Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007246.1 Hibiscus syriacus cultivar Beakdansim tig00019200_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: 322346
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 2
Found at i:713 original size:2 final size:2
Alignment explanation
Indices: 706--744 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
696 ATTTATGTGG
706 TA TA TA TA TA 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 TA TA TA TA TA T
745 TTGTAAATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1407 original size:30 final size:30
Alignment explanation
Indices: 1373--1433 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1363 GTAGTGTCAT
1373 TATCGACGGTCATCTCTATGTTACTCAGAC
1 TATCGACGGTCATCTCTATGTTACTCAGAC
* * *
1403 TATCGATGGTCGTCTCTATTTTACTCAGAC
1 TATCGACGGTCATCTCTATGTTACTCAGAC
1433 T
1 T
1434 CGAGTGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (30 bp):
TATCGACGGTCATCTCTATGTTACTCAGAC
Found at i:5568 original size:24 final size:24
Alignment explanation
Indices: 5520--5577 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
5510 AAGATTATGT
5520 TAAATATAAACGAACAAAAATAAA
1 TAAATATAAACGAACAAAAATAAA
* * *
5544 TGATTATAAACGAACGAACAA-AAA
1 TAAATATAAACGAAC-AAAAATAAA
5568 TAAATATAAA
1 TAAATATAAA
5578 TAAACGGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.66, C:0.09, G:0.07, T:0.19
Consensus pattern (24 bp):
TAAATATAAACGAACAAAAATAAA
Found at i:5580 original size:28 final size:28
Alignment explanation
Indices: 5528--5583 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
5518 GTTAAATATA
*
5528 AACGAACAAAAATAAATGATTATAAACG
1 AACGAACAAAAATAAATGATAATAAACG
5556 AACGAACAAAAATAAAT-ATAAATAAACG
1 AACGAACAAAAATAAATGAT-AATAAACG
5584 GACATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (28 bp):
AACGAACAAAAATAAATGATAATAAACG
Found at i:5583 original size:24 final size:27
Alignment explanation
Indices: 5525--5592 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
5515 TATGTTAAAT
5525 ATAAACGAACAAAAATAAATGATTATA
1 ATAAACGAACAAAAATAAATGATTATA
5552 A-ACGAACGAACAAAAATAAAT-A-TA-A
1 ATA--AACGAACAAAAATAAATGATTATA
* *
5577 ATAAACGGACATAAAT
1 ATAAACGAACAAAAAT
5593 GAACATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 11 0.31
25 2 0.06
26 4 0.11
27 2 0.06
28 17 0.47
ACGTcount: A:0.63, C:0.10, G:0.09, T:0.18
Consensus pattern (27 bp):
ATAAACGAACAAAAATAAATGATTATA
Found at i:6791 original size:39 final size:43
Alignment explanation
Indices: 6740--6862 Score: 173
Period size: 39 Copynumber: 2.9 Consensus size: 43
6730 TTCCACCAAT
6740 TATGTTCAAAAATACTCAACCAATACGAGTAATTATATAC-A-
1 TATGTTCAAAAATACTCAACCAATACGAGTAATTATATACAAC
* *
6781 TA-GTT-GAAAATACTCAACCAATACGAGTAATTATATTTCCAAC
1 TATGTTCAAAAATACTCAACCAATACGAGTAATTATA--TACAAC
6824 TATGTTCAAAAATACTCAACCAATACCGAGTAATTATAT
1 TATGTTCAAAAATACTCAACCAATA-CGAGTAATTATAT
6863 TGAAAATACT
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
39 29 0.40
40 3 0.04
41 4 0.06
42 1 0.01
43 2 0.03
44 4 0.06
45 17 0.24
46 12 0.17
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (43 bp):
TATGTTCAAAAATACTCAACCAATACGAGTAATTATATACAAC
Found at i:9297 original size:22 final size:22
Alignment explanation
Indices: 9271--9330 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
9261 CCTAAAAACG
9271 AAAATAAA-AAATAAAATTAAAT
1 AAAATAAATAAATAAAA-TAAAT
* *
9293 AAAATAAATAAGTGAAATAAAT
1 AAAATAAATAAATAAAATAAAT
9315 AAAATAATATAAATAA
1 AAAATAA-ATAAATAA
9331 CTAACTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (22 bp):
AAAATAAATAAATAAAATAAAT
Found at i:9401 original size:36 final size:36
Alignment explanation
Indices: 9354--9806 Score: 452
Period size: 36 Copynumber: 12.8 Consensus size: 36
9344 ACTAAAAATA
* *
9354 TAAAAA-TATATATTATACGTTTTCAAAACTATTTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
**
9389 TAAAAACTATATATTATACATTTTCAAAATTA-TTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
*
9424 TAAAAACT-T-TATTATATGTTTTTAAAATTA-TTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
* **
9457 TAAAAACTATATACTATATGTTTTCAAAA-CCTTTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
*
9492 TAAAAAC--TATATTATACGTTTTCAAAATTA-TTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
* *
9525 TAAAAACTATATACTATATGTTTTTAAAATTATTTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
* * *
9561 AAAAAACTATATACTATATGTTTTTAAAATTATTTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
* * ***
9597 AAAAAACTATATACTATATGTTTTCAAAACCGTTTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
*
9633 T-AAAAC--TATATTATACG-TTTCAAAATTA-TTT
1 TAAAAACTATATATTATATGTTTTCAAAATTATTTT
* *
9664 TCAAAACTATATACTATATGTTTTCAAAACCTT-TTTT
1 TAAAAACTATATATTATATGTTTTCAAAA--TTATTTT
* *
9701 AAAAAAAAACTATATATTATAAGTTTTCAAAATTA-TTT
1 ---TAAAAACTATATATTATATGTTTTCAAAATTATTTT
* * * *
9739 TAAAAACTATATACTATATGTTTTAAAAAATAAGTTTC
1 TAAAAACTATATATTATATGTTTT-CAAAATTA-TTTT
* *
9777 CAAAAACTATATATTATATATTTTCCAAAA
1 TAAAAACTATATATTATATGTTTT-CAAAA
9807 CTATATTTGA
Statistics
Matches: 352, Mismatches: 44, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
31 4 0.01
32 13 0.04
33 66 0.19
34 11 0.03
35 97 0.28
36 99 0.28
37 5 0.01
38 32 0.09
40 25 0.07
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (36 bp):
TAAAAACTATATATTATATGTTTTCAAAATTATTTT
Found at i:9481 original size:68 final size:67
Alignment explanation
Indices: 9364--9767 Score: 479
Period size: 68 Copynumber: 5.8 Consensus size: 67
9354 TAAAAATATA
* * **
9364 TATTATACGTTTTCAAAACTATTTTTAAAAACTATATATTATACATTTTCAAAATTATTTTAAAA
1 TATTATACGTTTTCAAAATTA-TTTTAAAAACTATATACTATATGTTTTCAAAATT-TTTTAAAA
9429 ACTT
64 ACTT
* * *
9433 TATTATATGTTTTTAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAACCTTTTTAAAAA
1 TATTATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAA-TTTTTTAAAAA
*
9498 CTA
65 CTT
*
9501 TATTATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTTAAAATTATTTTAAAAA
1 TATTATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAATT-TTTT-AAAA
9566 ACTAT
64 ACT-T
* * * *
9571 ATACTATATGTTTTTAAAATTATTTTAAAAAACTATATACTATATGTTTTCAAAACCGTTTTT-A
1 -TATTATACGTTTTCAAAATTATTTT-AAAAACTATATACTATATGTTTTCAAAA--TTTTTTAA
*
9635 AAACTA
62 AAACTT
*
9641 TATTATACG-TTTCAAAATTATTTTCAAAACTATATACTATATGTTTTCAAAACCTTTTTTAAAA
1 TATTATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAA--TTTTTT----
9705 AAAAACTAT
60 AAAAACT-T
* *
9714 ATATTATAAGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTAAAAA
1 -TATTATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAA
9768 ATAAGTTTCC
Statistics
Matches: 291, Mismatches: 28, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
67 35 0.12
68 108 0.37
69 33 0.11
71 28 0.10
72 33 0.11
73 4 0.01
74 9 0.03
75 41 0.14
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (67 bp):
TATTATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAATTTTTTAAAAAC
TT
Found at i:10171 original size:16 final size:16
Alignment explanation
Indices: 10150--10188 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
10140 TCGGTCTTGG
10150 ATACTTCGAGCATGAT
1 ATACTTCGAGCATGAT
10166 ATACTTCGAGCATGAT
1 ATACTTCGAGCATGAT
*
10182 ATCCTTC
1 ATACTTC
10189 ACTGTGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (16 bp):
ATACTTCGAGCATGAT
Found at i:11114 original size:22 final size:22
Alignment explanation
Indices: 11080--11145 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
11070 CTGAATCTGT
*
11080 TCTGAATTGGCTCTCAGACCCA
1 TCTGAATTAGCTCTCAGACCCA
* *
11102 TCTGTATTAGCTCTCAGACCCG
1 TCTGAATTAGCTCTCAGACCCA
*
11124 TCTGAATTAGCTCTCAAACCCA
1 TCTGAATTAGCTCTCAGACCCA
11146 ATTTGAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (22 bp):
TCTGAATTAGCTCTCAGACCCA
Found at i:14103 original size:17 final size:18
Alignment explanation
Indices: 14081--14143 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 18
14071 CCTAAAAACG
14081 AAAATAAA-AAATAAAAT
1 AAAATAAATAAATAAAAT
* *
14098 AAAATAAATAAGTGAAAT
1 AAAATAAATAAATAAAAT
14116 -AAATAAATAAATAAAAT
1 AAAATAAATAAATAAAAT
*
14133 AATATAAATAA
1 AAAATAAATAA
14144 CTAACTATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAATAAATAAATAAAAT
Found at i:14108 original size:4 final size:4
Alignment explanation
Indices: 14082--14143 Score: 63
Period size: 4 Copynumber: 14.5 Consensus size: 4
14072 CTAAAAACGA
*
14082 AAAT AAA- AAAT AAAAT AAAAT AAAT AAGT GAAAT AAAT AAAT AAAT AAAAT
1 AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT -AAAT AAAT AAAT AAAT -AAAT
14133 AATAT AAAT AA
1 AA-AT AAAT AA
14144 CTAACTATAG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
3 3 0.06
4 28 0.55
5 20 0.39
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:14117 original size:13 final size:12
Alignment explanation
Indices: 14082--14143 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 12
14072 CTAAAAACGA
14082 AAATAAA-AAAT
1 AAATAAATAAAT
14093 AAAATAAAATAAAT
1 -AAAT-AAATAAAT
*
14107 AAGTGAAATAAAT
1 AAAT-AAATAAAT
14120 AAATAAATAAAAT
1 AAATAAAT-AAAT
14133 AATATAAATAA
1 AA-ATAAATAA
14144 CTAACTATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.19
13 25 0.58
14 10 0.23
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AAATAAATAAAT
Found at i:14152 original size:14 final size:13
Alignment explanation
Indices: 14084--14157 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
14074 AAAAACGAAA
*
14084 ATAAA-AAATAAA
1 ATAAATAAATAAT
14096 ATAAAATAAATAAGT
1 AT-AAATAAATAA-T
*
14111 -GAAATAAATAA-
1 ATAAATAAATAAT
14122 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
*
14136 ATAAATAACTAACT
1 ATAAATAAATAA-T
14150 ATAGAATA
1 ATA-AATA
14158 CAAAAAGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
12 6 0.12
13 24 0.48
14 16 0.32
15 4 0.08
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:14212 original size:35 final size:36
Alignment explanation
Indices: 14165--14579 Score: 414
Period size: 35 Copynumber: 11.8 Consensus size: 36
14155 ATACAAAAAG
* *
14165 TAAAAAATATATATTATACGTTTTCAAAACATT-TTT
1 TAAAAACTATATATTATATGTTTTCAAAA-ATTATTT
**
14201 T-AAAACTATATATTATACATTTTC-AAAATTA-TT
1 TAAAAACTATATATTATATGTTTTCAAAAATTATTT
*
14234 TAAAAACT-T-TATTATACGTTTT-AAAAATTATTT
1 TAAAAACTATATATTATATGTTTTCAAAAATTATTT
* * ***
14267 TAAAAATTATATACTATATGTTTTC-AAAACCGTTT
1 TAAAAACTATATATTATATGTTTTCAAAAATTATTT
*
14302 TAAAAAC--TATATTATACGTTTTC-AAAATTATTT
1 TAAAAACTATATATTATATGTTTTCAAAAATTATTT
* *
14335 TAAAAACTATATACTATATGTTTT-TAAAATTATTT
1 TAAAAACTATATATTATATGTTTTCAAAAATTATTT
* ***
14370 TAAAAAACTATATACTATATGTTTTC-AAAACCGTTT
1 T-AAAAACTATATATTATATGTTTTCAAAAATTATTT
*
14406 TAAAAAC--TATATTATACGTTTTC-AAAATTATTT
1 TAAAAACTATATATTATATGTTTTCAAAAATTATTT
* * *
14439 TAAAAACTATATACTATATGTTTTCAAAACCTTTTTT
1 TAAAAACTATATATTATATGTTTTCAAAA-ATTATTT
14476 TAAAAAACTATATATTATATGTTTTC-AAAATTATTT
1 T-AAAAACTATATATTATATGTTTTCAAAAATTATTT
* * *
14512 TAAAAACTATATACTATATGTTTTTAAAAATAAGTTT
