Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009140.1 Hibiscus syriacus cultivar Beakdansim tig00112647_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: 511116
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1232 original size:6 final size:6
Alignment explanation
Indices: 1221--1251 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1211 ACACTTGTAT
1221 CATGAC CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC CATGAC C
1252 CATAAGTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:3096 original size:45 final size:47
Alignment explanation
Indices: 2973--3101 Score: 147
Period size: 49 Copynumber: 2.8 Consensus size: 47
2963 ATATAAATTT
* *
2973 CTTACC-TTTTATCCCATAAGCTCATAAGCTTATTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* ** *
3019 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* *
3068 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
3102 GTATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 23 0.32
46 6 0.08
47 3 0.04
48 2 0.03
49 37 0.52
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (47 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
Found at i:4685 original size:30 final size:30
Alignment explanation
Indices: 4628--4691 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
4618 TCTTCATCAA
* * *
4628 TTTTCCAAAATTTACGAATTTATCCCAAAC
1 TTTTCCAAAACTTACGAAATGATCCCAAAC
* *
4658 TTTT-CAAAACTTACGAAATGATCCCCAAT
1 TTTTCCAAAACTTACGAAATGATCCCAAAC
4687 TTTTC
1 TTTTC
4692 TAAGGCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAACTTACGAAATGATCCCAAAC
Found at i:15041 original size:45 final size:44
Alignment explanation
Indices: 14930--15051 Score: 154
Period size: 44 Copynumber: 2.7 Consensus size: 44
14920 TGTTATTCAC
* * **
14930 AAAAAGAAATCCTATCCGCATGATATCTAATTTGCATGCTTGTTCG
1 AAAAA-AAA-CCTAACCGCATGATATCTAGTTCACATGCTTGTTCG
* *
14976 AAAAATAACCTAACTGCATGATATCTAGTTCACATGCTTGTTCG
1 AAAAAAAACCTAACCGCATGATATCTAGTTCACATGCTTGTTCG
*
15020 AAAAAAAACCCTAACCACATGATATCTAGTTC
1 AAAAAAAA-CCTAACCGCATGATATCTAGTTC
15052 GCAAGCATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
44 38 0.58
45 23 0.35
46 5 0.08
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (44 bp):
AAAAAAAACCTAACCGCATGATATCTAGTTCACATGCTTGTTCG
Found at i:16579 original size:13 final size:15
Alignment explanation
Indices: 16561--16592 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
16551 ATGTCATGCC
16561 AAAATTAAT-TATA-
1 AAAATTAATATATAT
16574 AAAATTAATATATAT
1 AAAATTAATATATAT
16589 AAAA
1 AAAA
16593 ATGATTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTAATATATAT
Found at i:23041 original size:42 final size:40
Alignment explanation
Indices: 22975--23347 Score: 248
Period size: 42 Copynumber: 9.1 Consensus size: 40
22965 ACATCGACTA
*
22975 TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGT
1 TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
** * *
23015 TCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGT
1 TCGCAATGCGA--TAGTCCAAGTTCGTTGCGATAGTCCAAGT
*
23057 TCGCAATGCGATAGTGCAAGTTCGTTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
* * * *
23097 TAG--TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAAT
1 TCGCAATGCGATAGTCCAAGTT--CGTTGCGA--TAGTCCAAGT
* *
23139 TCG--TTGCGATAGTCCAAGTTCGCGTTACGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGTT--CGTTGCGATAGTCCAAGT
* * * *
23179 T--CATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAAT
1 TCGCAATGCGATAGTCCAAGTT--CGTTGCGA--TAGTCCAAGT
* *
23221 TCG--TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGT
1 TCGCAATGCGATAGTCCAAGTT--CGTTGCGA--TAGTCCAAGT
* * * *
23263 TCG--TTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAAT
1 TCGCAATGCGATAGTCCAAG-TT-CGTTGCGA--TAGTCCAAGT
* *
23305 TCG--TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGT
1 TCGCAATGCGATAGTCCAAGTT--CGTTGCGATAGTCCAAGT
23345 TCG
1 TCG
23348 TTGCGATAGT
Statistics
Matches: 290, Mismatches: 29, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
38 15 0.05
40 90 0.31
41 2 0.01
42 181 0.62
43 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (40 bp):
TCGCAATGCGATAGTCCAAGTTCGTTGCGATAGTCCAAGT
Found at i:23136 original size:82 final size:82
Alignment explanation
Indices: 22981--23487 Score: 640
Period size: 82 Copynumber: 6.2 Consensus size: 82
22971 ACTATCGCAA
* * * * *
22981 TGCGATAGTCCAAGTT-CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--CGTT
1 TGCGATAGTCCAAGTTCCGTTGCGATAGTCCAAGTTC-AGTTGCGA--TAGTCGAAGTTCGCGTT
* * *
23043 GCGA--TAGTCCAAGTTCGCAA
63 GCGATTTATTCCAAATTCG--T
* *
23063 TGCGATAGTGCAAGTT-CGTTGCGATAGTCCAAGTT-AGTTGCGATAGTCCAAGTTCGCGTTGCG
1 TGCGATAGTCCAAGTTCCGTTGCGATAGTCCAAGTTCAGTTGCGATAGTCGAAGTTCGCGTTGCG
23126 ATTTATTCCAAATTCGT
66 ATTTATTCCAAATTCGT
*
23143 TGCGATAGTCCAAGTTCGCGTTACGATAGTCCAAGTTCA-TTGCGATAGTCGAAGTTCGCGTTGC
1 TGCGATAGTCCAAGTTC-CGTTGCGATAGTCCAAGTTCAGTTGCGATAGTCGAAGTTCGCGTTGC
23207 GATTTATTCCAAATTCGT
65 GATTTATTCCAAATTCGT
* *
23225 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTC-GTTGCGATAGTCGAAGTTTGCGTT
1 TGCGATAGTCCAAGTTC-CGTTGCGA--TAGTCCAAGTTCAGTTGCGATAGTCGAAGTTCGCGTT
23289 GCGATTTATTCCAAATTCGT
63 GCGATTTATTCCAAATTCGT
* *
23309 TGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTTC-GTTGCGATAGTTGAAGTTCGCGTTGC
1 TGCGATAGTCCAAGTTC-CGTTGCGATAGTCCAAGTTCAGTTGCGATAGTCGAAGTTCGCGTTGC
23373 GATTTATTCCAAATTCGT
65 GATTTATTCCAAATTCGT
* * * * *
23391 TGCGATAGTCGAAGTTCGCATTTCGATTTATTCCAAGTTCA-TTGCGATAGTCGAAGTTCGCATT
1 TGCGATAGTCCAAGTTC-CGTTGCGA--TAGTCCAAGTTCAGTTGCGATAGTCGAAGTTCGCGTT
23455 GCGATTTATTCCAAATTCGT
63 GCGATTTATTCCAAATTCGT
23475 TGCGATAGTCCAA
1 TGCGATAGTCCAA
23488 AATCGCAACG
Statistics
Matches: 388, Mismatches: 24, Indels: 24
0.89 0.06 0.06
Matches are distributed among these distances:
78 9 0.02
80 30 0.08
82 206 0.53
83 1 0.00
84 142 0.37
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (82 bp):
TGCGATAGTCCAAGTTCCGTTGCGATAGTCCAAGTTCAGTTGCGATAGTCGAAGTTCGCGTTGCG
ATTTATTCCAAATTCGT
Found at i:23250 original size:124 final size:123
Alignment explanation
Indices: 23039--23487 Score: 611
Period size: 124 Copynumber: 3.6 Consensus size: 123
23029 ATTCCAAATT
* * *
23039 CGTTGCGA-TAGTCCAAGTTCGCAATGCGATAGT-GCAAGTT--CGTTGCGATAGTCCAAGTTAG
1 CGTTGCGATTAGTCCAAGTT--CATTGCGATAGTCG-AAGTTCGCGTTGCGATAGTCCAAATTCG
*
23100 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
63 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
* *
23161 CGTTACGA-TAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 CGTTGCGATTAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGA--TAGTCCAAATTCGT
* *
23225 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTTG
64 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
* * * *
23285 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTTCGTT
1 CGTTGCGA-TTAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAATTCGTT
**
23350 GCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
65 GCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
* * * * *
23409 CATTTCGATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCG
1 CGTTGCGA-TTAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGA--TAGTCCAAATTCG
23474 TTGCGATAGTCCAA
63 TTGCGATAGTCCAA
23488 AATCGCAACG
Statistics
Matches: 291, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
120 16 0.05
121 1 0.00
122 26 0.09
124 188 0.65
126 60 0.21
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (123 bp):
CGTTGCGATTAGTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAATTCGTTG
CGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
Found at i:23314 original size:166 final size:166
Alignment explanation
Indices: 23063--23487 Score: 696
Period size: 166 Copynumber: 2.6 Consensus size: 166
23053 AAGTTCGCAA
* * * *
23063 TGCGATAGTGCAAGTT--CGTTGCGA--TAGTCCAAGTTAGTTGCGATAGTCCAAGTTCGCGTTG
1 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
23124 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTACGATAGTCCAAGTTCATTGCGAT
66 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTACGATAGTCCAAGTTCATTGCGAT
23189 AGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
131 AGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
*
23225 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTTGCGTTG
1 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
* * *
23290 CGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTTCGTTGCGAT
66 CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTACGATAGTCCAAGTTCATTGCGAT
*
23355 AGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
131 AGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
* * * * *
23391 TGCGATAGTCGAAGTTCGCATTTCGATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCATTG
1 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
23456 CGATTTATTCCAAATTCGTTGCGATAGTCCAA
66 CGATTTATTCCAAATTCGTTGCGATAGTCCAA
23488 AATCGCAACG
Statistics
Matches: 243, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
162 15 0.06
164 8 0.03
166 220 0.91
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (166 bp):
TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
CGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTACGATAGTCCAAGTTCATTGCGAT
AGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
Found at i:23494 original size:42 final size:42
Alignment explanation
Indices: 23063--23484 Score: 592
Period size: 42 Copynumber: 10.2 Consensus size: 42
23053 AAGTTCGCAA
* * *
23063 TGCGATAGT-GCAAGTT--CGTTGCGA--TAGTCCAAGTTAGT
1 TGCGATAGTCG-AAGTTCGCGTTGCGATTTATTCCAAATTCGT
*
23101 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
* * * * *
23143 TGCGATAGTCCAAGTTCGCGTTACGA--TAGTCCAAGTTCAT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
23183 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
* *
23225 TGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
*
23267 TGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
* *
23309 TGCGATAGTCGAAGTTCGCGTTGCGA--TAGTCCAAGTTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
*
23349 TGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
* * * *
23391 TGCGATAGTCGAAGTTCGCATTTCGATTTATTCCAAGTTCAT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
*
23433 TGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
23475 TGCGATAGTC
1 TGCGATAGTC
23485 CAAAATCGCA
Statistics
Matches: 343, Mismatches: 32, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
38 14 0.04
40 80 0.23
42 249 0.73
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (42 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGT
Found at i:24403 original size:42 final size:41
Alignment explanation
Indices: 24344--24483 Score: 219
Period size: 42 Copynumber: 3.4 Consensus size: 41
24334 CGTTGTGATT
*
