:12 final size:10
Alignment explanation
Indices: 220602--220644 Score: 68
Period size: 10 Copynumber: 4.1 Consensus size: 10
220592 TTAATAAAAA
220602 TATATATAAT
1 TATATATAAT
220612 TATATATAAT
1 TATATATAAT
220622 TATATATAATT
1 TATATATAA-T
220633 TATATGATAAT
1 TATAT-ATAAT
220644 T
1 T
220645 TAAAAACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 19 0.61
11 8 0.26
12 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
TATATATAAT
Found at i:221873 original size:6 final size:6
Alignment explanation
Indices: 221827--221899 Score: 51
Period size: 6 Copynumber: 11.5 Consensus size: 6
221817 TCTATAAAAA
*
221827 TATTTT TATT-T TATTAT ATATATAT ATATATATT TATTTAT TATTAT
1 TATTAT TATTAT TATTAT -TAT-TAT -TAT-TA-T TA-TTAT TATTAT
* *
221874 TATTTT TATTAT T-TTAT TATTTT TAT
1 TATTAT TATTAT TATTAT TATTAT TAT
221900 AGGCCCCGCA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
5 10 0.17
6 26 0.45
7 6 0.10
8 14 0.24
9 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TATTAT
Found at i:221883 original size:23 final size:23
Alignment explanation
Indices: 221827--221899 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
221817 TCTATAAAAA
221827 TATTTTTATTT-TATTA-TATATAT
1 TATTTTTATTTAT-TTATTAT-TAT
* *
221850 ATATATATATTTATTTATTATTAT
1 -TATTTTTATTTATTTATTATTAT
*
221874 TATTTTTA-TTATTTTATTATTTT
1 TATTTTTATTTA-TTTATTATTAT
221897 TAT
1 TAT
221900 AGGCCCCGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
22 3 0.07
23 19 0.46
24 15 0.37
25 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTTTATTTATTTATTATTAT
Found at i:221890 original size:17 final size:18
Alignment explanation
Indices: 221835--221899 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 18
221825 AATATTTTTA
221835 TTTTATTATATATATATATAT
1 TTTTATTAT-TAT-TAT-TAT
221856 ATATTTATTTATTATTATTAT
1 -T-TTTA-TTATTATTATTAT
221877 TTTTATTATT-TTATTAT
1 TTTTATTATTATTATTAT
221894 TTTTAT
1 TTTTAT
221900 AGGCCCCGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
17 13 0.32
18 5 0.12
19 4 0.10
20 1 0.02
21 3 0.07
22 4 0.10
23 7 0.17
24 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATTATTAT
Found at i:221986 original size:33 final size:33
Alignment explanation
Indices: 221944--222045 Score: 143
Period size: 33 Copynumber: 3.1 Consensus size: 33
221934 TTTAAAAAAT
* *
221944 AAACCAACGTATTTAAGTCCTATTAAAACACTA
1 AAACCAACGTATTTGAGTTCTATTAAAACACTA
*
221977 AAACCAACGTATTTGAGTTCTATTAAAATACTA
1 AAACCAACGTATTTGAGTTCTATTAAAACACTA
* *
222010 AAACCGAA-GCATTTGAGTTCTATTGAAACACTA
1 AAACC-AACGTATTTGAGTTCTATTAAAACACTA
222043 AAA
1 AAA
222046 TCGAAGCATT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
33 60 0.97
34 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTTCTATTAAAACACTA
Found at i:222051 original size:33 final size:32
Alignment explanation
Indices: 221954--222061 Score: 126
Period size: 33 Copynumber: 3.2 Consensus size: 32
221944 AAACCAACGT
* * * *
221954 ATTTAAGTCCTATTAAAACACTAAAACCAACGT
1 ATTTGAGTTCTATTAAAACACTAAAACGAA-GC
*
221987 ATTTGAGTTCTATTAAAATACTAAAACCGAAGC
1 ATTTGAGTTCTATTAAAACACTAAAA-CGAAGC
*
222020 ATTTGAGTTCTATTGAAACACTAAAATCGAAGC
1 ATTTGAGTTCTATTAAAACACTAAAA-CGAAGC
222053 ATTTTGAGT
1 A-TTTGAGT
222062 CCAAGTATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
33 55 0.85
34 10 0.15
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (32 bp):
ATTTGAGTTCTATTAAAACACTAAAACGAAGC
Found at i:226256 original size:110 final size:109
Alignment explanation
Indices: 226067--226828 Score: 1074
Period size: 110 Copynumber: 7.0 Consensus size: 109
226057 GATGGTGGTT
* *
226067 GCTCAACTTCACAGCAAAGGG-G-C-GACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
1 GCTCAACTTCACAACGAAGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* *
226129 ATTTCAACTTCAAAGCGAAGAATATTGGACTTGAGACAACACAA
66 ATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
226173 GCTCAACTTCACAACGAATGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * *
226238 AATTTCAACTTCACAGCGAATAATATTAGACTCGAGATAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* * * *
226283 GCTCGACTTCACAACGAAGGGACGACCGACTGTTAACAAGCAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAACGAAGGG-CGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
226348 AATTTTAACTTCATAGCGAAGAATATTGGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* * *
226393 GCTCAACATCACAACGAATGGGCGACTGGCTGTCAACAAACAACTTTTCAATTTCATTCAGAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
226458 AATTTCAACTTCACTGCGAATG-ATATTGGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAA-GAATATTGGACTCGAGACAACACAA
*
226503 GCTCAACTTCACAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAAAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
226568 AATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* *
226613 GCTCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAACGAA-GGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
** * * *
226678 AATTTCAACTTCGGAGTGAAGGATATTTGACTCGAGACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
* * * * *
226723 GCTCAACTTCACTACGAAAGGCTGGCTGGCTGTCAACAAACAACTTTCCAG--T--TTCAGAGTC
1 GCTCAACTTCACAACGAAGGGC-GACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* * * *
226784 AATTTCAACTTCACGGCGAAGGATATT-GACCTTGAAACAACACAA
65 AATTTCAACTTCACAGCGAAGAATATTGGA-CTCGAGACAACACAA
226829 ATATTTGGAT
Statistics
Matches: 594, Mismatches: 52, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
105 2 0.00
106 61 0.10
107 3 0.01
108 2 0.00
109 7 0.01
110 515 0.87
111 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (109 bp):
GCTCAACTTCACAACGAAGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
ATTTCAACTTCACAGCGAAGAATATTGGACTCGAGACAACACAA
Found at i:227025 original size:84 final size:83
Alignment explanation
Indices: 226937--227701 Score: 705
Period size: 84 Copynumber: 9.2 Consensus size: 83
226927 TCATGCCCAC
* *
226937 CAAAGGCCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
227002 AGAAGGGTTATCTACCAA
66 AGAAGGGTTATCTACCAA
* * * ** * * * *
227020 TCAAAGACCATCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTCAAGG
1 -CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
227085 CTAGAAGGGTTATCTGTGACC-A
64 CAAGAAGGGTTATC--T-ACCAA
* * * *
227107 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATAATTTGCAGTATAACTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
* *
227171 AGAAAGGTTATCTGCCAA
66 AGAAGGGTTATCTACCAA
* *
227189 CCAAAGACCTTCGAGTTCGA-TACGCTCAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTC
1 -CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
*
227253 GAGAAGGGTTATCTA-C--
65 AAGAAGGGTTATCTACCAA
* * * * * * * * * *
227269 CAAAGACCCTCGAGTTTGATTACACTAAGCTTCGAGAGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-GCACATCATTTGCAGCATAACTTAAGTC
* *
227334 TAGAAGAGTTATCTGTGACC-A
65 AAGAAGGGTTATC--T-ACCAA
* * *
227355 -AAAGACCTTCGAGTTCGACTATGTTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCA
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
* *
227419 AAAAGGGTTATCTGCCAA
66 AGAAGGGTTATCTACCAA
** *
227437 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATACACATCATTTGCAGCATAGCTTAAGTC
1 -CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * *
227502 GAGAAGGGTTATGT-GC-A
65 AAGAAGGGTTATCTACCAA
* * * * * * * * *
227519 -AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACGGTATAACTTAA-TG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT-
* **
227582 CTAGAAGGGTTATCTGTCAA
64 CAAGAAGGGTTATCTACCAA
* * * * * * * *
227602 CAAAGATCTTCGAGTTTGACTCCACTCAGCTCAAAGGCATCATCATTTGCAGCATAGCTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTC
* *
227667 AAAAAGGGTTATCT-TC--
65 AAGAAGGGTTATCTACCAA
227683 CAAAGACCTTCGAGTTCGA
1 CAAAGACCTTCGAGTTCGA
227702 TTTCATTAAG
Statistics
Matches: 553, Mismatches: 104, Indels: 51
0.78 0.15 0.07
Matches are distributed among these distances:
79 17 0.03
80 38 0.07
81 91 0.16
82 7 0.01
83 65 0.12
84 237 0.43
85 93 0.17
87 2 0.00
88 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
AGAAGGGTTATCTACCAA
Found at i:227596 original size:249 final size:249
Alignment explanation
Indices: 226930--227701 Score: 1108
Period size: 248 Copynumber: 3.1 Consensus size: 249
226920 AAGGGAATCA
* * * *
226930 TGCCCACCAAAGGCCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* * * *
226995 TAAGTCAAGAAGGGTTATCTACCAATCAAAGACCATCGAGTTCGATTACACTCAGCTTTGAGGGC
66 TAAGTCGAGAAGGGTTATCTA-C-A--AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGC
227060 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGA
127 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGA
* * *
227125 CTACGCTCAGCTCCAAGGCATATAATTTGCAGTATAACTTAAGTCGAGAAA-GGTTATC
192 CTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTC-AAAAAGGGTTATC
*
227183 TGCCAACCAAAGACCTTCGAGTTCGA-TACGCTCAGCTCCAAGGCACATTATTTGCAGCATAGCT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* * *
227247 TAAGTCGAGAAGGGTTATCTACCAAAGACCCTCGAGTTTGATTACACTAAGCTTCGAGAGCACAT
66 TAAGTCGAGAAGGGTTATCTACAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
* *
227312 CATTTACAGCATAACTCAAGGCTAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAT
131 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
*
227377 GTTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
196 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
**
227431 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAATACACATCATTTGCAGCATAGCT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
* *
227496 TAAGTCGAGAAGGGTTATGTGCAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
66 TAAGTCGAGAAGGGTTATCTACAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
* * * * * * * * *
227561 CATTTACGGTATAACTTAATGCTAGAAGGGTTATCTGTCAAC-AAAGATCTTCGAGTTTGACTCC
131 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
* * * * *
227625 ACTCAGCTCAAAGGCATCATCATTTGCAGCATAGCTCAAGGCAAAAAGGGTTATC
196 GCTCAGCTCCAAGGCAT-ATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
*
227680 T----TCCAAAGACCTTCGAGTTCGA
1 TGCCAACCAAAGACCTTCGAGTTCGA
227702 TTTCATTAAG
Statistics
Matches: 472, Mismatches: 44, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
245 20 0.04
247 4 0.01
248 203 0.43
249 165 0.35
251 1 0.00
252 56 0.12
253 23 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
TAAGTCGAGAAGGGTTATCTACAAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAAAAGGGTTATC
Found at i:228073 original size:24 final size:24
Alignment explanation
Indices: 228044--228102 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
228034 TTACAAAAAC
228044 ATTTTATTATATT-ATATATTTATT
1 ATTTTATTATATTAATATATTT-TT
228068 -TATTTATTATTATTAATATATTTTT
1 AT-TTTATTA-TATTAATATATTTTT
228093 ATTTTATTAT
1 ATTTTATTAT
228103 TTTTGCAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 1 0.03
24 8 0.26
25 13 0.42
26 9 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTATTATATTAATATATTTTT
Found at i:228191 original size:33 final size:33
Alignment explanation
Indices: 228153--228223 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
228143 TTCAGAAAAT
*
228153 AAACCAACGTATTTTAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
*
228186 AAACCAACGTATTTGAGTTCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
228219 AAACC
1 AAACC
228224 GAAGCATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAACACTA
Found at i:235343 original size:14 final size:15
Alignment explanation
Indices: 235307--235345 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
235297 GACCCTGCAC
235307 AAAAATAAATGAGAA
1 AAAAATAAATGAGAA
* *
235322 ATAAATAAATTA-AA
1 AAAAATAAATGAGAA
235336 AAAAATAAAT
1 AAAAATAAAT
235346 AATAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAAATAAATGAGAA
Found at i:235435 original size:40 final size:36
Alignment explanation
Indices: 235372--235537 Score: 158
Period size: 38 Copynumber: 4.5 Consensus size: 36
235362 TTTTCAAAAA
* *
235372 TATATAAATTTTTAAAATGTTTTAAAAAAACTATATAT
1 TATATATATTTTCAAAATGTTTT--AAAAACTATATAT
*
235410 TATATATATTTTCAAAATGGTTTTTAAAAATTATATAT
1 TATATATATTTTCAAAAT-G-TTTTAAAAACTATATAT
* * * ** *
235448 TATATAAATGTTTTCATAACGTTTCCAAAAGTATATAT
1 TATAT--ATATTTTCAAAATGTTTTAAAAACTATATAT
235486 TATATATATTTT-AAAATGTTTT--AAACTATATAT
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAT
235519 TATATATGTATTTTCAAAA
1 TATATA--TATTTTCAAAA
235538 ACAATTTGCA
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
33 16 0.15
35 13 0.12
36 10 0.09
38 52 0.49
39 2 0.02
40 14 0.13
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATATATTTTCAAAATGTTTTAAAAACTATATAT
Found at i:236710 original size:164 final size:164
Alignment explanation
Indices: 236125--237265 Score: 1831
Period size: 164 Copynumber: 6.9 Consensus size: 164
236115 TTATTGACAA
* * * * * * * *
236125 ATAACCTTTCTTGCCATGAGTTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
* * *
236190 CG-GGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGC
66 TGAGG-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGC
* *
236254 TGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAG
130 TGAGCGTAGTCGAACTCAAAGGTC-TTTGCTAACAG
* * * *
236290 ATAACTCTTCTAGCCTTGAGTTATGCTGTAAAT-TATGTGCCCTCGAAGCTGAGTGTAATCAAAC
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT-TATGCCCTTGAAGCTGAGTGTAATCGAAC
* * * *
236354 TCGGGGGTCTTTGGCAGATAGCCCTTCCCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAG
65 TTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCC-TTGGAG
* * *
236418 CTTAGCGTAGTCGAACTCGAAGGTCTTTTTG-TCACAG
129 CTGAGCGTAGTCGAACTCAAAGGTC--TTTGCTAACAG
* * * * *
236455 ATAACCCTTTTAGCCTTGAGTTATGCTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
* * *
236520 CGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
66 TGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
236585 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
131 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
*
236619 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGTTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
* *
236684 TAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCT
66 TGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
236749 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
131 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
236783 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
* *
236848 TAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCT
66 TGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
236913 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
131 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
236947 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
* *
237012 TGAGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCT
66 TGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
237077 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
131 GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
237111 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
*
237176 TGAGGGACTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
66 TGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
*
237241 GAGCGTAGTCGAACTCGAAGGTCTT
131 GAGCGTAGTCGAACTCAAAGGTCTT
237266 GGTGGCAGGT
Statistics
Matches: 925, Mismatches: 44, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
163 4 0.00
164 636 0.69
165 276 0.30
166 9 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (164 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
TGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCT
GAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAG
Found at i:240677 original size:19 final size:19
Alignment explanation
Indices: 240653--240698 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
240643 AGTTAATGTG
* *
240653 AATGCAGAGAAAATAATAA
1 AATGCAAAGAAAATAAAAA
240672 AATGCAAAGAAAATAAAAA
1 AATGCAAAGAAAATAAAAA
240691 AATGCAAA
1 AATGCAAA
240699 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (19 bp):
AATGCAAAGAAAATAAAAA
Found at i:243912 original size:40 final size:37
Alignment explanation
Indices: 243835--244002 Score: 139
Period size: 39 Copynumber: 4.5 Consensus size: 37
243825 GTTTTCAAAA
* * *
243835 ATATATAAATTTTTAAAATGTTTTAAAAA-AAACTATAT
1 ATATATATATTTTCAAAATGTTTTAAAAATATA-TAT-T
243873 ATTATATATATTTTCAAAATGGTTTTTAAAAATTATATATT
1 A-TATATATATTTTCAAAAT-G-TTTTAAAAA-TATATATT
* * * * * *
243914 ATATAAATGTTTTCATAACGTTTCCAAAAGTATATA-T
1 ATATATATATTTTCAAAATGTTT-TAAAAATATATATT
*
243951 -TATATATATTTT-AAAATGTTTT-AAACTATATATT