1 TAAAAACTATATATTATATGTTTTCAAAAATTA-TTT
* * *
14549 CCAAAAACTATATATTATATATTTTCCAAAA
1 -TAAAAACTATATATTATATGTTTTCAAAAA
14580 CTATATTTGA
Statistics
Matches: 319, Mismatches: 40, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
32 19 0.06
33 72 0.23
34 10 0.03
35 111 0.35
36 47 0.15
37 12 0.04
38 48 0.15
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (36 bp):
TAAAAACTATATATTATATGTTTTCAAAAATTATTT
Found at i:14267 original size:12 final size:12
Alignment explanation
Indices: 14252--14276 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14242 TTATTATACG
14252 TTTTAAAAATTA
1 TTTTAAAAATTA
14264 TTTTAAAAATTA
1 TTTTAAAAATTA
14276 T
1 T
14277 ATACTATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTAAAAATTA
Found at i:14318 original size:68 final size:69
Alignment explanation
Indices: 14165--14579 Score: 430
Period size: 68 Copynumber: 5.9 Consensus size: 69
14155 ATACAAAAAG
* **
14165 TAAAAAATATATATTATACGTTTTCAAAACATT-TTTT-AAAACTATATATTATACATTTTCAAA
1 TAAAAACTATATA-TATACGTTTT-AAAA-ATTATTTTAAAAACTATATATTATATGTTTTCAAA
14228 ATTA-TT
63 ATTATTT
* * * **
14234 TAAAAACTTTAT-TATACGTTTTAAAAATTATTTTAAAAATTATATACTATATGTTTTCAAAACC
1 TAAAAACTATATATATACGTTTTAAAAATTATTTTAAAAACTATATATTATATGTTTTCAAAATT
*
14298 GTTT
66 ATTT
* * *
14302 TAAAAACTATAT-TATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTTAAAATT
1 TAAAAACTATATATATACGTTTTAAAAATTATTTTAAAAACTATATATTATATGTTTTCAAAATT
14366 ATTT
66 ATTT
* * *** *
14370 TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAAC--TATATTATACGTTTTCAAAA
1 T-AAAAACTATATA-TATACGTTTTAAAAATTATTTTAAAAACTATATATTATATGTTTTCAAAA
14433 TTATTT
64 TTATTT
* * *
14439 TAAAAACTATATACTATATGTTTTCAAAACCTTTTTTTAAAAAACTATATATTATATGTTTTCAA
1 TAAAAACTATATA-TATACGTTTT-AAAA-ATTATTTT-AAAAACTATATATTATATGTTTTCAA
14504 AATTATTT
62 AATTATTT
* * * *
14512 TAAAAACTATATACTATATGTTTTTAAAAATAAGTTTCCAAAAACTATATATTATATATTTTCCA
1 TAAAAACTATATA-TATACG-TTTTAAAAATTA-TTT-TAAAAACTATATATTATATGTTTT-CA
14577 AAA
61 AAA
14580 CTATATTTGA
Statistics
Matches: 297, Mismatches: 34, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
65 3 0.01
66 8 0.03
67 33 0.11
68 87 0.29
69 48 0.16
70 4 0.01
71 30 0.10
72 1 0.00
73 74 0.25
74 9 0.03
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.44
Consensus pattern (69 bp):
TAAAAACTATATATATACGTTTTAAAAATTATTTTAAAAACTATATATTATATGTTTTCAAAATT
ATTT
Found at i:14389 original size:104 final size:104
Alignment explanation
Indices: 14165--14573 Score: 504
Period size: 104 Copynumber: 3.9 Consensus size: 104
14155 ATACAAAAAG
* * ** * *
14165 TAAAAAA-TATATATTATACGTTTTCAAAACATTTTTTAAAACTATATATTATACATTTTCAAAA
1 TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAAC--TATATTATACGTTTTCAAAA
* *
14229 TTA-TTTAAAAACT-T-TATTATACGTTTTAAAAATTATTT
64 TTATTTTAAAAACTATATACTATATGTTTTAAAAATTATTT
*
14267 T-AAAAATTATATACTATATGTTTTCAAAACCGTTTTAAAAACTATATTATACGTTTTCAAAATT
1 TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAACTATATTATACGTTTTCAAAATT
*
14331 ATTTTAAAAACTATATACTATATGTTTTTAAAATTATTT
66 ATTTTAAAAACTATATACTATATGTTTTAAAAATTATTT
14370 TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAACTATATTATACGTTTTCAAAATT
1 TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAACTATATTATACGTTTTCAAAATT
* *
14435 ATTTTAAAAACTATATACTATATGTTTTCAAAACCTTTTTT
66 ATTTTAAAAACTATATACTATATGTTTT-AAAA-ATTATTT
* *** * *
14476 TAAAAAACTATATATTATATGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTTAAAA
1 TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAACTATAT--TATACG-TTTTCAAA
* * * *
14541 ATAAGTTTCCAAAAACTATATATTATATATTTT
63 ATTA-TTT-TAAAAACTATATACTATATGTTTT
14574 CCAAAACTAT
Statistics
Matches: 272, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
100 22 0.08
101 15 0.06
102 32 0.12
103 22 0.08
104 90 0.33
105 3 0.01
106 49 0.18
108 5 0.02
109 10 0.04
110 3 0.01
111 21 0.08
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (104 bp):
TAAAAAACTATATACTATATGTTTTCAAAACCGTTTTAAAAACTATATTATACGTTTTCAAAATT
ATTTTAAAAACTATATACTATATGTTTTAAAAATTATTT
Found at i:18453 original size:32 final size:32
Alignment explanation
Indices: 18391--18454 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
18381 TCGTTTCCTT
* * *
18391 TGATTTTGTCAAAAATAGAAAATTTTAAACAA
1 TGATTCTGTCAAAAACAGAAAATTTCAAACAA
* *
18423 TGATTCTGTCAAAAACATAACATTTCAAACAA
1 TGATTCTGTCAAAAACAGAAAATTTCAAACAA
18455 ATTATCATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.31
Consensus pattern (32 bp):
TGATTCTGTCAAAAACAGAAAATTTCAAACAA
Found at i:20149 original size:28 final size:28
Alignment explanation
Indices: 20102--20180 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
20092 TGTAATCCCG
* *
20102 CTGTAGTTCGCCATGAACGCCCAGTGAC
1 CTGTAGGTCGCCATGCACGCCCAGTGAC
* *
20130 CTGTAGGTCGCTATGCACGCCCCGTGAC
1 CTGTAGGTCGCCATGCACGCCCAGTGAC
*
20158 ATGGTAGGTCGCCATGCACGCCC
1 CT-GTAGGTCGCCATGCACGCCC
20181 GACGACCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 25 0.57
29 19 0.43
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.20
Consensus pattern (28 bp):
CTGTAGGTCGCCATGCACGCCCAGTGAC
Found at i:20285 original size:20 final size:20
Alignment explanation
Indices: 20257--20294 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20247 ATAGCTGCAT
20257 TATTACAACATGATTCACGG
1 TATTACAACATGATTCACGG
*
20277 TATTGCAACATGATTCAC
1 TATTACAACATGATTCAC
20295 AGCCCTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (20 bp):
TATTACAACATGATTCACGG
Found at i:20437 original size:20 final size:19
Alignment explanation
Indices: 20412--20473 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
20402 ACATAGAGCA
20412 GGAGAAAGAAAGAAAGAAAG
1 GGAG-AAGAAAGAAAGAAAG
*
20432 GGAGAAGAGAGAAAGTAAAG
1 GGAGAAGAAAGAAAG-AAAG
*
20452 GAAGAAG-AAG-AAGAAAG
1 GGAGAAGAAAGAAAGAAAG
20469 GGAGA
1 GGAGA
20474 TAAGTTCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 12 0.32
20 14 0.38
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.02
Consensus pattern (19 bp):
GGAGAAGAAAGAAAGAAAG
Found at i:20446 original size:23 final size:22
Alignment explanation
Indices: 20417--20468 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
20407 GAGCAGGAGA
*
20417 AAGAAAG-AAAGAAAGGGAGAAG
1 AAGAAAGTAAAGAAA-GAAGAAG
*
20439 AGAGAAAGTAAAGGAAGAAGAAG
1 A-AGAAAGTAAAGAAAGAAGAAG
20462 AAGAAAG
1 AAGAAAG
20469 GGAGATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 13 0.50
24 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AAGAAAGTAAAGAAAGAAGAAG
Found at i:20599 original size:21 final size:21
Alignment explanation
Indices: 20575--20618 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20565 AATTTAGTTA
*
20575 ATTAGTTTGTTAGTTTAAATT
1 ATTAGTTTGCTAGTTTAAATT
*
20596 ATTAGTTTGCTAGTTTAAGTT
1 ATTAGTTTGCTAGTTTAAATT
20617 AT
1 AT
20619 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGCTAGTTTAAATT
Found at i:20631 original size:28 final size:30
Alignment explanation
Indices: 20595--20657 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
20585 TAGTTTAAAT
20595 TATTAGTTTGCTAGTTTAAG-T-TATATTA
1 TATTAGTTTGCTAGTTTAAGTTATATATTA
*
20623 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGCTAGTTTAAGTTATATATTA
20653 TATTA
1 TATTA
20658 TATTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.56
Consensus pattern (30 bp):
TATTAGTTTGCTAGTTTAAGTTATATATTA
Found at i:20656 original size:5 final size:5
Alignment explanation
Indices: 20646--20670 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20636 GTTTAAGTTA
20646 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
20671 AAAAATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:21205 original size:19 final size:19
Alignment explanation
Indices: 21152--21209 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
21142 ATTCCTATTT
21152 AAAAAAATATTTTGTTTAA
1 AAAAAAATATTTTGTTTAA
* **
21171 AAATATTTATTGTTGTTTAA
1 AAAAAAATATT-TTGTTTAA
*
21191 AAAAAAATCTTTTGTTTAA
1 AAAAAAATATTTTGTTTAA
21210 TTTATATTAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (19 bp):
AAAAAAATATTTTGTTTAA
Found at i:21470 original size:65 final size:64
Alignment explanation
Indices: 21342--21487 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 64
21332 ATTAATCATT
* * *
21342 ATTATTAGTAGTCATTACTAAATAATTAGTATCAAATCCAAATAATTAAATATTTATAATAAATA
1 ATTATTAGTAATCATTACTAAATAATTAATATCAAATCCAAATAATTAAATAATTAT-ATAAATA
* *
21407 ATTATTAGTAATCATTACTAAATCATTAAATATCAAAT-C-ATTAGATTATTAATAATTAT-TAA
1 ATTATTAGTAATCATTACTAAATAATT-AATATCAAATCCAAATA-ATTA--AATAATTATATAA
*
21469 ATC
62 ATA
21472 ATTATTAGTAAT-ATTA
1 ATTATTAGTAATCATTA
21488 ATAATCGATC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
64 7 0.10
65 47 0.66
66 9 0.13
67 8 0.11
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (64 bp):
ATTATTAGTAATCATTACTAAATAATTAATATCAAATCCAAATAATTAAATAATTATATAAATA
Found at i:24504 original size:11 final size:11
Alignment explanation
Indices: 24488--24529 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
24478 TTTAATTAAA
24488 TTATTTATATT
1 TTATTTATATT
24499 TTATTTATATT
1 TTATTTATATT
*
24510 TTATCTTAT-TA
1 TTAT-TTATATT
24521 TTATTTATA
1 TTATTTATA
24530 AATAGTCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 4 0.14
11 20 0.71
12 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTTATATT
Found at i:24525 original size:16 final size:17
Alignment explanation
Indices: 24487--24529 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
24477 TTTTAATTAA
*
24487 ATTATTTATATTTTATT
1 ATTATTTATATCTTATT
24504 -TATATTT-TATCTTATT
1 AT-TATTTATATCTTATT
24520 ATTATTTATA
1 ATTATTTATA
24530 AATAGTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTATATCTTATT
Found at i:24668 original size:66 final size:61
Alignment explanation
Indices: 24592--24731 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 61
24582 AACATGTGAC
* * *
24592 TTTCATTCAACAATTATTTCTGATCTATCACATCCGACTTCCTAACATAAAAGCCGACAAACATT
1 TTTCATTCAACAATTATTTCTGATCTATCACATCCCACTACCTAAAAT-AAA---G-CAAACATT
24657 G
61 G
* *
24658 TTTCATTCAACAATTATTTCTGATTTATCACATCCCACTACCTAAAATAAAGTAAACATTG
1 TTTCATTCAACAATTATTTCTGATCTATCACATCCCACTACCTAAAATAAAGCAAACATTG
24719 TTTCATTCAACAA
1 TTTCATTCAACAA
24732 GAACAACTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
61 21 0.30
62 1 0.01
65 3 0.04
66 44 0.64
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (61 bp):
TTTCATTCAACAATTATTTCTGATCTATCACATCCCACTACCTAAAATAAAGCAAACATTG
Found at i:26938 original size:112 final size:112
Alignment explanation
Indices: 26606--27179 Score: 853
Period size: 112 Copynumber: 5.1 Consensus size: 112
26596 TTGTCGGTTT
* * * *
26606 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
*
26671 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * * *
26718 ATGTCGATACATTATAAAAATGTATCTATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
** *
26782 GGTCTATAAATGACAAAACAGGTAAAGTTCTACCGGATATATTGAAT
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