24344 TTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAATTTGG-ATAAATCGCAACGCGAAC
*
24386 TTGGACTATCGCAACGAATTTGTGATAAATCGCAACGCGAAG
1 TTGGACTATCGCAACGAATTTG-GATAAATCGCAACGCGAAC
*
24428 TTGGATTATCGCAACGAATTTGGA-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGATAAATCGCAACGCGAAC
*
24468 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
24484 CGAACTTGGA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 29 0.32
41 2 0.02
42 59 0.65
43 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (41 bp):
TTGGACTATCGCAACGAATTTGGATAAATCGCAACGCGAAC
Found at i:24478 original size:21 final size:21
Alignment explanation
Indices: 24344--24508 Score: 137
Period size: 21 Copynumber: 8.0 Consensus size: 21
24334 CGTTGTGATT
*
24344 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
24363 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
24386 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
24405 TTGTGA-TAAATCGCAACGCGAAG
1 TTG-GACT--ATCGCAACGCGAAC
* *
24428 TTGGATTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
24447 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
24468 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
24489 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
24509 TATGTAAATC
Statistics
Matches: 120, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
19 30 0.25
20 2 0.02
21 68 0.57
22 2 0.02
23 18 0.15
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:24709 original size:11 final size:11
Alignment explanation
Indices: 24695--24761 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 11
24685 ATTTTCTCAT
24695 TATAATATATA
1 TATAATATATA
24706 TAT-ATATA-A
1 TATAATATATA
*
24715 TATAAGTTTATA
1 TATAA-TATATA
24727 TATAA-AT-TA
1 TATAATATATA
24736 TATAAT-TAT-
1 TATAATATATA
24745 TATAAGCTATATA
1 TATAA--TATATA
24758 TATA
1 TATA
24762 TACATAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
9 17 0.38
10 8 0.18
11 7 0.16
12 9 0.20
13 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAATATATA
Found at i:24800 original size:16 final size:18
Alignment explanation
Indices: 24779--24823 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
24769 ATTTTGTTTA
24779 TATAAACTATATAT-G-T
1 TATAAACTATATATAGTT
*
24795 TATAAA-AAGTATATAGTT
1 TATAAACTA-TATATAGTT
24813 TATAAACTATA
1 TATAAACTATA
24824 ATTTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 11 0.48
17 1 0.04
18 9 0.39
19 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (18 bp):
TATAAACTATATATAGTT
Found at i:24807 original size:18 final size:18
Alignment explanation
Indices: 24774--24818 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
24764 CATAAATTTT
*
24774 GTTTATATAAACTATATA
1 GTTTATAAAAACTATATA
*
24792 -TGTTATAAAAAGTATATA
1 GT-TTATAAAAACTATATA
24810 GTTTATAAA
1 GTTTATAAA
24819 CTATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (18 bp):
GTTTATAAAAACTATATA
Found at i:25125 original size:20 final size:19
Alignment explanation
Indices: 25100--25147 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
25090 CTTATACTAC
*
25100 ATGTATATAAAAAATATGT
1 ATGTATATAAAAAATATAT
* *
25119 ATAGTATATATAAACTATAT
1 AT-GTATATAAAAAATATAT
25139 ATGTATATA
1 ATGTATATA
25148 TATATAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (19 bp):
ATGTATATAAAAAATATAT
Found at i:25130 original size:24 final size:23
Alignment explanation
Indices: 25103--25156 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
25093 ATACTACATG
25103 TATAT-AA-AAAATATGTATAGTA
1 TATATAAACAAAATATGTATA-TA
* *
25125 TATATAAACTATATATGTATATA
1 TATATAAACAAAATATGTATATA
25148 TATATAAAC
1 TATATAAAC
25157 TATATAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.18
23 13 0.46
24 10 0.36
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
TATATAAACAAAATATGTATATA
Found at i:25153 original size:23 final size:24
Alignment explanation
Indices: 25113--25162 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
25103 TATATAAAAA
25113 ATATGTATAGTATATATAAACTAT
1 ATATGTATAGTATATATAAACTAT
25137 ATATGTATA-TATATATAAACTAT
1 ATATGTATAGTATATATAAACTAT
25160 ATA
1 ATA
25163 AAGTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (24 bp):
ATATGTATAGTATATATAAACTAT
Found at i:25414 original size:35 final size:36
Alignment explanation
Indices: 25344--25417 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
25334 ACAATAGTTA
* *
25344 ATATATGTAACATATAGTATATGTATACATGTAAACT
1 ATATATGTAACATATAGTACATGTATA-ATATAAACT
* *
25381 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACATATAGTACATGTATAATATAAACT
25416 AT
1 AT
25418 GTATAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 9 0.27
37 24 0.73
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (36 bp):
ATATATGTAACATATAGTACATGTATAATATAAACT
Found at i:25426 original size:20 final size:20
Alignment explanation
Indices: 25403--25521 Score: 104
Period size: 20 Copynumber: 6.0 Consensus size: 20
25393 TATAGTACAT
* *
25403 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
25423 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
25443 -TATATATATATA-TATATATA
1 GTATATATA-A-ACTATATATA
*
25463 -TATATATATACCTATAGTATA
1 GTATATATA-AACTATA-TATA
* * *
25484 TGTATATACAATCTATTTAT-
1 -GTATATATAAACTATATATA
25504 GT-TATATAAACTATATAT
1 GTATATATAAACTATATAT
25522 GTAACCTATA
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
18 13 0.15
19 10 0.12
20 41 0.49
21 8 0.10
22 5 0.06
23 7 0.08
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:25431 original size:2 final size:2
Alignment explanation
Indices: 25419--25491 Score: 83
Period size: 2 Copynumber: 35.0 Consensus size: 2
25409 ATAAACTATG
*
25419 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** *
25463 TA TA TA TA TA CC TA TA GTA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
25492 CAATCTATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 55 0.92
3 5 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:25517 original size:18 final size:20
Alignment explanation
Indices: 25480--25523 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
25470 ATACCTATAG
25480 TATATG-TATATACAATCTA
1 TATATGTTATATACAATCTA
*
25499 TTTATGTTATATA-AA-CTA
1 TATATGTTATATACAATCTA
25517 TATATGT
1 TATATGT
25524 AACCTATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (20 bp):
TATATGTTATATACAATCTA
Found at i:25616 original size:21 final size:22
Alignment explanation
Indices: 25560--25616 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
25550 ATATTAGTGT
*
25560 ACTATATAGTTTATACTTTATAA
1 ACTATAT-GTTTATAATTTATAA
* *
25583 TCTATAT-TATATAATTTATAA
1 ACTATATGTTTATAATTTATAA
25604 ACTAT-TGTTTATA
1 ACTATATGTTTATA
25617 TTAATGTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
23 6 0.21
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (22 bp):
ACTATATGTTTATAATTTATAA
Found at i:25690 original size:87 final size:88
Alignment explanation
Indices: 25563--25741 Score: 238
Period size: 87 Copynumber: 2.0 Consensus size: 88
25553 TTAGTGTACT
* * * * * *
25563 ATATAGTTTATACTTTATAATCTATATTATATAATTTATAAACTATTGTTTATATTAATGTTAAT
1 ATATAGTATATACTTTATAAACTATACTATATAATTTATAAAATATAGTTTATATTAATATTAAT
*
25628 TATCT-TA-ACTGTAATTTATATTA
66 T-T-TATAGACTATAATTTATATTA
*
25651 ATATAGTATATAGTTTATAAACTA-ACTATATAATTTATAAAATATAGTTTATATTAATATTAAT
1 ATATAGTATATACTTTATAAACTATACTATATAATTTATAAAATATAGTTTATATTAATATTAAT
*
25715 TTTATAGACTATATTTTATATTA
66 TTTATAGACTATAATTTATATTA
25738 ATAT
1 ATAT
25742 TAATTACAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 1 0.01
86 3 0.04
87 55 0.69
88 21 0.26
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (88 bp):
ATATAGTATATACTTTATAAACTATACTATATAATTTATAAAATATAGTTTATATTAATATTAAT
TTTATAGACTATAATTTATATTA
Found at i:25733 original size:31 final size:31
Alignment explanation
Indices: 25658--25746 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
25648 TTAATATAGT
*
25658 ATATAGTTTATAAACTAACTATATAA-TTTATAAA
1 ATATAGTTTAT--ATTAA-TAT-TAATTTTATAAA
*
25692 ATATAGTTTATATTAATATTAATTTTATAGA
1 ATATAGTTTATATTAATATTAATTTTATAAA
* *
25723 CTATATTTTATATTAATATTAATT
1 ATATAGTTTATATTAATATTAATT
25747 ACAAATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 3 0.06
31 32 0.64
32 4 0.08
34 11 0.22
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATAGTTTATATTAATATTAATTTTATAAA
Found at i:25756 original size:87 final size:87
Alignment explanation
Indices: 25590--25758 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 87
25580 TAATCTATAT
* * * *
25590 TATATAATTTATAAACTATTGTTTATATTAATGTTAATTATCTTAACTGTAATTTATATTAATAT
1 TATATAATTTATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAATTTATATTAATAT
* * **
25655 AGTATATAGTTTATAAACTAAC
66 AATATACAAATTATAAACTAAC
*
25677 TATATAATTTATAAAATATAGTTTATATTAATATTAATT-T-TATAGACTATATTTTATATTAAT
1 TATATAATTTATAAAATATAGTTTATATTAATATTAATTATCT-TA-ACTATAATTTATATTAAT
25740 ATTAAT-TACAAATTATAAA
64 A-TAATATACAAATTATAAA
25759 ACTATAAACT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 1 0.01
86 3 0.04
87 63 0.90
88 3 0.04
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (87 bp):
TATATAATTTATAAAATATAGTTTATATTAATATTAATTATCTTAACTATAATTTATATTAATAT
AATATACAAATTATAAACTAAC
Found at i:25787 original size:14 final size:15
Alignment explanation
Indices: 25768--25813 Score: 69
Period size: 14 Copynumber: 3.1 Consensus size: 15
25758 AACTATAAAC
25768 TAATATTAATATA-A
1 TAATATTAATATATA
25782 TAATATTAAT-TATA
1 TAATATTAATATATA
25796 TAAATATTAATATATA
1 T-AATATTAATATATA
25812 TA
1 TA
25814 TTTATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.07
14 12 0.41
15 10 0.34
16 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATTAATATATA
Found at i:35625 original size:15 final size:16
Alignment explanation
Indices: 35602--35641 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
35592 AGTGGATGTC
*
35602 ATACCAAAATTAAT-T
1 ATACAAAAATTAATAT
35617 ATACAAAAATTAATAT
1 ATACAAAAATTAATAT
*
35633 ATATAAAAA
1 ATACAAAAA
35642 ATGATTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
ATACAAAAATTAATAT
Found at i:37329 original size:55 final size:55
Alignment explanation
Indices: 37278--37658 Score: 352
Period size: 55 Copynumber: 6.9 Consensus size: 55
37268 AGACTTGAAA
* * *
37278 AATCTTCAAATAACGGGTCTGCTCCCTATTCTTTTAAG-GAGTATA-AGACTTGAAC
1 AATCTTCAAA-AACGGGTCCGCTCCCTATTCTCTTAAGAGAGTATAGA-ACTCGAAC
** * * * * * *
37333 AATCTTCGGCAAATGTGTCTGCTCCCTATTAAT-TCAAG-GAGTATATG-ACTTGAAC
1 AATCTTC-AAAAACGGGTCCGCTCCCTATT-CTCTTAAGAGAGTATA-GAACTCGAAC
* * * *
37388 AATCTTCAATAAACGGGTCCGCTCCCTA-TCTGTTCAGGGAGTACAGAACTCGAAC
1 AATCTTCAA-AAACGGGTCCGCTCCCTATTCTCTTAAGAGAGTATAGAACTCGAAC
* * * *
37443 AATCTTCATAAAATGGGTCCGCTCTCTATTC-CTTCAGAGAGTATAGAACTCGAAT
1 AATCTTCA-AAAACGGGTCCGCTCCCTATTCTCTTAAGAGAGTATAGAACTCGAAC
* *
