Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold301
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: 562684
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 3 of 4
Found at i:350080 original size:20 final size:19
Alignment explanation
Indices: 350057--350095 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
350047 CTGTGCATTA
350057 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
350077 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
350096 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:350911 original size:13 final size:13
Alignment explanation
Indices: 350893--350917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
350883 CATTATGCTT
350893 TGTATCGATACAA
1 TGTATCGATACAA
350906 TGTATCGATACA
1 TGTATCGATACA
350918 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:350914 original size:33 final size:32
Alignment explanation
Indices: 350872--350936 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
350862 ACACTTTCAG
*
350872 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
350905 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
350937 TGAACAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:350930 original size:19 final size:20
Alignment explanation
Indices: 350904--350960 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
350894 GTATCGATAC
**
350904 AATGTATCGATACATGTTC-
1 AATGTATCGATACATGAACA
*
350923 ATTGTATCGATACATGAACA
1 AATGTATCGATACATGAACA
350943 AATGTATCGATACATGAA
1 AATGTATCGATACATGAA
350961 ACTGGCAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATGAACA
Found at i:350950 original size:20 final size:19
Alignment explanation
Indices: 350902--350960 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
350892 TTGTATCGAT
*
350902 ACAATGTATCGATACATGT
1 ACAATGTATCGATACATGA
* *
350921 TCATTGTATCGATACATGA
1 ACAATGTATCGATACATGA
350940 ACAAATGTATCGATACATGA
1 AC-AATGTATCGATACATGA
350960 A
1 A
350961 ACTGGCAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
ACAATGTATCGATACATGA
Found at i:351022 original size:13 final size:13
Alignment explanation
Indices: 351004--351065 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
350994 GACACATGGC
351004 ACAATGTATCGAT
1 ACAATGTATCGAT
351017 ACAATGTATCGAT
1 ACAATGTATCGAT
351030 AC-ATG-A---A-
1 ACAATGTATCGAT
351037 A-AATTGTATCGAT
1 ACAA-TGTATCGAT
351050 ACAATGTATCGAT
1 ACAATGTATCGAT
351063 ACA
1 ACA
351066 TGAAGAATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
7 2 0.05
8 3 0.07
9 1 0.02
11 1 0.02
12 4 0.10
13 28 0.68
14 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:351027 original size:33 final size:33
Alignment explanation
Indices: 351008--351085 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
350998 CATGGCACAA
351008 TGTATCGATACAATGTATCGATACATGAAAAAT
1 TGTATCGATACAATGTATCGATACATGAAAAAT
*
351041 TGTATCGATACAATGTATCGATACATGAAGAAT
1 TGTATCGATACAATGTATCGATACATGAAAAAT
351074 TGTATCGATACA
1 TGTATCGATACA
351086 TTGCCTCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACATGAAAAAT
Found at i:351046 original size:20 final size:19
Alignment explanation
Indices: 351021--351086 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
351011 ATCGATACAA
351021 TGTATCGATACATGAAAAAT
1 TGTATCGATACATG-AAAAT
351041 TGTATCGATAC-----AA-
1 TGTATCGATACATGAAAAT