26829 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
* * * *
26894 GGTCTATAAATGACAAAACAAGTAAAACTCTACTGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
26941 GTGTCGATACTTTATAAAATTGTATCGATCCATAACAATAAAACAGGTAAAAAAATTACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
27006 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * * *
27053 ATGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAATATGATAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
** * * ** * *
27118 GGTCTCGAAATGACAAAACCGGTAAAGAGCTACCATATATTTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
27165 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
27180 TATAAGTATC
Statistics
Matches: 417, Mismatches: 44, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
111 103 0.25
112 314 0.75
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:26993 original size:223 final size:224
Alignment explanation
Indices: 26605--27136 Score: 823
Period size: 223 Copynumber: 2.4 Consensus size: 224
26595 CTTGTCGGTT
* * *
26605 TGTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAAC
1 TGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAAT
* * *
26670 CGATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAATGTCGATACATTATAA
66 CGGTCTATAAATGACAAAACAAGTAAAACGCTACCGGATATATTGAAAATGTCGATACATTATAA
* *
26735 AAATGTATCTATCCATAACAATATAACAGGT-AAAAAATGACAAAACCGGTCTATAAATGACAAA
131 AAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
**
26799 ACAGGTAAAGTTCTACCGGATATATTGAA
196 ACAGGTAAAGCGCTACCGGATATATTGAA
*
26828 TGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAAT
1 TGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAAT
* * * *
26893 CGGTCTATAAATGACAAAACAAGTAAAACTCTACTGGATATATTGAAAGTGTCGATACTTTATAA
66 CGGTCTATAAATGACAAAACAAGTAAAACGCTACCGGATATATTGAAAATGTCGATACATTATAA
* * *
26958 AATTGTATCGATCCATAACAATAAAACAGGTAAAAAAATTACAAAATCGGTCTATAAATGACAAA
131 AAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
27023 ACAGGTAAAGCGCTACCGGATATATTGAA
196 ACAGGTAAAGCGCTACCGGATATATTGAA
** * * * *
27052 AATGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAATATGATAAAAT
1 TGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAAT
**
27117 CGGTCTCGAAATGACAAAAC
66 CGGTCTATAAATGACAAAAC
27137 CGGTAAAGAG
Statistics
Matches: 282, Mismatches: 26, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
223 147 0.52
224 135 0.48
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (224 bp):
TGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAAT
CGGTCTATAAATGACAAAACAAGTAAAACGCTACCGGATATATTGAAAATGTCGATACATTATAA
AAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
ACAGGTAAAGCGCTACCGGATATATTGAA
Found at i:27361 original size:182 final size:182
Alignment explanation
Indices: 27054--27870 Score: 1364
Period size: 182 Copynumber: 4.5 Consensus size: 182
27044 ATATTGAAAA
* *
27054 TGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAATATGATAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCG
* *
27119 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCATATATTTTGATAGTGTCGATACTTTATTATA
66 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATA
* *
27184 AGTATCGACACTTTTGGAATTTAAAAGAAAATAAGTTATAGTGCCAATAAAG
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAG
*
27236 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCG
* * * *
27301 ATCTCGAAATGACAAAATCTGTAAAGAGCTACCAGATATGTTGATAGTATCGATACTTTATTATA
66 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATA
*
27366 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAG
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAG
27418 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCG
* * * * *
27483 GTCCCAAAATGACAAAACCTGTAAAGAGCTATCGGATATGTTGATAGTGTCGATACTTTATTATA
66 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATA
* *
27548 AGTATCGACATTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCAATAAAG
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAG
* *
27600 TGTCGATACTTTATAAAAGTGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT-AAAACC
*
27665 GGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTAT
65 GGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTAT
* *
27730 AAGTATCGATACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACCAATAAAG
130 AAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAG
* * * *
27783 TGTCGATATTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCG
*
27848 ATCTCGAAATGACAAAACCGGTA
66 GTCTCGAAATGACAAAACCGGTA
27871 GTAAAAAAGT
Statistics
Matches: 594, Mismatches: 40, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
182 425 0.72
183 169 0.28
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCG
GTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGATAGTGTCGATACTTTATTATA
AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAG
Found at i:29253 original size:113 final size:112
Alignment explanation
Indices: 28928--29385 Score: 756
Period size: 112 Copynumber: 4.1 Consensus size: 112
28918 GTTTGTGTTA
* *
28928 ATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
* **
28993 TAAATGACAAAATAGGTAAAGCGCTACTAGATATATTGAAAGTGTCG
66 TAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
**
29040 ATACTCTT-TAAAAATGTATTTATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCT
1 ATACT-TTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCT
*
29104 ATAAATGACAAAACAAGTAAAGCGCTACCGGATATATTGAAAGTGTCG
65 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
* * *
29152 ATACTTTATAAAAATGTATCGACCCATAATAATATAACATGTAAAAAAAATGACAAAACCGGTCT
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGT-AAAAAAATGACAAAACCGGTCT
29217 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
65 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
* *
29265 ATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTA
1 ATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
* *
29330 TAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCG
66 TAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
29377 ATACTTTAT
1 ATACTTTAT
29386 TATAAGTATC
Statistics
Matches: 325, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
111 2 0.01
112 214 0.66
113 109 0.34
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (112 bp):
ATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
TAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCG
Found at i:29318 original size:225 final size:224
Alignment explanation
Indices: 28928--29398 Score: 757
Period size: 225 Copynumber: 2.1 Consensus size: 224
28918 GTTTGTGTTA
* * *
28928 ATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
1 ATACTTTATAAAAATGTATCGACCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
* *
28993 TAAATGACAAAATAGGTAAAGCGCTACTAGATATATTGAAAGTGTCGATACTCTTTAAAAATGTA
66 TAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTCTTTAAAAATGTA
** *
29058 TTTATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAAGTA
131 TCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAAGTA
29123 AAGCGCTACCGGATATATTGAAAGTGTCG
196 AAGCGCTACCGGATATATTGAAAGTGTCG
* *
29152 ATACTTTATAAAAATGTATCGACCCATAATAATATAACATGTAAAAAAAATGACAAAACCGGTCT
1 ATACTTTATAAAAATGTATCGACCCATAACAATATAACAAGT-AAAAAAATGACAAAACCGGTCT
*
29217 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACT-TTATAAAAATG
65 ATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTCTT-TAAAAATG
* *
29281 TATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGG
129 TATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAAG
* *
29346 TAAAGCGCTACCGGATATGTTGATAGTGTCG
194 TAAAGCGCTACCGGATATATTGAAAGTGTCG
* *
29377 ATACTTTATTATAA-GTATCGAC
1 ATACTTTATAAAAATGTATCGAC
29399 ACTTTTGAAA
Statistics
Matches: 228, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
224 47 0.21
225 181 0.79
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (224 bp):
ATACTTTATAAAAATGTATCGACCCATAACAATATAACAAGTAAAAAAATGACAAAACCGGTCTA
TAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTCTTTAAAAATGTA
TCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAACAAGTA
AAGCGCTACCGGATATATTGAAAGTGTCG
Found at i:29565 original size:182 final size:183
Alignment explanation
Indices: 29256--29712 Score: 704
Period size: 182 Copynumber: 2.5 Consensus size: 183
29246 GGATATATTG
* * *
29256 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
** * * * *
29321 ACCGGTCTATAAATGACAAAA-CAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTA
66 ACCGGTCTCGAAATGACAAAACCAGATAAAGAGCTACCGAATATGTTGATAGTGTCAATACTTTA
* * *
29385 TTATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTATATCGCTAAT
131 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* * *
29438 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAATAATATAACAGGTAAAAATTTAACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
29503 ACCGGTCTCGAAATGACAAAACCA-ATAAAGAGCTACCGAATATGTTGATAGTGTCAATACTTTA
66 ACCGGTCTCGAAATGACAAAACCAGATAAAGAGCTACCGAATATGTTGATAGTGTCAATACTTTA
*
29567 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
*
29620 AAAGTGTCGATACTTTATAAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGATAA
1 AAAGTGTCGATACTTTAT-AAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAA
* * *
29685 AATCGATCTCGAAATAACAAAACC-GATA
65 AACCGGTCTCGAAATGACAAAACCAGATA
29713 GTAAAAAAGT
Statistics
Matches: 249, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
182 181 0.73
183 68 0.27
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (183 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACCAGATAAAGAGCTACCGAATATGTTGATAGTGTCAATACTTTA
TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:30360 original size:23 final size:23
Alignment explanation
Indices: 30331--30378 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
30321 AAATATGTCA
*
30331 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTAATACATT
* *
30354 ATATAAGCGCTACCTAATATATT
1 ATATAAGCACTACCTAATACATT
30377 AT
1 AT
30379 TATACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCACTACCTAATACATT
Found at i:32137 original size:21 final size:22
Alignment explanation
Indices: 32111--32173 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
32101 TGATTACTAA
*
32111 TAATGATTT-ATTATTAAT-ATT
1 TAATGATTTGA-TACTAATAATT
32132 TAATGATTTGATACTAATAATT
1 TAATGATTTGATACTAATAATT
*
32154 TAAT-A-ATGATTACTAATAAT
1 TAATGATTTGA-TACTAATAAT
32174 GAAATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 3 0.08
21 26 0.70
22 8 0.22
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (22 bp):
TAATGATTTGATACTAATAATT
Found at i:32173 original size:24 final size:24
Alignment explanation
Indices: 32146--32213 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
32136 GATTTGATAC
32146 TAATAATTTAATAATGATTACTAA
1 TAATAATTTAATAATGATTACTAA
* *
32170 TAATGAAATT-ATAATAATTACTAA
1 TAAT-AATTTAATAATGATTACTAA
*
32194 TAATTATTTAATAATGATTA
1 TAATAATTTAATAATGATTA
32214 AATATTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.08