1 ATATATATATTTTCAAAATGTTTTAAAAATATATATT
*
243985 ATATATGTATTTTCAAAA
1 ATATATATATTTTCAAAA
244003 ACAATTTGCA
Statistics
Matches: 105, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
33 9 0.09
34 1 0.01
35 18 0.17
36 14 0.13
37 1 0.01
38 10 0.10
39 21 0.20
40 15 0.14
41 11 0.10
42 3 0.03
43 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (37 bp):
ATATATATATTTTCAAAATGTTTTAAAAATATATATT
Found at i:243913 original size:38 final size:36
Alignment explanation
Indices: 243836--244002 Score: 151
Period size: 38 Copynumber: 4.5 Consensus size: 36
243826 TTTTCAAAAA
* *
243836 TATATAAATTTTTAAAATGTTTTAAAAAAAACTATATAT
1 TATATATATTTTCAAAATGTTTT---AAAAACTATATAT
*
243875 TATATATATTTTCAAAATGGTTTTTAAAAATTATATAT
1 TATATATATTTTCAAAAT-G-TTTTAAAAACTATATAT
* * * ** *
243913 TATATAAATGTTTTCATAACGTTTCCAAAAGTATATAT
1 TATAT--ATATTTTCAAAATGTTTTAAAAACTATATAT
243951 TATATATATTTT-AAAATGTTTT--AAACTATATAT
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAT
243984 TATATATGTATTTTCAAAA
1 TATATA--TATTTTCAAAA
244003 ACAATTTGCA
Statistics
Matches: 107, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
33 16 0.15
35 13 0.12
36 10 0.09
38 36 0.34
39 17 0.16
40 11 0.10
41 4 0.04
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATATATTTTCAAAATGTTTTAAAAACTATATAT
Found at i:247044 original size:21 final size:21
Alignment explanation
Indices: 247014--247054 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
247004 GATTTGTTAA
* *
247014 AAATATTAATGTTTTAGGTAG
1 AAATAATAATATTTTAGGTAG
247035 AAATAATAATATTTTAGGTA
1 AAATAATAATATTTTAGGTA
247055 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (21 bp):
AAATAATAATATTTTAGGTAG
Found at i:255074 original size:78 final size:78
Alignment explanation
Indices: 254945--255099 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
254935 ATCCGAGATC
* *
254945 TGTTACGGAGTTCTGCATATTCAACTCTGCTCAAGCTTGTAATTCTTTATGGACCTAAGGCGACC
1 TGTTACGGAGTTCTGCATATTCAACTCTGCTCAAGCTTGTAATTCCTTATGGACCTAAGACGACC
255010 CTTGGGTGGGATG
66 CTTGGGTGGGATG
*
255023 TGTTACGGAGTTCTGCATTTTCAACTCTGCTCAAGCTTGTAATTCCTTATGGACCTAAGACGACC
1 TGTTACGGAGTTCTGCATATTCAACTCTGCTCAAGCTTGTAATTCCTTATGGACCTAAGACGACC
255088 CTTGGGTGGGAT
66 CTTGGGTGGGAT
255100 CCTAGGCCCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (78 bp):
TGTTACGGAGTTCTGCATATTCAACTCTGCTCAAGCTTGTAATTCCTTATGGACCTAAGACGACC
CTTGGGTGGGATG
Found at i:256792 original size:14 final size:14
Alignment explanation
Indices: 256773--256800 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
256763 TATTTTTAAG
256773 TCACTTCTCGAAAT
1 TCACTTCTCGAAAT
256787 TCACTTCTCGAAAT
1 TCACTTCTCGAAAT
256801 ATGCAAGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TCACTTCTCGAAAT
Found at i:258286 original size:20 final size:19
Alignment explanation
Indices: 258230--258286 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
258220 ATGTGAAATT
*
258230 TGTCCGAATGACCTATGTA
1 TGTCCGAAAGACCTATGTA
* * **
258249 TATCCCGAAGGATATATGTA
1 TGT-CCGAAAGACCTATGTA
258269 TGTCTCGAAAGACCTATG
1 TGTC-CGAAAGACCTATG
258287 AACCCTCAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (19 bp):
TGTCCGAAAGACCTATGTA
Found at i:258480 original size:21 final size:22
Alignment explanation
Indices: 258454--258494 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
258444 ATGTAACTTA
*
258454 TTTTCACATAGT-TCATATCAC
1 TTTTCACATAATCTCATATCAC
*
258475 TTTTCATATAATCTCATATC
1 TTTTCACATAATCTCATATC
258495 CATGTCTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTCACATAATCTCATATCAC
Found at i:261518 original size:16 final size:15
Alignment explanation
Indices: 261486--261534 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
261476 TTAAATTGTG
*
261486 TTTTTTGTATTTT-T
1 TTTTTTGTTTTTTCT
261500 TTTTTTGTCTTTTTCT
1 TTTTTTGT-TTTTTCT
*
261516 TTTTTTATATTTTTCT
1 TTTTTTGT-TTTTTCT
261532 TTT
1 TTT
261535 GATAAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 8 0.27
15 4 0.13
16 18 0.60
ACGTcount: A:0.06, C:0.06, G:0.04, T:0.84
Consensus pattern (15 bp):
TTTTTTGTTTTTTCT
Found at i:261591 original size:21 final size:22
Alignment explanation
Indices: 261566--261607 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
261556 CAATAAAAAC
*
261566 TAAAATGAAATT-AAAATGATG
1 TAAAAAGAAATTGAAAATGATG
*
261587 TAAAAAGAATTTGAAAATGAT
1 TAAAAAGAAATTGAAAATGAT
261608 CAATTCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (22 bp):
TAAAAAGAAATTGAAAATGATG
Found at i:262328 original size:51 final size:51
Alignment explanation
Indices: 262268--262370 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
262258 TACTGAACAA
** * * *
262268 AATAATAAACTAAAGTTAATGTTTTGATTATATCATAATTCTTAATAAAAT
1 AATAATAAACTAAAAATAATGTTTTAACTATATCATAATTCCTAATAAAAT
* * *
262319 AATAATAAACTAAAAATAATTTTTTAACTATATCTTAGTTCCTAATAAAAT
1 AATAATAAACTAAAAATAATGTTTTAACTATATCATAATTCCTAATAAAAT
262370 A
1 A
262371 TTAAATCTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (51 bp):
AATAATAAACTAAAAATAATGTTTTAACTATATCATAATTCCTAATAAAAT
Found at i:265197 original size:65 final size:66
Alignment explanation
Indices: 265080--265208 Score: 208
Period size: 65 Copynumber: 2.0 Consensus size: 66
265070 TCTTATTTTA
* *
265080 ATGATTATATGGAAATGTTCTTATTATACATTTTAATTCATGATTGTTGTTATAAACTTTATTAC
1 ATGATTATATGGAAATGTTCTTATTATACATTTTAATTCATGATTGTGGTTATAAACTTCATTAC
265145 G
66 G
*
265146 ATGATTATA-GGAAAATGTTCTTATTATA-ATTTTAGTTCATGATTGTGGTTATAAACTTCATTA
1 ATGATTATATGG-AAATGTTCTTATTATACATTTTAATTCATGATTGTGGTTATAAACTTCATTA
265209 TGTTTCGAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
65 34 0.58
66 25 0.42
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (66 bp):
ATGATTATATGGAAATGTTCTTATTATACATTTTAATTCATGATTGTGGTTATAAACTTCATTAC
G
Found at i:269404 original size:21 final size:21
Alignment explanation
Indices: 269380--269424 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
269370 CGGCGGTGGT
* *
269380 ATCTGACCTGGCTACTATGGC
1 ATCTGACATGGCTACGATGGC
* *
269401 ATCTGATATGGCTACGGTGGC
1 ATCTGACATGGCTACGATGGC
269422 ATC
1 ATC
269425 AGATATGGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (21 bp):
ATCTGACATGGCTACGATGGC
Found at i:269429 original size:21 final size:21
Alignment explanation
Indices: 269388--269432 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
269378 GTATCTGACC
* *
269388 TGGCTACTATGGCATCTGATA
1 TGGCTACGATGGCATCAGATA
*
269409 TGGCTACGGTGGCATCAGATA
1 TGGCTACGATGGCATCAGATA
269430 TGG
1 TGG
269433 AAGTGGTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (21 bp):
TGGCTACGATGGCATCAGATA
Found at i:272124 original size:35 final size:35
Alignment explanation
Indices: 272058--272132 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
272048 AAAATACTTT
* *
272058 AATTTAGGGTTTATAATATAATTAAAGTATTTTAG
1 AATTTAGGGTTTAGAATATAATTAAACTATTTTAG
* * * * *
272093 AATTTGGGGTTTAGAATGTAATTGACCTATTTTGG
1 AATTTAGGGTTTAGAATATAATTAAACTATTTTAG
272128 AATTT
1 AATTT
272133 TGAACATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAATTAAACTATTTTAG
Found at i:278234 original size:28 final size:26
Alignment explanation
Indices: 278203--278262 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
278193 TAAACCTTTT
* * *
278203 TATATTTTTAATTTTGTAAAAGAAATTA
1 TATAATTTAAATTTT-TAAA-GAAAATA
278231 TATAAATTTAAATTTTTAAAGAAAATA
1 TAT-AATTTAAATTTTTAAAGAAAATA
278258 TATAA
1 TATAA
278263 ATATTTTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.07
27 9 0.32
28 7 0.25
29 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (26 bp):
TATAATTTAAATTTTTAAAGAAAATA
Found at i:282708 original size:52 final size:52
Alignment explanation
Indices: 282606--282780 Score: 239
Period size: 51 Copynumber: 3.4 Consensus size: 52
282596 TTACACTAGC
* * *
282606 GTAAGTATGTGTTAAATGTTACAC-TTTTTTATTTTATTTACTTACACCGGT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTTATTTTATTCACTTACACCGGT
282657 GTAAGTATGTGTTAAGTGCTACACTTTTTTTATTTTATTCACTTACACCGGT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTTATTTTATTCACTTACACCGGT
* * * *
282709 GT-AGTATGTGTTAAGAGCTACA-TTTGTTTATTTTTATTCACTTACATCAGT
1 GTAAGTATGTGTTAAGTGCTACACTTTTTTTA-TTTTATTCACTTACACCGGT
* *
282760 TTAAGTATGTTTTAAGTGCTA
1 GTAAGTATGTGTTAAGTGCTA
282781 TATTTTTGTA
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
50 7 0.06
51 60 0.54
52 44 0.40