351054 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAA-AAT
351074 TGTATCGATACAT
1 TGTATCGATACAT
351087 TGCCTCAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 2 0.05
19 2 0.05
20 24 0.62
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATGAAAAT
Found at i:353459 original size:36 final size:38
Alignment explanation
Indices: 353411--353490 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 38
353401 GAGTTTGGAT
353411 TTTGAGATAACTTTTGAGAAAAACTT-AGGCAA-CATTA
1 TTTGAGATAACTTTTGAG-AAAACTTAAGGCAATCATTA
*
353448 TTTGA-ATAACTTTTGAGGAAACTTAAGGCAATCATTA
1 TTTGAGATAACTTTTGAGAAAACTTAAGGCAATCATTA
*
353485 TCTGAG
1 TTTGAG
353491 TACATTCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
35 6 0.16
36 18 0.47
37 14 0.37
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (38 bp):
TTTGAGATAACTTTTGAGAAAACTTAAGGCAATCATTA
Found at i:360752 original size:28 final size:28
Alignment explanation
Indices: 360721--360781 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
360711 AAGGCAGAAG
360721 TTGATATAAAAAATAAACCGACTCTACT
1 TTGATATAAAAAATAAACCGACTCTACT
360749 TTGATATAAAAAATAAACCGACTCTACT
1 TTGATATAAAAAATAAACCGACTCTACT
360777 TTGAT
1 TTGAT
360782 TCCTCCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (28 bp):
TTGATATAAAAAATAAACCGACTCTACT
Found at i:364884 original size:28 final size:28
Alignment explanation
Indices: 364852--364915 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
364842 AATAATGGCC
364852 AGTATATTCTTTTCATTAAGCCAGAGTT
1 AGTATATTCTTTTCATTAAGCCAGAGTT
*
364880 AGTATATTCTTTTCATTAAGCCAGGGTT
1 AGTATATTCTTTTCATTAAGCCAGAGTT
*
364908 AGCATATT
1 AGTATATT
364916 AAACTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (28 bp):
AGTATATTCTTTTCATTAAGCCAGAGTT
Found at i:370351 original size:4 final size:4
Alignment explanation
Indices: 370342--370374 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
370332 CTGACGCAGG
370342 ATAA ATAA ATAA ATAA AT-A ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
370375 TAAGCTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:370363 original size:15 final size:15
Alignment explanation
Indices: 370345--370374 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
370335 ACGCAGGATA
370345 AATAAATAAATAAAT
1 AATAAATAAATAAAT
370360 AATAAATAAATAAAT
1 AATAAATAAATAAAT
370375 TAAGCTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATAAATAAAT
Found at i:370849 original size:4 final size:4
Alignment explanation
Indices: 370840--370869 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
370830 GATGCTACTA
*
370840 ATTT ATTT ATTT ATTT ATTT GTTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
370870 ATAAATCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:371137 original size:7 final size:7
Alignment explanation
Indices: 371125--371229 Score: 63
Period size: 7 Copynumber: 14.9 Consensus size: 7
371115 TCACGTCGTA
371125 TTTATAT
1 TTTATAT
371132 TTTATA-
1 TTTATAT
*
371138 TATATAT
1 TTTATAT
* *
371145 TTTTTAAG
1 TTTAT-AT
371153 TTTATAT
1 TTTATAT
* *
371160 ATTATAA
1 TTTATAT
371167 TTT-TAT
1 TTTATAT
* *
371173 TTAAAAT
1 TTTATAT
*
371180 ATTATAT
1 TTTATAT
371187 ATTT-TAT
1 -TTTATAT
*
371194 TTTAAAT
1 TTTATAT
371201 TTTAATAT
1 TTT-ATAT
*
371209 ATTAATAT
1 -TTTATAT
371217 TTTATAT
1 TTTATAT
371224 TTTATA
1 TTTATA