37498 AATCTTCATAAAACGAGTCCGCTCTCC-ATTC-CTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCA-AAAACGGGTCCGCTC-CCTATTCTCTTAAGAGAGTATAGAACTCGAAC
* *
37553 AATCTTCAACAAACGGGTCCGCTCTCTATT-TCTTCAGAGAGTATAGAACTCGAAC
1 AATCTTCAA-AAACGGGTCCGCTCCCTATTCTCTTAAGAGAGTATAGAACTCGAAC
* * *
37608 AATCTTCATAAAACGGGTCCGCTCTCTATTC-CTTCAGAGAGTATAGGACTC
1 AATCTTCA-AAAACGGGTCCGCTCCCTATTCTCTTAAGAGAGTATAGAACTC
37659 AATTTTCAAC
Statistics
Matches: 281, Mismatches: 29, Indels: 32
0.82 0.08 0.09
Matches are distributed among these distances:
53 1 0.00
54 7 0.02
55 266 0.95
56 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (55 bp):
AATCTTCAAAAACGGGTCCGCTCCCTATTCTCTTAAGAGAGTATAGAACTCGAAC
Found at i:37472 original size:110 final size:108
Alignment explanation
Indices: 37278--37658 Score: 396
Period size: 110 Copynumber: 3.5 Consensus size: 108
37268 AGACTTGAAA
* * * *
37278 AATCTTCA-AATAACGGGTCTGCTCCCTATTCTTTTAAGGAGTATA-AGACTTGAACAATCTTCG
1 AATCTTCATAA-AACGGGTCCGCTCCCTA-TCTTTCAGGGAGTATAGA-ACTCGAACAATCTTC-
** * * * * *
37341 GCAAATGTGTCTGCTCCCTATTAATTCA-AGGAGTATATG-ACTTGAAC
62 AAAAATGGGTCCGCTCTCTATTACTTCAGA-GAGTATA-GAACTCGAAC
*
37388 AATCTTCA-ATAAACGGGTCCGCTCCCTATCTGTTCAGGGAGTACAGAACTCGAACAATCTTCAT
1 AATCTTCATA-AAACGGGTCCGCTCCCTATCT-TTCAGGGAGTATAGAACTCGAACAATCTTCA-
* *
37452 AAAATGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAT
63 AAAATGGGTCCGCTCTCTATTACTTCAGAGAGTATAGAACTCGAAC
* * *
37498 AATCTTCATAAAACGAGTCCGCTCTCC-ATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAA
1 AATCTTCATAAAACGGGTCCGCTC-CCTA-TCTTTCAGGGAGTATAGAACTCGAACAATCTTCAA
* *
37562 CAAACGGGTCCGCTCTCTATTTCTTCAGAGAGTATAGAACTCGAAC
64 -AAATGGGTCCGCTCTCTATTACTTCAGAGAGTATAGAACTCGAAC
* * * *
37608 AATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTC
1 AATCTTCATAAAACGGGTCCGCTCCCTA-TCTTTCAGGGAGTATAGAACTC
37659 AATTTTCAAC
Statistics
Matches: 236, Mismatches: 24, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
109 6 0.03
110 222 0.94
111 8 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (108 bp):
AATCTTCATAAAACGGGTCCGCTCCCTATCTTTCAGGGAGTATAGAACTCGAACAATCTTCAAAA
ATGGGTCCGCTCTCTATTACTTCAGAGAGTATAGAACTCGAAC
Found at i:37709 original size:110 final size:107
Alignment explanation
Indices: 37371--37693 Score: 311
Period size: 110 Copynumber: 3.0 Consensus size: 107
37361 TTAATTCAAG
* * * * *
37371 GAGTATATG-ACTTGAACAATCTTCA-ATAAACGGGTCCGCTC-CC-TATCTGTTCAGGGAGTAC
1 GAGTATA-GAACTCGAACAATCTTCATA-AAACGAGTCCGCTCTCCAT-TC-CTTCAGAGAGTAT
* * *
37432 AGAACTCGAACAATCTTCATA-AAATGGGTCCGCTCTCTAT-TCCTTCAGA
62 AGAACT---ACAATCTTCA-ACAAACGAGTCCGCTCACTATCT-CTTCAGA
*
37481 GAGTATAGAACTCGAATAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
1 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
* * *
37546 CTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTTCTTCAGA
66 CT---ACAATCTTCAACAAACGAGTCCGCTCACTATCTCTTCAGA
* * *
37591 GAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGGA
1 GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
* **
37656 CT-CAATTTTCAACAAACGAGTTTGCTTCACTA-CTCTTC
66 CTACAATCTTCAACAAACGAGTCCGC-TCACTATCTCTTC
37694 CATGAAGGTT
Statistics
Matches: 189, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
106 24 0.13
107 5 0.03
109 2 0.01
110 151 0.80
111 6 0.03
112 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (107 bp):
GAGTATAGAACTCGAACAATCTTCATAAAACGAGTCCGCTCTCCATTCCTTCAGAGAGTATAGAA
CTACAATCTTCAACAAACGAGTCCGCTCACTATCTCTTCAGA
Found at i:37999 original size:17 final size:17
Alignment explanation
Indices: 37967--38001 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
37957 TATCTTCATC
37967 TCAATGCTTCAATATCT
1 TCAATGCTTCAATATCT
37984 TCAAT-CTTCAACTATCT
1 TCAATGCTTCAA-TATCT
38001 T
1 T
38002 TGGGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (17 bp):
TCAATGCTTCAATATCT
Found at i:38998 original size:7 final size:7
Alignment explanation
Indices: 38986--39161 Score: 88
Period size: 7 Copynumber: 23.6 Consensus size: 7
38976 ACCCCCTATA
38986 TTTTCTT
1 TTTTCTT
38993 TTTTCTT
1 TTTTCTT
*
39000 TTTTCAT
1 TTTTCTT
*
39007 TTTTCAT
1 TTTTCTT
*
39014 TTTTCTC
1 TTTTCTT
39021 TTTTCTT
1 TTTTCTT
39028 TTTTC-T
1 TTTTCTT
39034 TTTTCATT
1 TTTTC-TT
39042 TTTTCTT
1 TTTTCTT
**
39049 CCATTTTCCCA
1 ---TTTT-CTT
*
39060 TTTTCCT
1 TTTTCTT
39067 TTTT-TT
1 TTTTCTT
*
39073 TTTCCTT
1 TTTTCTT
*
39080 TTTCACTT
1 TTT-TCTT
39088 TTTTC-T
1 TTTTCTT
39094 TTTTCATT
1 TTTTC-TT
39102 TTCTTCATCAT
1 TT-TTC-T--T
39113 TTTTCATT
1 TTTTC-TT
*
39121 TTCTCATT
1 TTTTC-TT
*
39129 TTCTCTTT
1 TTTTC-TT
39137 TTTTCTT
1 TTTTCTT
* *
39144 TTTCCAT
1 TTTTCTT
*
39151 TTTTATT
1 TTTTCTT
39158 TTTT
1 TTTT
39162 TTCATCATTT
Statistics
Matches: 137, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
6 16 0.12
7 65 0.47
8 38 0.28
9 5 0.04
10 9 0.07
11 4 0.03
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCTT
Found at i:39015 original size:27 final size:27
Alignment explanation
Indices: 38985--39163 Score: 118
Period size: 28 Copynumber: 6.4 Consensus size: 27
38975 AACCCCCTAT
38985 ATTTTCTTTTTTCTTTTTTCATTTTTC
1 ATTTTCTTTTTTCTTTTTTCATTTTTC
*
39012 ATTTTTCTCTTTTCTTTTTTC-TTTTTC
1 A-TTTTCTTTTTTCTTTTTTCATTTTTC
* * **
39039 ATTTT-TTCTTCCATTTTCCCA-TTTTC
1 ATTTTCTTTTTTC-TTTTTTCATTTTTC
* *
39065 CTTTT-TTTTTTCCTTTTTCACTTTTTTC
1 ATTTTCTTTTTTCTTTTTTCA--TTTTTC
*
39093 TTTTTCATTTTCTTCATCATTTTTCATTTTCTC
1 ATTTTC-TTTT-TTC-T--TTTTTCATTTT-TC
*
39126 ATTTTCTCTTTTTTTCTTTTTCCATTTTT-
1 A-TTT-TC-TTTTTTCTTTTTTCATTTTTC
39155 ATTTT-TTTT
1 ATTTTCTTTT
39164 CATCATTTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
25 13 0.11
26 23 0.19
27 9 0.08
28 30 0.25
29 1 0.01
30 5 0.04
31 13 0.11
32 4 0.03
33 3 0.03
34 13 0.11
35 6 0.05
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (27 bp):
ATTTTCTTTTTTCTTTTTTCATTTTTC
Found at i:48830 original size:45 final size:45
Alignment explanation
Indices: 48779--48889 Score: 204
Period size: 45 Copynumber: 2.5 Consensus size: 45
48769 GAAATCATAT
*
48779 CCGCATGATATCTAATTCGCATGCTTGTTCGAAAAATAAACCTAA
1 CCGCATGATATCTAGTTCGCATGCTTGTTCGAAAAATAAACCTAA
*
48824 CCGCATGATATCTAGCTCGCATGCTTGTTCGAAAAATAAACCTAA
1 CCGCATGATATCTAGTTCGCATGCTTGTTCGAAAAATAAACCTAA
48869 CCGCATGATATCTAGTTCGCA
1 CCGCATGATATCTAGTTCGCA
48890 AGTATTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (45 bp):
CCGCATGATATCTAGTTCGCATGCTTGTTCGAAAAATAAACCTAA
Found at i:50410 original size:15 final size:16
Alignment explanation
Indices: 50390--50424 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
50380 ATGCCATGCC
50390 AAAATTAAT-TATATA
1 AAAATTAATATATATA
50405 AAAATTAATATATATA
1 AAAATTAATATATATA
50421 AAAA
1 AAAA
50425 ATGATTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTAATATATATA
Found at i:52700 original size:9 final size:9
Alignment explanation
Indices: 52686--52711 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
52676 CTCCTCTGAC
52686 GTCGAAAAA
1 GTCGAAAAA
52695 GTCGAAAAA
1 GTCGAAAAA
52704 GTCGAAAA
1 GTCGAAAA
52712 TGCCATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.12, G:0.23, T:0.12
Consensus pattern (9 bp):
GTCGAAAAA
Found at i:58512 original size:335 final size:335
Alignment explanation
Indices: 57888--58524 Score: 1116
Period size: 335 Copynumber: 1.9 Consensus size: 335
57878 GATCCTGAAT
57888 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATCCATTCATCAGGATGTTTGATTA
1 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATCCATTCATCAGGATGTTTGATTA
*
57953 GTTTGTATTCCTTAAATATAAATTCTTAATTAGTTATAACGTATGGATAAAACCTCTAATAATTA
66 GTTTGTATTCCTTAAATATAAATTCTTAATTAGTTATAACGTATGGATAAAACCTCTAATAAGTA
*
58018 AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATGATTATCAAATTTACTT
131 AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTACTT
58083 AATTTGTTGAACTATAAAAAGTCATGATAACCCTATGTACTACGGTTAACGCACTCATTAAAAAT
196 AATTTGTTGAACTATAAAAAGTCATGATAACCCTATGTACTACGGTTAACGCACTCATTAAAAAT
*
58148 CACTATAAATGCTCCATTCGCAGTTGAACAAGGAGATGAATTTTTTTTTTCATAAACATGGCTTT
261 CACTATAAATGCTCCATTCGCAATTGAACAAGGAGATGAATTTTTTTTTTCATAAACATGGCTTT
58213 CCTTGAATGA
326 CCTTGAATGA
58223 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATCCATTCATCAGGATGTTTGATTA
1 TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATCCATTCATCAGGATGTTTGATTA
* *
58288 GTTTGTATTCCTTAAATATAAATT-TCTAATTAGTTATAATGTATGGATAAGACCTCTAATAAGT
66 GTTTGTATTCCTTAAATATAAATTCT-TAATTAGTTATAACGTATGGATAAAACCTCTAATAAGT
* * *
58352 AAGTCACTCGAATAGTTCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTATT
130 AAGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTACT
* * * **
58417 TAATTTGTTGAACTATAAAAAGTCATGATGATCCTATAG-ACTACGGTTATCGTGCTCATTAAAA
195 TAATTTGTTGAACTATAAAAAGTCATGATAACCCTAT-GTACTACGGTTAACGCACTCATTAAAA
*
58481 ATCACTATAAATGCTCCCTTCGCAATTGAACAAGGAGATGAATT
259 ATCACTATAAATGCTCCATTCGCAATTGAACAAGGAGATGAATT
58525 GACGGTAACC
Statistics
Matches: 286, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
334 1 0.00
335 284 0.99
336 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (335 bp):
TAATATGTGTTATATGTTTGAAGAAAATTTCTAAAGATTTATCCATTCATCAGGATGTTTGATTA
GTTTGTATTCCTTAAATATAAATTCTTAATTAGTTATAACGTATGGATAAAACCTCTAATAAGTA
AGTCACTCGAAAAGTCCATGTGAATCGTCAGAATAAAATTTAAAATATAATTATCAAATTTACTT
AATTTGTTGAACTATAAAAAGTCATGATAACCCTATGTACTACGGTTAACGCACTCATTAAAAAT
CACTATAAATGCTCCATTCGCAATTGAACAAGGAGATGAATTTTTTTTTTCATAAACATGGCTTT
CCTTGAATGA
Found at i:61830 original size:9 final size:9
Alignment explanation
Indices: 61816--61872 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
61806 CTTTTTTTAT
61816 TTATTACTA
1 TTATTACTA
61825 TTATTACTA
1 TTATTACTA
*
61834 TTTTTA-TA
1 TTATTACTA
61842 TT-TTA-T-
1 TTATTACTA
*
61848 TTAAATACTTA
1 TT-ATTAC-TA
61859 TTATTACTA
1 TTATTACTA
61868 TTATT
1 TTATT
61873 TTTATACCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 6 0.15
9 21 0.52
10 5 0.12
11 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (9 bp):
TTATTACTA
Found at i:61963 original size:40 final size:41
Alignment explanation
Indices: 61926--62004 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
61916 ATTTATATGA
*
61926 CTAT-TATTATTATTAGTATTTTTACTATTA-ACGTATATAC
1 CTATATATTATTATT-GTATTATTACTATTATACGTATATAC
* *
61966 CTATATATTTTTATTTTATTATTACTATTATACGTATAT
1 CTATATATTATTATTGTATTATTACTATTATACGTATAT
62005 TCTTTTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.56
Consensus pattern (41 bp):
CTATATATTATTATTGTATTATTACTATTATACGTATATAC
Found at i:67426 original size:44 final size:46
Alignment explanation
Indices: 67376--67485 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
67366 GTAACCATGC
* *
67376 AAATAAGCTTATGAGCTTACGGAA-T-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
* * * *
67420 AAATAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTACAGAA-TTAAATGGCAAGTATATTGGAA
67467 AAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTA
67486 TGGGATAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 21 0.37
46 1 0.02
47 35 0.61
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTACAGAATTAAATGGCAAGTATATTGGAA
Found at i:75299 original size:11 final size:11
Alignment explanation
Indices: 75283--75317 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
75273 GAAGAAAGAA
75283 AAAACAAAAAG
1 AAAACAAAAAG
75294 AAAAC-AAAA-
1 AAAACAAAAAG
75303 AAAACAAAAAG
1 AAAACAAAAAG
75314 AAAA
1 AAAA
75318 AACGTTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.23
10 8 0.36
11 9 0.41
ACGTcount: A:0.86, C:0.09, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAG
Found at i:75406 original size:7 final size:7
Alignment explanation
Indices: 75356--75406 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
75346 AACCTAAATT
75356 GAAAAAA
1 GAAAAAA
75363 GAGAAAAA
1 GA-AAAAA
75371 GAGAAAAA
1 GA-AAAAA
75379 -AATAAAA
1 GAA-AAAA
*
75386 GAAGAAA
1 GAAAAAA
*
75393 GAGAAAA
1 GAAAAAA
75400 GAAAAAA
1 GAAAAAA
75407 TAAGGTGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 1 0.03
7 21 0.57
8 15 0.41
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:76725 original size:106 final size:106
Alignment explanation
Indices: 76533--76791 Score: 401
Period size: 106 Copynumber: 2.4 Consensus size: 106
76523 ACGAAGGGGC
*
76533 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
* *
76598 CAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAATAAT
66 CAACTTCACAGCGAAGAGGCGGCTGACTGTCAACAAACAAT
* *
76639 TTCCCAATTTTAGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
* *
76704 CACCTTCACAGTGAAGAGGCGGCTGACTGTCAACAAACAAT
66 CAACTTCACAGCGAAGAGGCGGCTGACTGTCAACAAACAAT
* * * * * *
76745 TTCCCAGTTCCATAGCCAATTTAAACTTCACGGTGGAGGATATTGGA
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGA
76792 TTCGGAACAA
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 138 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (106 bp):
TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
CAACTTCACAGCGAAGAGGCGGCTGACTGTCAACAAACAAT
Found at i:78708 original size:22 final size:22
Alignment explanation
Indices: 78683--78725 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
78673 CCTACTAATA
78683 TTATGTATGTTTA-ATATTATTG
1 TTAT-TATGTTTATATATTATTG
* *
78705 TTATTATTTTTATATCTTATT
1 TTATTATGTTTATATATTATT
78726 TTGTTTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (22 bp):
TTATTATGTTTATATATTATTG
Found at i:78912 original size:2 final size:2
Alignment explanation
Indices: 78905--78933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78895 TATAAGTTAT
78905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78934 TTATGACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79200 original size:28 final size:27
Alignment explanation
Indices: 79168--79220 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
79158 CACGCTTGTA
*
79168 TATATG-TATTCTTTATTTGTTTATTTAG
1 TATATGCT-TTCTTT-TTTATTTATTTAG
79196 TATATGCTTTCTTTTTTATTTATTT
1 TATATGCTTTCTTTTTTATTTATTT
79221 TTCCTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 12 0.52
29 1 0.04
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.68
Consensus pattern (27 bp):
TATATGCTTTCTTTTTTATTTATTTAG
Found at i:79238 original size:14 final size:14
Alignment explanation
Indices: 79219--79245 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79209 TTTTATTTAT
79219 TTTTCCTTTATTTC
1 TTTTCCTTTATTTC
79233 TTTTCCTTTATTT
1 TTTTCCTTTATTT
79246 ATCCTATTTG
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:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCCTTTATTTC
Found at i:80700 original size:17 final size:17
Alignment explanation
Indices: 80678--80711 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
80668 AATGAGATAA
80678 CCTAATGGTCATCGTAC
1 CCTAATGGTCATCGTAC
80695 CCTAATGGTCATCGTAC
1 CCTAATGGTCATCGTAC
80712 ATGACTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (17 bp):
CCTAATGGTCATCGTAC
Found at i:81036 original size:23 final size:21
Alignment explanation
Indices: 80995--81038 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
80985 GATTCGATCT
*
80995 TTTAATTTTATCTTATTTATA
1 TTTAATTTTATCATATTTATA
81016 TTTAATCTTTATCAATATTTATA
1 TTTAAT-TTTATC-ATATTTATA
81039 AGTATTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATTTTATCATATTTATA
Found at i:86865 original size:24 final size:24
Alignment explanation
Indices: 86833--86890 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
86823 TATTCTTTCA
86833 CTTCAATTGACCTCAAATTTTAGG
1 CTTCAATTGACCTCAAATTTTAGG
* *
86857 CTTCAATTGAGCTCAAATTTTATG
1 CTTCAATTGACCTCAAATTTTAGG
86881 CTTCAATTGA
1 CTTCAATTGA
86891 ACTTCTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (24 bp):
CTTCAATTGACCTCAAATTTTAGG
Found at i:87154 original size:30 final size:30
Alignment explanation
Indices: 87120--87176 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
87110 GGGGTTCAAA
*
87120 CCGGTTTTACCGGTTTTCAGCCGGTTCACC
1 CCGGTTTTACCAGTTTTCAGCCGGTTCACC
* *
87150 CCGGTTTTCCCAGTTTTCAGCTGGTTC
1 CCGGTTTTACCAGTTTTCAGCCGGTTC
87177 TTTACCGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.09, C:0.32, G:0.23, T:0.37
Consensus pattern (30 bp):
CCGGTTTTACCAGTTTTCAGCCGGTTCACC
Found at i:88944 original size:38 final size:39
Alignment explanation
Indices: 88877--88987 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 39
88867 TAGATTTTTA
* * *
88877 TTCTCAAATTATTTCACCCTTACATTCTAAATTCTTAAT
1 TTCTTAAATTATTTCACCCATACATTCTAAATTCTAAAT
*
88916 TTCTTAAATTATTTC-GCCATACATTCTAAATTCTAAAT
1 TTCTTAAATTATTTCACCCATACATTCTAAATTCTAAAT
* *
88954 TTACTTAAATTATTTAACCCCA-ACAATCTAAATT
1 TT-CTTAAATTATTTCA-CCCATACATTCTAAATT
88988 ATTTCTCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 22 0.35
39 26 0.42
40 11 0.18
41 3 0.05
ACGTcount: A:0.35, C:0.21, G:0.01, T:0.43
Consensus pattern (39 bp):
TTCTTAAATTATTTCACCCATACATTCTAAATTCTAAAT
Found at i:91904 original size:15 final size:16
Alignment explanation
Indices: 91884--91913 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91874 TATCATTATT
91884 TTCATG-ATTGGTTCG
1 TTCATGTATTGGTTCG
91899 TTCATGTATTGGTTC
1 TTCATGTATTGGTTC
91914 AGGATCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.50
Consensus pattern (16 bp):
TTCATGTATTGGTTCG
Found at i:95943 original size:5 final size:5
Alignment explanation
Indices: 95933--95958 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
95923 TGACTTAGAA
95933 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
95959 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:98626 original size:21 final size:21
Alignment explanation
Indices: 98597--98662 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
98587 TATTTTTCAA
*
98597 AAAAACATTTACCAAACTTTG
1 AAAACCATTTACCAAACTTTG
*
98618 AAAACCATTT-TCAAA----G
1 AAAACCATTTACCAAACTTTG
98634 -AAA-CATTTACCAAACTTTG
1 AAAACCATTTACCAAACTTTG
98653 AAAACCATTT
1 AAAACCATTT
98663 TTTCAATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
14 5 0.14
15 7 0.20
16 1 0.03
19 1 0.03
20 7 0.20
21 14 0.40
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAACCATTTACCAAACTTTG
Found at i:98638 original size:35 final size:35
Alignment explanation
Indices: 98553--98663 Score: 152
Period size: 35 Copynumber: 3.1 Consensus size: 35
98543 CCATTATCAT
* * *
98553 TTTTC-AACAAACATCTACCAAACTTTGAAAAAACTA
1 TTTTCAAAAAAACATTTACCAAACTTTG--AAAACCA
98589 TTTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
*
98625 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
98660 TTTT
1 TTTT
98664 TTCAATGTTG
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 38 0.55
36 6 0.09
37 5 0.07
38 20 0.29
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.32
Consensus pattern (35 bp):
TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
Found at i:104427 original size:9 final size:8
Alignment explanation
Indices: 104412--104440 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
104402 ATTTCTTCTG
104412 CAAAAAAA
1 CAAAAAAA
104420 CAAAAAAA
1 CAAAAAAA
104428 C-AAAAAA
1 CAAAAAAA
104435 CAAAAA
1 CAAAAA
104441 CGCATAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:107760 original size:2 final size:2
Alignment explanation
Indices: 107753--107785 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
107743 AATGAAATAA
*
107753 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107786 AGCATGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:108062 original size:21 final size:20
Alignment explanation
Indices: 108016--108055 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
108006 AATAACTATA
* *
108016 TATATATACATATTTGTTTT
1 TATAAATACATATTTATTTT
108036 TATAAATACAATATTTATTT
1 TATAAATAC-ATATTTATTT
108056 ATTTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
TATAAATACATATTTATTTT
Found at i:108130 original size:15 final size:15
Alignment explanation
Indices: 108110--108139 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108100 CTTTTCTTTG
*
108110 ATATTAAAAATAATA
1 ATATTAAAAAGAATA
108125 ATATTAAAAAGAATA
1 ATATTAAAAAGAATA
108140 TAAAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
ATATTAAAAAGAATA
Found at i:108198 original size:25 final size:25
Alignment explanation
Indices: 108161--108208 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
108151 AATGAAGTAA
108161 ATATATATATATTT-TTATAAATAAG
1 ATATATATATATTTATTA-AAATAAG
* *
108186 ATATTTATTTATTTATTAAAATA
1 ATATATATATATTTATTAAAATA
108209 CCAGAATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
ATATATATATATTTATTAAAATAAG
Found at i:109635 original size:3 final size:3
Alignment explanation
Indices: 109629--109715 Score: 111
Period size: 3 Copynumber: 28.3 Consensus size: 3
109619 ATTATTTTTT
*
109629 TAA TAA TAA TAA TAA TAA TAA TATA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
** * *
109675 TAA TTT TAA TAA TAA TAA TAC TAA TATT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA T
109716 TTTAAATAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
3 67 0.93
4 5 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:111708 original size:290 final size:290
Alignment explanation
Indices: 111188--111775 Score: 1160
Period size: 290 Copynumber: 2.0 Consensus size: 290
111178 CCTGCTGTAC
111188 AAAAACAGACGTAGTCTTCACCAATCGAGAAGAGCTCGGTCCAAGTACCATATGGCGATCACCAT
1 AAAAACAGACGTAGTCTTCACCAATCGAGAAGAGCTCGGTCCAAGTACCATATGGCGATCACCAT
111253 AGCACCCGAATCGGAGGAGTATCGACACTGCAAAACCAGAAAAACAACCGAAGGATCAATGAAAC
66 AGCACCCGAATCGGAGGAGTATCGACACTGCAAAACCAGAAAAACAACCGAAGGATCAATGAAAC
*
111318 AGAAACATTATAAGAAAAAAAAAGATATTGAAAGAATGACATGCCACAAATCCATAAAAGTCATA
131 AGAAACACTATAAGAAAAAAAAAGATATTGAAAGAATGACATGCCACAAATCCATAAAAGTCATA
111383 GGAGGTAGGAGTCGTGTCCAAGTGTCTTGAAACCGAGGAAGTTGAGCAAGGTGGGTAATTGGTAC
196 GGAGGTAGGAGTCGTGTCCAAGTGTCTTGAAACCGAGGAAGTTGAGCAAGGTGGGTAATTGGTAC