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (52 bp):
GTAAGTATGTGTTAAGTGCTACACTTTTTTTATTTTATTCACTTACACCGGT
Found at i:282966 original size:25 final size:25
Alignment explanation
Indices: 282932--282983 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
282922 TGTTATAACA
282932 GTTAAACGACCGGTTAGGCTAAACG
1 GTTAAACGACCGGTTAGGCTAAACG
* * *
282957 GTTAAACGACCGTTTAGGTTAAGCG
1 GTTAAACGACCGGTTAGGCTAAACG
282982 GT
1 GT
282984 ACAGTTAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (25 bp):
GTTAAACGACCGGTTAGGCTAAACG
Found at i:289534 original size:22 final size:22
Alignment explanation
Indices: 289506--289556 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
289496 TCACTCTCTA
*
289506 CGACGACATCCGTCCCCATCTC
1 CGACGACATCCGTCCCCATATC
*
289528 CGGCGACATCCGTCCCCATATC
1 CGACGACATCCGTCCCCATATC
289550 CGACGAC
1 CGACGAC
289557 CCCCTCTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.47, G:0.18, T:0.16
Consensus pattern (22 bp):
CGACGACATCCGTCCCCATATC
Found at i:289980 original size:20 final size:20
Alignment explanation
Indices: 289922--289972 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
289912 CGTTGCGATT
289922 TTCATTTTCGTATTGCGAAG
1 TTCATTTTCGTATTGCGAAG
289942 TTCATTTTCGTATTGCGAAG
1 TTCATTTTCGTATTGCGAAG
289962 TTCATTTTCGT
1 TTCATTTTCGT
289973 GTTTCGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (20 bp):
TTCATTTTCGTATTGCGAAG
Found at i:291088 original size:477 final size:481
Alignment explanation
Indices: 290191--291148 Score: 1825
Period size: 477 Copynumber: 2.0 Consensus size: 481
290181 TTCTGGAATG
290191 TTATCTGATGCATTTTGTGAATTATGATAGAATAATGACTTGGGTGAATATAGTGCTAGTTTGAA
1 TTATCTGATGCATTTTGTGAATTATGATAGAATAATGACTTGGGTGAATATAGTGCTAGTTTGAA
290256 ACATATTTGGCTATATTTTCCCTGTTTAATATCATGTCTATTTATAGTGTATAATTTGTAGTTTT
66 ACATATTTGGCTATATTTTCCCTGTTTAATATCATGTCTATTTATAGTGTATAATTTGTAGTTTT
290321 TAATATATCTAACTTGGTATGTTTATTGTTTTTGTTAGGAATTTTTTTTCAGCTTCATTGACTTT
131 TAATATATCTAACTTGGTATGTTTATTGTTTTTGTTAGGAATTTTTTTTCAGCTTCATTGACTTT
*
290386 AAGGAATAAATTAAGCCTAGCCACTACAATTGCGTCGACACTTACACCTATACAAAGAAATTTGT
196 AAGGAATAAATTAAGCATAGCCACTACAATTGCGTCGACACTTACACCTATACAAAGAAATTTGT
290451 TTGAGAAAACTTGTTTCGGGCCATGGATGAAAGTACAACATCCAGGTGGAGATGCTATGTTGACC
261 TTGAGAAAACTTGTTTCGGGCCATGGATGAAAGTACAACATCCAGGTGGAGATGCTATGTTGACC
*
290516 CATTTGGTTCTTCAGACCATGACTAACGATCTACCCGAGAGGATACAACGTGGTGATGAAGAGAC
326 CATTTGGTTCTTCAGACCATGACTAACGATCTACCCGAGAGGATACAACGTGGTGAGGAAGAGAC
290581 ATTGTTTCATTTTCCACCGGCGTATACTTGTTTTGGGCGGGAGGAGTTTTGCTTAATCATTGGTC
391 ATTGTTTCATTTTCCACCGGCGTATACTTGTTTTGGGCGGGAGGAGTTTTGCTTAATCATTGGTC
290646 TACG-TTCGGACGACACGATGAAGTA
456 TACGTTTCGGACGACACGATGAAGTA
290671 TTATCTGATGCATTTTGTGAATTATGATAGAATAATGACTTGGGTGAATATAGTGCTAGTTTGAA
1 TTATCTGATGCATTTTGTGAATTATGATAGAATAATGACTTGGGTGAATATAGTGCTAGTTTGAA
290736 ACATATTTGG-T-TATTTTCCCTGTTTAATATCATGTCTATTTATAGTGTATAATTTGTAGTTTT
66 ACATATTTGGCTATATTTTCCCTGTTTAATATCATGTCTATTTATAGTGTATAATTTGTAGTTTT
* *
290799 TAATATATCTAACTTGTTATGTTTATTGTTTTTGTTAGGAA-TTTTTTTCGGCTTCATTGACTTT
131 TAATATATCTAACTTGGTATGTTTATTGTTTTTGTTAGGAATTTTTTTTCAGCTTCATTGACTTT
*
290863 AAGGAATAAATTAAGCATGGCCACTACAATTGCGTCGACACTTACACCTATACAAAGAAATTTGT
196 AAGGAATAAATTAAGCATAGCCACTACAATTGCGTCGACACTTACACCTATACAAAGAAATTTGT
290928 TTGAGAAAACTTGTTTCGGGCCATGGATGAAAGTACAACATCCAGGTGGAGATGCTATGTTGACC
261 TTGAGAAAACTTGTTTCGGGCCATGGATGAAAGTACAACATCCAGGTGGAGATGCTATGTTGACC
* *
290993 CATTTGTTTCTTCAGACCATGACTAACGATCTACCCGAGAGGATACAACGTGGTGAGGAAGAGAT
326 CATTTGGTTCTTCAGACCATGACTAACGATCTACCCGAGAGGATACAACGTGGTGAGGAAGAGAC
291058 ATTGTTTCATTTTCCACCGGCGTATACTTGTTTTGGGCGGGAGGAGTTTTGCTTAATCATTGGTC
391 ATTGTTTCATTTTCCACCGGCGTATACTTGTTTTGGGCGGGAGGAGTTTTGCTTAATCATTGGTC
291123 TACGTTTCGGACGACACGATGAAGTA
456 TACGTTTCGGACGACACGATGAAGTA
291149 GGTCGGTACA
Statistics
Matches: 470, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
477 281 0.60
478 113 0.24
479 1 0.00
480 75 0.16
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (481 bp):
TTATCTGATGCATTTTGTGAATTATGATAGAATAATGACTTGGGTGAATATAGTGCTAGTTTGAA
ACATATTTGGCTATATTTTCCCTGTTTAATATCATGTCTATTTATAGTGTATAATTTGTAGTTTT
TAATATATCTAACTTGGTATGTTTATTGTTTTTGTTAGGAATTTTTTTTCAGCTTCATTGACTTT
AAGGAATAAATTAAGCATAGCCACTACAATTGCGTCGACACTTACACCTATACAAAGAAATTTGT
TTGAGAAAACTTGTTTCGGGCCATGGATGAAAGTACAACATCCAGGTGGAGATGCTATGTTGACC
CATTTGGTTCTTCAGACCATGACTAACGATCTACCCGAGAGGATACAACGTGGTGAGGAAGAGAC
ATTGTTTCATTTTCCACCGGCGTATACTTGTTTTGGGCGGGAGGAGTTTTGCTTAATCATTGGTC
TACGTTTCGGACGACACGATGAAGTA
Found at i:291880 original size:16 final size:16
Alignment explanation
Indices: 291859--291900 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
291849 ACTATCCATT
291859 ACAGAGGCTGACACCC
1 ACAGAGGCTGACACCC
* *
291875 ACAGAGACTGACACTC
1 ACAGAGGCTGACACCC
291891 ACAGAGGCTG
1 ACAGAGGCTG
291901 GCAAGCTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.31, G:0.26, T:0.10
Consensus pattern (16 bp):
ACAGAGGCTGACACCC
Found at i:292209 original size:21 final size:21
Alignment explanation
Indices: 292166--292218 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
292156 GTTAGGGGAG
*
292166 TTACGTGATGAGGTCAATGCT
1 TTACGTGATGAGGTCAATACT
* **
292187 TTGCGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAATACT
292208 TTACGTGATGA
1 TTACGTGATGA
292219 CAATGGTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAATACT
Found at i:292316 original size:21 final size:21
Alignment explanation
Indices: 292290--292341 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
292280 GAAAATTGTG
* * *
292290 CTCTACGTGGTGAGGTATCTA
1 CTCTACGTGATGAGGTAGCCA
292311 CTCTACGTGATGAGGTAGCCA
1 CTCTACGTGATGAGGTAGCCA
292332 CTCTACGTGA
1 CTCTACGTGA
292342 GATTGTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (21 bp):
CTCTACGTGATGAGGTAGCCA
Found at i:292454 original size:12 final size:12
Alignment explanation
Indices: 292437--292478 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
292427 TTTTTCGGCA
292437 TTATTTACTTAT
1 TTATTTACTTAT
*
292449 TTATTTACTGAT
1 TTATTTACTTAT
*
292461 TTATGTA-TTAAT
1 TTATTTACTT-AT
292473 TTATTT
1 TTATTT
292479 TTAGCGGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 1 0.04
12 24 0.96
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (12 bp):
TTATTTACTTAT
Found at i:292650 original size:21 final size:21
Alignment explanation
Indices: 292624--292718 Score: 149
Period size: 21 Copynumber: 4.6 Consensus size: 21
292614 TTCACCTGTC
292624 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCTCTCCT
292645 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCTCTCCT
292666 ATCGTTCAAGAGGCCATCT-C-
1 ATCGTTCAAGAGGCC-TCTCCT
* *
292686 ATCGTTCAAGAGGCCCCTCCC
1 ATCGTTCAAGAGGCCTCTCCT
292707 ATCGTTCAAGAG
1 ATCGTTCAAGAG
292719 TCCGATTCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
19 2 0.03
20 16 0.23
21 49 0.70
22 3 0.04
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCTCTCCT
Found at i:292700 original size:41 final size:42
Alignment explanation
Indices: 292623--292718 Score: 151
Period size: 41 Copynumber: 2.3 Consensus size: 42
292613 ATTCACCTGT
*
292623 CATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTCC
*
292665 TATCGTTCAAGAGGCCATCT-C-ATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCC-TCTCCTATCGTTCAAGAGGCCCCTCC
292706 CATCGTTCAAGAG
1 CATCGTTCAAGAG
292719 TCCGATTCAC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 31 0.62
42 16 0.32
43 3 0.06
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (42 bp):
CATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTCC
Found at i:294386 original size:18 final size:18
Alignment explanation
Indices: 294363--294398 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
294353 AAGCCAGTTG
294363 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
294381 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
294399 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:296370 original size:18 final size:18
Alignment explanation
Indices: 296323--296370 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
296313 CTTTGTATCA
* *
296323 AAACAATCATCTTTTTTG
1 AAACAATCAACTTTTGTG
296341 AAACGAAT-AACTTTTGTG
1 AAAC-AATCAACTTTTGTG
*
296359 TAACAATCAACT
1 AAACAATCAACT
296371 GCTATCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (18 bp):