371230 AATTTAAATA
Statistics
Matches: 71, Mismatches: 20, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
6 12 0.17
7 43 0.61
8 14 0.20
9 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (7 bp):
TTTATAT
Found at i:371165 original size:22 final size:22
Alignment explanation
Indices: 371132--371219 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 22
371122 GTATTTATAT
*
371132 TTTATATA-TATATTTTTTAAG
1 TTTATATATTATATTTTTTAAA
371153 TTTATATATTATAATTTTATTTAAAA
1 TTTATATATTAT-A-TTT-TTT-AAA
*
371179 TATTATATATT-T-TATTTTAAA
1 T-TTATATATTATATTTTTTAAA
371200 TTTTAATATATTAATATTTT
1 -TTT-ATATATT-ATATTTT
371220 ATATTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
21 13 0.25
22 14 0.26
23 3 0.06
24 4 0.08
25 6 0.11
26 4 0.08
27 9 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTATATATTATATTTTTTAAA
Found at i:371171 original size:21 final size:21
Alignment explanation
Indices: 371123--371250 Score: 73
Period size: 21 Copynumber: 6.0 Consensus size: 21
371113 AGTCACGTCG
*
371123 TATTTATATTTTATATA-TATA
1 TATTT-TAATTTATATATTATA
*
371144 TTTTTTAAGTTTATATATTATA
1 TATTTTAA-TTTATATATTATA
*
371166 -ATTTT-ATTTAAAATATTATA
1 TATTTTAATTT-ATATATTATA
* * *
371186 TATTTTATTTTAAATTTTAATA
1 TATTTTAATTTATATATT-ATA
* * *
371208 TATTAATATTTTATATTTTATA
1 TATT-TTAATTTATATATTATA
* * * *
371230 AATTTAAATATATTTATTATA
1 TATTTTAATTTATATATTATA
371251 AATAAAATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
19 3 0.04
20 12 0.14
21 38 0.45
22 20 0.24
23 12 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTTTAATTTATATATTATA
Found at i:371193 original size:29 final size:28
Alignment explanation
Indices: 371154--371228 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 28
371144 TTTTTTAAGT
*
371154 TTATATATTATA-ATTTTATTTAAAATA
1 TTATATATTTTATATTTTATTTAAAATA
* *
371181 TTATATATTTTAT-TTTAAATTTTAATATA
1 TTATATATTTTATATTT-TA-TTTAAAATA
371210 TTA-ATATTTTATATTTTAT
1 TTATATATTTTATATTTTAT
371229 AAATTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 15 0.38
28 11 0.28
29 14 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTATATATTTTATATTTTATTTAAAATA
Found at i:371225 original size:23 final size:22
Alignment explanation
Indices: 371183--371227 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
371173 TTAAAATATT
*
371183 ATATATTTTATTTTAAATTTTA
1 ATATATTATATTTTAAATTTTA
*
371205 ATATATTAATATTTTATATTTTA
1 ATATATT-ATATTTTAAATTTTA
371228 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATTATATTTTAAATTTTA
Found at i:371236 original size:23 final size:24
Alignment explanation
Indices: 371191--371246 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
371181 TTATATATTT
* *
371191 TATTTTAAATTTTAATATATT-AA
1 TATTTTATATTTTAAAATATTAAA
371214 TATTTTATATTTTATAAAT-TTAAA
1 TATTTTATATTTTA-AAATATTAAA
371238 TATATTTAT
1 TAT-TTTAT
371247 TATAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 15 0.54
24 8 0.29
25 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTTTATATTTTAAAATATTAAA
Found at i:371240 original size:32 final size:33
Alignment explanation
Indices: 371177--371250 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
371167 TTTTATTTAA
*
371177 AATATTATATATTTTATTTTAAATTTTAATATATT
1 AATATTATATATTTTA--TTAAATTTAAATATATT
*
371212 AATATTTTATATTTTA-TAAATTTAAATATATT