24 30 0.81
25 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (24 bp):
TAATAATTTAATAATGATTACTAA
Found at i:32205 original size:21 final size:21
Alignment explanation
Indices: 32143--32208 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
32133 AATGATTTGA
* *
32143 TACTAATAATT-TAATAATGAT
1 TACTAATAATTAT-TTAATAAT
*
32164 TACTAATAATGAAATTATAATAAT
1 TACTAATAAT--TATT-TAATAAT
32188 TACTAATAATTATTTAATAAT
1 TACTAATAATTATTTAATAAT
32209 GATTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 17 0.46
22 3 0.08
24 17 0.46
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (21 bp):
TACTAATAATTATTTAATAAT
Found at i:32273 original size:22 final size:22
Alignment explanation
Indices: 32248--32289 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
32238 ATTAAATCAA
*
32248 ATTTATAAATAGTTGAATTTAT
1 ATTTATAAATAGTCGAATTTAT
32270 ATTTATAAATAGTCGAATTT
1 ATTTATAAATAGTCGAATTT
32290 TTTCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTATAAATAGTCGAATTTAT
Found at i:32618 original size:21 final size:21
Alignment explanation
Indices: 32594--32637 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32584 ATATATTCAA
*
32594 ACCACTATGCTCTGCCATTCC
1 ACCACTATGCTCTGCCATCCC
* * *
32615 ACCAGTTTGCTCTTCCATCCC
1 ACCACTATGCTCTGCCATCCC
32636 AC
1 AC
32638 TTGTAAACGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.43, G:0.09, T:0.30
Consensus pattern (21 bp):
ACCACTATGCTCTGCCATCCC
Found at i:35055 original size:36 final size:36
Alignment explanation
Indices: 35006--35081 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
34996 CTATTCTTTT
*
35006 ATATAACTTAAACTAACCAACTAT-TTTTTTATTATA
1 ATATAACTAAAACTAACCAACTATATTTTTTA-TATA
**
35042 ATATAACTAAAACTAATTAACTATATTTTTTATATA
1 ATATAACTAAAACTAACCAACTATATTTTTTATATA
35078 ATAT
1 ATAT
35082 GAATTCAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 29 0.81
37 7 0.19
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (36 bp):
ATATAACTAAAACTAACCAACTATATTTTTTATATA
Found at i:35078 original size:31 final size:32
Alignment explanation
Indices: 34997--35078 Score: 76
Period size: 36 Copynumber: 2.4 Consensus size: 32
34987 ACTAATACAC
*
34997 TATTCTTTTATATAACTTAAACTAACCAACTATT
1 TATT-TTTTATATAACTAAAACTAACCAACTA-T
* **
35031 TTTTTATTATAATATAACTAAAACTAATTAACTA-
1 TATTT-TT-T-ATATAACTAAAACTAACCAACTAT
35065 TATTTTTTATATAA
1 TATTTTTTATATAA
35079 TATGAATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
31 6 0.15
32 1 0.03
33 3 0.08
34 9 0.22
35 1 0.03
36 20 0.50
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (32 bp):
TATTTTTTATATAACTAAAACTAACCAACTAT
Found at i:35175 original size:34 final size:35
Alignment explanation
Indices: 35114--35183 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
35104 TTAAACTATT
* *
35114 TAACTAACAAACTAATTAAAT-ATTTTTTTATATA
1 TAACTAAAAAACTAATTAAATAATTTTTATATATA
* * *
35148 TAACTAAAAAACTAGTTGACTAATTTTTATATATA
1 TAACTAAAAAACTAATTAAATAATTTTTATATATA
35183 T
1 T
35184 TATAACTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (35 bp):
TAACTAAAAAACTAATTAAATAATTTTTATATATA
Found at i:35501 original size:21 final size:20
Alignment explanation
Indices: 35475--35513 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
35465 TTAAAGGCCC
35475 TTCTTCTCCCTTTCCTTTCCT
1 TTCTTCTCCCTTT-CTTTCCT
35496 TTCTTCTCCCTTTCTTTC
1 TTCTTCTCCCTTTCTTTC
35514 TACAACCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (20 bp):
TTCTTCTCCCTTTCTTTCCT
Found at i:35509 original size:11 final size:11
Alignment explanation
Indices: 35475--35511 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
35465 TTAAAGGCCC
35475 TTCTTCTCCCT
1 TTCTTCTCCCT
35486 TTCCTT-T-CCT
1 TT-CTTCTCCCT
35496 TTCTTCTCCCT
1 TTCTTCTCCCT
35507 TTCTT
1 TTCTT
35512 TCTACAACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.13
10 6 0.26
11 11 0.48
12 3 0.13
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (11 bp):
TTCTTCTCCCT
Found at i:38406 original size:18 final size:18
Alignment explanation
Indices: 38385--38439 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
38375 GTTGACCTTG
38385 TCTTTTTCTTTTATTCCT
1 TCTTTTTCTTTTATTCCT
** *
38403 TCTTTAGCCTTTA--CCT
1 TCTTTTTCTTTTATTCCT
38419 TCTCCTTTTCTTTTATTCCT
1 TCT--TTTTCTTTTATTCCT
38439 T
1 T
38440 AACCAATCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
16 6 0.22
18 17 0.63
20 4 0.15
ACGTcount: A:0.07, C:0.27, G:0.02, T:0.64
Consensus pattern (18 bp):
TCTTTTTCTTTTATTCCT
Found at i:39150 original size:24 final size:24
Alignment explanation
Indices: 39123--39170 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39113 AAATCCACCG
39123 AAATTGCCCACCAATTTTGACATT
1 AAATTGCCCACCAATTTTGACATT
39147 AAATTGCCCACCAATTTTGACATT
1 AAATTGCCCACCAATTTTGACATT
39171 TTCCAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
AAATTGCCCACCAATTTTGACATT
Found at i:44438 original size:14 final size:15
Alignment explanation
Indices: 44419--44453 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44409 TGTTTGTAAA
*
44419 AAAATTT-AAAATTT
1 AAAATTTAAAAATAT
44433 AAAATTTAAAAATAT
1 AAAATTTAAAAATAT
44448 AAAATT
1 AAAATT
44454 ATATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATTTAAAAATAT
Found at i:44456 original size:8 final size:7
Alignment explanation
Indices: 44419--44453 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
44409 TGTTTGTAAA
44419 AAAATTT
1 AAAATTT
44426 AAAATTT
1 AAAATTT
44433 AAAATTT
1 AAAATTT
*
44440 AAAAATAT
1 -AAAATTT
44448 AAAATT
1 AAAATT
44454 ATATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAAATTT
Found at i:46853 original size:13 final size:13
Alignment explanation
Indices: 46853--46928 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
46843 CCGTTGACCC
46853 GACCCGACCCGTT
1 GACCCGACCCGTT
*
46866 TACCCGACCCGTT
1 GACCCGACCCGTT
46879 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
46897 GACCCGACCCGTT
1 GACCCGACCCGTT
*
46910 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
46925 GACC
1 GACC
46929 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 29 0.55
15 12 0.23
18 12 0.23
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:46854 original size:18 final size:18
Alignment explanation
Indices: 46831--46907 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
46821 ACCGGTCACA
46831 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
46849 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
46866 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
46880 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
46898 ACCCGACCCG
1 ACCCGACCCG
46908 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.17, C:0.51, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:46874 original size:31 final size:31
Alignment explanation
Indices: 46835--46913 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
46825 GTCACAACCC
46835 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
46866 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
46897 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
46914 GTTGACCCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:46900 original size:8 final size:8
Alignment explanation
Indices: 46889--46935 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
46879 GACCCGACCC
46889 GACCCGTT
1 GACCCGTT
46897 GACCC---
1 GACCCGTT
46902 GACCCGTT
1 GACCCGTT
46910 GA-CCGTT
1 GACCCGTT
46917 GACCCGTT
1 GACCCGTT
46925 GA-CCGTT
1 GACCCGTT
46932 GACC
1 GACC
46936 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:46917 original size:7 final size:7
Alignment explanation
Indices: 46905--46936 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
46895 TTGACCCGAC
46905 CCGTTGA
1 CCGTTGA
46912 CCGTTGA
1 CCGTTGA
46919 CCCGTTGA
1 -CCGTTGA
46927 CCGTTGA
1 CCGTTGA
46934 CCG
1 CCG
46937 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:46922 original size:15 final size:15
Alignment explanation
Indices: 46889--46935 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
46879 GACCCGACCC
*
46889 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
46902 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
46917 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
46932 GACC
1 GACC
46936 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:48251 original size:18 final size:18
Alignment explanation
Indices: 48225--48259 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48215 TCGAAAGGAC
*
48225 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
48243 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
48260 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:55163 original size:3 final size:3
Alignment explanation
Indices: 55157--55188 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
55147 ACATTATTAT
55157 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
55189 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:55424 original size:55 final size:53
Alignment explanation
Indices: 55359--55469 Score: 141
Period size: 55 Copynumber: 2.1 Consensus size: 53
55349 AGTGAGACTT
* * *
55359 GAAAAATCTTCTGCAAACGGGTTTGCTCTCTTTTTCTTCAGGGAGTATAGAACTC
1 GAAAAATCTTCTGCAAACGGGTTCGCTCTCTATTTCTTCAAGGAG--TAGAACTC
****
55414 GAAAAATCTTCTTTTTACGGGTTCGCTCTCTATTTCTTCAAGGAGTAGAACTC
1 GAAAAATCTTCTGCAAACGGGTTCGCTCTCTATTTCTTCAAGGAGTAGAACTC
55467 GAA
1 GAA
55470 CGATAATCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 11 0.22
55 38 0.78
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (53 bp):
GAAAAATCTTCTGCAAACGGGTTCGCTCTCTATTTCTTCAAGGAGTAGAACTC
Found at i:55515 original size:52 final size:52
Alignment explanation
Indices: 55446--56258 Score: 1365
Period size: 52 Copynumber: 15.6 Consensus size: 52
55436 TCGCTCTCTA
* * * * *
55446 TTTCTTCAAGGAGTAGAACTCGAACGATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
55498 TTTCTTCACGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
55550 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* * * *
55602 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACCGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
55654 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
55706 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* * *
55758 TTTCTTCAGGGACTAGAACTCAAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
55810 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
55862 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* * *
55914 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTACCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* * *
55966 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
56018 TTTCTTCAGGGACTAGAACTCGAAAAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
56070 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
56122 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
56174 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