111448 CAAGCCTGGCCTGTACATGGTTGGAATCGG
261 CAAGCCTGGCCTGTACATGGTTGGAATCGG
111478 AAAAACAGACGTAGTCTTCACCAATCGAGAAGAGCTCGGTCCAAGTACCATATGGCGATCACCAT
1 AAAAACAGACGTAGTCTTCACCAATCGAGAAGAGCTCGGTCCAAGTACCATATGGCGATCACCAT
111543 AGCACCCGAATCGGAGGAGTATCGACACTGCAAAACCAGAAAAACAACCGAAGGATCAATGAAAC
66 AGCACCCGAATCGGAGGAGTATCGACACTGCAAAACCAGAAAAACAACCGAAGGATCAATGAAAC
111608 AGAAACACTATAAGAAAAAAAAAGATATTGAAAGAATGACATGCCACAAATCCATAAAAGTCATA
131 AGAAACACTATAAGAAAAAAAAAGATATTGAAAGAATGACATGCCACAAATCCATAAAAGTCATA
111673 GGAGGTAGGAGTCGTGTCCAAGTGTCTTGAAACCGAGGAAGTTGAGCAAGGTGGGTAATTGGTAC
196 GGAGGTAGGAGTCGTGTCCAAGTGTCTTGAAACCGAGGAAGTTGAGCAAGGTGGGTAATTGGTAC
111738 CAAGCCTGGCCTGTACATGGTTGGAATCGG
261 CAAGCCTGGCCTGTACATGGTTGGAATCGG
111768 -AAAACAGA
1 AAAAACAGA
111776 GGAATGAATT
Statistics
Matches: 297, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
289 8 0.03
290 289 0.97
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (290 bp):
AAAAACAGACGTAGTCTTCACCAATCGAGAAGAGCTCGGTCCAAGTACCATATGGCGATCACCAT
AGCACCCGAATCGGAGGAGTATCGACACTGCAAAACCAGAAAAACAACCGAAGGATCAATGAAAC
AGAAACACTATAAGAAAAAAAAAGATATTGAAAGAATGACATGCCACAAATCCATAAAAGTCATA
GGAGGTAGGAGTCGTGTCCAAGTGTCTTGAAACCGAGGAAGTTGAGCAAGGTGGGTAATTGGTAC
CAAGCCTGGCCTGTACATGGTTGGAATCGG
Found at i:118778 original size:33 final size:33
Alignment explanation
Indices: 118689--118808 Score: 136
Period size: 33 Copynumber: 3.5 Consensus size: 33
118679 CTTTATTTTG
*
118689 TTCGGGTCGGGT-TGG-GTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCTGGTTTTTTTAAGTGTGATA
*
118720 TTCTGGTCGAATCAGGTCTGGTTTTTTTAAGTGTGATA
1 TTC-GG--G--TCGGGTCTGGTTTTTTTAAGTGTGATA
*
118758 TTCGGGTCGGGTCAGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCTGGTTTTTTTAAGTGTGATA
* *
118791 TTCAGGTCGGGTCGGGTT
1 TTCGGGTCGGGTCTGGTT
118809 GGGTTCGGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
31 3 0.04
32 2 0.03
33 41 0.54
34 1 0.01
35 1 0.01
36 5 0.07
37 5 0.07
38 18 0.24
ACGTcount: A:0.14, C:0.10, G:0.34, T:0.42
Consensus pattern (33 bp):
TTCGGGTCGGGTCTGGTTTTTTTAAGTGTGATA
Found at i:119407 original size:18 final size:18
Alignment explanation
Indices: 119370--119434 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
119360 TATATAAATG
* *
119370 GATTTCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
119387 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
119405 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
119423 GATTCCAATTCC
1 GATTCCAATTCC
119435 CTCATATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
17 11 0.24
18 34 0.76
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:120685 original size:30 final size:30
Alignment explanation
Indices: 120645--120707 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
120635 AATAAACAAT
*
120645 TGCCAGCCCATTGAAATTATGCACATTCGG
1 TGCCAACCCATTGAAATTATGCACATTCGG
*
120675 TGCCAACCCATTGAAATTATGCATATTCGG
1 TGCCAACCCATTGAAATTATGCACATTCGG
120705 TGC
1 TGC
120708 GTGCATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
TGCCAACCCATTGAAATTATGCACATTCGG
Found at i:124768 original size:16 final size:16
Alignment explanation
Indices: 124744--124775 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
124734 TATCGTCGAT
*
124744 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
124760 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
124776 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:125211 original size:30 final size:30
Alignment explanation
Indices: 125171--125233 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
125161 AATAAACAAT
*
125171 TGCCAGCCCATTGAAATTATGCACATTCGG
1 TGCCAACCCATTGAAATTATGCACATTCGG
*
125201 TGCCAACCCATTGAAATTATGCATATTCGG
1 TGCCAACCCATTGAAATTATGCACATTCGG
125231 TGC
1 TGC
125234 GTGCATCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
TGCCAACCCATTGAAATTATGCACATTCGG
Found at i:145585 original size:117 final size:117
Alignment explanation
Indices: 145379--145593 Score: 297
Period size: 117 Copynumber: 1.8 Consensus size: 117
145369 TAAAATCCGA
* * *
145379 AATTTTTTAGGTTAGTTTGTTCATTTTACAAATGATGTCTATCTTGAAATTTTATTTATGTCTGT
1 AATTTTTTAGGTTAGTTTGTTCATTTTACAAATGATATCTATCCTGAAATTTTATTTATATCTGT
** * *
145444 CTTATACGAAAAATTTCTATTATTAATACATATGCTTCCACTATGAAATTAT
66 CACATACGAAAAAGTTATATTATTAATACATATGCTTCCACTATGAAATTAT
* ** * *
145496 AATTTCTTTAGGTTAG-TTGTTTATTTTACTGATGATATCTATCCTGAAATTTTATTTGTATTTG
1 AATTT-TTTAGGTTAGTTTGTTCATTTTACAAATGATATCTATCCTGAAATTTTATTTATATCTG
*
145560 TCACATGCGAAAAAGTTATATTATTAATACATAT
65 TCACATACGAAAAAGTTATATTATTAATACATAT
145594 ATACCCACCT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
117 74 0.88
118 10 0.12
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (117 bp):
AATTTTTTAGGTTAGTTTGTTCATTTTACAAATGATATCTATCCTGAAATTTTATTTATATCTGT
CACATACGAAAAAGTTATATTATTAATACATATGCTTCCACTATGAAATTAT
Found at i:150120 original size:3 final size:3
Alignment explanation
Indices: 150114--150164 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
150104 ATGATATTAT
* * *
150114 TAA TAA TAC TAA TAA TAA GAA TAA TAA TCA TAA T-A TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
150159 TAA TAA
1 TAA TAA
150165 ATATAATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:150128 original size:9 final size:8
Alignment explanation
Indices: 150114--150174 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 8
150104 ATGATATTAT
150114 TAATAATA
1 TAATAATA
150122 CTAATAATAA
1 -TAATAAT-A
*
150132 GAATAATAA
1 TAATAAT-A
*
150141 TCATAATA
1 TAATAATA
150149 TAAT-ATA
1 TAATAATA
150156 TAATAATA
1 TAATAATA
*
150164 AATATAATA
1 TA-ATAATA
150173 TA
1 TA
150175 TTTTAATCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
7 7 0.16
8 8 0.19
9 27 0.63
10 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (8 bp):
TAATAATA
Found at i:150169 original size:19 final size:21
Alignment explanation
Indices: 150134--150175 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
150124 AATAATAAGA
150134 ATAATAATCATAATATAATAT
1 ATAATAATCATAATATAATAT
150155 ATAATAAT-A-AATATAATAT
1 ATAATAATCATAATATAATAT
150174 AT
1 AT
150176 TTTAATCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAATCATAATATAATAT
Found at i:150750 original size:241 final size:247
Alignment explanation
Indices: 150320--150782 Score: 670
Period size: 241 Copynumber: 1.9 Consensus size: 247
150310 TCGTTGGATT
* * *
150320 GAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTTTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTTGTAGGACGAGTTCTTCTCATTATGAACT
* * * * * * *
150385 CTCCATTTGAAGTGTTAATCCCTCAAATGAGGCTTCGCTGATTCGAAATGCCGTGAATCGAGCGA
66 CTCCA-TGGAAATGTCAATCCCTCAAACGAGGCGTCACTGATTCGAAATGCCATGAATCGAGCGA
150450 TAGGTCAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCATTA
130 TAGGTCAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCATTA
*
150515 TGAACTCTCCA-TTGAAAATGTTGATCTACCTCTTTTTGTGATGGAATCGAAAG
195 TGAACTCTCCACTAG-AAATGTTGATCTACCTCTTTTTGTGATGGAATCGAAAG
150568 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CC-TT-TAGGACGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTTGTAGGACGAGTTCTTCTCATTATGAACT
* * * * * *
150628 CTTC-TGGAAATGTCAATCCCTCAAGCGCGGCGTCATTGATTCGAAATTCCATGAATCGAGTGAT
66 CTCCATGGAAATGTCAATCCCTCAAACGAGGCGTCACTGATTCGAAATGCCATGAATCGAGCGAT
* * * *
150692 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
131 AGGTCAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCATTAT
150757 GAACTCTCCACTAGAAATGTTGATCT
196 GAACTCTCCACTAGAAATGTTGATCT
150783 GTTTATCTTG
Statistics
Matches: 193, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
241 131 0.68
242 2 0.01
243 28 0.15
244 2 0.01
245 2 0.01
246 3 0.02
247 1 0.01
248 24 0.12
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (247 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTTGTAGGACGAGTTCTTCTCATTATGAACT
CTCCATGGAAATGTCAATCCCTCAAACGAGGCGTCACTGATTCGAAATGCCATGAATCGAGCGAT
AGGTCAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCATTAT
GAACTCTCCACTAGAAATGTTGATCTACCTCTTTTTGTGATGGAATCGAAAG
Found at i:151290 original size:37 final size:37
Alignment explanation
Indices: 151172--151296 Score: 99
Period size: 36 Copynumber: 3.3 Consensus size: 37
151162 AGAAAAACCA
*
151172 TCTCAAGTGAGATTCAATTTCTTGTTTCAAGGGAAAACTG
1 TCTCAAGTGAGATAC-A-TT-TTGTTTCAAGGGAAAACTG
** * * * ** * ** *
151212 TCTCAAGCAAGAAAAAGTAGGTTTTAAGAAAAAAC-A
1 TCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTG
151248 TCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTG
1 TCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTG
*
151285 TCTCAAGAGAGA
1 TCTCAAGTGAGA
151297 CAAAGTTGGT
Statistics
Matches: 60, Mismatches: 24, Indels: 5
0.67 0.27 0.06
Matches are distributed among these distances:
36 25 0.42
37 23 0.38
38 1 0.02
39 1 0.02
40 10 0.17
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (37 bp):
TCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTG
Found at i:151312 original size:73 final size:73
Alignment explanation
Indices: 151083--151321 Score: 345
Period size: 73 Copynumber: 3.2 Consensus size: 73
151073 TATCTCAAGA
* * * *
151083 GTTTTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAATTGTCTCAAGCAAAA
1 GTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTGTCTCAAGCAAGA
*
151148 CGAAGTAG
66 CAAAGTAG
*
151156 GTTTTAAGAAAAACCATCTCAAGTGAGATTCAATTTCTTGTTTCAAGGGAAAACTGTCTCAAGCA
1 GTTTTAAGAAAAACCATCTCAAGTGAGATAC-A-TT-TTGTTTCAAGGGAAAACTGTCTCAAGCA
*
151221 AGAAAAAGTAG
63 AGACAAAGTAG
*
151232 GTTTTAAGAAAAAACATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTGTCTCAAG-AGAG
1 GTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTGTCTCAAGCA-AG
*
151296 ACAAAGTTG
65 ACAAAGTAG
*
151305 GTATTAAGAAAAACCAT
1 GTTTTAAGAAAAACCAT
151322 TTGAAGGGAG
Statistics
Matches: 149, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
72 1 0.01
73 79 0.53
74 3 0.02
75 3 0.02
76 63 0.42
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (73 bp):
GTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTGTCTCAAGCAAGA
CAAAGTAG
Found at i:151357 original size:73 final size:73
Alignment explanation
Indices: 151086--151354 Score: 254
Period size: 73 Copynumber: 3.6 Consensus size: 73
151076 CTCAAGAGTT
* * * * * * *
151086 TTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTCAAAGGAAAATTGTCTCAAGCAA-AACG
1 TTAAGAAAAAACATCTCAAGGGAGAAAAACTTTGTTTCAAGGGAAAACTGTCTCAAGCAAGAA-A
*
151150 AAGTAGGTT
65 AAGTAGGTA
* * * **
151159 TTAAGAAAAACCATCTCAAGTGAGATTCAATTTCTTGTTTCAAGGGAAAACTGTCTCAAGCAAGA
1 TTAAGAAAAAACATCTCAAGGGAGA--AAAACT-TTGTTTCAAGGGAAAACTGTCTCAAGCAAGA
*
151224 AAAAGTAGGTT
63 AAAAGTAGGTA
* * * * *
151235 TTAAGAAAAAACATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAACTGTCTCAAG-AGAGACA
1 TTAAGAAAAAACATCTCAAGGGAGAAAAACTTTGTTTCAAGGGAAAACTGTCTCAAGCA-AGAAA
*
151299 AAGTTGGTA