1 AATATTATATATTTTATTAAATTTAAATATATT
371244 --TATTATA
1 AATATTATA
371251 AATAAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 6 0.17
32 15 0.42
35 15 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
AATATTATATATTTTATTAAATTTAAATATATT
Found at i:371268 original size:21 final size:21
Alignment explanation
Indices: 371225--371267 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
371215 ATTTTATATT
*
371225 TTATAAATTTAAATATATTTA
1 TTATAAATTAAAATATATTTA
371246 TTATAAA-TAAAATA-ATTT-
1 TTATAAATTAAAATATATTTA
371264 TTAT
1 TTAT
371268 TTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 4 0.19
20 6 0.29
21 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATAAATTAAAATATATTTA
Found at i:371631 original size:26 final size:24
Alignment explanation
Indices: 371600--371647 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
371590 GATTAAAAAG
*
371600 TATTTTAAAAATATTAAAATTATATT
1 TATTTT-AAAATA-TAAAAGTATATT
*
371626 TATTTTTAAATATAAAAGTATA
1 TATTTTAAAATATAAAAGTATA
371648 AAAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 5 0.25
26 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTTTAAAATATAAAAGTATATT
Found at i:372401 original size:30 final size:30
Alignment explanation
Indices: 372360--372418 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
372350 TCAATTTATG
372360 ATATCAAATTTAATAAAATAATTTATTATTA
1 ATATCAAATTTAATAAAATAA-TTATTATTA
* *
372391 ATAT-AAATTTAATGAATTAATTATTATT
1 ATATCAAATTTAATAAAATAATTATTATT
372419 TAAAAGCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 14 0.54
31 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATCAAATTTAATAAAATAATTATTATTA
Found at i:372869 original size:22 final size:21
Alignment explanation
Indices: 372828--372872 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
372818 TGGATGATTA
*
372828 AAATTTAAAATTTACTTATTT
1 AAATTTAAAATTTACATATTT
372849 AAATTTAAATTATTT-CATATTT
1 AAATTTAAA--ATTTACATATTT
372871 AA
1 AA
372873 TGTATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 8 0.38
23 4 0.19
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTTAAAATTTACATATTT
Found at i:373558 original size:19 final size:19
Alignment explanation
Indices: 373534--373570 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
373524 ATTTTCTCGA
*
373534 GTTACTATAAGTTGTCCCT
1 GTTACTATAAGTTATCCCT
373553 GTTACTATAAGTTATCCC
1 GTTACTATAAGTTATCCC
373571 ACTATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (19 bp):
GTTACTATAAGTTATCCCT
Found at i:377948 original size:19 final size:17
Alignment explanation
Indices: 377926--377961 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
377916 GGAAGGCTAG
377926 GAAAAGCTTAGGAAAAAAA
1 GAAAAGC-TA-GAAAAAAA
377945 GAAAAGCTAGAAAAAAA
1 GAAAAGCTAGAAAAAAA
377962 TCTCCAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (17 bp):
GAAAAGCTAGAAAAAAA
Found at i:377961 original size:18 final size:19
Alignment explanation
Indices: 377926--377961 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
377916 GGAAGGCTAG
*
377926 GAAAAGCTTAGGAAAAAAA
1 GAAAAGCTTAGAAAAAAAA
377945 GAAAAGC-TAGAAAAAAA
1 GAAAAGCTTAGAAAAAAA
377962 TCTCCAAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (19 bp):
GAAAAGCTTAGAAAAAAAA
Found at i:378049 original size:201 final size:199
Alignment explanation
Indices: 377706--378099 Score: 725