56226 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
56259 CCAACGATCG
Statistics
Matches: 717, Mismatches: 44, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 717 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
Found at i:56313 original size:55 final size:55
Alignment explanation
Indices: 56254--56533 Score: 474
Period size: 55 Copynumber: 5.1 Consensus size: 55
56244 CTCGAACAAT
*
56254 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
56309 AATCTTCAACAATCGCGTATGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
56364 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
56417 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
56472 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
56527 AATCTTC
1 AATCTTC
56534 TTTTGCTTCA
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
53 48 0.23
54 4 0.02
55 156 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:56464 original size:108 final size:110
Alignment explanation
Indices: 56254--56533 Score: 492
Period size: 108 Copynumber: 2.6 Consensus size: 110
56244 CTCGAACAAT
*
56254 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
56319 AATCGCGTATGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
66 AATCGCGTATGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* *
56364 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAATCTTCATC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* * *
56427 AATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
66 AATCGCGTATGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
56472 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
56534 TTTTGCTTCA
Statistics
Matches: 161, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
108 101 0.63
109 4 0.02
110 56 0.35
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (110 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGCGTATGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:65527 original size:3 final size:3
Alignment explanation
Indices: 65521--65552 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
65511 ACATTATTAT
65521 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
65553 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:68064 original size:10 final size:10
Alignment explanation
Indices: 68042--68110 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 10
68032 CAAAGGTCGT
68042 TCAACGCCTGG
1 TCAACG-CTGG
68053 TCAACGCTGG
1 TCAACGCTGG
* *
68063 TCAAAGTTTTGG
1 TCAACG--CTGG
68075 TCAACAG-TGG
1 TCAAC-GCTGG
*
68085 TCAACGCCGG
1 TCAACGCTGG
*
68095 TCAACGCAGG
1 TCAACGCTGG
68105 TCAACG
1 TCAACG
68111 ATCAACAGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
9 1 0.02
10 34 0.69
11 6 0.12
12 7 0.14
13 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (10 bp):
TCAACGCTGG
Found at i:69104 original size:15 final size:15
Alignment explanation
Indices: 69084--69114 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
69074 AAACATTGTC
69084 GTACCAAGGCATGAT
1 GTACCAAGGCATGAT
69099 GTACCAAGGCATGAT
1 GTACCAAGGCATGAT
69114 G
1 G
69115 CCGTGCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (15 bp):
GTACCAAGGCATGAT
Found at i:72287 original size:15 final size:15
Alignment explanation
Indices: 72267--72297 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
72257 AAACATTGTC
72267 GTACCAAGGCATGAT
1 GTACCAAGGCATGAT
72282 GTACCAAGGCATGAT
1 GTACCAAGGCATGAT
72297 G
1 G
72298 CCGTGCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (15 bp):
GTACCAAGGCATGAT
Found at i:74206 original size:18 final size:19
Alignment explanation
Indices: 74171--74205 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
74161 ATATATAATT
74171 TATTTTAATTTATTAAAAG
1 TATTTTAATTTATTAAAAG
74190 TATTTT-ATTT-TTAAAA
1 TATTTTAATTTATTAAAA
74206 ATATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTTTAATTTATTAAAAG
Found at i:74238 original size:27 final size:27
Alignment explanation
Indices: 74203--74320 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
74193 TTTATTTTTA
74203 AAAATATATTTTACTATTAATTTAATTT
1 AAAA-ATATTTTACTATTAATTTAATTT
* ****
74231 AAAAATATTTGACTATTAAAAGCATATT
1 AAAAATATTTTACTATTAATTTAAT-TT
* * **
74259 ATATATATTTTACTATTAGCTTAATTT
1 AAAAATATTTTACTATTAATTTAATTT
* * *
74286 AAAAATATTTTATTTTTATTTTAATTT
1 AAAAATATTTTACTATTAATTTAATTT
74313 AAAAATAT
1 AAAAATAT
74321 ATAATTTATT
Statistics
Matches: 70, Mismatches: 19, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
27 47 0.67
28 23 0.33
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (27 bp):
AAAAATATTTTACTATTAATTTAATTT
Found at i:74334 original size:25 final size:27
Alignment explanation
Indices: 74279--74338 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 27
74269 TACTATTAGC
* *
74279 TTAATTTAAAAATATTTTATTTTTATT
1 TTAATTTAAAAATATTATATATTTATT
74306 TTAATTTAAAAATA-TATA-ATTTATT
1 TTAATTTAAAAATATTATATATTTATT
74331 TTAATTTA
1 TTAATTTA
74339 TTAAAAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 14 0.45
26 3 0.10
27 14 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAATTTAAAAATATTATATATTTATT
Found at i:75928 original size:16 final size:17
Alignment explanation
Indices: 75907--75964 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 17
75897 CCTAAAATGT
75907 ATTATAATAA-AATAAA
1 ATTATAATAAGAATAAA
* *
75923 ATTATAA-AATATTAAA
1 ATTATAATAAGAATAAA
* * *
75939 A-TGTAATAAGATTGAA
1 ATTATAATAAGAATAAA
75955 ATTATAATAA
1 ATTATAATAA
75965 ACATAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 6 0.18
16 21 0.62
17 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTATAATAAGAATAAA
Found at i:84233 original size:13 final size:14
Alignment explanation
Indices: 84215--84243 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84205 TTTTAAACGT
84215 ATAAATGTA-AATG
1 ATAAATGTATAATG
84228 ATAAATGTATAATG
1 ATAAATGTATAATG
84242 AT
1 AT
84244 GAGCGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:84998 original size:95 final size:96
Alignment explanation
Indices: 84820--85000 Score: 240
Period size: 95 Copynumber: 1.9 Consensus size: 96
84810 ATGCAATATT
*
84820 GATACCATGGTAAGGGTATCAATACCAAGAAAACATCGAATCTAATTTTGGTATCAATACCGTAA
1 GATACCATGGTAAGGGTATCAATACCAAGAAAACATCGAACCTAATTTTGGTATCAATACCGTAA
** *
84885 GGGGGTATCGGTATCATAGTAGGGTAGTATC
66 GGAAGTATCGGTACCATAGTAGGGTAGTATC
** * * * * *
84916 GATACCATGGTAAGGGTATCAATACC-AGGCAACTTTGAACCTAATTTTTGTATCGATACCCG-G
1 GATACCATGGTAAGGGTATCAATACCAAGAAAACATCGAACCTAATTTTGGTATCAATA-CCGTA
84979 AGGAAGTATCGGTACCATAGTA
65 AGGAAGTATCGGTACCATAGTA
85001 TTGAAGTATC
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
95 44 0.60
96 29 0.40
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (96 bp):
GATACCATGGTAAGGGTATCAATACCAAGAAAACATCGAACCTAATTTTGGTATCAATACCGTAA
GGAAGTATCGGTACCATAGTAGGGTAGTATC
Found at i:85531 original size:45 final size:45
Alignment explanation
Indices: 85482--85757 Score: 369
Period size: 45 Copynumber: 6.1 Consensus size: 45
85472 AAAGGATGCC
*
85482 ATAGTTGAAATATATATGGGTACATTACCAACAGAAAAGTATACT
1 ATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
85527 ATAGTTGAAATGTATATGTGTACATTTTCAATAGAAAAGTATACT
1 ATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATACT
* * *
85572 ATAGTTGAAAT-TCATATGGGTGCATTATCAATAGAAAAATATACT
1 ATAGTTGAAATAT-ATATGGGTACATTATCAACAGAAAAGTATACT
*
85617 ATAGTTGAAATATATATGGGTACATTATCAACAGAAACGTATACT
1 ATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATACT
* * * *
85662 ATAGTTGAAATGTATATAGGTATATTATCAATAGAAAAGTATACT
1 ATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATACT
* *
85707 ATAGTTGAAATACATATAGGTGA-ATTATCAACAGAAAAGTATGA-T
1 ATAGTTGAAATATATATGGGT-ACATTATCAACAGAAAAGTAT-ACT
85752 ATAGTT
1 ATAGTT
85758 TAAAGTGCAT
Statistics
Matches: 206, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.00
45 202 0.98
46 3 0.01
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (45 bp):
ATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:85693 original size:135 final size:135
Alignment explanation
Indices: 85482--85757 Score: 439
Period size: 135 Copynumber: 2.0 Consensus size: 135
85472 AAAGGATGCC
85482 ATAGTTGAAATATATATGGGTACATTACCAACAGAAAAGTATACTATAGTTGAAATGTATATGTG
1 ATAGTTGAAATATATATGGGTACATTACCAACAGAAAAGTATACTATAGTTGAAATGTATATGTG
* * * * *
85547 TACATTTTCAATAGAAAAGTATACTATAGTTGAAATTCATATGGGTGCATTATCAATAGAAAAAT
66 TACATTATCAATAGAAAAGTATACTATAGTTGAAATACATATAGGTGAATTATCAACAGAAAAAT
85612 AT-ACT
131 ATGA-T
* *
85617 ATAGTTGAAATATATATGGGTACATTATCAACAGAAACGTATACTATAGTTGAAATGTATATAG-
1 ATAGTTGAAATATATATGGGTACATTACCAACAGAAAAGTATACTATAGTTGAAATGTATAT-GT
* *
85681 GTATATTATCAATAGAAAAGTATACTATAGTTGAAATACATATAGGTGAATTATCAACAGAAAAG
65 GTACATTATCAATAGAAAAGTATACTATAGTTGAAATACATATAGGTGAATTATCAACAGAAAAA
85746 TATGAT
130 TATGAT
85752 ATAGTT
1 ATAGTT
85758 TAAAGTGCAT
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
135 128 0.98
136 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (135 bp):
ATAGTTGAAATATATATGGGTACATTACCAACAGAAAAGTATACTATAGTTGAAATGTATATGTG
TACATTATCAATAGAAAAGTATACTATAGTTGAAATACATATAGGTGAATTATCAACAGAAAAAT
ATGAT
Found at i:90900 original size:45 final size:45
Alignment explanation
Indices: 90851--91002 Score: 241
Period size: 45 Copynumber: 3.4 Consensus size: 45
90841 AAATGATGTC
*
90851 ATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* *
90896 ATAGTTGAAATGCATATGGGTACATTATTAACAGAAAATTATACT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
* *
90941 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCT
1 ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
*
90986 ATAGTTTAAAGTGCATA
1 ATAGTTGAAA-TGCATA
91003 ATGGTGCGTT
Statistics
Matches: 98, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 92 0.94
46 6 0.06
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (45 bp):
ATAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACT
Found at i:91919 original size:111 final size:111
Alignment explanation
Indices: 91538--91978 Score: 451
Period size: 111 Copynumber: 3.9 Consensus size: 111
91528 TTGAATCAGG
* * * * * *
91538 GTAGACTTGTTCCACTGTAACTTAGGGAATATCAAATCTTGGAAAAGATAGACCTGTTGCTCTT-
1 GTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGA-ACATGTTCCACTTC
* ** * **
91602 TCTCTAAAGGGAATATAAGATCTTGGACTTGATGTTTGA-CT-TGTGGATCGGG
65 T-TCTAAAGGGAATATCAGATC-TGG--GGGA-G-TTGATCTAT-TGAATCGAA
* * ***
91654 GTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGAGACATGTTTTGCTTC
1 GTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGA-ACATGTTCCACTTC
* *
91719 TTCTAAAGGGAATATCAGATTTGGGGGAGTGTAGATCCATTGAATC-AA
65 TTCTAAAGGGAATATCAGATCTGGGGGAGT-T-GATCTATTGAATCGAA
* * * * *
91767 GACAGACTTATTCCGCTGTCACTCAGGGAATATTAAATCTTGGAAAATAGGAACATGTTCCACTT
1 G-TAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGA-GAACATGTTCCACTT
*
91832 CTTCTAAAGGGAATATCAGATCT-GGGGAGTTGATCTATTGAATCGAT
64 CTTCTAAAGGGAATATCAGATCTGGGGGAGTTGATCTATTGAATCGAA
* *
