Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002265.1 Hibiscus syriacus cultivar Beakdansim tig00004606_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: 127000
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3293 original size:21 final size:21
Alignment explanation
Indices: 3268--3308 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3258 TTGGACCTAA
3268 AAATAAAATTAATAA-AAACAT
1 AAATAAAA-TAATAATAAACAT
3289 AAATAAAATAATAATAAACA
1 AAATAAAATAATAATAAACA
3309 GATAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAATAATAATAAACAT
Found at i:3398 original size:12 final size:12
Alignment explanation
Indices: 3381--3439 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
3371 TATATAATAT
3381 ATATTTTTAAAA
1 ATATTTTTAAAA
3393 ATA-TTTTAAAA
1 ATATTTTTAAAA
* *
3404 ACTATATATT--AT
1 A-TAT-TTTTAAAA
3416 ATATTTTTAAAA
1 ATATTTTTAAAA
*
3428 ATATTTTCAAAA
1 ATATTTTTAAAA
3440 TTATATATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
10 3 0.08
11 12 0.32
12 19 0.51
14 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:3412 original size:37 final size:37
Alignment explanation
Indices: 3365--3824 Score: 266
Period size: 37 Copynumber: 12.0 Consensus size: 37
3355 AATATTTCCA
3365 AAAAACTATATA--ATATATATTTTTAAAAATATTTT
1 AAAAACTATATATTATATATATTTTTAAAAATATTTT
3400 AAAAACTATATA-T-TATATATTTTTAAAAATATTTT
1 AAAAACTATATATTATATATATTTTTAAAAATATTTT
* * *
3435 CAAAA-T-TATA-TATCATATAGTTTTCAAAATATTTT
1 AAAAACTATATATTAT-ATATATTTTTAAAAATATTTT
* ** *
3470 -AAAACTATATATTATATGT-TTTCAAAAAAATGTTTT
1 AAAAACTATATATTATATATATTT-TTAAAAATATTTT
* * ** *
3506 TAAAACTATATATTATATGT-TTTCAAAAAAATGTTTTT
1 AAAAACTATATATTATATATATTT-TTAAAAAT-ATTTT
* *
3544 TAAAACTATATATTATATA-AGTTTTTCAAAATGA-TTT
1 AAAAACTATATATTATATATA-TTTTTAAAAAT-ATTTT
* *
3581 CAAAACTATATATTATATA-AGTTTTT-AAAATGTTTT
1 AAAAACTATATATTATATATA-TTTTTAAAAATATTTT
* * *
3617 CAAAAATTATATTTTATATATATATATATATATATATATATTCAAAATGTTTT
1 -AAAAACTATATATTATATATAT-T-T-T-TA-A-A-A-A-T---AT---TTT
* * * *
3670 CAAAAACTATATATTACATATA-TATTCAAAATGTTTT
1 -AAAAACTATATATTATATATATTTTTAAAAATATTTT
* *
3707 CAAAAACTATATATTATATATATTTTTTCAAAATGTTTT
1 -AAAAACTATATATTATATATA-TTTTTAAAAATATTTT
* *
3746 CAAAAACTATATATTATATTATATATTTTCAAAATGTTTT
1 -AAAAACTATATATTATA-TATAT-TTTTAAAAATATTTT
* * *
3786 CAAAAACTATATAATATATACATTTTCAAAAATCATTTT
1 -AAAAACTATATATTATATATATTTTTAAAAAT-ATTTT
3825 CTAAAGAAAA
Statistics
Matches: 354, Mismatches: 36, Indels: 66
0.78 0.08 0.14
Matches are distributed among these distances:
33 5 0.01
34 6 0.02
35 60 0.17
36 24 0.07
37 103 0.29
38 38 0.11
39 45 0.13
40 37 0.10
41 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 1 0.00
49 1 0.00
51 1 0.00
53 22 0.06
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (37 bp):
AAAAACTATATATTATATATATTTTTAAAAATATTTT
Found at i:3638 original size:2 final size:2
Alignment explanation
Indices: 3631--3657 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3621 AATTATATTT
3631 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 T
3658 TCAAAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3720 original size:39 final size:40
Alignment explanation
Indices: 3637--3805 Score: 251
Period size: 39 Copynumber: 4.3 Consensus size: 40
3627 ATTTTATATA
3637 TATATATATATATATATATATTCAAAATGTTTTCAAAAAC
1 TATATATATATATATATATATTCAAAATGTTTTCAAAAAC
*
3677 --TATATAT-TACATATATATTCAAAATGTTTTCAAAAAC
1 TATATATATATATATATATATTCAAAATGTTTTCAAAAAC
* *
3714 TATATAT-TATATATATTTTTTCAAAATGTTTTCAAAAAC
1 TATATATATATATATATATATTCAAAATGTTTTCAAAAAC
*
3753 TATATAT-TATATTATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATATATA-TATATATATTCAAAATGTTTTCAAAAAC
3793 TATATA-ATATATA
1 TATATATATATATA
3806 CATTTTCAAA
Statistics
Matches: 119, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
37 29 0.24
38 8 0.07
39 45 0.38
40 37 0.31
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (40 bp):
TATATATATATATATATATATTCAAAATGTTTTCAAAAAC
Found at i:4891 original size:87 final size:86
Alignment explanation
Indices: 4630--4929 Score: 318
Period size: 87 Copynumber: 3.5 Consensus size: 86
4620 ATCTGTCATC
* * ** ** * *
4630 GAGCTGAATGGAATCGAACTCGACA-GT-TTTTGTTGACAGATAGCTTTTCTCAAC-TAAGTTAT
1 GAGCTGAGTGTAATCGAACTCGA-AGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* ** * * *
4692 GTTGCAAATTTGACATGCCCTT
65 GCTATAAATTGGATATGCCTTT
* * * * *
4714 GAGCTGAGTGTATTCGAACTCGAAGGTCTTTTGATGACATATATCCCTTCTCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * **
4779 CTATAAATTTGATGTGCCTCG
66 CTATAAATTGGATATGCCTTT
*
4800 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGTTGACAGATAGCCCTTCTCGCCTTGTGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* *
4865 GCTGTAAATTGGATATGCGTTT
65 GCTATAAATTGGATATGCCTTT
*
4887 GAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGACAGATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATA
4930 ACTTTGATGT
Statistics
Matches: 180, Mismatches: 32, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
83 1 0.01
84 22 0.12
85 20 0.11
86 63 0.35
87 74 0.41
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (86 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
CTATAAATTGGATATGCCTTT
Found at i:5198 original size:84 final size:84
Alignment explanation
Indices: 4934--5397 Score: 607
Period size: 84 Copynumber: 5.6 Consensus size: 84
4924 CAGATAACTT
* * *
4934 TGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGAAGATAACCCCTC-CG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
* * *
4998 CCTTGAGCTACGCTGCAAA
66 CCTTGAGTTATGCTGTAAA
* * * * *
5017 TGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAATGTC-TTGGTTGACATATAACCCTTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
5081 CCTTGAGTTATGCTGTAAA
66 CCTTGAGTTATGCTGTAAA
*
5100 TGATGTGCCTTTGAGCTGAGTGTGATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
*
5165 CCTTGAGTTATGCTGCAAA
66 CCTTGAGTTATGCTGTAAA
** * * *
5184 TGATGCACATTTGAGCAT-AGTATAATCGAACTCGAAGGTC--TTGATTGACAGAT-ACCCTTCT
1 TGATGTGCCTTTGAGC-TGAGTGTAATCGAACTCGAAGGTCTTTTG-TTGGCAGATAACCCTTCT
*
5245 TGCCTTGAGTTATGCTGTAAA
64 CGCCTTGAGTTATGCTGTAAA
* * * * * * *
5266 TGATATGCTTTTGAGTTGAGTGTAATCAAACTCGAAGGACTTTTGTTGGCAGATAGCCCCTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
*
5331 CCTTGAGCTATGCTGTAAA
66 CCTTGAGTTATGCTGTAAA
* *
5350 TGATGCGCCTTTGAGCTGAGTGGAATCGAACTCGAAGGTCTTTTGTTG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
5398 AAGGTGTTTT
Statistics
Matches: 327, Mismatches: 46, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
81 1 0.00
82 76 0.23
83 108 0.33
84 141 0.43
85 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (84 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
CCTTGAGTTATGCTGTAAA
Found at i:5243 original size:166 final size:167
Alignment explanation
Indices: 4934--5391 Score: 679
Period size: 166 Copynumber: 2.8 Consensus size: 167
4924 CAGATAACTT
* *
4934 TGATGTGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGAAGATAACCCCTC-CG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCCTCTCG
* * * * *
4998 CCTTGAGCTACGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAATGTCTTGGTT
66 CCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGATT
*
5063 GACATATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
131 GACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
* *
5100 TGATGTGCCTTTGAGCTGAGTGTGATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCCTCTCG
* * * *
5165 CCTTGAGTTATGCTGCAAATGATGCACATTTGAGCAT-AGTATAATCGAACTCGAAGGTCTTGAT
66 CCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGC-TGAGTGTAATCGAACTCGAAGGTCTTGAT
*
5229 TGACAGAT-ACCCTTCTTGCCTTGAGTTATGCTGTAAA
130 TGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
* * * * * *
5266 TGATATGCTTTTGAGTTGAGTGTAATCAAACTCGAAGGACTTTTGTTGGCAGATAGCCCCTCTCG
1 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCCTCTCG
* *
5331 CCTTGAGCTATGCTGTAAATGATGCGCCTTTGAGCTGAGTGGAATCGAACTCGAAGGTCTT
66 CCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
5392 TTGTTGAAGG
Statistics
Matches: 260, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
165 1 0.00
166 196 0.75
167 62 0.24
168 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (167 bp):
TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCCTCTCG
CCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGATT
GACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
Found at i:6235 original size:65 final size:64
Alignment explanation
Indices: 6146--6292 Score: 170
Period size: 65 Copynumber: 2.3 Consensus size: 64
6136 TTTTGAATAC
* * * * * ***
6146 AATTTATGCACTGATACACAGTCATGCATCGATGCACTCTGGAT-TTTATTAAAACATCGAATTG
1 AATTTGTGCACCGATGCACAGTCATGCATCGATGCACCCCGGATATTT-TTAAAACATCGAAGAA
* * *
6210 ATTTTGTGCACCGATGCACAAGTCATGCATCGATGCACCCCGGCTATTTTTGAAACATCGAAGAA
1 AATTTGTGCACCGATGCAC-AGTCATGCATCGATGCACCCCGGATATTTTTAAAACATCGAAGAA
6275 AATTTGTGCACCGATGCA
1 AATTTGTGCACCGATGCA
6293 TACCCTAGTG
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
64 15 0.22
65 51 0.74
66 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (64 bp):
AATTTGTGCACCGATGCACAGTCATGCATCGATGCACCCCGGATATTTTTAAAACATCGAAGAA
Found at i:8211 original size:21 final size:21
Alignment explanation
Indices: 8187--8226 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8177 AAGACTTTAT
8187 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
8208 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
8227 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:10237 original size:23 final size:22
Alignment explanation
Indices: 10209--10288 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 22
10199 ACACTATCTA
10209 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
* * *
10232 GTGCATCGATTCA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
* * *
10253 GTGCACCAAAGCATGCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
*
10276 GTACATCGATGCA
1 GTGCATCGATGCA
10289 CTCTGCTGTG
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 15 0.36
23 27 0.64
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:12251 original size:25 final size:26
Alignment explanation
Indices: 12223--12302 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 26
12213 AAATATTTTG
*
12223 TTGTTTTTAT-TTTGGATGTTTGAAT
1 TTGTTTATATATTTGGATGTTTGAAT
* *
12248 TTGTTGGAT-GA-TTGGATGTTTGAAT
1 TTGTT-TATATATTTGGATGTTTGAAT
* *
12273 TTATTATATATATTTGGTATGTTTAAAT
1 TTGTT-TATATATTTGG-ATGTTTGAAT
12301 TT
1 TT
12303 TCTCTTCGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
25 25 0.60
26 2 0.05
27 4 0.10
28 11 0.26
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (26 bp):
TTGTTTATATATTTGGATGTTTGAAT
Found at i:12581 original size:13 final size:13
Alignment explanation
Indices: 12559--12588 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12549 GGGGGAGTAA
12559 TTTC-AAAATTAT
1 TTTCAAAAATTAT
12571 TTTCAAAAATTAT
1 TTTCAAAAATTAT
12584 TTTCA
1 TTTCA
12589 TAGAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTCAAAAATTAT
Found at i:13057 original size:65 final size:64
Alignment explanation
Indices: 12940--13088 Score: 147
Period size: 65 Copynumber: 2.3 Consensus size: 64
12930 TTTCGAATAC
* * * * ***
12940 AATTTATGCACCGATACACAACCATGCATCGATGCACTATGGATTTTATTAAAACATTGAATTG
1 AATTTATGCACCGATGCACAACCATGCATCGATGCACCACGGATTTTATTAAAACATCGAAGCA
* ** * *
13004 AATTTGTGCACCGATGCACAAGTTATGCATCGATGCACCCCGG-TTATTTTTAAAACATCGAAGC
1 AATTTATGCACCGATGCACAA-CCATGCATCGATGCACCACGGATT-TTATTAAAACATCGAAGC
13068 A
64 A
* *
13069 AATTTTTGCACTGATGCACA
1 AATTTATGCACCGATGCACA
13089 CCCTAGTGTA
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
64 21 0.30
65 48 0.70
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (64 bp):
AATTTATGCACCGATGCACAACCATGCATCGATGCACCACGGATTTTATTAAAACATCGAAGCA
Found at i:18388 original size:9 final size:9
Alignment explanation
Indices: 18337--18448 Score: 66
Period size: 9 Copynumber: 12.0 Consensus size: 9
18327 CAAAGGATGA
18337 AAAAAAGAAT
1 AAAAAA-AAT
18347 AAAAATAAAAT
1 -AAAA-AAAAT
*
18358 AAAAAACAT
1 AAAAAAAAT
**
18367 AAATCAAA-
1 AAAAAAAAT
*
18375 GAAAAAAAT
1 AAAAAAAAT
18384 AAAAAAAAT
1 AAAAAAAAT
*
18393 ATTAAATAAAT
1 A--AAAAAAAT
18404 AAAACAAAA-
1 AAAA-AAAAT
* * *
18413 GACAAAAGT
1 AAAAAAAAT
18422 AAAAAAAAT
1 AAAAAAAAT
*
18431 AAAATAAAT
1 AAAAAAAAT
*
18440 AAAATAAAT
1 AAAAAAAAT
18449 TTAAGGGAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 14
0.72 0.16 0.13
Matches are distributed among these distances:
8 8 0.10
9 46 0.59
10 7 0.09
11 15 0.19
12 2 0.03
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:18406 original size:37 final size:37
Alignment explanation
Indices: 18338--18443 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 37
18328 AAAGGATGAA
* *
18338 AAAAAGAATAAAAATAAA-ATAAAAAACATAAATC-AAAG
1 AAAAA-AATAAAAA-AAATATAAATAA-ATAAAACAAAAG
18376 AAAAAAATAAAAAAAATATTAAATAAATAAAACAAAAG
1 AAAAAAATAAAAAAAATA-TAAATAAATAAAACAAAAG
* *
18414 ACAAAAGTAAAAAAAATA-AAATAAATAAAA
1 AAAAAAATAAAAAAAATATAAATAAATAAAA
18444 TAAATTTAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
36 15 0.25
37 15 0.25
38 31 0.51
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (37 bp):
AAAAAAATAAAAAAAATATAAATAAATAAAACAAAAG
Found at i:18473 original size:12 final size:12
Alignment explanation
Indices: 18456--18536 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
18446 AATTTAAGGG
*
18456 AAATAAGATAAA
1 AAATAAAATAAA
18468 AAATAAAATAAA
1 AAATAAAATAAA
18480 ATAA-AAAATAAA
1 A-AATAAAATAAA
* *
18492 AAAGGGAAAAATAAT
1 AAA---TAAAATAAA
* * *
18507 AATTATAACAAA
1 AAATAAAATAAA
18519 AAATAAAATAAA
1 AAATAAAATAAA
18531 ACAATA
1 A-AATA
18537 TGAAGAGAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
11 2 0.04
12 36 0.68
13 6 0.11
15 9 0.17
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.17
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:18492 original size:5 final size:5
Alignment explanation
Indices: 18348--18485 Score: 58
Period size: 5 Copynumber: 27.8 Consensus size: 5
18338 AAAAAGAATA
* * *
18348 AAAAT AAAAT AAAA- AACAT -AAAT CAAA- GAAA- AAAAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
18393 ATTAAAT -AAAT AAAACA AAAGAC AAAAGT AAAA- AAAAT AAAAT -AAAT
1 A--AAAT AAAAT AAAA-T AAA-AT AAAA-T AAAAT AAAAT AAAAT AAAAT
* * ** * *
18440 AAAAT AAATT TAAGG GAAAT AAGATAA AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-A-AT AAAAT AAAAT AAAAT AAAA
18486 AATAAAAAAG
Statistics
Matches: 102, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
4 28 0.27
5 54 0.53
6 12 0.12
7 8 0.08
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:21665 original size:2 final size:2
Alignment explanation
Indices: 21658--21717 Score: 104
Period size: 2 Copynumber: 30.0 Consensus size: 2
21648 TTTCATATTA
21658 AT AT AT AT 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 AT AT AT AT
21700 AT AT AT AT GAT AT A- AT AT
1 AT AT AT AT -AT AT AT AT AT
21718 GTGGTAATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 53 0.95
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28715 original size:36 final size:36
Alignment explanation
Indices: 28550--28748 Score: 238
Period size: 36 Copynumber: 5.5 Consensus size: 36
28540 GATTGGAGAA
*
28550 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
*
28586 AAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * *
28622 AATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
28658 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
28694 AAAGCATCTTAAGTCTTCACC-AAAAAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAA-TAGTGAAGC
* *
28730 AGATCCATTTTAAGCCTTC
1 A-AACCATCTTAAGCCTTC
28749 TCAGAAGAGT
Statistics
Matches: 141, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.01
36 126 0.89
37 13 0.09
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (36 bp):
AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:29195 original size:51 final size:51
Alignment explanation
Indices: 29130--29895 Score: 654
Period size: 51 Copynumber: 14.6 Consensus size: 51
29120 AAGATTATTT
* * *
29130 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
29181 GAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
29232 GAGTTCTATACTCCTTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
29283 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
29334 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * * *
29386 TGAGTTCCATACTCCCTAGA-AGAAGAGGGAGCGAACCCGTGTGAAGATATCC
1 -GAGTTCTATACTCCCTAGAGA-AAGAGGGAGCGAACCCGTTTGAAGATGTTC
*
29438 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* *
29489 AAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTTC
* *
29543 GAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAAATTGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGA-TGTTC
* * * ** *
29598 GAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTTC
1 GAGTTCTATACTCCCTAGAGAAAGAG-GGAGCGAACCCGT---TTGAAGATGTTC
* * *
29653 GAGTTCTATACTCCCT-GAAGAAAGAGGGAACGAGCCCGTTTTCAGAAGATCATTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGAT-GTTC
* * * * *
29708 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTC
1 GAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTC
* * ** * *
29764 GAGTTCTATACTCCTTAAAGAAA-A--G-G-GAATTCGCTTACAGAAGATTATTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TT--TGAAGA-TGTTC
* * **
29814 AAGTTCTATACT-CCTAGAGAAAGA-GGAGCGAACCTGTAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTC
* * *
29866 GAGTTCCATAATCCCTAGAGAAATAGGGAG
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAG
29896 TAGACCCGAT
Statistics
Matches: 606, Mismatches: 69, Indels: 77
0.81 0.09 0.10
Matches are distributed among these distances:
49 8 0.01
50 27 0.04
51 278 0.46
52 21 0.03
53 63 0.10
54 61 0.10
55 87 0.14
56 57 0.09
57 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (51 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:29468 original size:155 final size:156
Alignment explanation
Indices: 29119--29791 Score: 743
Period size: 155 Copynumber: 4.3 Consensus size: 156
29109 TGAAGCAAAT
* * * * *
29119 GAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCCGAG
1 GAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAG
* * *
29184 TTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATG-CGAGTTCTATACT-CCT
66 TTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGTCGAGTTCCATACTCCCT
* *
29247 TAGAGAAAGAAGGAGCGAACCCGTGT-
131 GA-AGAAAGAGGGAGCGAACCCGTGTC
* * *
29273 GAAGA-TATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAG
1 GAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAG
* *
29337 TTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACTCCC
66 TTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGTC-GAGTTCCATACTCCC
29402 TAGAAG-AAGAGGGAGCGAACCCGTGT-
130 T-GAAGAAAGAGGGAGCGAACCCGTGTC
* *
29428 GAAGA-TATCCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCAAG
1 GAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAG
* * **
29492 TTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTCGAGTTCCATACTCC
66 TTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATATG-TCGAGTTCCATACTCC
*
29557 CTGAAGAAAGAGGGAGCGAACCCGTTTTC
129 CTGAAGAAAGAGGGAGCGAACCCG-TGTC
* * * ** * ** *
29586 AGAAAATTGTTCGAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCT
1 -GAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAG-GGAGCGAACCCGT---TTGAAGATGT
* * * * * *
29651 TCGAGTTCTATACTCCCTGAAGAAAGAGGGAACGAGCCCGTTTTCAGAAGATCAT-TCGAGTTCT
61 TCGAGTTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCG-TTT--GAAGAT-ATGTCGAGTTCC
* * *
29715 ATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCC
122 ATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTGT-C
* *
29752 AAAAGATTATTCGAGTTCTATACTCCTTAAAGAAA-AGGGA
1 -GAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGA
29792 ATTCGCTTAC
Statistics
Matches: 445, Mismatches: 53, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
153 94 0.21
154 6 0.01
155 131 0.29
156 42 0.09
157 5 0.01
159 4 0.01
160 26 0.06
161 12 0.03
164 43 0.10
165 25 0.06
166 51 0.11
167 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (156 bp):
GAAGATTATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAG
TTCCATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGTCGAGTTCCATACTCCCT
GAAGAAAGAGGGAGCGAACCCGTGTC
Found at i:29949 original size:55 final size:55
Alignment explanation
Indices: 29884--30811 Score: 903
Period size: 55 Copynumber: 17.0 Consensus size: 55
29874 TAATCCCTAG
* * * *
29884 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
29939 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
29994 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * * *
30049 AGGAATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGG
1 AGAAATAGGGGGCAGACGCGATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGA
* ** * *
30103 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAG-ACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
30156 AGAAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
30211 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
30266 AGAAATAGGGGGCAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * **
30319 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGA
* * *
30374 AGAAATA-GGGGCAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * **
30426 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGA
* * * *
30481 AGAAATAGGGGGCAGATGCGATTGATGAAGATT-AT-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
30534 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTTTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
** * * *
30589 AGAAATAGGGGGCAGACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGA
* * * * * *
30644 AGAAATAGGGAGC-GAAC-CCATTTTTCTGAAGATT-TATTGAAT-TCTATACTCCCTGA
1 AGAAATAGGGGGCAG-ACGCGA-TTGT-TGAAGATTGT-TCGAGTCT-TATACTCTCTGA
* * * * * *
30700 AGAAAGAGGGAGCGGACCCGATTATTGAAGATTGTTCGAGTCTTATACTCTTTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *** * *
30755 AGAAATAAGGAATAAACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
30810 AG
1 AG
30812 CATAGAGAAC
Statistics
Matches: 735, Mismatches: 103, Indels: 70
0.81 0.11 0.08
Matches are distributed among these distances:
52 22 0.03
53 154 0.21
54 74 0.10
55 441 0.60
56 40 0.05
57 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (55 bp):
AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:30156 original size:217 final size:219
Alignment explanation
Indices: 29857--30656 Score: 609
Period size: 215 Copynumber: 3.7 Consensus size: 219
29847 CTGTAAGAAG
* *
29857 AAGATGTTCGAGTTCCATAATCCCTAGAGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCG
1 AAGATGTTCGAGTTCCATAATCCCTAGAGAAAGAGGGAGTAGACCCGATTGTTGAAGATTGTTCG
* *
29922 AGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATA
66 AGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACAATAGTTGAAGATTATTCGAGTCTCATA
* * *
29986 CTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAA
130 CTCTCTGAAGA-AATAGGGAGCAGACACAATCGTTGAAGATTGTTCGAGTCTCATACTCTCTGAA
*
30050 GGAATAGGGAGCATACACGTTTTCAA
194 GAAATAGGGAGCATACACGTTTTCAA
* * * *
30076 AAGATTTTCGAGTTCTATACTCCCTGGAGAAAGAGGGA--ACGAACCCGATTGTTGAAGATTG-T
1 AAGATGTTCGAGTTCCATAATCCCTAGAGAAAGAGGGAGTA-G-ACCCGATTGTTGAAGATTGTT
* * ** * * *
30138 -GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTAT
64 CGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATAGTTGAAGATTATTCGAGTCTCAT
* * *
30202 ACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA
129 ACTCTCTGAAGAAATAGGGAGCAGACACAATCGTTGAAGATTGTTCGAGTCTCATACTCTCTGAA
* * ** * * *
30267 GAAATAGGGGGCAGATGCG-ATTGATG
194 GAAATAGGGAGCATACACGTTTTCA-A
* * * * * * * * * **
30293 AAGAT-TGT-G-GGTCTTATACTCTCT-GAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGT
1 AAGATGT-TCGAGTTC-CATAATCCCTAG-AGAAAGAGGGAGTAGACCCGATTGTTGAAGATTGT
** * * * * * *
30354 TCG-GATCTTATACTCTCTGAAGAAATAGGG-GCAGATGCGATTGATGAAGATT-GT-GGGTCTT
63 TCGAG-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATAGTTGAAGATTATTCGAGTCTC
* * * * *
30415 ATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCT
127 ATACTCTCTGAAGAAATAGGGAGCAGACACAATCGTTGAAGATTGTTCGAG-TCTCATACTCTCT
* * ** * * *
30479 GAAGAAATAGGGGGCAGATGCG-ATTGATG
191 GAAGAAATAGGGAGCATACACGTTTTCA-A
* * * * * * * * * * *
30508 AAGAT-TAT-G-GGTCTTATACTCTCT-GAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTTT
1 AAGATGT-TCGAGTTC-CATAATCCCTAG-AGAAAGAGGGAGTAGACCCGATTGTTGAAGATTGT
* * * * * *
30569 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACA-AGTTTGTTGAAGATGATTCAAGTCTT