Period size: 201 Copynumber: 2.0 Consensus size: 199
377696 CAATAAAAAA
* *
377706 AAGAAAAAATAGGAAGGCTAGGAAAAGCTTAGGAAAAAAAAAAGCTAGAAAGAAATCTCGAAGTC
1 AAGAAAAAATAGGAAGGCTAGGAAAAGCTTAGGAAAAAAAAAAGCTAGAAAAAAATCTCCAAGTC
*
377771 TTAAAGCTTTAAGATATATTTTTATCCTTTCCTTGTTCCAATTTATTTGTGTTGCATTTTAGCAT
66 TTAAAGCTTTAAGATATATTTTTATCCATTCCTTGTTCCAATTTATTTGTGTTGCATTTTAGCAT
*
377836 GAAAACATCAACTTAGTTCACCTCTAATTATCATATATGTCCCTTTACTATTTCTTCTTGCATTT
131 GAAAACATCAACTTAGTTCACCTCTAATTATCAAATATGTCCCTTTACTATTTCTTCTTGCATTT
377901 TAGC
196 TAGC
377905 AAGAAAAAATAGGAAGGCTAGGAAAAGCTTAGGAAAAAAAGAAAAGCTAGAAAAAAATCTCCAAG
1 AAGAAAAAATAGGAAGGCTAGGAAAAGCTTAGG-AAAAAA-AAAAGCTAGAAAAAAATCTCCAAG
377970 TCTTAAAGCTTTAAGATATATTTTTATCCATTCCTTGTTCCAATTTATTTGTGTTGCATTTTAGC
64 TCTTAAAGCTTTAAGATATATTTTTATCCATTCCTTGTTCCAATTTATTTGTGTTGCATTTTAGC
*
378035 ATGAAAACATCAACTTAGTTCACCTTTAATTATCAAATATGTCCCTTTACTATTTCTTCTTGCAT
129 ATGAAAACATCAACTTAGTTCACCTCTAATTATCAAATATGTCCCTTTACTATTTCTTCTTGCAT
378100 GTTTCCTTAA
Statistics
Matches: 188, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
199 33 0.18
200 6 0.03
201 149 0.79
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (199 bp):
AAGAAAAAATAGGAAGGCTAGGAAAAGCTTAGGAAAAAAAAAAGCTAGAAAAAAATCTCCAAGTC
TTAAAGCTTTAAGATATATTTTTATCCATTCCTTGTTCCAATTTATTTGTGTTGCATTTTAGCAT
GAAAACATCAACTTAGTTCACCTCTAATTATCAAATATGTCCCTTTACTATTTCTTCTTGCATTT
TAGC
Found at i:380526 original size:80 final size:77
Alignment explanation
Indices: 380379--380609 Score: 229
Period size: 80 Copynumber: 2.9 Consensus size: 77
380369 CTTTTTGAAT
* * * *
380379 ACGGGGTTTGAGTACCCCCGATGATAGAAAAATTTATTATTTTGGAAATAAAAA-CGAGGTTGGA
1 ACGGGG-TTGAATA-CCCCGA-GAT-GAAAAATTTAATATTTTGGAAATAAAAATAG-GGTTAGA
**
380443 GTATCTGCTAAAAAATA
61 GTATCCCCTAAAAAATA
*
380460 ACGGGGTTGGAATATCCCCGAGATGAAAAATTTAATATTTTTGAAAATAAAAATAGGGTTAGAGT
1 ACGGGGTT-GAATA-CCCCGAGATGAAAAATTTAATA-TTTTGGAAATAAAAATAGGGTTAGAGT
*
380525 ATCCCCTCAAAAATA
63 ATCCCCTAAAAAATA
** * *
380540 ACGGGGTTGAAGTACTCTTGA-A--AAAAATTTTATATTTTGGAAATAAAAATGGGGTTAGAGTA
1 ACGGGGTTGAA-TAC-CCCGAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTAGAGTA
380602 T-CCCTAAA
64 TCCCCTAAA
380610 GATGAAAAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
75 6 0.05
76 27 0.21
77 11 0.08
79 17 0.13
80 52 0.40
81 17 0.13
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (77 bp):
ACGGGGTTGAATACCCCGAGATGAAAAATTTAATATTTTGGAAATAAAAATAGGGTTAGAGTATC
CCCTAAAAAATA
Found at i:383154 original size:20 final size:20
Alignment explanation
Indices: 383102--383156 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
383092 TGCAGGGTAG
*
383102 TTTTGTATCAATACATTTAC
1 TTTTGTATCGATACATTTAC
*
383122 TTCTGTAAT-GATACATTTA-
1 TTTTGT-ATCGATACATTTAC
383141 TTATTGTATCGATACA
1 TT-TTGTATCGATACA
383157 AATTATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.14
20 23 0.79
21 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTTGTATCGATACATTTAC
Found at i:384088 original size:44 final size:42
Alignment explanation
Indices: 383983--384128 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 42
383973 AGGACAAAAG
* * *
383983 AAAAAGAGAATAAAATGCATCATACTTTTTGAGGATAAAGGAA
1 AAAAAGA-AATAAAGTGCATCATACTCTTTGAAGATAAAGGAA
* * * *
384026 AAAATGAAATGAAGTGCATTATGCTCTTTGAAGATAAAGGGAA