65 AAGTAGGTA
* * * *
151308 TTAAGAAAAACCATTTGAAGGGAGACAAAACTTTGTTTCAAGAGAAA
1 TTAAGAAAAAACATCTCAAGGGAGA-AAAACTTTGTTTCAAGGGAAA
151355 CTGATTCAAA
Statistics
Matches: 170, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
72 1 0.01
73 83 0.49
74 20 0.12
75 4 0.02
76 60 0.35
77 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (73 bp):
TTAAGAAAAAACATCTCAAGGGAGAAAAACTTTGTTTCAAGGGAAAACTGTCTCAAGCAAGAAAA
AGTAGGTA
Found at i:151428 original size:64 final size:66
Alignment explanation
Indices: 151325--151486 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 66
151315 AAACCATTTG
* *
151325 AAGGGAGACAAAACTTTGTTTCAAGAGAAACTGATTCAAA-AACT-TGTTTCAAGAGAAACTGTC
1 AAGGGAGACAAAA-TTTGTTTCAAGGGAAACTGATTCAAAGAACTGTGTTTCAAGAGAAACTATC
151388 TC
65 TC
* * * ** * *
151390 AAGGGAGATAAAATTCGTTTCAAGGGAAA-TGTTCTCAAAGTTCTGTGTTTCTAGATAAACTATC
1 AAGGGAGACAAAATTTGTTTCAAGGGAAACTGAT-TCAAAGAACTGTGTTTCAAGAGAAACTATC
151454 TC
65 TC
151456 AAGGGAGACAAAATTTGTTTCAAGGGAAACT
1 AAGGGAGACAAAATTTGTTTCAAGGGAAACT
151487 CTCTCAAGAG
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 3 0.04
64 19 0.23
65 14 0.17
66 45 0.55
67 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (66 bp):
AAGGGAGACAAAATTTGTTTCAAGGGAAACTGATTCAAAGAACTGTGTTTCAAGAGAAACTATCT
C
Found at i:151486 original size:36 final size:36
Alignment explanation
Indices: 151446--151656 Score: 272
Period size: 36 Copynumber: 6.0 Consensus size: 36
151436 GTTTCTAGAT
*
151446 AAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
*
151482 AAACTCTCTCAAGAGAGACAAAATTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
* * ** *
151518 AAACTTTTTCAA-AG-TTC----TGTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
* *
151548 AAAATATCTCAAGGGAGACAAAATTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
* *
151584 AAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
*
151620 AAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
151656 A
1 A
151657 GACAAAATTC
Statistics
Matches: 150, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.14
31 1 0.01
32 1 0.01
34 1 0.01
35 2 0.01
36 124 0.83
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (36 bp):
AAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGG
Found at i:151556 original size:102 final size:103
Alignment explanation
Indices: 151363--151631 Score: 418
Period size: 102 Copynumber: 2.6 Consensus size: 103
151353 AACTGATTCA
* * * *
151363 AAAACTTGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTCGTTTCAAGGGAAA-TGTTCTCA
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTGTTCTCA
* * *
151427 AAGTTCTGTGTTTCTAGATAAACTATCTCAAGGGAGAC
66 AAGTTCTGTGTTTCAAGAGAAAATATCTCAAGGGAGAC
* * *
151465 AAAATTTGTTTCAAGGGAAACTCTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACT-TTTTCA
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTGTTCTCA
*
151529 AAGTTCTGTGTTTCAAGGGAAAATATCTCAAGGGAGAC
66 AAGTTCTGTGTTTCAAGAGAAAATATCTCAAGGGAGAC
151567 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTG-TCTCA
1 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTGTTCTCA
151631 A
66 A
151632 GAGAGACAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
102 150 0.99
103 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (103 bp):
AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACTGTTCTCA
AAGTTCTGTGTTTCAAGAGAAAATATCTCAAGGGAGAC
Found at i:151581 original size:21 final size:21
Alignment explanation
Indices: 151556--151677 Score: 79
Period size: 21 Copynumber: 6.4 Consensus size: 21
151546 GGAAAATATC
151556 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
151577 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
* *
151592 TCAAGAGAGACAAAATTCGTT
1 TCAAGGGAGACAAAATTTGTT
* *
151613 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
*
151628 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
**
151649 TCAAGGGAGACAAAATTCATT
1 TCAAGGGAGACAAAATTTGTT
151670 TCAAGGGA
1 TCAAGGGA
151678 AACGTTCTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
15 13 0.18
16 8 0.11
17 2 0.03
19 2 0.03
20 9 0.12
21 39 0.53
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:151746 original size:21 final size:21
Alignment explanation
Indices: 151722--151761 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
151712 ATCTCAAGGG
151722 AGACAAAATTTGTTTCAAGAC
1 AGACAAAATTTGTTTCAAGAC
151743 AGACAAAATTTGTTTCAAG
1 AGACAAAATTTGTTTCAAG
151762 GGAAACTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (21 bp):
AGACAAAATTTGTTTCAAGAC
Found at i:151776 original size:36 final size:38
Alignment explanation
Indices: 151743--151831 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 38
151733 GTTTCAAGAC
151743 AGACAAAA-TT-TGTTTCAAGGGAAACTATCTCAAGCG
1 AGACAAAACTTATGTTTCAAGGGAAACTATCTCAAGCG
* * *
151779 AGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGTG
1 AGACAAAA-CTTATGTTTCAAGGGAAACTATCTCAAGCG
*
151818 AGATAAAATCTTAT
1 AGACAAAA-CTTAT
151832 TTAAAAACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
36 7 0.15
38 2 0.04
39 38 0.81
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (38 bp):
AGACAAAACTTATGTTTCAAGGGAAACTATCTCAAGCG
Found at i:151803 original size:39 final size:39
Alignment explanation
Indices: 151753--151831 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
151743 AGACAAAATT
151753 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
* *
151792 TGTTTCGAGGGAAACTATCTCAAGTGAGATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
151831 T
1 T
151832 TTAAAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTA
Found at i:151951 original size:76 final size:76
Alignment explanation
Indices: 151834--151975 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
151824 AATCTTATTT
*
151834 AAAAACAATCTTGATTGAAATGAAATGTCTTCTTTCAAGTAAAAACCATCTCAAGCGAGACAAAT
1 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCAAGTAAAAACCATCTCAAGCGAGACAAAT
151899 CGTTTTTAAGA
66 CGTTTTTAAGA
* * * * *
151910 AAAAACAATCTTGAGTGAAAT-AAATCTTCTTGTTTCGAGTAAAATCCGTCTCAAGCGAGACAAA
1 AAAAACAATCTTGAGTGAAATGAAAT-GTCTTCTTTCAAGTAAAAACCATCTCAAGCGAGACAAA
151974 TC
65 TC
151976 TTCTGTTTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 4 0.07
76 55 0.93
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (76 bp):
AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCAAGTAAAAACCATCTCAAGCGAGACAAAT
CGTTTTTAAGA
Found at i:152102 original size:37 final size:37
Alignment explanation
Indices: 152038--152255 Score: 174
Period size: 36 Copynumber: 5.9 Consensus size: 37
152028 ACAATTTTAG
* *
152038 AATTTGTATTTTAAAGAAAACATGTCTCCAGTGAGACAA
1 AATTTGT-TTTTAGAGAAAAC-TGTCTCAAGTGAGACAA
* * * *
152077 AATTTGTTTTGAGAGAAAGA-TGTCTCAAGTAATAAAA
1 AATTTGTTTTTAGAGAAA-ACTGTCTCAAGTGAGACAA
* * * ** **
152114 AAGTTATTTTTAGGGAAAACAATCTCAAGTGAGATTA
1 AATTTGTTTTTAGAGAAAACTGTCTCAAGTGAGACAA
* * * * *
152151 ATTTTGTTTTAAG-GAAAATTGTCTCCAGTGAGACGA
1 AATTTGTTTTTAGAGAAAACTGTCTCAAGTGAGACAA
* *
152187 AATTTGTTTTTA-AGAAAACTGTCTCAAGCGAGACGA
1 AATTTGTTTTTAGAGAAAACTGTCTCAAGTGAGACAA
* * *
152223 AATTTGTTTTTA-AGAAAATTGTCTTAAGCGAGA
1 AATTTGTTTTTAGAGAAAACTGTCTCAAGTGAGA
152256 TGACCCTTTG
Statistics
Matches: 143, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
36 79 0.55
37 47 0.33
38 9 0.06
39 8 0.06
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (37 bp):
AATTTGTTTTTAGAGAAAACTGTCTCAAGTGAGACAA
Found at i:153391 original size:9 final size:9
Alignment explanation
Indices: 153379--153432 Score: 65
Period size: 9 Copynumber: 5.8 Consensus size: 9
153369 TTTTTCTTTG
153379 TTTTTTTCT
1 TTTTTTTCT
153388 TTTTTTTCT
1 TTTTTTTCT
*
153397 TTTTCTTCT
1 TTTTTTTCT
153406 TTTTCTTTACT
1 TTTT-TTT-CT
153417 TTTTTGTT-T
1 TTTTT-TTCT
153426 TTTTTTT
1 TTTTTTT
153433 GCTCTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 2 0.05
9 27 0.68
10 3 0.08
11 8 0.20
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:153401 original size:15 final size:15
Alignment explanation
Indices: 153372--153413 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
153362 TCGTCCCTTT
153372 TTCTTTGTT-TTTTTC
1 TTCTTT-TTCTTTTTC
*
153387 TTTTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
153402 TTCTTTTTCTTT
1 TTCTTTTTCTTT
153414 ACTTTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:157289 original size:15 final size:15
Alignment explanation
Indices: 157269--157328 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
157259 CTGGATGTTA
*
157269 CGGGTACCTGGTAAT
1 CGGGTACCCGGTAAT
**
157284 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
*
157300 GCGGGCACCCGGTAAT
1 -CGGGTACCCGGTAAT
157316 CGGGTACCCGGTA
1 CGGGTACCCGGTA
157329 CCCGATACCC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 22 0.61
16 4 0.11
17 10 0.28
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:160461 original size:2 final size:2
Alignment explanation
Indices: 160454--160487 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
160444 ATTTAATCAA
160454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
160488 GACTAAGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:160853 original size:16 final size:16
Alignment explanation
Indices: 160832--160864 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
160822 TGGCAATGAC
160832 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
*
160848 TAAAATAAAATTAAAA
1 TAAAATAAAAATAAAA
160864 T
1 T
160865 GTCTAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:165157 original size:6 final size:6
Alignment explanation
Indices: 165146--165170 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
165136 TTACAAAATG
165146 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
165171 GAGAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:171742 original size:24 final size:24
Alignment explanation
Indices: 171698--171747 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
171688 ATAAATAACC
*
171698 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
171722 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
171746 AA
1 AA
171748 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:173230 original size:3 final size:3
Alignment explanation
Indices: 173222--173280 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
173212 AATTATTTAT
* * * *
173222 TAA TAA TAA T-A TAA TAA T-A TAA TAT TTA TAA TAT TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
173268 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
173281 TTTAAAATGG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:174694 original size:20 final size:20
Alignment explanation
Indices: 174669--174707 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
174659 CTTTATTCAA
174669 TTTTTTTTATTTTACTTTTC
1 TTTTTTTTATTTTACTTTTC
* *
174689 TTTTTTTTTTTTTTCTTTT
1 TTTTTTTTATTTTACTTTT
174708 TTTATGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTTTATTTTACTTTTC
Found at i:174696 original size:15 final size:15
Alignment explanation
Indices: 174669--174710 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
174659 CTTTATTCAA
174669 TTTT-TTTTATTTTAC
1 TTTTCTTTT-TTTTAC
**
174684 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTAC
174699 TTTTCTTTTTTT
1 TTTTCTTTTTTT
174711 ATGATGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTTTTTAC
Found at i:178920 original size:17 final size:17
Alignment explanation
Indices: 178898--178932 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
178888 TGGCTGCGTC
178898 ATAGTTTGCTTGATAAT
1 ATAGTTTGCTTGATAAT
178915 ATAGTTTGCTTGATAAT
1 ATAGTTTGCTTGATAAT
178932 A
1 A
178933 AAACTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
ATAGTTTGCTTGATAAT
Found at i:180563 original size:2 final size:2
Alignment explanation
Indices: 180556--180583 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
180546 ATTTAATAAA
180556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
180584 GCTTAAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:181977 original size:3 final size:3
Alignment explanation
Indices: 181969--182021 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
181959 AATTATTTAT
* * * *
181969 TAA TAA TAA T-A TAA TAA T-A TAA CAT TAA TAA TAT TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
182015 TAA TAA T
1 TAA TAA T
182022 TTTAAAGTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:183623 original size:85 final size:85
Alignment explanation
Indices: 183508--183685 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 85
183498 TATGGAGATT
*
183508 CAACTCTGATCAAGTTGGTAAATCCTTAGAGAGCTAAGGAGGCCCTTGGGTAGGCCCATAGGCCC
1 CAACTCTGATCAAGTTGGTAAATCCTTAGAGAGCTAAGGAGGCCCTTGGGTAAGCCCATAGGCCC
183573 AAGACATTCCCTTAGGGTGG
66 AAGACATTCCCTTAGGGTGG
*
183593 CAACTCTGATCAAGTTGGTAAATCCTTAGAGAGCTAAGGAGGCCCTTGGGTAAGCTCATAGGCCC
1 CAACTCTGATCAAGTTGGTAAATCCTTAGAGAGCTAAGGAGGCCCTTGGGTAAGCCCATAGGCCC
183658 AAGACATTCCCTTAGGGTGG
66 AAGACATTCCCTTAGGGTGG
183678 CAACTCTG
1 CAACTCTG
183686 CTATATGCTT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (85 bp):
CAACTCTGATCAAGTTGGTAAATCCTTAGAGAGCTAAGGAGGCCCTTGGGTAAGCCCATAGGCCC
AAGACATTCCCTTAGGGTGG
Found at i:187543 original size:14 final size:14
Alignment explanation
Indices: 187524--187550 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
187514 TAAAAATTAG
187524 AATGTTTTAAGCTA
1 AATGTTTTAAGCTA
187538 AATGTTTTAAGCT
1 AATGTTTTAAGCT
187551 CAATACCGTC
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:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
AATGTTTTAAGCTA
Found at i:188618 original size:15 final size:16
Alignment explanation
Indices: 188592--188623 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
188582 ACTCCGAACT
188592 GAGGGATTGAATTAAC
1 GAGGGATTGAATTAAC
188608 GAGGG-TTGAATTAAC
1 GAGGGATTGAATTAAC
188623 G
1 G
188624 TTGGGTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (16 bp):
GAGGGATTGAATTAAC
Found at i:190674 original size:31 final size:31
Alignment explanation
Indices: 190639--190702 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
190629 AGATCGAGAA
190639 AACATTACATAGAAGGACGAGAGAGCTACGC
1 AACATTACATAGAAGGACGAGAGAGCTACGC
190670 AACATTACATAGAAGGACGAGAGAGCTACGC
1 AACATTACATAGAAGGACGAGAGAGCTACGC
190701 AA
1 AA
190703 TATGACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.12
Consensus pattern (31 bp):
AACATTACATAGAAGGACGAGAGAGCTACGC
Found at i:194697 original size:14 final size:15
Alignment explanation
Indices: 194678--194714 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
194668 CTTTGTTGCA
*
194678 TTTGCATCTCGCA-T
1 TTTGCATCTCCCATT
194692 TTTGCA-CTCCCATT
1 TTTGCATCTCCCATT
194706 TTTGCATCT
1 TTTGCATCT
194715 TTGCATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 13 0.65
15 2 0.10
ACGTcount: A:0.14, C:0.30, G:0.11, T:0.46
Consensus pattern (15 bp):
TTTGCATCTCCCATT
Found at i:197031 original size:36 final size:36
Alignment explanation
Indices: 196983--197577 Score: 217
Period size: 38 Copynumber: 16.1 Consensus size: 36
196973 ATGAAAATTT
*
196983 ATCTCACTTGAGATTGTTTTTATTAAAACAAGATTC
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
* * ** * * *
197019 GTCTCGCTTGAGA-TAATTTCACTCGAAACAGAAGATTT
1 ATCTCACTTGAGATTGTTTTTA-T-GAAA-ACAAGATTC
* *
197057 ATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
* * * * * * *
197093 ATCTCGCTTGAGCTAGTTTTCACTCGAAACAGAAAATTT
1 ATCTCACTTGAGATTGTTTTTA-T-GAAA-ACAAGATTC
*
197132 ATCTCACTTGAGATTGTTTTTCTGAAAACAAGATTC
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
* * * *
197168 ATCTCGCTTGAGATAG-TTTCACTCGAAGTAA-AA-ATTTT
1 ATCTCACTTGAGATTGTTTTTA-T-GAA--AACAAGA-TTC
* * * * * *
197206 ATCTCGCTTGATATAG-TTTCACTCGAAACAGAAGATTT
1 ATCTCACTTGAGATTGTTTTTA-T-GAAA-ACAAGATTC
* * * *
197244 ATCTCACTTCAGATTATTTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
* * * * *
197280 ATCTCGCTTGAGATAG-TTTCACTCG-AAACAAAAATTTT
1 ATCTCACTTGAGATTGTTTTTA-T-GAAAAC-AAGA-TTC
*** * * *
197318 ATCTCACCCAAGATAGTTTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
* * * * *
197354 ATCTCGCTTGAGATAG-TTTCACTCAAAACAGAAGATTT
1 ATCTCACTTGAGATTGTTTTTA-TGAAAAC--AAGATTC
* * * *
197392 ATCTCACTTGAGATTATTTTTCTTAAAACAA-ATTTT
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGA-TTC
* * * *
197428 ATCT-AGCTTGAGATAG-TTTCACTCGAAATAGAAGATTT
1 ATCTCA-CTTGAGATTGTTTTTA-T-GAAA-ACAAGATTC
* * * *
197466 ATCTCACTCGAGATTGTTTTTCTTAAAACAA-ATTTT
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGA-TTC
* * * * *
197502 ATCTCGCTTGAGATAG-TTTCACTCGAAACAAAAGATTT
1 ATCTCACTTGAGATTGTTTTTA-T-GAAA-ACAAGATTC
* * *
197540 ATCTCACTTGAGATTATTTTTCTTAAAACAAGATTC
1 ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
197576 AT
1 AT
197578 ATCGCTTTAG
Statistics
Matches: 410, Mismatches: 109, Indels: 80
0.68 0.18 0.13
Matches are distributed among these distances:
35 23 0.06
36 149 0.36
37 37 0.09
38 153 0.37
39 48 0.12
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (36 bp):
ATCTCACTTGAGATTGTTTTTATGAAAACAAGATTC
Found at i:197151 original size:75 final size:74
Alignment explanation
Indices: 196946--197216 Score: 386
Period size: 74 Copynumber: 3.7 Consensus size: 74
196936 AAAAAAAATT
** * *
196946 ATCTCGCTTGAGACGGTTTCACT--AAATATGAAAATTTATCTCACTTGAGATTGTTTTTATTAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACA-GAAAATTTATCTCACTTGAGATTGTTTTTCTTAA
197009 AACAAGATTC
65 AACAAGATTC
* * *
197019 GTCTCGCTTGAGATAATTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAAATTTATCTCACTTGAGATTGTTTTTCTTAAA
197084 ACAAGATTC
66 ACAAGATTC
* *
197093 ATCTCGCTTGAGCTAGTTTTCACTCGAAACAGAAAATTTATCTCACTTGAGATTGTTTTTCTGAA
1 ATCTCGCTTGAGATAG-TTTCACTCGAAACAGAAAATTTATCTCACTTGAGATTGTTTTTCTTAA
197158 AACAAGATTC
65 AACAAGATTC
** *
197168 ATCTCGCTTGAGATAGTTTCACTCGAAGTA-AAAATTTTATCTCGCTTGA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAAA-TTTATCTCACTTGA
197217 TATAGTTTCA
Statistics
Matches: 178, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
73 23 0.13
74 80 0.45
75 75 0.42
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (74 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAAATTTATCTCACTTGAGATTGTTTTTCTTAAA
ACAAGATTC
Found at i:197235 original size:74 final size:72
Alignment explanation
Indices: 197126--197669 Score: 571
Period size: 74 Copynumber: 7.4 Consensus size: 72
197116 TCGAAACAGA
* * ** * * **
197126 AAATTTATCTCACTTGAGATTGTTTTTCT-GAAA-ACAAGATTCATCTCGCTTGAGATAGTTTCA
1 AAATTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAGATTTATCTCACTTGAGATAGTTTTT
*
197189 CTCGAAGTAA-
65 CT-TAA--AAC
* *
197199 AAATTTTATCTCGCTTGATATAGTTTCACTCGAAACAGAAGATTTATCTCACTTCAGATTA-TTT
1 AAA-TTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAGATTTATCTCACTTGAGA-TAGTTT
197263 TTCTTAAAAC
63 TTCTTAAAAC
* * ***
197273 AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACCCAAGATAGTTTT
1 AA-ATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAGA-TTTATCTCACTTGAGATAGTTTT
197338 TCTTAAAAC
64 TCTTAAAAC
* *
197347 AAGATTCATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTATCTCACTTGAGATTA-TTT
1 AA-ATTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAGATTTATCTCACTTGAGA-TAGTTT
197411 TTCTTAAAAC
63 TTCTTAAAAC
* * * *
197421 AAATTTTATCTAGCTTGAGATAGTTTCACTCGAAATAGAAGATTTATCTCACTCGAGATTGTTTT
1 AAA-TTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAGATTTATCTCACTTGAGATAGTTTT
197486 TCTTAAAAC
64 TCTTAAAAC
197495 AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTA-TTT
1 AAA-TTTATCTCGCTTGAGATAGTTTCACTCGAAAC-AAAGATTTATCTCACTTGAGA-TAGTTT
197559 TTCTTAAAAC
63 TTCTTAAAAC
* * * * * ** *
197569 AAGATTCATATCGCTTTAGATAGTTTCACTCGAAATAGAA-ATTTCATTTCACTCAAGATTGTTT
1 AA-ATTTATCTCGCTTGAGATAGTTTCACTCGAAACA-AAGATTT-ATCTCACTTGAGATAGTTT
197633 TTCTTAAAAC
63 TTCTTAAAAC
*
197643 AAATTTCATCTCGCTTGAGAAAGTTTC
1 AAATTT-ATCTCGCTTGAGATAGTTTC
197670 CTTTGAAATA
Statistics
Matches: 407, Mismatches: 45, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
73 21 0.05
74 346 0.85
75 15 0.04
76 23 0.06
77 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (72 bp):
AAATTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAGATTTATCTCACTTGAGATAGTTTTTC
TTAAAAC
Found at i:197252 original size:112 final size:112
Alignment explanation
Indices: 197093--197553 Score: 522
Period size: 112 Copynumber: 4.1 Consensus size: 112
197083 AACAAGATTC
* * *
197093 ATCTCGCTTGAGCTAGTTTTCACTCGAAACAGAAAATTTATCTCACTTGAGATTGTTTTTCTGAA
1 ATCTCGCTTGAGATAG-TTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAA
**
197158 AACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAGTAAAAATTTT
65 AACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTT
* * *
197206 ATCTCGCTTGATATAGTTTCACTCGAAACAGAAGATTTATCTCACTTCAGATTATTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
197271 ACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTT
66 ACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTT
* *** ** * * * * * ** *
197318 ATCTCACCCAAGATAGTTTTTCT-TAAA-ACAAGATTCATCTCGCTTGAGATAGTTTCACTCAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
* * ** * *
197381 ACAGAAGATTTATCTCACTTGAGATTA-TTTTTCT-TAAA-ACAAATTTT
66 AC--AAGATTCATCTCGCTTGAGA-TAGTTTCACTCGAAACAAAAATTTT
* * *
197428 ATCTAGCTTGAGATAGTTTCACTCGAAATAGAAGATTTATCTCACTCGAGATTGTTTTTCTTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
*
197493 ACAA-ATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA-TTT
66 ACAAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAA-ATTTT
*
197540 ATCTCACTTGAGAT
1 ATCTCGCTTGAGAT
197554 TATTTTTCTT
Statistics
Matches: 284, Mismatches: 54, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
109 3 0.01
110 75 0.26
111 12 0.04
112 177 0.62
113 17 0.06