63 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACA-ATAGTTGAAGATTATTCGAGTCTC
*
30633 ATACCCTCTGAAGAAATAGGGAGC
127 ATACTCTCTGAAGAAATAGGGAGC
30657 GAACCCATTT
Statistics
Matches: 503, Mismatches: 59, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
214 1 0.00
215 185 0.37
216 55 0.11
217 154 0.31
218 57 0.11
219 51 0.10
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (219 bp):
AAGATGTTCGAGTTCCATAATCCCTAGAGAAAGAGGGAGTAGACCCGATTGTTGAAGATTGTTCG
AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACAATAGTTGAAGATTATTCGAGTCTCATAC
TCTCTGAAGAAATAGGGAGCAGACACAATCGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGA
AATAGGGAGCATACACGTTTTCAA
Found at i:30332 original size:108 final size:109
Alignment explanation
Indices: 29884--30811 Score: 875
Period size: 108 Copynumber: 8.5 Consensus size: 109
29874 TAATCCCTAG
* * * * * *
29884 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGG
* ** * * * *
29948 GAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
65 GGGCAGATGCGATTGATGAAGATT-GTCGGGTCTTATACTCTCTGA
* * * * * * *
29994 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGG
1 AGA-AATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
* * ** * * * * * * *
30058 GAGCATACACGTTTTCA-AAAGATTTTCGAGT-TCTATACTCCCTGG
65 GGGCAGATGCG-ATTGATGAAGATTGTCGGGTCT-TATACTCTCTGA
* ** * * * *
30103 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAG-ACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
* * *
30165 GGGCAGATGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
65 GGGCAGATGCGATTGATGAAGATTG-TCGGGTCTTATACTCTCTGA
30211 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
30276 GGCAGATGCGATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
66 GGCAGATGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* *
30319 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGAAGAAATA-G
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGG
30382 GGGCAGATGCGATTGATGAAGATTGT-GGGTCTTATACTCTCTGA
65 GGGCAGATGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
* *
30426 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGG
*
30490 GGGCAGATGCGATTGATGAAGATTAT-GGGTCTTATACTCTCTGA
65 GGGCAGATGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
*
30534 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTTTTCGAGTCTTATACTCTCTGAAGAAATAGGG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
*** * * ** *
30599 GGCAGACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
66 GGCAGATGCGATTGATGAAGATTG--TCGGGTCTTATACTCTCTGA
* * * ** * * * *
30644 AGAAATAGGGAGC-GAACCCATTTTTCTGAAGATT-TATTGAAT-TCTATACTCCCTGAAGAAAG
1 AGAAATAGGGGGCAG-ACGCAATCGT-TGAAGATTGT-TCGAGTCT-TATACTCTCTGAAGAAAT
* * ** * *
30706 AGGGAGCGGACCCGATT-ATTGAAGATTGTTCGAGTCTTATACTCTTTGA
62 AGGGGGCAGATGCGATTGA-TGAAGATTG-TCGGGTCTTATACTCTCTGA
* *** * * * *
30755 AGAAATAAGGAATAAACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
30812 CATAGAGAAC
Statistics
Matches: 704, Mismatches: 87, Indels: 54
0.83 0.10 0.06
Matches are distributed among these distances:
106 1 0.00
107 145 0.21
108 240 0.34
109 50 0.07
110 182 0.26
111 84 0.12
112 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (109 bp):
AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG
GGCAGATGCGATTGATGAAGATTGTCGGGTCTTATACTCTCTGA
Found at i:30472 original size:215 final size:218
Alignment explanation
Indices: 29908--30604 Score: 799
Period size: 215 Copynumber: 3.2 Consensus size: 218
29898 GACCCGATTG
* * ** * * *
29908 TTGAAGTTTGTTC-GAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGAT
1 TTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGA-AATAGGGGGCAGATGCAATAGATGAAGAT
* * * * * * * * **
29971 TATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGT
64 TGTTCGGGTCTTATACTCTCTGAAGA-AAAAGGGGGCAGACGCAATCATTGAAGATTGTTCGAGT
* * * * ** * * * * *
30035 CTCATACTCTCTGAAGGAATAGGGAGCATACACGTTTTCA-AAAGATTTTCGAGT-TCTATACTC
128 CTTATACTCTCTGAAGAAATAGGGGGCAGATGCG-ATTGATGAAGATTAT-GGGTCT-TATACTC
* * * ** * * **
30098 CCTGGAGAAAGAGGGAAC-GAACCCGATTG
190 TCTGAAGAAAAAGGGGGCAG-ACGCAATCA
* *
30127 TTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATAGTTGAAGATTG
1 TTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATAGATGAAGATTG
* *
30190 TTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTT
66 TTCGGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCGAGTCTT
*
30255 ATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAA
131 ATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTATGGGTCTTATACTCTCTGAA
30320 GAAAAAGGGGGCAGACGCAATCA
196 GAAAAAGGGGGCAGACGCAATCA
* *
30343 TTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATA-GGGGCAGATGCGATTGATGAAGATTG
1 TTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATAGATGAAGATTG
30407 -T-GGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCT
66 TTCGGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCGAG-TCT
30469 TATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTATGGGTCTTATACTCTCTGA
130 TATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTATGGGTCTTATACTCTCTGA
* *
30534 AGAAATAGGGGGCAGACGCAATCG
195 AGAAAAAGGGGGCAGACGCAATCA
*
30558 TTGAAGATTTTTC-GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA
1 TTGAAGATTGTTCGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGA
30605 CAAGTTTGTT
Statistics
Matches: 422, Mismatches: 45, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
214 3 0.01
215 177 0.42
216 50 0.12
217 155 0.37
218 28 0.07
219 9 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (218 bp):
TTGAAGATTGTTCGGATCTTATACTCTCTGAAGAAATAGGGGGCAGATGCAATAGATGAAGATTG
TTCGGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCGAGTCTT
ATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTATGGGTCTTATACTCTCTGAA
GAAAAAGGGGGCAGACGCAATCA
Found at i:30472 original size:270 final size:268
Alignment explanation
Indices: 29908--30811 Score: 911
Period size: 270 Copynumber: 3.3 Consensus size: 268
29898 GACCCGATTG
*
29908 TTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGATT
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACGATTGTTGAAGATT
* * * * *
29972 ATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTC
65 GTTCGAGTCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCGATTGTTGAAGATTG-TCGAGTC
* * * * * * * *
30036 TCATACTCTCTGAAGGAATAGGGAGCATA-CACGTTTTCAAAAGATT-TTCGAGTTC-TATACTC
128 TTATACTCTCTGAAGAAATAGGGGGCAGACCA-ATATT--GAAGATTGTTCG-GATCTTATACTC
* * * * * *
30098 CCTGGAGAAAGA-GGGAACGAACCCGATTGTTGAAGATTGTGGGTCTTATACTCTCTGAAGAAAT
189 TCTGAAGAAATAGGGGCA-GAA-CCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAAA
*
30162 AGGGGGCAGATGCAATA
252 AGGGGGCAGACGCAATA
* * * * *
30179 GTTGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATT
1 -TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * *
30244 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTGT-GGGTCTT
65 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTCGAGTCTT
*
30308 ATACTCTCTGAAGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCGGATCTTATACTCTCTG
130 ATACTCTCTGAAGAAATAGGGGGCAGAC-CAAT-ATTGAAGATTGTTCGGATCTTATACTCTCTG
**
30373 AAGAAATAGGGGCAGATGCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAAAAGGGGG
193 AAGAAATAGGGGCAGAACCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAAAAGGGGG
30438 CAGACGCAATCA
258 CAGACGCAAT-A
* ** *
30450 TTGAAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATT
1 TTGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * * * *
30514 -AT-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTTTTCGAGTCT
65 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGA-TTGTCGAGTCT
* * *
30577 TATACTCTCTGAAGAAATAGGGGGCAGA-CAAGTTTGTTGAAGA-TGATTC-AAGTCTTATACCC
129 TATACTCTCTGAAGAAATAGGGGGCAGACCAA---TATTGAAGATTG-TTCGGA-TCTTATACTC
* ** * ** *
30639 TCTGAAGAAATAGGGAGC-GAACCCATTTTTCTGAAGATTTATTGAAT-TCTATACTCCCTGAAG
189 TCTGAAGAAATAGGG-GCAGAACCGA--TTGATGAAGA-TT-GTGGGTCT-TATACTCTCTGAAG
* * * * *
30702 AAAGAGGGAGCGGACCCGATTA
248 AAAAAGGGGGCAGACGC-AATA
* * ** *
30724 TTGAAGATTGTTCGAGTCTTATACTCTTTGAAGAAATAAGGAATAAACACGATTGTTGAAGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
30789 TTCGAGTCTTATACTCTCTGAAG