AAACAATCAACTTTTGTG
Found at i:296691 original size:24 final size:24
Alignment explanation
Indices: 296657--296710 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
296647 CTGAAACATC
296657 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
296681 ATCAAAGTCCGGGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
296705 ATCAAA
1 ATCAAA
296711 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:297495 original size:14 final size:15
Alignment explanation
Indices: 297461--297498 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
297451 GAAATCATTG
297461 AAAAATTATATATAA
1 AAAAATTATATATAA
*
297476 ATAAAATTATGTA-AA
1 A-AAAATTATATATAA
297491 AAAAATTA
1 AAAAATTA
297499 GAGATGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAAAATTATATATAA
Found at i:297744 original size:40 final size:40
Alignment explanation
Indices: 297654--297858 Score: 129
Period size: 40 Copynumber: 5.2 Consensus size: 40
297644 AAATAAAAGC
** * *
297654 TGTTGCGAAATTAAAATTCGTGTTGTGAATTCGAAAATCG
1 TGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCG
* * * * *
297694 AGTTGTGAAAACAAAATTCGTTTTGCGATTTAGAAAATCT
1 TGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCG
*
297734 TGTTGCGAAAA-AGAAACTT-GTGTTGCG-A--A-AAATTCG
1 TGTTGCGAAAACA-AAA-TTCGTGTTGCGAATTAGAAAATCG
* * *
297770 CGTTGCGAAAA-AGAATTCGCGTTGCGAATTCAG-AAATCG
1 TGTTGCGAAAACAAAATTCGTGTTGCGAATT-AGAAAATCG
* **** * * *
297809 AGTTGCGAATTTGAAATTCCGTGTTGTGAATTTGAAAACCG
1 TGTTGCGAAAACAAAATT-CGTGTTGCGAATTAGAAAATCG
297850 TGTTGCGAA
1 TGTTGCGAA
297859 TTTGGAAAAT
Statistics
Matches: 125, Mismatches: 29, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
34 2 0.02
35 9 0.07
36 17 0.14
37 1 0.01
39 15 0.12
40 55 0.44
41 26 0.21
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (40 bp):
TGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCG
Found at i:297748 original size:20 final size:20
Alignment explanation
Indices: 297725--297765 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
297715 TTTGCGATTT
297725 AGAAAATCT-TGTTGCGAAAA
1 AGAAAAT-TGTGTTGCGAAAA
*
297745 AGAAACTTGTGTTGCGAAAA
1 AGAAAATTGTGTTGCGAAAA
297765 A
1 A
297766 TTCGCGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (20 bp):
AGAAAATTGTGTTGCGAAAA
Found at i:297788 original size:19 final size:19
Alignment explanation
Indices: 297735--297797 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
297725 AGAAAATCTT
*
297735 GTTGCGAAAAAGAAACTT-GT
1 GTTGCGAAAAAG-AA-TTCGC
297755 GTTGCG--AAA-AATTCGC
1 GTTGCGAAAAAGAATTCGC
297771 GTTGCGAAAAAGAATTCGC
1 GTTGCGAAAAAGAATTCGC
297790 GTTGCGAA
1 GTTGCGAA
297798 TTCAGAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 2 0.05
16 9 0.24
18 6 0.16
19 15 0.39
20 6 0.16
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (19 bp):
GTTGCGAAAAAGAATTCGC
Found at i:297852 original size:20 final size:20
Alignment explanation
Indices: 297810--297878 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 20
297800 CAGAAATCGA
*
297810 GTTGCGAATTTGAAATTCCGT
1 GTTGCGAATTTGAAA-ACCGT
*
297831 GTTGTGAATTTGAAAACCGT
1 GTTGCGAATTTGAAAACCGT
* *
297851 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAAACCGT
297872 GTTGCGA
1 GTTGCGA
297879 GAAAGAAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGAAAACCGT
Found at i:297932 original size:22 final size:20
Alignment explanation
Indices: 297905--297955 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
297895 GCAGAAACTG
297905 TGCGAATTTGGGAAATTCGTGT
1 TGCGAATTT-GG-AATTCGTGT
* *
297927 TGCGAAATTGGAGTTCGTGT
1 TGCGAATTTGGAATTCGTGT
*
297947 TGCAAATTT
1 TGCGAATTT
297956 TTTTGGTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 15 0.60
21 2 0.08
22 8 0.32
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (20 bp):
TGCGAATTTGGAATTCGTGT
Found at i:300785 original size:22 final size:22
Alignment explanation
Indices: 300757--300825 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
300747 CGAGGGTTTA
300757 TAGTGGTCATTCGGGACGTATC
1 TAGTGGTCATTCGGGACGTATC
300779 TAGTGGTCATTCGGGACGTATC
1 TAGTGGTCATTCGGGACGTATC
* * *
300801 CAGTGGTCCTTCAGGACGTAT-
1 TAGTGGTCATTCGGGACGTATC
300822 TAGT
1 TAGT
300826 CCTTCGGGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 3 0.07
22 40 0.93
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (22 bp):
TAGTGGTCATTCGGGACGTATC
Found at i:300872 original size:40 final size:40
Alignment explanation
Indices: 300782--300874 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
300772 ACGTATCTAG
* *
300782 TGGTCATTCGGGACGTATCCAGTGGTCCTTCAGGACGTAT
1 TGGTCATTCGGGACATATCCAGTGGTCCTTCAGGACGTAA
* * *
300822 TAGTCCTTCGGGACATATCCAGTGGTCCTT-AGGGGCGTAA
1 TGGTCATTCGGGACATATCCAGTGGTCCTTCA-GGACGTAA
300862 TGGTCATTCGGGA
1 TGGTCATTCGGGA
300875 TAAATATTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (40 bp):
TGGTCATTCGGGACATATCCAGTGGTCCTTCAGGACGTAA
Found at i:307146 original size:22 final size:22
Alignment explanation
Indices: 307120--307241 Score: 117
Period size: 22 Copynumber: 5.7 Consensus size: 22
307110 GAGGGTTTAT
* *
307120 AGTGGTCATTCGAGACATATCC
1 AGTGGTCCTTCGGGACATATCC
* *
307142 AGTGGTCCTTCGGGACGTATCT
1 AGTGGTCCTTCGGGACATATCC
* *
307164 AGTGGTCCTTCGGGACGTATCT
1 AGTGGTCCTTCGGGACATATCC
* *
307186 AATGGTCCTTCGGG--ATGT--
1 AGTGGTCCTTCGGGACATATCC
*
307204 AGTGGTCATTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
* *
307226 AGTGGTCTTTAGGGAC
1 AGTGGTCCTTCGGGAC
307242 GTAATGGTCC
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.14
20 5 0.06
22 67 0.80
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACATATCC
Found at i:307216 original size:40 final size:40
Alignment explanation
Indices: 307119--307258 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 40
307109 CGAGGGTTTA
* *
307119 TAGTGGTCATTCGAGACATATCCAGTGGTCCTTCGGGACGTATC
1 TAGTGGTCATTCGGGACATATCCAGTGGTCCTTC-GG--G-ATG
* * * *
307163 TAGTGGTCCTTCGGGACGTATCTAATGGTCCTTCGGGATG
1 TAGTGGTCATTCGGGACATATCCAGTGGTCCTTCGGGATG
* * *
307203 TAGTGGTCATTCGGGACATATCCAGTGGTCTTTAGGGACG
1 TAGTGGTCATTCGGGACATATCCAGTGGTCCTTCGGGATG
* *
307243 TAATGGTCCTTCGGGA
1 TAGTGGTCATTCGGGA
307259 TAAATATTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 49 0.60
41 1 0.01
43 2 0.02
44 29 0.36
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (40 bp):
TAGTGGTCATTCGGGACATATCCAGTGGTCCTTCGGGATG
Found at i:307241 original size:62 final size:58
Alignment explanation
Indices: 307142--307259 Score: 155
Period size: 62 Copynumber: 2.0 Consensus size: 58
307132 AGACATATCC
* * * *
307142 AGTGGTCCTTCGGGACGTATCTAGTGGTCCTTCGGGACGTATCTAATGGTCCTTCGGGATGT
1 AGTGGTCATTCGGGACATATCCAGTGGTCCTTAGGGACG----TAATGGTCCTTCGGGATGT
*
307204 AGTGGTCATTCGGGACATATCCAGTGGTCTTTAGGGACGTAATGGTCCTTCGGGAT
1 AGTGGTCATTCGGGACATATCCAGTGGTCCTTAGGGACGTAATGGTCCTTCGGGAT
307260 AAATATTCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 17 0.33
62 34 0.67
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.31
Consensus pattern (58 bp):
AGTGGTCATTCGGGACATATCCAGTGGTCCTTAGGGACGTAATGGTCCTTCGGGATGT
Found at i:309332 original size:459 final size:446
Alignment explanation
Indices: 308441--309346 Score: 1679
Period size: 459 Copynumber: 2.0 Consensus size: 446
308431 CCACAGTCCA
308441 TTTTTCGAAATTTGGACCCGAAGGCCTCGACATTGCCAATCAAACCCGTTGACTTTGACCGAAAA
1 TTTTTCGAAATTTGGACCCGAAGGCCTCGACATTGCCAATCAAACCCGTTGACTTTGACCGAAAA
308506 GTTAAAATTTTCAAAAAGTTAATTTTATGTTTGACGTCCCAATATATTTTTGGGGTCCGTTTTGC
66 GTTAAAATTTTCAAAAAGTTAATTTTATGTTTGACGTCCCAATATATTTTTGGGGTCCGTTTTGC
308571 CAAATTCGAACCTGATAAGTGGTTTTCACTGATTAATCACCCGATTCGATCGTTTTTCGAAATTA
131 CAAATTCGAACCTGATAAGTGGTTTTCACTGATTAATCACCCGATTCGATCGTTTTTCGAAATTA
308636 AGCCCCATTTTTTATGCAAATTTTATTATATGTATCTGAGGAATATTCGAAGATGATTTCAAGAT
196 AGCCCCATTTTTTATGCAAATTTTATTATATGTATCTGAGGAATATTCGAAGATGATTTCAAGAT
308701 CAAGGGCATTTGAATGGAATTTAATGGTTGATCAATATGGCACGTAAATCGAGGTAATACTTTGC
261 CAAGGGCATTTGAATGGAATTTAATGGTTGATCAATATGGCACGTAAATCGAGGTAATACTTTGC
308766 TACATCTTTATGCTTTATGGAACATGTGAATATTGGTAAATGCATGATTAAGATAATGTTGGTCT
326 TACATCTTTATGCTTTATGGAACATGTGAATATTGGTAAATGCATGATTAAGATAATGTTGGTCT
308831 CATTTGTGTAGTTAATTAATTTTTACACTCGATCTGAATACGGTAAAAAGGTTCAG
391 CATTTGTGTAGTTAATTAATTTTTACACTCGATCTGAATACGGTAAAAAGGTTCAG