91879 GTAGACTTGTTCCACTGTCACTCATGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCACTTC
1 GTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGA-GAACATGTTCCACTTC
* * *
91944 TTCTGAAGGGAAAATCATATCTGGGGGAGTTGATC
65 TTCTAAAGGGAATATCAGATCTGGGGGAGTTGATC
91979 CAAGTCACTC
Statistics
Matches: 278, Mismatches: 38, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
111 89 0.32
112 17 0.06
113 12 0.04
114 80 0.29
115 6 0.02
116 73 0.26
117 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (111 bp):
GTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGAACATGTTCCACTTCT
TCTAAAGGGAATATCAGATCTGGGGGAGTTGATCTATTGAATCGAA
Found at i:92177 original size:133 final size:130
Alignment explanation
Indices: 91879--92249 Score: 430
Period size: 128 Copynumber: 2.8 Consensus size: 130
91869 TTGAATCGAT
* * * *
91879 GTAGACTTGTTCCACTGTCACTCATGGAATATCAAATCTTGGAAA-AGAGGGACATGTTCCACTT
1 GTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGGAAAGAGAGGGATATGTT-CTCTT
* * *
91943 CTTCTGAAGGGAAAATCATATCTGGGGGAGTTGATCCA--AGTCACTCAGGGAAGATTGAATCAG
65 CTTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTAGTCACTCAGGAAAGATTGAATCAG
92006 G
130 G
* * *
92007 GCAGACTTATTCCGCTGTTACTCAGGGAATATCAAATCTT-GAAAGAGAGGGATATGTTCTGCTT
1 GTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGGAAAGAGAGGGATATGTTCT-CTT
* * *
92071 TTTCTGAAGGGAATATCAGATCTGGAGG-GTTGATCCATTCCACTGTCACTCAGGAAAGATTGGA
65 CTTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATT--A--GTCACTCAGGAAAGATTGAA
*
92135 TCGGG
126 TCAGG
* *
92140 GTAGACTTGTTCTACTGTTACTCAGGGAATATTAAATCTTGGAAAAGAGGGACAGGGACCTAT-T
1 GTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGG-AAAGA--G--AGGGA--TATGT
*
92204 TCTCTTCTTCTGAAGGGAATATCAGATATGGGGGAGTTGATCCATT
59 TCTCTTCTTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATT
92250 GAATTGAGAT
Statistics
Matches: 204, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
127 14 0.07
128 74 0.36
131 1 0.00
133 57 0.28
134 1 0.00
135 5 0.02
137 1 0.00
139 33 0.16
140 15 0.07
141 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (130 bp):
GTAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGGAAAGAGAGGGATATGTTCTCTTC
TTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTAGTCACTCAGGAAAGATTGAATCAGG
Found at i:97810 original size:16 final size:16
Alignment explanation
Indices: 97789--97822 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
97779 TGGGAAAAAA
* *
97789 ATAAATTTATATATTT
1 ATAAATTAAAATATTT
97805 ATAAATTAAAATATTT
1 ATAAATTAAAATATTT
97821 AT
1 AT
97823 TTATTTAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAATTAAAATATTT
Found at i:99465 original size:3 final size:3
Alignment explanation
Indices: 99457--99535 Score: 97
Period size: 3 Copynumber: 26.3 Consensus size: 3
99447 AATTATTTTT
* *
99457 TAA TAA TAA TAA TAA T-A TATA TAA TAA TAA TAA TAA TTA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
99502 TAA TAA TAA TAA TTA TAG TAA TAA TTA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
99536 TATTATTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:99483 original size:21 final size:21
Alignment explanation
Indices: 99457--99552 Score: 133
Period size: 21 Copynumber: 4.6 Consensus size: 21
99447 AATTATTTTT
99457 TAATAATAATAATAA-TATATA
1 TAATAATAATAATAATTAT-TA
99478 TAATAATAATAATAATTATTA
1 TAATAATAATAATAATTATTA
99499 TAATAATAATAATAATTA-TA
1 TAATAATAATAATAATTATTA
*
99519 GTAATAATTATAATAATTATTA
1 -TAATAATAATAATAATTATTA
* *
99541 TTATAGTAATAA
1 TAATAATAATAA
99553 AAAAATTAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
20 2 0.03
21 61 0.90
22 5 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAATAATAATAATAATTATTA
Found at i:99543 original size:27 final size:27
Alignment explanation
Indices: 99457--99552 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
99447 AATTATTTTT
* *
99457 TAATAATAATAATAATATAT-ATAATAA
1 TAATTATAGTAATAAT-TATAATAATAA
* * * * *
99484 TAATAATAATTATTATAATAATAATAA
1 TAATTATAGTAATAATTATAATAATAA
*
99511 TAATTATAGTAATAATTATAATAATTA
1 TAATTATAGTAATAATTATAATAATAA
*
99538 TTATTATAGTAATAA
1 TAATTATAGTAATAA
99553 AAAAATTAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
TAATTATAGTAATAATTATAATAATAA
Found at i:99927 original size:113 final size:112
Alignment explanation
Indices: 99803--100428 Score: 678
Period size: 113 Copynumber: 5.5 Consensus size: 112
99793 TCGTCTTTAT
* ** * * * * *
99803 ATGAGTTCTTCTTATTATGAACTCTTTCTAGCAATACTGATCCACCGAATGATGAAATCGAGAAA
1 ATGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCGAGAAA
* *
99868 AAATTTGAACAAATTCTTCTCATTATGAATTCCTTCTTTCTTCTTCAG
66 AAAGTTGAACAAATTCTTCTCATTATGAATT-CTTCTTCCTTCTTCAG
* * * * *
99916 ATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAA-AGCTGATCCATCAAGTGATGGATTTGAGC
1 ATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAATA-CTGATCCATCAAATGATGAATTCGAGA
* *
99979 AAAAGGTTGACCAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
64 AAAAAGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTC--A-G
** * *
100032 ATGAGTTCTTCTCATTATGAACTCTACCTGGAAATTTTAATCCATCAAATGATGATTTC-A-AAC
1 ATGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCGAGAA-
*
100095 AAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
65 AAAA-GTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAG
* * * * *
100145 ATGAGTTCTTCTCATTATGAACT-TTCTTTGGAAA-AGTTGATCCATCAAATGATGAATTCAAGC
1 ATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAATA-CTGATCCATCAAATGATGAATTCGAGA
*
100208 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-C-TCTTTAG
64 AAAAAGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAG
* ** * * *
100256 ATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATT-TA-
1 AT---GAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCGAG
100319 AACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
63 AA-AAAA-GTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAG
100372 ATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATG
1 AT---GAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATG
100429 GATTTGAATC
Statistics
Matches: 438, Mismatches: 52, Indels: 43
0.82 0.10 0.08
Matches are distributed among these distances:
111 8 0.02
112 7 0.02
113 177 0.40
114 89 0.20
115 9 0.02
116 146 0.33
117 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (112 bp):
ATGAGTTCTTCTCATTATGAACTCTACCTGGAAATACTGATCCATCAAATGATGAATTCGAGAAA
AAAGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAG
Found at i:100079 original size:116 final size:116
Alignment explanation
Indices: 99872--100433 Score: 750
Period size: 116 Copynumber: 4.9 Consensus size: 116
99862 GAGAAAAAAT
* *
99872 TTGAACAAATTCTTCTCATTATGAATTCCTTCTTTCTTCTTC--A-GATGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
* * * * * *
99934 GAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGG
66 GAACTCTAC-CTGGAAATGTTGATCCATCAAATGATGGATTTAAACAAAAGG
*
99985 TTGACCAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
* *
100050 GAACTCTACCTGGAAATTTTAATCCATCAAATGAT-GATTTCAAACAAAAGG
66 GAACTCTACCTGGAAATGTTGATCCATCAAATGATGGATTT-AAACAAAAGG
* *
100101 TTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
* * * * * * *
100163 GAACT-TTCTTTGGAAAAGTTGATCCATCAAATGATGAATTCAAGCAAAAAG
66 GAACTCTAC-CTGGAAATGTTGATCCATCAAATGATGGATTTAAACAAAAGG
* *
100214 TTGAACAAATTCTTCTCATTATGAATTTCTTCTT-C-TCTTTAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
* * * *
100277 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGAAATGTTGATCCATCAAATGATGGATTTAAACAAAAGG
* *
100328 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
**
100393 GAACTCTACCTGGAAATACTGATCCATCAAATGATGGATTT
66 GAACTCTACCTGGAAATGTTGATCCATCAAATGATGGATTT
100434 GAATCTTTGC
Statistics
Matches: 392, Mismatches: 44, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
111 4 0.01
112 3 0.01
113 126 0.32
114 94 0.24
115 9 0.02
116 154 0.39
117 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (116 bp):
TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
GAACTCTACCTGGAAATGTTGATCCATCAAATGATGGATTTAAACAAAAGG
Found at i:101388 original size:94 final size:94
Alignment explanation
Indices: 101223--101601 Score: 661
Period size: 94 Copynumber: 4.0 Consensus size: 94
101213 CTTATTTCTA
* * * *
101223 CTATAAGCACATTCATCTTTCAAATCCAATGATTGG-TTTTTGTGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
101287 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
101316 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
*
101381 GATAACTCAAAGAACACTTCCAGAATATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* * * *
101410 CTATGTGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTTGAGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
101475 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
*
101504 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGATTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
101569 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
101598 CTAT
1 CTAT
101602 TGGGTCTACG
Statistics
Matches: 270, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
93 33 0.12
94 237 0.88
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (94 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
GATAACTCAAAGAACACTTCCAGAAGATG
Found at i:109984 original size:15 final size:15
Alignment explanation
Indices: 109961--109992 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
109951 TGCATTGAAT
109961 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
109976 AATGCATGTATGCAA
1 AATGAATGTATGCAA
109991 AA
1 AA
109993 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:117885 original size:16 final size:16
Alignment explanation
Indices: 117864--117897 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
117854 TGAGAAAAAA
* *
117864 ATAAATTTATATATTT
1 ATAAATTAAAATATTT
117880 ATAAATTAAAATATTT
1 ATAAATTAAAATATTT
117896 AT
1 AT
117898 TTATTTAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAATTAAAATATTT
Found at i:119528 original size:3 final size:3
Alignment explanation
Indices: 119520--119585 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
119510 AATTATTTTT
* *
119520 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
119565 TAA TAA TAA TTA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
119586 AAAAAATTAG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:121553 original size:15 final size:15
Alignment explanation
Indices: 121533--121580 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
121523 CAAATCCAAA
121533 CAAATTCACAATCCT
1 CAAATTCACAATCCT
121548 CAAATTCA-AA----
1 CAAATTCACAATCCT
121558 CAAATTCACAATCCT
1 CAAATTCACAATCCT
121573 CAAATTCA
1 CAAATTCA
121581 AACATCCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
14 2 0.07
15 16 0.57
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (15 bp):
CAAATTCACAATCCT
Found at i:121557 original size:25 final size:25
Alignment explanation