66 TTCGAGTCTTATACTCTCTGAAG
30812 CATAGAGAAC
Statistics
Matches: 532, Mismatches: 73, Indels: 50
0.81 0.11 0.08
Matches are distributed among these distances:
268 47 0.09
269 8 0.02
270 219 0.41
271 28 0.05
272 119 0.22
273 5 0.01
274 83 0.16
275 4 0.01
276 19 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (268 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
TTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTCGAGTCTTA
TACTCTCTGAAGAAATAGGGGGCAGACCAATATTGAAGATTGTTCGGATCTTATACTCTCTGAAG
AAATAGGGGCAGAACCGATTGATGAAGATTGTGGGTCTTATACTCTCTGAAGAAAAAGGGGGCAG
ACGCAATA
Found at i:33474 original size:2 final size:2
Alignment explanation
Indices: 33467--33514 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
33457 TTTCATATTA
33467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
33510 A- AT AT
1 AT AT AT
33515 GTGGTAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40515 original size:36 final size:36
Alignment explanation
Indices: 40350--40548 Score: 238
Period size: 36 Copynumber: 5.5 Consensus size: 36
40340 GATTGGAGAA
*
40350 AAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
*
40386 AAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * *
40422 AATCAATCTGAAGCCTTCACCGGAGAATAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
40458 AAACCATCATAAGTCTTCACCAGAGAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
* * * *
40494 AAAGCATCTTAAGTCTTCACC-AAAAAGTAGTGAAGC
1 AAACCATCTTAAGCCTTCACCGGAGAA-TAGTGAAGC
* *
40530 AGATCCATTTTAAGCCTTC
1 A-AACCATCTTAAGCCTTC
40549 TCAGAAGAGT
Statistics
Matches: 141, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.01
36 126 0.89
37 13 0.09
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (36 bp):
AAACCATCTTAAGCCTTCACCGGAGAATAGTGAAGC
Found at i:42089 original size:21 final size:21
Alignment explanation
Indices: 42065--42104 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42055 ATATTTAGGG
*
42065 TTTAGGGTTTATA-GTTTATGA
1 TTTAAGGTTTA-AGGTTTATGA
42086 TTTAAGGTTTAAGGTTTAT
1 TTTAAGGTTTAAGGTTTAT
42105 TACAAAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTTTATGA
Found at i:43528 original size:37 final size:36
Alignment explanation
Indices: 43414--43655 Score: 225
Period size: 35 Copynumber: 6.8 Consensus size: 36
43404 ATATTTCCAA
* * **
43414 AAAACTATATAATATAT-TTTTTTTAAAA-TA-TTT
1 AAAACTATATATTATATAGTTTTCAAAAAGTATTTT
**
43447 ACAAACTATATATTATATA-TTTAAAAAAAGT-TTTT
1 A-AAACTATATATTATATAGTTTTCAAAAAGTATTTT
* *
43482 AAAATTATATATCATATAGTTTTCAAAAA-TATTTT
1 AAAACTATATATTATATAGTTTTCAAAAAGTATTTT
* *
43517 AAAATTATATATTATAT-GTTTTCAAAAAATGTTTTTT
1 AAAACTATATATTATATAGTTTTC-AAAAA-GTATTTT
*
43554 AAAACTATATATTATAT-GTTTTCAAAAAATGTTTTTT
1 AAAACTATATATTATATAGTTTTC-AAAAA-GTATTTT
* *
43591 AAAACTATATATTATATAAGTTTTC-AAATG-ATTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAAGTATTTT
*
43626 AAAACTATATATTATATATATTTTCAAAAA
1 AAAACTATATATTATATA-GTTTTCAAAAA
43656 CTATATAATA
Statistics
Matches: 180, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
33 1 0.01
34 45 0.25
35 63 0.35
36 4 0.02
37 61 0.34
39 6 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (36 bp):
AAAACTATATATTATATAGTTTTCAAAAAGTATTTT
Found at i:43600 original size:72 final size:71
Alignment explanation
Indices: 43414--43655 Score: 207
Period size: 72 Copynumber: 3.4 Consensus size: 71
43404 ATATTTCCAA
* * ** *
43414 AAAACTATATAATATAT-TTTTTTTAAAATA-TTTACAAACT-ATATATTATAT-ATTT-AAAAA
1 AAAACTATATATTATATAGTTTTCAAAAATATTTTA-AAA-TAATATATTATATGTTTTCAAAAA
*
43474 AAGTTTTT
64 ATGTTTTT
* * *
43482 AAAATTATATATCATATAGTTTTCAAAAATATTTTAAAATTATATATTATATGTTTTCAAAAAAT
1 AAAACTATATATTATATAGTTTTCAAAAATATTTTAAAATAATATATTATATGTTTTCAAAAAAT
43547 GTTTTTT
66 G-TTTTT
*
43554 AAAACTATATATTATAT-GTTTTCAAAAAATGTTTTTTAAAACT-ATATATTATATAAGTTTTC-
1 AAAACTATATATTATATAGTTTTC-AAAAA--TATTTTAAAA-TAATATATTATAT--GTTTTCA
* *
43616 --AAATGATTTC
60 AAAAATGTTTTT
*
43626 AAAACTATATATTATATATATTTTCAAAAA
1 AAAACTATATATTATATA-GTTTTCAAAAA
43656 CTATATAATA
Statistics
Matches: 146, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
68 15 0.10
69 24 0.16
70 7 0.05
71 13 0.09
72 45 0.31
73 10 0.07
74 25 0.17
75 1 0.01
76 6 0.04
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.46
Consensus pattern (71 bp):
AAAACTATATATTATATAGTTTTCAAAAATATTTTAAAATAATATATTATATGTTTTCAAAAAAT
GTTTTT
Found at i:43655 original size:26 final size:26
Alignment explanation
Indices: 43622--43680 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
43612 TTTCAAATGA
* *
43622 TTTC-AAAACTATATATTATATATAT
1 TTTCAAAAACTATATAATATATACAT
43647 TTTCAAAAACTATATAATATATACAT
1 TTTCAAAAACTATATAATATATACAT
*
43673 TTTTAAAA
1 TTTCAAAA
43681 TTCATTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTCAAAAACTATATAATATATACAT
Found at i:44471 original size:2 final size:2
Alignment explanation
Indices: 44464--44499 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
44454 ATCTCAAATG
44464 AT 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 AT
44500 TCAAGATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44924 original size:61 final size:59
Alignment explanation
Indices: 44833--44954 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 59
44823 TATGTACCCG
* **
44833 AACTATAATCTCATTTTAAACGAGTCCTTAATTTTTTTGAATATT-TCAATTTC-TTCCCTA
1 AACTATAATCTCATTTTAAACGAATCCTTAA-ACTTTTGAATATTCT-AATTTCATT-CCTA
** *
44893 AACTATAACTCTCATTTTAAATTAATTCTTAAACTTTTGAATATTCTAATTTCATTCCTA
1 AACTATAA-TCTCATTTTAAACGAATCCTTAAACTTTTGAATATTCTAATTTCATTCCTA
44953 AA
1 AA
44955 TTATGAGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
60 31 0.58
61 22 0.42
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (59 bp):
AACTATAATCTCATTTTAAACGAATCCTTAAACTTTTGAATATTCTAATTTCATTCCTA
Found at i:45543 original size:20 final size:20
Alignment explanation
Indices: 45502--45548 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45492 AATTAAAATA
* *
45502 TTTAAATGTTTAGGGATCAT
1 TTTAAATGTTTAGAGATAAT
45522 TTTAAA-GTTTAGAGACTAAT
1 TTTAAATGTTTAGAGA-TAAT
*
45542 TTAAAAT
1 TTTAAAT
45549 TAAGGCCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (20 bp):
TTTAAATGTTTAGAGATAAT
Found at i:45892 original size:17 final size:18
Alignment explanation
Indices: 45851--45893 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45841 ATTAAATCTT
*
45851 TTAAAAATATAAAAAATA
1 TTAAAATTATAAAAAATA
* *
45869 TTTAAATTATATAAAA-A
1 TTAAAATTATAAAAAATA
45886 TTAAAATT
1 TTAAAATT
45894 TTGAGTTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAATTATAAAAAATA
Found at i:56886 original size:16 final size:17
Alignment explanation
Indices: 56867--56898 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56857 GGGGATGTTA
56867 ATATT-ATTTTTAAATT
1 ATATTAATTTTTAAATT
56883 ATATTAATTTTTAAAT
1 ATATTAATTTTTAAAT
56899 ATTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTAATTTTTAAATT
Found at i:60945 original size:20 final size:18
Alignment explanation
Indices: 60916--60961 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
60906 TATTTATTTA
60916 TTTGTAATTTGGTGTTCTGAT
1 TTTGT-ATTTGG-GTT-TGAT
*
60937 TTTGTATTTGGGTTTGGT
1 TTTGTATTTGGGTTTGAT
60955 TTTGTAT
1 TTTGTAT
60962 GTAAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 3 0.12
20 6 0.25
21 5 0.21
ACGTcount: A:0.11, C:0.02, G:0.26, T:0.61
Consensus pattern (18 bp):
TTTGTATTTGGGTTTGAT
Found at i:60973 original size:3 final size:3
Alignment explanation
Indices: 60965--61012 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
60955 TTTGTATGTA
* * * *
60965 AAT AAT AAT AAT AAT AAT -TT ATT TAT AAT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
61012 A
1 A
61013 TTAAAAATGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:61211 original size:20 final size:20
Alignment explanation
Indices: 61186--61231 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
61176 GATACACTTG
61186 ATGAAATCACATATATGAGT
1 ATGAAATCACATATATGAGT
61206 ATGAAATCACATATATGAGT
1 ATGAAATCACATATATGAGT
61226 ATGAAA
1 ATGAAA
61232 GATTGATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGAAATCACATATATGAGT
Found at i:61940 original size:4 final size:4
Alignment explanation