308887 TTTTTCGAAATTTGGACCCGAAGGCCTCGACATTGCCAATCAAACCCGTTGACTTTGACCGAAAA
1 TTTTTCGAAATTTGGACCCGAAGGCCTCGACATTGCCAATCAAACCCGTTGACTTTGACCGAAAA
308952 GTTAAAATTTTCAAAAAGTTATATTTTATGTTTTGACGTCCCGAATATATTTTTGGGGTCCGTTT
66 GTTAAAATTTTCAAAAAGTTA-ATTTTATG-TTTGACGTCCC-AATATATTTTTGGGGTCCGTTT
309017 TGCCAAATTCGAACCTGATAAGTTGGTTTTCACTGATTAATCACCCGATTCGATCCGTTTTTCGA
128 TGCCAAATTCGAACCTGATAAG-TGGTTTTCACTGATTAATCACCCGATTCGAT-CGTTTTTCGA
309082 AATTAAGCCCCA-TTTTTATGCAAATTTTATTATTATGTATCTGAGGAATTATTCGAAGATGATT
191 AATTAAGCCCCATTTTTTATGCAAATTTTATTA-TATGTATCTGAGGAA-TATTCGAAGATGATT
309146 TCAAGATCAAGGGCATTTGAATGGAATTTAATGGTTGATCAATATGGCACGTAAATCGAGGTAAT
254 TCAAGATCAAGGGCATTTGAATGGAATTTAATGGTTGATCAATATGGCACGTAAATCGAGGTAAT
309211 ACTTTGCTACGTCTTTATTCTTTATGCTTTATGGAACATGTGAATATTGGTAAATGCATGATTAA
319 ACTTTGCTA---C---A-TCTTTATGCTTTATGGAACATGTGAATATTGGTAAATGCATGATTAA
309276 GATAATGTTGGTCTCATTTGTGTAGTTAATTAATTTTTACACTCGATCTGAATACGGTAAAAAGG
377 GATAATGTTGGTCTCATTTGTGTAGTTAATTAATTTTTACACTCGATCTGAATACGGTAAAAAGG
309341 TTCAG
442 TTCAG
309346 T
1 T
309347 AATTGATTAT
Statistics
Matches: 446, Mismatches: 0, Indels: 15
0.97 0.00 0.03
Matches are distributed among these distances:
446 86 0.19
447 8 0.02
448 11 0.02
449 44 0.10
450 51 0.11
451 37 0.08
452 89 0.20
455 1 0.00
458 1 0.00
459 118 0.26
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (446 bp):
TTTTTCGAAATTTGGACCCGAAGGCCTCGACATTGCCAATCAAACCCGTTGACTTTGACCGAAAA
GTTAAAATTTTCAAAAAGTTAATTTTATGTTTGACGTCCCAATATATTTTTGGGGTCCGTTTTGC
CAAATTCGAACCTGATAAGTGGTTTTCACTGATTAATCACCCGATTCGATCGTTTTTCGAAATTA
AGCCCCATTTTTTATGCAAATTTTATTATATGTATCTGAGGAATATTCGAAGATGATTTCAAGAT
CAAGGGCATTTGAATGGAATTTAATGGTTGATCAATATGGCACGTAAATCGAGGTAATACTTTGC
TACATCTTTATGCTTTATGGAACATGTGAATATTGGTAAATGCATGATTAAGATAATGTTGGTCT
CATTTGTGTAGTTAATTAATTTTTACACTCGATCTGAATACGGTAAAAAGGTTCAG
Found at i:311121 original size:24 final size:24
Alignment explanation
Indices: 311089--311150 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
311079 CCATGTTATA
* *
311089 ATACCTGACTTGGATTCTGA-ACGG
1 ATACTTGACCTGGATTCTGATA-GG
* *
311113 ATACTTGACCTGGATTTTGATATG
1 ATACTTGACCTGGATTCTGATAGG
311137 ATACTTGACCTGGA
1 ATACTTGACCTGGA
311151 CTATGTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATAGG
Found at i:316029 original size:44 final size:44
Alignment explanation
Indices: 315980--316067 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
315970 GAGTTGATAG
315980 AAATATATAAATTTT-AGAGACAAATTATTATTATACCAAATCAC
1 AAATATATAAATTTTGA-AGACAAATTATTATTATACCAAATCAC
316024 AAATATATAAATTTTGAAGACAAATTATTATTATACCAAATCAC
1 AAATATATAAATTTTGAAGACAAATTATTATTATACCAAATCAC
316068 GTCACTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (44 bp):
AAATATATAAATTTTGAAGACAAATTATTATTATACCAAATCAC
Found at i:320160 original size:32 final size:30
Alignment explanation
Indices: 320076--320162 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 30
320066 GACGTTTTTT
320076 TCAAAAAACGCCACTATTATTGCGGCTTTA
1 TCAAAAAACGCCACTATTATTGCGGCTTTA
* * *
320106 TTGATAAAACG-CA-TGAATTTATTGCGGCGTTTG
1 -TCAAAAAACGCCACT--A-TTATTGCGGC-TTTA
320139 TCAAGAAAACGCCACTATTATTGC
1 TCAA-AAAACGCCACTATTATTGC
320163 CCCGAAATCG
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
29 1 0.02
30 2 0.05
31 9 0.20
32 19 0.43
33 10 0.23
34 2 0.05
35 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (30 bp):
TCAAAAAACGCCACTATTATTGCGGCTTTA
Found at i:323254 original size:29 final size:29
Alignment explanation
Indices: 323161--323254 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 29
323151 GAACATAATG
* *
323161 AATAGTCGAGTGATCATTTTGTAACTTTT
1 AATAGTCGAGAGATCATTTTATAACTTTT
* * **** *
323190 AATAGTCTAGGGACTCAACAAACAACTCCTTT
1 AATAGTCGAGAGA-TCATTTTATAACT--TTT
323222 --TAGTCGAGAGATCATTTTATAACTTTT
1 AATAGTCGAGAGATCATTTTATAACTTTT
323249 AATAGT
1 AATAGT
323255 AAAGTGACTC
Statistics
Matches: 45, Mismatches: 15, Indels: 10
0.64 0.21 0.14
Matches are distributed among these distances:
27 3 0.07
29 23 0.51
30 16 0.36
32 3 0.07
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (29 bp):
AATAGTCGAGAGATCATTTTATAACTTTT
Found at i:325167 original size:19 final size:19
Alignment explanation
Indices: 325134--325181 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
325124 ACTTTATTAA
325134 ATAATTTTAAAATTTAAAT-
1 ATAA-TTTAAAATTTAAATC
* *
325153 ATTAATTTAATATTTTAATC
1 A-TAATTTAAAATTTAAATC
325173 ATAATTTAA
1 ATAATTTAA
325182 GGATTTATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATTTAAAATTTAAATC
Found at i:325268 original size:13 final size:14
Alignment explanation
Indices: 325227--325271 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
325217 TGGAGAAATG
*
325227 AAATAATCATTGAC
1 AAATAATCATTGAA
*
325241 AAATAATAATT-AA
1 AAATAATCATTGAA
325254 AAATAA-CATTGAA
1 AAATAATCATTGAA
325267 AAATA
1 AAATA
325272 GTTAGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 3 0.11
13 14 0.52
14 10 0.37
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (14 bp):
AAATAATCATTGAA
Found at i:326290 original size:21 final size:21
Alignment explanation
Indices: 326261--326313 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
326251 ATTCTGACTA
326261 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
326282 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
326303 TCGCAATGCGA
1 TCGCATTGCGA
326314 ATACGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:326332 original size:20 final size:20
Alignment explanation
Indices: 326303--326548 Score: 377
Period size: 20 Copynumber: 12.3 Consensus size: 20
326293 TTTTCCTAAT
*
326303 TCGCAATGCGAATACGAAAA
1 TCGCAATGCGAATACGTAAA
* *
326323 TCGAAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
326343 TCGAAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
326363 TCGAAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
326383 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
326403 TCGCAATGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
326423 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
326443 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
326463 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
326483 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
326503 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
326523 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
326543 TCGCAA
1 TCGCAA
326549 CGAGATTCTG
Statistics
Matches: 212, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
19 1 0.00
20 211 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:327241 original size:24 final size:24
Alignment explanation
Indices: 327214--327267 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
327204 GTATTCGAAA
327214 TTTGATCTTAGTCAATACCCGGAC
1 TTTGATCTTAGTCAATACCCGGAC
* * *
327238 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTAGTCAATACCCGGAC
327262 TTTGAT
1 TTTGAT
327268 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTAGTCAATACCCGGAC
Found at i:329703 original size:20 final size:20
Alignment explanation
Indices: 329678--329771 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
329668 GACATTCATT
329678 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCAGAA-A
* * *
329698 TGACTATCGTAACACGGAAA
1 TGACTATCGCAACGCAGAAA
* ** *
329718 TGACTATCGCAATGTGGAAT
1 TGACTATCGCAACGCAGAAA
329738 TGACTATCGCAACGCAGAAA
1 TGACTATCGCAACGCAGAAA
*
329758 TGACTATTGCAACG
1 TGACTATCGCAACG
329772 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCAGAAA
Found at i:329742 original size:40 final size:40
Alignment explanation
Indices: 329678--329771 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
329668 GACATTCATT
* *
329678 TGACTATCGCAACGCGAATATGACTATCGTAACACGGAAA
1 TGACTATCGCAACGCGAATATGACTATCGCAACACAGAAA
* * *
329718 TGACTATCGCAATGTGGAAT-TGACTATCGCAACGCAGAAA
1 TGACTATCGCAACG-CGAATATGACTATCGCAACACAGAAA
*
329758 TGACTATTGCAACG
1 TGACTATCGCAACG
329772 AGAGAATCGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (40 bp):
TGACTATCGCAACGCGAATATGACTATCGCAACACAGAAA
Found at i:329800 original size:19 final size:19
Alignment explanation
Indices: 329776--329862 Score: 112
Period size: 19 Copynumber: 4.8 Consensus size: 19
329766 GCAACGAGAG
329776 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