Indices: 121523--121584 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
121513 ACCATCCAAA
*
121523 CAAATCCAAACAAATTCACAATCCT
1 CAAATTCAAACAAATTCACAATCCT
121548 CAAATTCAAACAAATTCACAATCCT
1 CAAATTCAAACAAATTCACAATCCT
121573 CAAATTCAAACA
1 CAAATTCAAACA
121585 TCCCAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (25 bp):
CAAATTCAAACAAATTCACAATCCT
Found at i:123573 original size:21 final size:21
Alignment explanation
Indices: 123547--123586 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
123537 CAGAACCCCA
*
123547 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
123568 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
123587 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:123621 original size:20 final size:21
Alignment explanation
Indices: 123567--123629 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
123557 GATTCCCCTG
123567 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
123591 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
123611 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
123630 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:135203 original size:19 final size:19
Alignment explanation
Indices: 135152--135203 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
135142 ACTACTATAT
*
135152 TACTTGCATCGATTGTGTA
1 TACTTGCATAGATTGTGTA
*
135171 TACTTGCATTGATTGTGTA
1 TACTTGCATAGATTGTGTA
*
135190 TACTTTCATAGATT
1 TACTTGCATAGATT
135204 TACGTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.46
Consensus pattern (19 bp):
TACTTGCATAGATTGTGTA
Found at i:137152 original size:47 final size:47
Alignment explanation
Indices: 137062--137162 Score: 159
Period size: 47 Copynumber: 2.1 Consensus size: 47
137052 CTGAATATAA
*
137062 ATTTTCTTTCCAATATACTTGTCATTTATTCCATAAGTTCGTAAGCTT
1 ATTTT-TTTCCAATATACTTGTCATTTATTCCATAAGCTCGTAAGCTT
*
137110 ATTTTTTTACCAATATACTTGTTA-TTATTCCATAAGCTCGTAAGCTT
1 ATTTTTTT-CCAATATACTTGTCATTTATTCCATAAGCTCGTAAGCTT
137157 ATTTTT
1 ATTTTT
137163 ACCATAACAG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
47 31 0.62
48 19 0.38
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.50
Consensus pattern (47 bp):
ATTTTTTTCCAATATACTTGTCATTTATTCCATAAGCTCGTAAGCTT
Found at i:137352 original size:20 final size:20
Alignment explanation
Indices: 137327--137370 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
137317 TTCATCACTA
* *
137327 TTCACACAGTATTGGTATTG
1 TTCACACAGTATCGGTACTG
137347 TTCACACAGTATCGGTACTG
1 TTCACACAGTATCGGTACTG
137367 TTCA
1 TTCA
137371 TAAAAACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (20 bp):
TTCACACAGTATCGGTACTG
Found at i:137646 original size:61 final size:61
Alignment explanation
Indices: 137530--137646 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
137520 GCTAAACATG
* * * * *
137530 CACTAAGCTTACGCCATAGTGCTAATCCGGATATTACACATAAGGTCGTGCCCACCACCTA
1 CACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGATCGTACCCACCACCTA
* * *
137591 CACTAAGCTTACACTATAGTGCTAATCCGGACATGATACATAAGATCGTATCCACC
1 CACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGATCGTACCCACC
137647 TTCTTGCAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (61 bp):
CACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGATCGTACCCACCACCTA
Found at i:140459 original size:21 final size:22
Alignment explanation
Indices: 140434--140476 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
140424 TGATGTGACA
*
140434 TTTTTCTTTTCA-ACCAAAGTT
1 TTTTTCCTTTCATACCAAAGTT
140455 TTTTTCCTTTCATTACCAAAGT
1 TTTTTCCTTTCA-TACCAAAGT
140477 GGATATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTTTCCTTTCATACCAAAGTT
Found at i:141573 original size:19 final size:18
Alignment explanation
Indices: 141542--141579 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
141532 AGTGCTAGTT
141542 TTTTACAAAAATATATTTA
1 TTTTACAAAAATAT-TTTA
141561 TTTTA-AAATAATATTTTA
1 TTTTACAAA-AATATTTTA
141579 T
1 T
141580 AAAGTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTACAAAAATATTTTA
Found at i:142545 original size:31 final size:32
Alignment explanation
Indices: 142484--142546 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
142474 TCGTTTCCTT
* *
142484 TGATTTTGTCAAAAACAAAACATTTTAAACAA
1 TGATTCTGTCAAAAACAAAACATTTCAAACAA
*
142516 TGATTCTGTCAAAAAC-ATACATTTCAAACAA
1 TGATTCTGTCAAAAACAAAACATTTCAAACAA
142547 ATTATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (32 bp):
TGATTCTGTCAAAAACAAAACATTTCAAACAA
Found at i:143619 original size:12 final size:12
Alignment explanation
Indices: 143604--143649 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
143594 CGGTTTTTTT
*
143604 ACCGGATAAAAA
1 ACCGGTTAAAAA
143616 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
143631 ACCGGTTAAAAA
1 ACCGGTTAAAAA
143643 ACCGGTT
1 ACCGGTT
143650 TTTATCCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:143631 original size:15 final size:13
Alignment explanation
Indices: 143610--143650 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
143600 TTTTACCGGA
143610 TAAAAAACCGGTT
1 TAAAAAACCGGTT
143623 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
143637 TAAAAAACCGGTT
1 TAAAAAACCGGTT
143650 T
1 T
143651 TTATCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:146036 original size:33 final size:33
Alignment explanation
Indices: 145983--146081 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
145973 TTTGTTTCAA
145983 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
146015 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
146048 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
146081 T
1 T
146082 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:146110 original size:13 final size:13
Alignment explanation
Indices: 146067--146121 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
146057 TTGGAAGTAT
146067 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
146080 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
146094 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
146107 TTAAGTATTTGAA
1 TTAAGTATTTCAA
146120 TT
1 TT
146122 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:146343 original size:21 final size:21
Alignment explanation
Indices: 146319--146373 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
146309 GAGCGTGGGA
*
146319 GAATCGGTACCCTCTCATAGG
1 GAATCGGTTCCCTCTCATAGG
*
146340 GAATCGGTTTCCTCTCATAGG
1 GAATCGGTTCCCTCTCATAGG
146361 GAATCGGTTCCCT
1 GAATCGGTTCCCT
146374 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (21 bp):
GAATCGGTTCCCTCTCATAGG
Found at i:146580 original size:17 final size:18
Alignment explanation
Indices: 146560--146593 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
146550 ATTTTTTTAT
146560 AACCG-GTTTTTTAAAAA
1 AACCGAGTTTTTTAAAAA
*
146577 AACCGATTTTTTTAAAA
1 AACCGAGTTTTTTAAAA
146594 CCTAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (18 bp):
AACCGAGTTTTTTAAAAA
Found at i:146593 original size:15 final size:15
Alignment explanation
Indices: 146541--146595 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
146531 ATCTAGAATA
*
146541 TTAAAATCGATTTTT
1 TTAAAACCGATTTTT
* *
146556 TTATAACCGGTTTTT
1 TTAAAACCGATTTTT
*
146571 TAAAAAAACCGATTTTT
1 T--TAAAACCGATTTTT
146588 TTAAAACC
1 TTAAAACC
146596 TAAACCGGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
15 19 0.61
17 12 0.39
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (15 bp):
TTAAAACCGATTTTT
Found at i:149139 original size:2 final size:2
Alignment explanation
Indices: 149132--149164 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
149122 CATTTGTATG
149132 TA TA 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 TA TA T
149165 GCATGCATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:149396 original size:2 final size:2
Alignment explanation
Indices: 149391--149435 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
149381 TTTTTTAAGG
149391 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
149433 TA T
1 TA T
149436 TAAGAAAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:150958 original size:13 final size:13
Alignment explanation
Indices: 150940--150969 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
150930 GATTGCGAAG
150940 AATTAAAAATTTA
1 AATTAAAAATTTA
150953 AATT-AAAATTTA
1 AATTAAAAATTTA
150965 AATTA
1 AATTA
150970 CTCGATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATTAAAAATTTA
Found at i:152425 original size:11 final size:12
Alignment explanation
Indices: 152405--152487 Score: 73
Period size: 12 Copynumber: 6.7 Consensus size: 12
152395 ACCCTGCAAC
152405 AAAATAAA-AAT
1 AAAATAAATAAT
152416 AAAAATAAAATAAGT
1 -AAAAT-AAATAA-T
152431 AAAATAAATAAT
1 AAAATAAATAAT
*
152443 -AAATAAATAAC
1 AAAATAAATAAT
152454 AAAAGGTAAATAA-
1 AAAA--TAAATAAT
152467 ATAAATAAATAAT
1 A-AAATAAATAAT
*
152480 AAACTAAA
1 AAAATAAA
152488 AAAACATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.16
12 22 0.36
13 11 0.18
14 17 0.28
15 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:152441 original size:4 final size:4
Alignment explanation
Indices: 152418--152487 Score: 56
Period size: 4 Copynumber: 16.8 Consensus size: 4
152408 ATAAAAATAA
*
152418 AAAT AAAAT AAGT AAAAT AAAT -AAT AAAT AAAT AACA- AAAGGT AAAT
1 AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AA-AT AAA--T AAAT
152465 AAAT AAAT AAAT -AAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAA-T AAA
152488 AAAACATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
3 7 0.13
4 33 0.60
5 12 0.22
6 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:152480 original size:29 final size:29
Alignment explanation
Indices: 152405--152482 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
152395 ACCCTGCAAC
152405 AAAAT-AA-AAATAAA-AATAAAATAAGT
1 AAAATAAATAAATAAATAATAAAATAAGT
152431 AAAATAAAT-AATAAATAAATAACAA-AAGGT
1 AAAATAAATAAATAAAT-AATAA-AATAA-GT
152461 -AAATAAATAAATAAATAATAAA
1 AAAATAAATAAATAAATAATAAA
152483 CTAAAAAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
26 5 0.11
27 8 0.18
28 1 0.02
29 20 0.44
30 11 0.24
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (29 bp):
AAAATAAATAAATAAATAATAAAATAAGT
Found at i:152560 original size:36 final size:35
Alignment explanation
Indices: 152501--152950 Score: 164
Period size: 36 Copynumber: 12.5 Consensus size: 35
152491 ACATTTTCCA
* *
152501 AAAATCTATATAATATATATTTTTTAAAAATATTTT
1 AAAA-CTATATATTATATTTTTTTTAAAAATATTTT
* * *
152537 AAAATTATATATTATATGTTTTTTTAAAAACATTTC
1 AAAACTATATATTATAT-TTTTTTTAAAAATATTTT
* * *
152573 CAAA--AT-TA-TATA--GTTTTTAAAAATGTTTTTT
1 AAAACTATATATTATATTTTTTTTAAAAA--TATTTT
* *** * *
152604 AAAATTATATATTATA-AGCTTTT-GAAATGATTTA
1 AAAACTATATATTATATTTTTTTTAAAAAT-ATTTT
**
152638 AAAACTATATAATATATATATGTTCTTCAAAAAATATTTT
1 AAAACTATAT-AT-TATAT-T-TT-TTTTAAAAATATTTT
*** * * * * * * *
152678 --TTTTAAAAACTATATATATTTTAAAAATGTTTA
1 AAAACTATATATTATATTTTTTTTAAAAATATTTT