Indices: 61931--61957 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61921 CAATGCATGT
61931 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
61958 CATAGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:61986 original size:13 final size:13
Alignment explanation
Indices: 61968--61994 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61958 CATAGTTGAA
61968 CAGTCTTCATATG
1 CAGTCTTCATATG
61981 CAGTCTTCATATG
1 CAGTCTTCATATG
61994 C
1 C
61995 GCGTCTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:73197 original size:15 final size:15
Alignment explanation
Indices: 73169--73229 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
73159 GTATGATTTG
73169 AATTTAATAA-TTTTA
1 AATTT-ATAATTTTTA
73184 AATTTATAATTTTTCA
1 AATTTATAATTTTT-A
* **
73200 AATTAAGTAAAATTTA
1 AATTTA-TAATTTTTA
*
73216 ATTTTATAATTTTT
1 AATTTATAATTTTT
73230 TAATCGAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 4 0.11
15 15 0.42
16 11 0.31
17 6 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
AATTTATAATTTTTA
Found at i:73558 original size:16 final size:14
Alignment explanation
Indices: 73527--73563 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
73517 TTTTTTATAT
73527 TTATAAAATTAATA
1 TTATAAAATTAATA
73541 TTATAATAATTAAATA
1 TTATAA-AATT-AATA
73557 TTATAAA
1 TTATAAA
73564 TAAAATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTATAAAATTAATA
Found at i:80271 original size:2 final size:2
Alignment explanation
Indices: 80259--80299 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
80249 ATCTGAGCAA
*
80259 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80300 CGGAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81161 original size:70 final size:70
Alignment explanation
Indices: 81050--81230 Score: 330
Period size: 70 Copynumber: 2.6 Consensus size: 70
81040 TTTTTTTTTA
81050 AAAACAAT--CACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
81113 AGAAC
66 AGAAC
*
81118 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGTAAAAATATG
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
81183 AGAAC
66 AGAAC
*
81188 AAAACAATCCCACATGACTAAGAAACATAGAAGAGCATCCCAA
1 AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAA
81231 CTTACTTCTA
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
68 8 0.07
70 101 0.93
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.14
Consensus pattern (70 bp):
AAAACAATCCCACATGGCTAAGAAACATAGAAGAGCATCCCAAAAGTTTAAAGAGAAAAAATATG
AGAAC
Found at i:83775 original size:14 final size:14
Alignment explanation
Indices: 83756--83799 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
83746 GATAAGCTGA
83756 TTTTAATGTATATG
1 TTTTAATGTATATG
*
83770 TTTTAATGTGTATG
1 TTTTAATGTATATG
83784 TTTTAATGTATATG
1 TTTTAATGTATATG
83798 TT
1 TT
83800 AAGGATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (14 bp):
TTTTAATGTATATG
Found at i:84427 original size:3 final size:3
Alignment explanation
Indices: 84361--84412 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
84351 GGATTATAAA
84361 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84408 TAT TA
1 TAT TA
84413 ATGTTACATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:93059 original size:8 final size:8
Alignment explanation
Indices: 93040--93107 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 8
93030 TAAAGATAAA
93040 AAAAAATG
1 AAAAAATG
93048 -AAAAATG
1 AAAAAATG
93055 AAAAAAATG
1 -AAAAAATG
93064 AAAAAATG
1 AAAAAATG
*
93072 -AAATA-G
1 AAAAAATG
93078 -AAAAATAG
1 AAAAAAT-G
93086 AAAAAATGG
1 AAAAAAT-G
93095 AAAAAAT-
1 AAAAAATG
93102 AAAAAA
1 AAAAAA
93108 AGAAGAAGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
6 5 0.10
7 17 0.33
8 9 0.17
9 21 0.40
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:93060 original size:16 final size:17
Alignment explanation
Indices: 93039--93107 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 17
93029 TTAAAGATAA
93039 AAAAAAATG-AAAAATG
1 AAAAAAATGAAAAAATG
93055 AAAAAAATGAAAAAATG
1 AAAAAAATGAAAAAATG
93072 AAATAGAAAAATAGAAAAAATG
1 --A-A-AAAAAT-GAAAAAATG
*
93094 GAAAAAAT-AAAAAA
1 AAAAAAATGAAAAAA
93108 AGAAGAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
16 15 0.33
17 7 0.15
18 6 0.13
19 2 0.04
20 1 0.02
21 6 0.13
22 9 0.20
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAAAATGAAAAAATG
Found at i:93075 original size:22 final size:23
Alignment explanation
Indices: 93040--93108 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 23
93030 TAAAGATAAA
93040 AAAAAATGAAAAATGAAAAAAAT-G
1 AAAAAATG-AAAAT-AAAAAAATAG
*
93064 AAAAAATG-AAATAGAAAAATAG
1 AAAAAATGAAAATAAAAAAATAG
93086 AAAAAATGGAAAAAATAAAAAAA
1 AAAAAAT-G--AAAATAAAAAAA
93109 GAAGAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 7 0.18
22 12 0.32
23 1 0.03
24 8 0.21
26 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (23 bp):
AAAAAATGAAAATAAAAAAATAG
Found at i:93083 original size:30 final size:30
Alignment explanation
Indices: 93043--93101 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
93033 AGATAAAAAA
93043 AAATGAAAAAT-GAAAAAAAT-GAAAAAATG
1 AAATGAAAAATAG-AAAAAATGGAAAAAATG
93072 AAATAGAAAAATAGAAAAAATGGAAAAAAT
1 AAAT-GAAAAATAGAAAAAATGGAAAAAAT
93102 AAAAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 4 0.15
30 14 0.52
31 9 0.33
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (30 bp):
AAATGAAAAATAGAAAAAATGGAAAAAATG
Found at i:93118 original size:38 final size:37
Alignment explanation
Indices: 93041--93119 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
93031 AAAGATAAAA
*
93041 AAAAATGAAAAATGAAAAAAATGAAAAAATGAAATAG
1 AAAAATGAAAAATGAAAAAAATGAAAAAAAGAAATAG
*
93078 AAAAATAGAAAAAATGGAAAAAAT-AAAAAAAGAAGA-AG
1 AAAAAT-G-AAAAATGAAAAAAATGAAAAAAAGAA-ATAG
93116 AAAA
1 AAAA
93120 CAAGAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 6 0.16
38 16 0.43
39 15 0.41
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (37 bp):
AAAAATGAAAAATGAAAAAAATGAAAAAAAGAAATAG
Found at i:94627 original size:108 final size:110
Alignment explanation
Indices: 94423--94812 Score: 673
Period size: 108 Copynumber: 3.6 Consensus size: 110
94413 TGAAGCAAAA
94423 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGCAGACGCGATCGTTGAAGATTAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGACGCGATCGTTGAAGATTAT
94488 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
65 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
*
94534 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
*
94597 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
* *
94642 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
* *
94705 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGA-TGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
*
94749 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTAT
94813 GTTCGAGTTC
Statistics
Matches: 268, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
107 11 0.04
108 176 0.66
109 70 0.26
110 3 0.01
111 8 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
Found at i:94635 original size:55 final size:55
Alignment explanation
Indices: 94423--94812 Score: 610
Period size: 55 Copynumber: 7.2 Consensus size: 55
94413 TGAAGCAAAA
*
94423 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGACGCGATCGTT
* *
94479 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
94534 GAAGATT-GTGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * *
94587 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
94642 GAAGATT-GTGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
94695 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGAT-GTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
94749 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
94804 GGAGATTAT
1 GAAGATTAT
94813 GTTCGAGTTC
Statistics
Matches: 306, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
53 91 0.30
54 65 0.21
55 115 0.38
56 35 0.11
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (55 bp):
GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:94872 original size:52 final size:52
Alignment explanation
Indices: 94806--95136 Score: 592
Period size: 52 Copynumber: 6.4 Consensus size: 52
94796 CGATCGTTGG
94806 AGATTA-TGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