329795 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
329814 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
329828 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
329848 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
329863 CTAATGCAGA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.14
16 5 0.08
17 2 0.03
18 3 0.05
19 30 0.51
20 11 0.19
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:329822 original size:52 final size:53
Alignment explanation
Indices: 329743--329862 Score: 179
Period size: 52 Copynumber: 2.3 Consensus size: 53
329733 GGAATTGACT
** *
329743 ATCGCAACGCAGAAATGACTATTGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
* *
329796 ATCGCAATGCGAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
329849 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
329863 CTAATGCAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 30 0.50
53 30 0.50
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (53 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:329994 original size:14 final size:14
Alignment explanation
Indices: 329975--330011 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
329965 CATCAATTAA
329975 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
329989 ACAAATCATCTTTT
1 ACAAATCAACATTT
330003 ACAAATCAA
1 ACAAATCAA
330012 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:331449 original size:21 final size:21
Alignment explanation
Indices: 331368--331454 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
331358 GAATGTTGGG
* * *
331368 AGGGACCTCTTCAATGATGAC
1 AGGGGCCTCTTGAACGATGAC
* * **
331389 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAC
* ** *
331410 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
331431 AGGGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
331452 AGG
1 AGG
331455 TGAGTCGGGC
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:331957 original size:20 final size:20
Alignment explanation
Indices: 331934--332002 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
331924 GAAACTTAAA
331934 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
331954 ATCGCAATACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
331974 ATCGCAATGC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
331994 ATCGCAACG
1 ATCGCAACG
332003 AGAGAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.07
20 40 0.93
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:332066 original size:20 final size:20
Alignment explanation
Indices: 332041--332087 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
332031 CAACAACAAA
*
332041 ATCGCAATGCAAAAATGACT
1 ATCGCAATACAAAAATGACT
* **
332061 ATCGCAATACGAATTTGACT
1 ATCGCAATACAAAAATGACT
332081 ATCGCAA
1 ATCGCAA
332088 CGAGAGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (20 bp):
ATCGCAATACAAAAATGACT
Found at i:332157 original size:34 final size:34
Alignment explanation
Indices: 332113--332234 Score: 154
Period size: 34 Copynumber: 3.4 Consensus size: 34
332103 GCGATTTTCA
*
332113 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAA
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
* *
332147 ATTCACATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAT
*
332187 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAT
1 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
332221 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
332235 AGTAAACTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
34 39 0.51
36 6 0.08
38 7 0.09
40 24 0.32
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAT
Found at i:332159 original size:20 final size:20
Alignment explanation
Indices: 332134--332237 Score: 130
Period size: 20 Copynumber: 5.5 Consensus size: 20
332124 GATTCTTTCG
** *
332134 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCA
332154 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
332174 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
332194 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
332208 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
332228 TTGCGATAGT
1 TTGCGATAGT
332238 AAACTATTCT
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.10
16 6 0.08
18 6 0.08
20 54 0.74
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:332216 original size:74 final size:73
Alignment explanation
Indices: 332096--332237 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 73
332086 AACGAGAGAA
** *
332096 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCACATTGCGAT
1 TCGCAATGCGATAGTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGAT
332161 AGTCATTT
66 AGTCATTT
* ** *
332169 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCATTGCGA
1 TCGCAATGCGATAGTCA-TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGA
332234 TAGT
65 TAGT
332238 AAACTATTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 14 0.23
74 47 0.77
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (73 bp):
TCGCAATGCGATAGTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGAT
AGTCATTT
Found at i:334149 original size:20 final size:20
Alignment explanation
Indices: 334104--334177 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
334094 GAAACTTTAA
**
334104 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
*
334124 AGCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
334144 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
334164 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
334178 TAAAAATCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:334228 original size:20 final size:20
Alignment explanation
Indices: 334203--334249 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
334193 GATTCTCTCG
334203 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
334223 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
334243 TTGCGAT
1 TTGCGAT
334250 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:334862 original size:20 final size:20
Alignment explanation
Indices: 334839--334931 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
334829 CGATAGTCAG
**
334839 ATTCGCATTGTAATTTACGT
1 ATTCGCATTGCGATTTACGT
334859 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
334879 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
334899 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
334919 ATTCGCATTGCGA
1 ATTCGCATTGCGA
334932 ATTAGGAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:334952 original size:21 final size:21
Alignment explanation
Indices: 334928--334973 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
334918 TATTCGCATT
334928 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
334949 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
334970 GCGA
1 GCGA
334974 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:338564 original size:266 final size:266
Alignment explanation
Indices: 338081--338609 Score: 896
Period size: 266 Copynumber: 2.0 Consensus size: 266
338071 AAGGATGATG
* *
338081 GAAAAAGGTTATAAATATTATTTCTATATTTTAGAATGAAGATATTTGACATGGATCCTTGGAAT
1 GAAAAAAGTTATAAATATTATTTCTATATTTTAGAATGAAGAAATTTGACATGGATCCTTGGAAT
* *
338146 TTAGATGGATTTTCCATGATAAGTTGAAATTATAAATTTTAGTGACTAAATTTTAGTTTTCAAAA
66 TTAGATGGATTTTCCATGATAAGTTGAAATTATAAATTTTAGTGACTAAATTGTAATTTTCAAAA
* * * * *
338211 ATTACAAAAGGAAAAGGTGGAAAGTGAATTATATTTGTTTATATTTGACTTTTTGATTATTAAAA
131 ATTACAAAAGGAAAAGGCGGAAAGTGAATTATATTTATTCATATTTGACCTTTTAATTATTAAAA
** *
338276 TGAAAGATATTATTGTGGCAAATGGTAATTATCATGATTTTTAAAGGATAAAGTTGTAATTATGT
196 TGAAAGATATTATTCAGGCAAATGGTAATTATCATGATTTTTAAAGGACAAAGTTGTAATTATGT
338341 ATTTAA
261 ATTTAA
* *
338347 GAAAAAAGTTATAAATATTATTTCTATATTTTAGAATGATGAAATTTGACATGGATCCTTGTAAT
1 GAAAAAAGTTATAAATATTATTTCTATATTTTAGAATGAAGAAATTTGACATGGATCCTTGGAAT
338412 TTAGATGGATTTTCCATGATAAGTTGAAATTATAAATTTTAGTGACTAAATTGTAATTTTCAAAA
66 TTAGATGGATTTTCCATGATAAGTTGAAATTATAAATTTTAGTGACTAAATTGTAATTTTCAAAA
* *
338477 ATTACAAAAGGCAAAGGCGGAAAGTGAATTATATTTATTCATGTTTGACCTTTTAATTATTAAAA
131 ATTACAAAAGGAAAAGGCGGAAAGTGAATTATATTTATTCATATTTGACCTTTTAATTATTAAAA
* *
338542 TGGAATATATTATTCAGGCAAATGGTAATTATCATGATTTTTAAAGGACAAAGTTGTAATTATGT
196 TGAAAGATATTATTCAGGCAAATGGTAATTATCATGATTTTTAAAGGACAAAGTTGTAATTATGT
338607 ATT
261 ATT
338610 AAATTAATAT