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (112 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTGTTTTTCTTAAA
ACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTT
Found at i:197358 original size:148 final size:148
Alignment explanation
Indices: 197199--197669 Score: 723
Period size: 148 Copynumber: 3.2 Consensus size: 148
197189 CTCGAAGTAA
* * *
197199 AAATTTTATCTCGCTTGATATAGTTTCACTCGAAACAGAAGATTTATCTCACTTCAGATTATTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTATTTT
* *
197264 TCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAAAAATTTTATCTCACCCAA
66 TCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAATAAAAATTTTATCTCACTCAA
*
197329 GATAGTTTTTCTTAAAAC
131 GATTGTTTTTCTTAAAAC
*
197347 AAGA-TTCATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTATCTCACTTGAGATTATTT
1 AA-ATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTATTT
* * *
197411 TTCTTAAAACAA-ATTTTATCTAGCTTGAGATAGTTTCACTCGAAATAGAAGA-TTTATCTCACT
65 TTCTTAAAACAAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAATA-AAAATTTTATCTCACT
*
197474 CGAGATTGTTTTTCTTAAAAC
128 CAAGATTGTTTTTCTTAAAAC
* *
197495 AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTATTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTATTTT
* * * * *
197560 TCTTAAAACAAGATTCATATCGCTTTAGATAGTTTCACTCGAAATAGAAATTTCATTTCACTCAA
66 TCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAATAAAAATTTTATCTCACTCAA
197625 GATTGTTTTTCTTAAAAC
131 GATTGTTTTTCTTAAAAC
*
197643 AAATTTCATCTCGCTTGAGAAAGTTTC
1 AAATTTCATCTCGCTTGAGATAGTTTC
197670 CTTTGAAATA
Statistics
Matches: 292, Mismatches: 25, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
147 4 0.01
148 283 0.97
149 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (148 bp):
AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTGAGATTATTTT
TCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAATAAAAATTTTATCTCACTCAA
GATTGTTTTTCTTAAAAC
Found at i:197679 original size:74 final size:74
Alignment explanation
Indices: 197199--197669 Score: 641
Period size: 74 Copynumber: 6.4 Consensus size: 74
197189 CTCGAAGTAA
* *
197199 AAATTTTATCTCGCTTGATATAGTTTCACTCGAAACAGAAGATTTATCTCACTTC-AGATTATTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCAC-TCGAGATTATTT
197263 TTCTTAAAAC
65 TTCTTAAAAC
* * *
197273 AAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAACA-AAAATTTTATCTCACCCAAGA-TAGT
1 AA-ATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTATCTCACTCGAGATTA-T
197335 TTTTCTTAAAAC
63 TTTTCTTAAAAC
* *
197347 AAGA-TTCATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTATCTCACTTGAGATTATTT
1 AA-ATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTCGAGATTATTT
197411 TTCTTAAAAC
65 TTCTTAAAAC
* * * *
197421 AAATTTTATCTAGCTTGAGATAGTTTCACTCGAAATAGAAGATTTATCTCACTCGAGATTGTTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTCGAGATTATTTT
197486 TCTTAAAAC
66 TCTTAAAAC
* * *
197495 AAATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTATTTT
1 AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTCGAGATTATTTT
197560 TCTTAAAAC
66 TCTTAAAAC
* * * * * *
197569 AAGA-TTCATATCGCTTTAGATAGTTTCACTCGAAATAGAA-ATTTCATTTCACTCAAGATTGTT
1 AA-ATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTT-ATCTCACTCGAGATTATT
197632 TTTCTTAAAAC
64 TTTCTTAAAAC
*
197643 AAATTTCATCTCGCTTGAGAAAGTTTC
1 AAATTTCATCTCGCTTGAGATAGTTTC
197670 CTTTGAAATA
Statistics
Matches: 355, Mismatches: 32, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
73 12 0.03
74 336 0.95
75 7 0.02
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (74 bp):
AAATTTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCACTCGAGATTATTTT
TCTTAAAAC
Found at i:197829 original size:59 final size:58
Alignment explanation
Indices: 197751--197952 Score: 233
Period size: 59 Copynumber: 3.4 Consensus size: 58
197741 AAAATAAACT
* * * * *
197751 ACGCCTTACTTGAGGGATTAACATTTCCTTTGCAAGATTCACGACATTTCGAATCAATG
1 ACGCCTCACTCGAGGGATTAACATTACCTTTGCAAG-TTCACGACATTTTGAATCAGTG
* * *
197810 ACGCCTCACTCAAGGGATTAACATTACCTTTGCTCAGTTCACGACATTTTAAATCAGTG
1 ACGCCTCACTCGAGGGATTAACATTACCTTTGC-AAGTTCACGACATTTTGAATCAGTG
* * * ** * *
197869 AAGCCTTACTCGAGGGATTAACATTACTTTTGCTCGGTTAACGACATTTTGAATCAGCG
1 ACGCCTCACTCGAGGGATTAACATTACCTTTGC-AAGTTCACGACATTTTGAATCAGTG
*
197928 ACGCCTCACTCGAGGGATCAACATT
1 ACGCCTCACTCGAGGGATTAACATT
197953 TCCAGTAGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
59 121 0.98
60 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (58 bp):
ACGCCTCACTCGAGGGATTAACATTACCTTTGCAAGTTCACGACATTTTGAATCAGTG
Found at i:198327 original size:21 final size:21
Alignment explanation
Indices: 198278--198338 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
198268 CCCAAATCGA
* * * *
198278 ACCCAACCCGAACAAAACTAG
1 ACCCGACCCAAACCAAACCAG
198299 ACCCGACCCAAACCAAACCAG
1 ACCCGACCCAAACCAAACCAG
* * *
198320 ACCTGACCTAAATCAAACC
1 ACCCGACCCAAACCAAACC
198339 CTAACTTTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.41, G:0.08, T:0.07
Consensus pattern (21 bp):
ACCCGACCCAAACCAAACCAG
Found at i:203723 original size:22 final size:22
Alignment explanation
Indices: 203698--203745 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
203688 AACTCGCGAA
203698 TAATTT-AAAAAA-AATAATATAT
1 TAATTTCAAAAAATAA-AAT-TAT
203720 TAATTTCAAAAAATAAAATTAT
1 TAATTTCAAAAAATAAAATTAT
203742 TAAT
1 TAAT
203746 AATATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.54
23 9 0.38
24 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATTTCAAAAAATAAAATTAT
Found at i:206705 original size:44 final size:43
Alignment explanation
Indices: 206627--206725 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 43
206617 ACGTTATCAG
* * *
206627 AAATATTATTATTATTTTTAATATTTTTAGTAAAA-ATTTAT-TAA
1 AAATATTATT-TAATTTTTAATATTCTGAGTAAAATA-TTATCT-A
206671 AAATATTATTTAATTTATTAATATATCTGA-TAAAATATTATCTA
1 AAATATTATTTAATTT-TTAATAT-TCTGAGTAAAATATTATCTA
206715 AAATATTATTT
1 AAATATTATTT
206726 TTCTATCAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 5 0.10
44 38 0.79
45 5 0.10
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (43 bp):
AAATATTATTTAATTTTTAATATTCTGAGTAAAATATTATCTA
Found at i:206813 original size:20 final size:21
Alignment explanation
Indices: 206771--206809 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
206761 AAAAATATTA
*
206771 AAAAAAATTAATATTTTAGAT
1 AAAAAAATTAATATTTTAAAT
206792 AAAAAAA-TAAT-TTTTAAA
1 AAAAAAATTAATATTTTAAA
206810 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAAAAATTAATATTTTAAAT
Found at i:209659 original size:21 final size:21
Alignment explanation
Indices: 209635--209709 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
209625 AGGTATTACA
* *
209635 GTTTATGGTTTATGATTAAGG
1 GTTTAAGGTTTAGGATTAAGG
* *
209656 GTTTAGGGTTTAGGATTAATG
1 GTTTAAGGTTTAGGATTAAGG
*
209677 GTTTAAGGTTTAAGGTTTAAGG
1 GTTTAAGGTTT-AGGATTAAGG
* *
209699 TTTTAGGGTTT
1 GTTTAAGGTTT
209710 TGAGATTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
GTTTAAGGTTTAGGATTAAGG
Found at i:209663 original size:7 final size:7
Alignment explanation
Indices: 209653--209925 Score: 70
Period size: 7 Copynumber: 37.4 Consensus size: 7
209643 TTTATGATTA
209653 AGGGTTT
1 AGGGTTT
209660 AGGGTTT
1 AGGGTTT
* *
209667 AGGATTA
1 AGGGTTT
*
209674 ATGGTTT
1 AGGGTTT
*
209681 AAGGTTT
1 AGGGTTT
*
209688 AAGGTTT
1 AGGGTTT
*
209695 AAGGTTTT
1 -AGGGTTT
209703 AGGGTTTT
1 AGGG-TTT
**
209711 GAGATTTT
1 -AGGGTTT
209719 A-GGTTT
1 AGGGTTT
*
209725 AGTGTTT
1 AGGGTTT
209732 -GGAGTTTT
1 AGG-G-TTT
*
209740 AGGTTTTT
1 AGG-GTTT
*
209748 AAGGTTT
1 AGGGTTT
*
209755 ATGAGTTT
1 A-GGGTTT
**
209763 ATGATTTT
1 A-GGGTTT
209771 AGGGTTT
1 AGGGTTT
209778 AGGGTTT
1 AGGGTTT
* **
209785 TGTTTTT
1 AGGGTTT
209792 AGGGTTTTT
1 AGGG--TTT
209801 AGGGTTTT
1 AGGG-TTT
*
209809 AGGGCTT
1 AGGGTTT
*
209816 AAGGTTT
1 AGGGTTT
**
209823 ATAGTTT
1 AGGGTTT
*
209830 AAGGTTT
1 AGGGTTT
*
209837 AAGGTTTT
1 -AGGGTTT
*
209845 A-TGTTT
1 AGGGTTT
* *
209851 AAGGCCTTA
1 -AGG-GTTT
*
209860 AGGG-TA
1 AGGGTTT
* *
209866 ATGATTT
1 AGGGTTT
209873 AGGGTTT
1 AGGGTTT
209880 AGGGTTT
1 AGGGTTT
* *
209887 -TGATATT
1 AGGGT-TT
*
209894 AGAGTTT
1 AGGGTTT
209901 AGGGTTTT
1 AGGG-TTT
209909 AGGGTTT
1 AGGGTTT
*
209916 AGAGTTT
1 AGGGTTT
209923 AGG
1 AGG
209926 TTTTTAGATT
Statistics
Matches: 190, Mismatches: 58, Indels: 36
0.67 0.20 0.13
Matches are distributed among these distances:
6 14 0.07
7 108 0.57
8 55 0.29
9 13 0.07
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
AGGGTTT
Found at i:209708 original size:8 final size:8
Alignment explanation
Indices: 209692--209812 Score: 55
Period size: 8 Copynumber: 15.9 Consensus size: 8
209682 AGGTTTAAGG
*
209692 TTTAAGGT
1 TTTAGGGT
209700 TTTAGGGT
1 TTTAGGGT
*
209708 TTT-GAGAT
1 TTTAG-GGT
209716 TTTA-GG-
1 TTTAGGGT
*
209722 TTTAGTG-
1 TTTAGGGT
209729 TTT-GGAGT
1 TTTAGG-GT
*
209737 TTTAGGTT
1 TTTAGGGT
*
209745 TTTAAGG-
1 TTTAGGGT
*
209752 TTTATGAG-
1 TTTA-GGGT
* *
209760 TTTATGAT
1 TTTAGGGT
209768 TTTAGGG-
1 TTTAGGGT
209775 TTTAGGGT
1 TTTAGGGT
*
209783 TTT--GTT
1 TTTAGGGT
209789 TTTAGGGTT
1 TTTAGGG-T
209798 TTTAGGGT
1 TTTAGGGT
209806 TTTAGGG
1 TTTAGGG
209813 CTTAAGGTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
6 10 0.12
7 18 0.21
8 46 0.55
9 10 0.12
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (8 bp):
TTTAGGGT
Found at i:209900 original size:21 final size:21
Alignment explanation
Indices: 209868--209980 Score: 131
Period size: 21 Copynumber: 5.3 Consensus size: 21
209858 TAAGGGTAAT
*
209868 GATTTAGGGTTTAGGGTTTT-
1 GATTTAGAGTTTAGGGTTTTA
209888 GATATTAGAGTTTAGGGTTTTA
1 GAT-TTAGAGTTTAGGGTTTTA
* *
209910 GGGTTTAGAGTTTAGGTTTTTA
1 -GATTTAGAGTTTAGGGTTTTA
*
209932 GATTTAGAGTTTTA-GTTTTTA
1 GATTTAGAG-TTTAGGGTTTTA
209953 GATTTAGAGTTTTAGGGTTTTA
1 GATTTAGAG-TTTAGGGTTTTA
*
209975 GGTTTA
1 GATTTA
209981 AGGATTTACA
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
20 3 0.04
21 45 0.55
22 32 0.39
23 2 0.02
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.50
Consensus pattern (21 bp):
GATTTAGAGTTTAGGGTTTTA
Found at i:209924 original size:29 final size:29
Alignment explanation
Indices: 209868--209998 Score: 90
Period size: 29 Copynumber: 4.3 Consensus size: 29
209858 TAAGGGTAAT
*
209868 GATTTAGGG-TTTAGGGTTTTGATATTAGA
1 GATTTAGGGTTTTAGGGTTTAGAT-TTAGA
209897 G-TTTAGGGTTTTAGGGTTTAGAGTTTAGGTTTTTA
1 GATTTAGGGTTTTAGGGTTTAGA-TTTA-G-----A
* **
209932 GATTTAGAGTTTTAGTTTTTAGATTTAGA
1 GATTTAGGGTTTTAGGGTTTAGATTTAGA
* *
209961 GTTTTAGGGTTTTA-GGTTTAAGGATTTACA
1 GATTTAGGGTTTTAGGGTTT-A-GATTTAGA
209991 G-TTTAGGG
1 GATTTAGGG
209999 CTTAAATTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
28 10 0.12
29 37 0.45
30 10 0.12
34 1 0.01
35 6 0.07
36 18 0.22
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (29 bp):
GATTTAGGGTTTTAGGGTTTAGATTTAGA
Done.