** *
94857 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCATTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
94909 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
94961 AGATTATTGTTCGAGTTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
95013 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
95065 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
95117 AGATTATTGTTCGAGTTCTA
1 AGATTATTGTTCGAGTTCTA
95137 TACTCCCTAA
Statistics
Matches: 267, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
51 6 0.02
52 261 0.98
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:94939 original size:28 final size:28
Alignment explanation
Indices: 94855--94939 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
94845 AGACCCGTAG
94855 GAAGATTATTGTTCGAGTTCTAGTCCCT
1 GAAGATTATTGTTCGAGTTCTAGTCCCT
** ** * **
94883 GAAGAAAATTGGGC-A-TTCTCGT--AG
1 GAAGATTATTGTTCGAGTTCTAGTCCCT
94907 GAAGATTATTGTTCGAGTTCTAGTCCCT
1 GAAGATTATTGTTCGAGTTCTAGTCCCT
94935 GAAGA
1 GAAGA
94940 AAATTGGGCA
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 10 0.26
25 1 0.03
26 12 0.31
27 1 0.03
28 15 0.38
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (28 bp):
GAAGATTATTGTTCGAGTTCTAGTCCCT
Found at i:95194 original size:104 final size:102
Alignment explanation
Indices: 94806--95201 Score: 449
Period size: 104 Copynumber: 3.8 Consensus size: 102
94796 CGATCGTTGG
* * * *
94806 AGATTA-TGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAG--TATTGTTCG
** *
94870 AGTTCTAGTCCCTGAAGAAAATTGGGCATTCTCGTAGGA
64 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * *
94909 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAG--TATTGTTCG
*
94974 AGTTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTAGGA
64 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * * *
95013 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAG--TATTGTTCG
* *
95078 AGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
64 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* ** *
95117 AGATTATTGTTCGAGTTCTATACTCCCTAAAG-AGA-GGGAGCAAACCCGTTTGAAG-ATTGTTT
1 AGATTATTGTTCGAGTTC--TACTCCCTAAAGAAAATGGG-GCAAACCCGTAGGAAGTATTGTTC
*
95179 GAGTTCTATACTCCCTGAAGAAA
63 GAGTTC--TAGTCCCTGAAGAAA
95202 GAGGGAGCGA
Statistics
Matches: 269, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
102 12 0.04
103 6 0.02
104 226 0.84
105 15 0.06
106 10 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (102 bp):
AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAGTATTGTTCGAG
TTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:95194 original size:156 final size:153
Alignment explanation
Indices: 94806--95201 Score: 492
Period size: 156 Copynumber: 2.5 Consensus size: 153
94796 CGATCGTTGG
* * * * *
94806 AGATTA-TGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAG---ATTGTTTG
** *
94870 AGTTCTAGTCCCTGAAGAAAATTGGGCATTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
63 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
94935 GAAGAAAATTGGGCAGACCCGTAGGA
128 GAAGAAAATTGGGCAGACCCGTAGGA
* * * * * *
94961 AGATTATTGTTCGAGTTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTTTTCG
1 AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAGA-T-TGTTT-G
95026 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
63 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
* *
95091 GAAGAAAATTGGGCAGTCTCGTAGGA
128 GAAGAAAATTGGGCAGACCCGTAGGA
* **
95117 AGATTATTGTTCGAGTTCTATACTCCCTAAAG-AGA-GGGAGCAAACCCGTTTGAAGATTGTTTG
1 AGATTATTGTTCGAGTTC--TACTCCCTAAAGAAAATGGG-GCAAACCCGTAGGAAGATTGTTTG
*
95180 AGTTCTATACTCCCTGAAGAAA
63 AGTTC--TAGTCCCTGAAGAAA
95202 GAGGGAGCGA
Statistics
Matches: 214, Mismatches: 18, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
153 1 0.00
154 7 0.03
155 13 0.06
156 168 0.79
157 16 0.07
158 9 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (153 bp):
AGATTATTGTTCGAGTTCTACTCCCTAAAGAAAATGGGGCAAACCCGTAGGAAGATTGTTTGAGT
TCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCTGAA
GAAAATTGGGCAGACCCGTAGGA
Found at i:95239 original size:55 final size:54
Alignment explanation
Indices: 95122--95947 Score: 642
Period size: 55 Copynumber: 15.4 Consensus size: 54
95112 TAGGAAGATT
* * *
95122 ATTGTTCGAGTTCTATACTCCCT-AA-AGAGAGGGAGCAAACCC-GTTT-GAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAG
*
95172 ATTGTTTGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTT-AGAAG
* *
95227 ATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTCAGAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTT-AGAAG
* *
95282 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCATTTTCAAAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTT-AGAAG
* * * *
95337 ATTGTTCGAGTTTTATACTCCTTGAAGAAAGAAGGAGCGAACCC-GTTT-GAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAG
* *
95389 ATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTT-TAGAAG
* * * *
95443 A-TGTTCGAGTACTATACTCCCT-AGAGAAAGAGGGAGCGAACTC--GTAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTTTAGAAG
* * * *
95494 AATATGTTCGAGTTCCATACTCCCT-AA-AGAGAGAGAGCGAACCC-GTTT-GAAG
1 -AT-TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAG
* * * * * *
95546 ATTGTTCGAGTTCTATACTTCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTT-TAGAAG
* * * * * *
95601 A-TGTCCGAGTTTTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTTGAAAAAG
1 ATTGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTT-TAGAAG
* * * ***
95655 A-TATTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAT-TTTAGAAG
* * * *** *
95709 ATTGTTCGAG-TCTCATACTCTCTGAAGGAATAGGGAGCAGAAATGATAGTT-GAAG
1 ATTGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGC-GAACCCAT-TTTAGAAG
* * * * * ** *
95764 ATTGTTCGAG-TCTTATACTCTCTAAAGGAATAGGGA--AAAGACATGATTGTTGAAG
1 ATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGAACCCAT--TT-TAGAAG
* * * * * * * *
95819 ATTGTTCAAG-TCTTATACTCTCTGAAGGAATAGGGAACAAACACGAGTGTT-GAAG
1 ATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGAAC-CCA-TTTTAGAAG
* * **
95874 A-TGTTTGAGTTCTATACTCCCTGAAAGAAAGAGGGAACGAACCCATTGGCAGAAG
1 ATTGTTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCATT-TTAGAAG
* *
95929 ACTGTTCGAGTTCCATACT
1 ATTGTTCGAGTTCTATACT
95948 TCAGGAGCGA
Statistics
Matches: 651, Mismatches: 87, Indels: 70
0.81 0.11 0.09
Matches are distributed among these distances:
50 41 0.06
51 49 0.08
52 60 0.09
53 13 0.02
54 176 0.27
55 284 0.44
56 22 0.03
57 4 0.01
58 1 0.00
59 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (54 bp):
ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAG
Found at i:95301 original size:110 final size:109
Alignment explanation
Indices: 95122--95746 Score: 707
Period size: 110 Copynumber: 5.8 Consensus size: 109
95112 TAGGAAGATT
* * *
95122 ATTGTTCGAGTTCTATACTCCCT-AA-AGAGAGGGAGCAAACCCGTTT--GAAGATTGTTTGAGT
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATTGTTCGAGT
*
95183 TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAG
66 TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* *
95227 ATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG-TTTAAGAAGATTGTTCGAG
*
95292 TTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCATTTTCAA-AAG
65 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTT-AAGAAG
* * *
95337 ATTGTTCGAGTTTTATACTCCTTGAAGAAAGAAGGAGCGAACCCGTTT--GAAGATT-TTCGAGT
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATTGTTCGAGT
* *
95399 TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAG
66 TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* *
95443 A-TGTTCGAGTACTATACTCCCT-AGAGAAAGAGGGAGCGAACTCG--TAAGAAGAATATGTTCG
1 ATTGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTAAGAAG-AT-TGTTCG
* * * *
95504 AGTTCCATACTCCCT-AA-AGAGAGAGAGCGAACCC-GTTT--GAAG
63 AGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* * * * *
95546 ATTGTTCGAGTTCTATACTTCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAGA-TGTCCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT-AAGAAGATTGTTCGAG
* * * * *
95610 TTTTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTTGAAAAAG
65 TTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTTTAAGAAG
* * **
95655 A-TATTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATTGTTCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGT-TTAAGAAGATTGTTCGAG
* * *
95719 -TCTCATACTCTCTGAAGGAATAGGGAGC
65 TTCT-ATACTCCCTGAAGAAAGAGGGAGC
95747 AGAAATGATA
Statistics
Matches: 443, Mismatches: 50, Indels: 50
0.82 0.09 0.09
Matches are distributed among these distances:
103 6 0.01
104 56 0.13
105 69 0.16
106 81 0.18
107 33 0.07
108 68 0.15
109 33 0.07
110 96 0.22
111 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (109 bp):
ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTAAGAAGATTGTTCGAGT
TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
Found at i:95471 original size:54 final size:54
Alignment explanation
Indices: 95124--95746 Score: 700
Period size: 54 Copynumber: 11.7 Consensus size: 54
95114 GGAAGATTAT
* * *
95124 TGTTCGAGTTCTATACTCCCT-AA-AGAGAGGGAGCAAACCCGTTTGAAG-A-T
1 TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * **
95174 TGTTTGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAGA
1 TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* **
95228 TTGTTCGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTCAGAAGA
1 -TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * *
95283 TTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGTGAACCCATTTTCAA-AAGA
1 -TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC-GTTTGAAGAAGA
* * *
95338 TTGTTCGAGTTTTATACTCCTTGAAGAAAGAAGGAGCGAACCCGTTT---GAAGA
1 -TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
*
95390 TTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * ** *
95444 TGTTCGAGTACTATACTCCCT-AGAGAAAGAGGGAGCGAACTCGTAAGAAGAATA
1 TGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
95498 TGTTCGAGTTCCATACTCCCT-AA-AGAGAGAGAGCGAACCCGTTTGAAG-A-T
1 TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
95548 TGTTCGAGTTCTATACTTCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
95602 TGTCCGAGTTTTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTTGAAAAAGA
1 TGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * **
95656 TATTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * *
95710 TTGTTCGAG-TCTCATACTCTCTGAAGGAATAGGGAGC
1 -TGTTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGC
95747 AGAAATGATA
Statistics
Matches: 493, Mismatches: 61, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
50 39 0.08
51 47 0.10
52 65 0.13
53 5 0.01
54 168 0.34
55 165 0.33
56 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (54 bp):
TGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
Found at i:96247 original size:3 final size:3
Alignment explanation
Indices: 96190--96232 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
96180 GGATTATAAA
96190 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
96233 ATGTTACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:99472 original size:18 final size:17
Alignment explanation
Indices: 99422--99466 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
99412 ACTCTCAGTA
*
99422 CATCGATGCACTAAGAGTG
1 CATCGATGCA-TCA-AGTG
99441 CATCGATGCATCAAGTG
1 CATCGATGCATCAAGTG
99458 CATTCGATG
1 CA-TCGATG
99467 TTTCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (17 bp):
CATCGATGCATCAAGTG
Found at i:99506 original size:64 final size:62
Alignment explanation
Indices: 99438--99647 Score: 221
Period size: 65 Copynumber: 3.3 Consensus size: 62
99428 TGCACTAAGA
*
99438 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGTCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA-TCAGAGTGCATCGATGCATGG-TG
** *
99502 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAT-CAGAGTGCATCGATGCATGGT-
*
99566 T
62 G
*
99567 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA---AATATCA-GAGTGCATCGATGCATGG-
99629 TTG
61 -TG
*
99632 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
99648 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 46 0.37
65 68 0.55
66 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCAGAGTGCATCGATGCATGGTG
Found at i:103936 original size:20 final size:20
Alignment explanation
Indices: 103911--103950 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
103901 TTTGAATATT
*
103911 ATGAAGGGGTATCGATTCCC
1 ATGAAGGGGTACCGATTCCC
103931 ATGAAGGGGTACCGATTCCC
1 ATGAAGGGGTACCGATTCCC
103951 CCATTCTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (20 bp):
ATGAAGGGGTACCGATTCCC
Found at i:104269 original size:33 final size:32
Alignment explanation
Indices: 104227--104296 Score: 79
Period size: 34 Copynumber: 2.2 Consensus size: 32
104217 CCTTTTGTAA
* *
104227 AGGGGAAGG-TATAGCTTAGCCCGTGTAAAAGCT
1 AGGGAAAGGTTATAGCTTAGCCCG-G-AAAAACT
* *
104260 AGGGAAAGGTTCTAGTTTAGCCCGGAAAAACT
1 AGGGAAAGGTTATAGCTTAGCCCGGAAAAACT
104292 AGGGA
1 AGGGA
104297 GTTTGTAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 11 0.34
33 9 0.28
34 12 0.38
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (32 bp):
AGGGAAAGGTTATAGCTTAGCCCGGAAAAACT
Found at i:112483 original size:2 final size:2
Alignment explanation
Indices: 112476--112502 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
112466 GTGTACATAC
112476 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
112503 AATAACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113854 original size:26 final size:24
Alignment explanation
Indices: 113805--113862 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
113795 AAAAGTAAGA
*
113805 ATTAAAATAATTATTTAACTAAAT
1 ATTAAAATAATTATTTAAATAAAT
113829 ATTAAAA-AATTATTTTAAAATAAAAT
1 ATTAAAATAATTA-TTT-AAAT-AAAT
*
113855 GTTAAAAT
1 ATTAAAAT
113863 TTAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 3 0.11
26 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAAAATAATTATTTAAATAAAT
Found at i:120682 original size:8 final size:8
Alignment explanation
Indices: 120658--120703 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
120648 AAAGTTTCAT
*
120658 AAATTTTA
1 AAATTTGA
*
120666 AAGTTTGA
1 AAATTTGA
*
120674 ATATTTGA
1 AAATTTGA
120682 AAATTTGA
1 AAATTTGA
120690 AAATTTGA
1 AAATTTGA
120698 AAATTT
1 AAATTT
120704 TAGGTAACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (8 bp):
AAATTTGA
Found at i:122056 original size:70 final size:70
Alignment explanation
Indices: 121973--122155 Score: 339
Period size: 70 Copynumber: 2.6 Consensus size: 70
121963 TAGAAATCAG
*
121973 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTTTTTA
1 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
122038 GACTT
66 GACTT
122043 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
1 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
122108 GACTT
66 GACTT
* *
122113 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGATATTTTTTT
1 TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTT
122156 AAATTAAACT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 110 1.00
ACGTcount: A:0.15, C:0.14, G:0.16, T:0.55
Consensus pattern (70 bp):
TTGTGATGCTCTTCTATGTTTCTTAGCCATGTGAGATTGTTTTGTTTTCATATTTTTACTCTTTA
GACTT
Found at i:122610 original size:30 final size:29
Alignment explanation
Indices: 122576--122633 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
122566 CAGGTATATC
122576 ACCGGTGAACAGTATATTTCCCGATCTAAT
1 ACCGGT-AACAGTATATTTCCCGATCTAAT
* * *
122606 ACCGGTCAGATTATATTTCCCGATCTAA
1 ACCGGTAACAGTATATTTCCCGATCTAA
122634 CACCCTTAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (29 bp):
ACCGGTAACAGTATATTTCCCGATCTAAT
Found at i:122725 original size:51 final size:50
Alignment explanation
Indices: 122649--122777 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 50
122639 TTAGCAGTAA
* * *
122649 AGCGCGCCCCCTGCACCTCGCTATACGATGATTTGGC-GCCACGTGGGGTAT
1 AGCGCG-CCCCTGCACCGCGCTATACGATGATCTGGCAGACACGT-GGGTAT
* *
122700 AGCGCGCCTCCTGCACCGCGCTATACGGTGATCTGGCATACACGTGGGTAT
1 AGCGCGCC-CCTGCACCGCGCTATACGATGATCTGGCAGACACGTGGGTAT
*
122751 AGCGCGGCCCCTGCAGCGCGCTATACG
1 AGCGC-GCCCCTGCACCGCGCTATACG
122778 CCACGTAGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
50 2 0.03
51 59 0.86
52 8 0.12
ACGTcount: A:0.16, C:0.34, G:0.30, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCTGCACCGCGCTATACGATGATCTGGCAGACACGTGGGTAT
Done.