Statistics
Matches: 245, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
266 245 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (266 bp):
GAAAAAAGTTATAAATATTATTTCTATATTTTAGAATGAAGAAATTTGACATGGATCCTTGGAAT
TTAGATGGATTTTCCATGATAAGTTGAAATTATAAATTTTAGTGACTAAATTGTAATTTTCAAAA
ATTACAAAAGGAAAAGGCGGAAAGTGAATTATATTTATTCATATTTGACCTTTTAATTATTAAAA
TGAAAGATATTATTCAGGCAAATGGTAATTATCATGATTTTTAAAGGACAAAGTTGTAATTATGT
ATTTAA
Found at i:340028 original size:19 final size:19
Alignment explanation
Indices: 340004--340041 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
339994 ATTGGAATCA
340004 AATATTAAAATATTGATTT
1 AATATTAAAATATTGATTT
* *
340023 AATATTGAAATGTTGATTT
1 AATATTAAAATATTGATTT
340042 TGGACTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
AATATTAAAATATTGATTT
Found at i:342505 original size:17 final size:17
Alignment explanation
Indices: 342468--342501 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
342458 CGAGGTTACT
*
342468 ATTTACATGAATAGTGA
1 ATTTACATGAATAGTAA
342485 ATTT-CATGAATAGTAA
1 ATTTACATGAATAGTAA
342501 A
1 A
342502 ATTTGGTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (17 bp):
ATTTACATGAATAGTAA
Found at i:353398 original size:23 final size:23
Alignment explanation
Indices: 353368--353414 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
353358 TGTACTGATC
353368 AGTGCGTTTGCTATAGAAAATAG
1 AGTGCGTTTGCTATAGAAAATAG
*
353391 AGTGCGTTTGCTATAGAAAGTAG
1 AGTGCGTTTGCTATAGAAAATAG
353414 A
1 A
353415 ATTTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (23 bp):
AGTGCGTTTGCTATAGAAAATAG
Found at i:355238 original size:23 final size:23
Alignment explanation
Indices: 355212--355256 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
355202 GAGATTGTTT
*
355212 AAAGTCAATTAAGGGGGTTAAGA
1 AAAGTCAATTAAGGGGGCTAAGA
355235 AAAGTCAATTAAGGGGGCTAAG
1 AAAGTCAATTAAGGGGGCTAAG
355257 GGGGCACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.31, T:0.20
Consensus pattern (23 bp):
AAAGTCAATTAAGGGGGCTAAGA
Found at i:363220 original size:14 final size:14
Alignment explanation
Indices: 363203--363229 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
363193 CGAGTCAACC
363203 TGTTGACTTTGACT
1 TGTTGACTTTGACT
363217 TGTTGACTTTGAC
1 TGTTGACTTTGAC
363230 CGAAAAGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (14 bp):
TGTTGACTTTGACT
Found at i:369138 original size:20 final size:20
Alignment explanation
Indices: 369113--369179 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
369103 CACTTTACTA
369113 TTATTGTTTGTTTATGAATT
1 TTATTGTTTGTTTATGAATT
** *
369133 TTATTGTTTAGACT-T-AATA
1 TTATTGTTT-GTTTATGAATT
*
369152 TTATGGTTTGTTTATGAATT
1 TTATTGTTTGTTTATGAATT
369172 TTATTGTT
1 TTATTGTT
369180 CTAGGGTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.33
20 20 0.56
21 2 0.06
ACGTcount: A:0.22, C:0.01, G:0.15, T:0.61
Consensus pattern (20 bp):
TTATTGTTTGTTTATGAATT
Found at i:369293 original size:40 final size:40
Alignment explanation
Indices: 369118--369317 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
369108 TACTATTATT
*
369118 GTTTGTTTATGAATTTTATTGTT-TAGACTTAATATTATG
1 GTTTGTTTATGAATTTTATTGTTCTAGACTTAATATTGTG
**
369157 GTTTGTTTATGAATTTTATTGTTCTAGGGTTAATATTGTG
1 GTTTGTTTATGAATTTTATTGTTCTAGACTTAATATTGTG
* * ** *
369197 ATTTGAATCT-TGAGATTGGA-T-AT-T----TTAATATTGTG
1 GTTTG--TTTATGA-ATTTTATTGTTCTAGACTTAATATTGTG
*
369232 GTTTGTTTTATAAATTTTATTGTTCTAGACTTAATATTGTG
1 GTTTG-TTTATGAATTTTATTGTTCTAGACTTAATATTGTG
*
369273 GTTTGTTTATGAATTTTATTGTTCTAGATTTAATATTGTG
1 GTTTGTTTATGAATTTTATTGTTCTAGACTTAATATTGTG
369313 GTTTG
1 GTTTG
369318 AGTCTTGAGA
Statistics
Matches: 132, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
34 6 0.05
35 18 0.14
36 1 0.01
37 1 0.01
39 24 0.18
40 56 0.42
41 20 0.15
42 6 0.05
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.55
Consensus pattern (40 bp):
GTTTGTTTATGAATTTTATTGTTCTAGACTTAATATTGTG
Found at i:369297 original size:116 final size:113
Alignment explanation
Indices: 369059--369329 Score: 398
Period size: 116 Copynumber: 2.4 Consensus size: 113
369049 TGTTGTTTAA
* *
369059 TATTGTTCTAGACTTAATATTGTGATTTGAGTCTTGAGATTTGGCACTTTACTATTATTGTTTGT
1 TATTGTTCTAGACTTAATATTGTGATTTGAGTCTTGAGA-TTGGCACTTTAATATTATGGTTTGT
*
369124 TTATGAATTTTATTGTTTAGACTTAATATTATGGTTTGTTTATGAATTT
65 TTATAAATTTTATTGTTTAGACTTAATATTATGGTTTGTTTATGAATTT
** * * * *
369173 TATTGTTCTAGGGTTAATATTGTGATTTGAATCTTGAGATTGGATATTTTAATATTGTGGTTTGT
1 TATTGTTCTAGACTTAATATTGTGATTTGAGTCTTGAGATTGG-CACTTTAATATTATGGTTTG-
*
369238 TTTATAAATTTTATTGTTCTAGACTTAATATTGTGGTTTGTTTATGAATTT
64 TTTATAAATTTTATTGTT-TAGACTTAATATTATGGTTTGTTTATGAATTT
* *
369289 TATTGTTCTAGATTTAATATTGTGGTTTGAGTCTTGAGATT
1 TATTGTTCTAGACTTAATATTGTGATTTGAGTCTTGAGATT
369330 TGTTTATGGT
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
113 4 0.03
114 51 0.36
115 17 0.12
116 68 0.49
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (113 bp):
TATTGTTCTAGACTTAATATTGTGATTTGAGTCTTGAGATTGGCACTTTAATATTATGGTTTGTT
TATAAATTTTATTGTTTAGACTTAATATTATGGTTTGTTTATGAATTT
Found at i:370236 original size:16 final size:16
Alignment explanation
Indices: 370215--370245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
370205 ATAATACATA
370215 TATTATTATGTATTAT
1 TATTATTATGTATTAT
*
370231 TATTATTATTTATTA
1 TATTATTATGTATTA
370246 AACTAACACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TATTATTATGTATTAT
Found at i:371694 original size:21 final size:21
Alignment explanation
Indices: 371624--371695 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 21
371614 CCTTAATTTA
* *
371624 TTTTATTTTATTTTATTTTT-
1 TTTTCTTTTATTTCATTTTTG
*
371644 TAATT-TTTTATTTCATTTTTG
1 T-TTTCTTTTATTTCATTTTTG
*
371665 TTTTGTTTTATTT-ATTATTT-
1 TTTTCTTTTATTTCATT-TTTG
371685 TTTCTCTTTTA
1 TTT-TCTTTTA
371696 ACATTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 23 0.53
21 20 0.47
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTATTTCATTTTTG
Found at i:372763 original size:51 final size:50
Alignment explanation
Indices: 372687--372813 Score: 164
Period size: 51 Copynumber: 2.5 Consensus size: 50
372677 TTAGCAGTAA
** *
372687 AGCGCGCCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTAGCGCCACGT-GGGTAT
* *
372738 AGCGCGCCCCCTGCACCGCGCTATACGGTGAGCTAGTGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTAGCGCCACGTGGGTAT
* * **
372788 AACGCGGCCCCTGCAGTGCGCTATAC
1 AGCGCGCCCCCTGCACCGCGCTATAC
372814 CTGTATATCT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 28 0.42
51 39 0.58
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.18
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTAGCGCCACGTGGGTAT
Found at i:372965 original size:12 final size:10
Alignment explanation
Indices: 372924--372964 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
372914 TTTATCACAC
372924 CAAATTCTCT
1 CAAATTCTCT
372934 CAAATTCTCT
1 CAAATTCTCT
372944 -AAATTTCTCT
1 CAAA-TTCTCT
*
372954 CAAATACTCT
1 CAAATTCTCT
372964 C
1 C
372965 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:378447 original size:21 final size:21
Alignment explanation
Indices: 378421--378465 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
378411 GATTTCTGGG
* *
378421 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
378442 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
378463 CAA
1 CAA
378466 ACGAACACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:380329 original size:23 final size:23
Alignment explanation
Indices: 380285--380329 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
380275 ATCATTATAT
*
380285 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
380308 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
380330 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:380520 original size:32 final size:32
Alignment explanation
Indices: 380483--380543 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
380473 GAGAACAATG
*
380483 TATGTG-AT-ATATGTATATGATTTGTGATATGA
1 TATGTGCATGATATG-ATAT-ATCTGTGATATGA
380515 TATGTGCATGATATGATATATCTGTGATA
1 TATGTGCATGATATGATATATCTGTGATA
380544 GGGGTAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 15 0.58
33 6 0.23
34 5 0.19
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (32 bp):
TATGTGCATGATATGATATATCTGTGATATGA
Done.