* ** *
152711 AAAACTATATAATATATATTTTTAAAAAAATGTTTT
1 AAAACTATATATTATAT-TTTTTTTAAAAATATTTT
* * * * *
152747 AAAAATTATATAGTATATTTATTTTCAAAATACTTTA
1 -AAAACTATATATTATATTTTTTTTAAAAATA-TTTT
* * * * * *
152784 AAAACTATATAATACATATATTTTCAAAAATATGTA
1 AAAACTATATATTATAT-TTTTTTTAAAAATATTTT
* * *
152820 AAAACTATATATTATATTTATTTTCAAAATACTTTA
1 AAAACTATATATTATATTTTTTTTAAAAATA-TTTT
* * * * *
152856 AAAACTATATAATATATAAATATTTTCAAACATGTTTT
1 AAAACTATAT-AT-TAT-ATTTTTTTTAAAAATATTTT
**
152894 CAAAACTATATATTATATATAGGTTTTAAAAATATTTT
1 -AAAACTATATATTATAT-T-TTTTTTAAAAATATTTT
152932 AAAACTATAATATATATAT
1 AAAACTAT-ATAT-TATAT
152951 ATATCTATAT
Statistics
Matches: 300, Mismatches: 83, Indels: 59
0.68 0.19 0.13
Matches are distributed among these distances:
29 10 0.03
31 6 0.02
32 4 0.01
33 16 0.05
34 17 0.06
35 39 0.13
36 104 0.35
37 43 0.14
38 27 0.09
39 24 0.08
40 6 0.02
41 4 0.01
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (35 bp):
AAAACTATATATTATATTTTTTTTAAAAATATTTT
Found at i:152583 original size:72 final size:71
Alignment explanation
Indices: 152500--152954 Score: 292
Period size: 73 Copynumber: 6.3 Consensus size: 71
152490 AACATTTTCC
152500 AAAAATCTATATAATATATAT-TTTTTAAAAATATTTTAAAATTATATATTATATGTTTTTTTAA
1 AAAAA-CTATATAATATATATATTTTTAAAAATATTTTAAAATTATATATTATAT-TTTTTTTAA
152564 AAACATTT
64 AAACATTT
* * *** *
152572 -----CCA-A-AAT-TATATAGTTTTTAAAAATGTTTTTTAAAATTATATATTATA-AGCTTTTG
1 AAAAACTATATAATATATATA-TTTTTAAAAA--TATTTTAAAATTATATATTATATTTTTTTTA
**
152628 AAATGATTT
63 AAAACATTT
** * * * * *
152637 AAAAACTATATAATATATATATGTTCTTCAAAAAATATTTT--TTTTAAAAACTATATATATTTT
1 AAAAACTATATAATATATATAT-TT-TT--AAAAATATTTTAAAATTATATATTATATTTTTTTT
**
152700 AAAAATGTTT
62 AAAAACATTT
* * * *
152710 AAAAACTATATAATATATAT-TTTTAAAAAAATGTTTTAAAAATTATATAGTATATTTATTTTCA
1 AAAAACTATATAATATATATATTTT-TAAAAATATTTT-AAAATTATATATTATATTT-TTTTTA
152774 AAATAC-TTT
63 AAA-ACATTT
* * * * * *
152783 AAAAACTATATAATACATATATTTTCAAAAATATGTAAAAACTATATATTATATTTATTTTCAAA
1 AAAAACTATATAATATATATATTTTTAAAAATATTTTAAAATTATATATTATATTT-TTTTTAAA
152848 ATAC-TTT
65 A-ACATTT
* * * * **
152855 AAAAACTATATAATATATAAATATTTTCAAACATGTTTTCAAAACTATATATTATATATAGGTTT
1 AAAAACTATATAATATAT--ATATTTTTAAAAATATTTT-AAAATTATATATTATAT-T-TTTTT
*
152920 TAAAAATATTT
61 TAAAAACATTT
*
152931 TAAAACTATAATATATATATATAT
1 AAAAACTAT-ATA-ATATATATAT
152955 CTATATATAT
Statistics
Matches: 302, Mismatches: 49, Indels: 60
0.73 0.12 0.15
Matches are distributed among these distances:
63 5 0.02
64 3 0.01
65 22 0.07
66 2 0.01
67 21 0.07
69 10 0.03
70 3 0.01
71 3 0.01
72 75 0.25
73 76 0.25
74 27 0.09
75 18 0.06
76 28 0.09
77 3 0.01
78 6 0.02
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (71 bp):
AAAAACTATATAATATATATATTTTTAAAAATATTTTAAAATTATATATTATATTTTTTTTAAAA
ACATTT
Found at i:153752 original size:84 final size:82
Alignment explanation
Indices: 153554--154324 Score: 740
Period size: 84 Copynumber: 9.4 Consensus size: 82
153544 ATATGACCTC
* * * * * * *
153554 GAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGG-CAGATAGCCCTTATCGACTTAAGCTATGCT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCT
153618 GCAAATGATGTG-CCTT
66 GCAAATGATGTGCCCTT
* * * * * *
153634 GGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTAT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTTCTCGACTTAAGTTAT
* *
153699 GCTGTAAATGATGTGCCCTC
63 GCTGCAAATGATGTGCCCTT
* * * ** * * *
153719 GAAGCTGAGTGTAATTGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATACT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCT
* *
153783 GGAAATGATGTGCCGTT
66 GCAAATGATGTGCCCTT
* * * * *
153800 G-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTG--GTCAGATAACCCTTCTCGACTTAAGTTAT
*
153864 GCTGCAAATGATATG-CCTT
63 GCTGCAAATGATGTGCCCTT
* *
153883 GGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTTCTCGACTTAAGTTAT
*
153948 GCTGC-AAT-ATGTGCCGTT
63 GCTGCAAATGATGTGCCCTT
* * * * *
153966 G-AGCTGAGCGTAGTCGAACTCGACGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TG--GTCAGATAACCCTTCTCGACTTAAGTTAT
* * * *
154030 GCTGTAAATGTTATGCCCTC
63 GCTGCAAATGATGTGCCCTT
* * * * *
154050 GAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATTCT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCT
154114 GCAAATGATGTG-CCTT
66 GCAAATGATGTGCCCTT
* * * * * * *
154130 GGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGCTAACAGGTAACCCTTCTAGCCTTGAGTTATG
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT--CAGATAACCCTTCTCGACTTAAGTTATG
* * *
154195 CTGTAAATGTTATGCCCTT
64 CTGCAAATGATGTGCCCTT
* * * * *
154214 GAAGCTGAGTGTAATCGAACT-TAAGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGTTATTC
1 GAAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGC
154277 TGCAAATGATGTG-CCTT
65 TGCAAATGATGTGCCCTT
*
154294 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
1 GAAGCTGAGCGTAGTCGAACTCGAAGGTCTT
154325 GGTGGCAGGT
Statistics
Matches: 558, Mismatches: 107, Indels: 52
0.78 0.15 0.07
Matches are distributed among these distances:
80 106 0.19
81 116 0.21
82 60 0.11
83 55 0.10
84 166 0.30
85 55 0.10
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (82 bp):
GAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTAAGTTATGCT
GCAAATGATGTGCCCTT
Found at i:153778 original size:165 final size:165
Alignment explanation
Indices: 153498--154324 Score: 1108
Period size: 165 Copynumber: 5.0 Consensus size: 165
153488 AACTCGACAA
* * * * * * * *
153498 TTTTATTGACAAATAACCCTTCTTGCCTTGAGCTATGTTGTAAACGATATGACCTCGAAGTTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
*
153563 TGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATG
66 TGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
153628 TGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC
131 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * *
153663 TTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* * * *
153728 TGTAATTGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGGAAATGATG
66 TGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
153793 TGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTC
131 TGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * * * * *
153828 TTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
** * * * *
153892 CATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC-AAT
66 TGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
*
153956 -ATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCGACGGTC
127 GATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * *
153994 TTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTCGAAGCTGAA
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
* * *
154059 CGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATG
66 TGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
*
154124 TGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC
131 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
* * * * *
154159 -TTTGCTAACAGGTAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAG
1 TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
** * *
154223 TGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATG
66 TGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
154288 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
131 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
154323 TT
1 TT
154325 GGTGGCAGGT
Statistics
Matches: 581, Mismatches: 71, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
163 33 0.06
164 182 0.31
165 221 0.38
166 82 0.14
167 31 0.05
168 32 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (165 bp):
TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAG
TGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
Found at i:154234 original size:331 final size:328
Alignment explanation
Indices: 153510--154352 Score: 1142
Period size: 331 Copynumber: 2.6 Consensus size: 328
153500 TTATTGACAA
* * * * * *
153510 ATAACCCTTCTTGCCTTGAGCTATGTTGTAAACGATATGACCTCGAAGTTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCTTGAAGCTGAGTGTAATCGAACT
* * *
153575 CGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
65 CGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCT
* * * *
153640 GAGTGTAGTCGAACTCGAAGGTCTTTTGGTCACAAATAACCCTTCTAGCCTTGAGTTATGCTGTA
130 GAGCGTAGTCGAACTCGAAGGTCTTGT-GTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTA
* ** * *
153705 AATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGA
194 AATGATATGCCCTCGAAGCTGAACGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGA
* *
153770 CTTAAGCTATACTGGAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTT
259 CTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCT
**
153835 GGCAG
324 AACAG
* * * * * * ** *
153840 ACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTC
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTTGAAGCTGAGTGTAATCGAACTC
*
153905 GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC-AAT-ATGTGCCGTT-G
66 GAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGG
*
153967 AGCTGAGCGTAGTCGAACTCGACGGTCTTGTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGC
126 AGCTGAGCGTAGTCGAACTCGAAGGTCTTGTG-TGACAGATAACCCTTCTAGCCTTGAGTTATGC
* *
154032 TGTAAATGTTATGCCCTCGAAGCTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAGCCCTTC
190 TGTAAATGATATGCCCTCGAAGCTGAACGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTC
*
154097 TCGACTTAAGCTATTCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-T
255 TCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTT
154160 TTGCTAACAG
319 TTGCTAACAG
* *
154170 GTAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCTTGAAGCTGAGTGTAATCGAACT
* *
154235 -TAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGTGCCTTGGAGC
65 CGAA-GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGC
* * * *
154299 TGAGCGTAGTCGAACTCGAAGGTCTTG-GTGGCAGGTAGCCCTTCTGGCCTTGAG
129 TGAGCGTAGTCGAACTCGAAGGTCTTGTGTGACAGATAACCCTTCTAGCCTTGAG
154353 CTAAGCTGCA
Statistics
Matches: 446, Mismatches: 55, Indels: 27
0.84 0.10 0.05
Matches are distributed among these distances:
327 56 0.13
328 6 0.01
329 64 0.14
330 75 0.17
331 207 0.46
332 5 0.01
333 33 0.07
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (328 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTTGAAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
AGCGTAGTCGAACTCGAAGGTCTTGTGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
TGATATGCCCTCGAAGCTGAACGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACT
TAAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAA
CAG
Found at i:159524 original size:2 final size:2
Alignment explanation
Indices: 159519--159543 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
159509 AAAAAGTCAA
159519 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 A
159544 AATAAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.