1 AAAAAGAAATAAAGTGCATCATACTCTTTGAAGATAAA-GGAA
** * * * *
384069 AAGAAAGAAATAAAGTGCATCCCACTTTTTGAGGACAAAGGAG
1 AA-AAAGAAATAAAGTGCATCATACTCTTTGAAGATAAAGGAA
*
384112 AAAAGGAAATAAAGTGC
1 AAAAAGAAATAAAGTGC
384129 GTCCTGTTTT
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 39 0.47
43 17 0.20
44 27 0.33
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.21
Consensus pattern (42 bp):
AAAAAGAAATAAAGTGCATCATACTCTTTGAAGATAAAGGAA
Found at i:384140 original size:42 final size:42
Alignment explanation
Indices: 383972--384150 Score: 130
Period size: 42 Copynumber: 4.2 Consensus size: 42
383962 CATGCTCTTC
* * * *
383972 GAGGACAAA--AGAAAAAGAGAATAAAATGCATCATACTTTTT
1 GAGGACAAAGGAGAAAAGGA-AATAAAGTGCATCCTGCTTTTT
* * * * ** *
384013 GAGGATAAAGGAAAAAATGAAATGAAGTGCATTATGCTCTTT
1 GAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTTTTT
* * **
384055 GAAGATAAAGG-GAAAAGAAAGAAATAAAGTGCATCCCACTTTTT
1 GAGGACAAAGGAGAAAAG---GAAATAAAGTGCATCCTGCTTTTT
* *
384099 GAGGACAAAGGAGAAAAGGAAATAAAGTGCGTCCTGTTTTTT
1 GAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTTTTT
*
384141 TATGGACAAA
1 GA-GGACAAA
384151 AAAGTACCAC
Statistics
Matches: 107, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
41 12 0.11
42 48 0.45
43 14 0.13
44 27 0.25
45 6 0.06
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (42 bp):
GAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTTTTT
Found at i:384331 original size:63 final size:61
Alignment explanation
Indices: 384157--384699 Score: 528
Period size: 61 Copynumber: 9.0 Consensus size: 61
384147 CAAAAAAGTA
* * *
384157 CCACGAACTCATGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAATGTG
1 CCACCAACTCGTGT-GGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
*
384219 CCACCAACTCGTGTAGGCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTG
1 CCACCAACTCGTGT-GGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
*
384281 CCACCAACTCGTATGGTCCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
1 CCACCAACTCGTGTGG--CTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* * * *
384344 CCACCAACTC-TGTGGGCTTTAAAAAGAAAAAGACATCCTGATCTTTAAGGACTAAAATGTG
1 CCACCAACTCGTGT-GGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* * *
384405 CCACTAACTCGTGTAGG-TTTTAAAAGAACAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
1 CCACCAACTCGTGT-GGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* * * *** ***
384466 CAACCAACTCGTGTGGGCTTTAAAAAGAAAAAGG--T-AT-CACTAAAAGG--TGCCA--T-
1 CCACCAACTCGTGT-GGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* * * * *
384519 CAACTC--GT-ATG-GGCTTTAAAAAGAAAAAGGCATCCTGGTCTTT-ATGGACTAAAATGTG
1 CCAC-CAACTCGTGTGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGA-GGACTAAAAGGTG
* ** *
384577 CCACCAACTCGTGTAGGATTT-AAAAGAAAAAGGTGTCCTGCTCTTTAAGGACTAAAAGGTG
1 CCACCAACTCGTGT-GGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
* * ** *
384638 CCACCAACTCGTATGAGCTTTAAAAGAAAAAAAAACGT-CTCGCTCTTTGAGGACTAAAAGGT
1 CCACCAACTCGTGTG-GCTTTAAAA-AGAAAAAGGCATCCT-GCTCTTTGAGGACTAAAAGGT
384700 TAGAAGGGGT
Statistics
Matches: 397, Mismatches: 58, Indels: 51
0.78 0.11 0.10
Matches are distributed among these distances:
49 19 0.05
51 3 0.01
52 3 0.01
53 8 0.02
54 2 0.01
55 2 0.01
56 2 0.01
57 2 0.01
58 9 0.02
59 2 0.01
60 4 0.01
61 155 0.39
62 102 0.26
63 84 0.21
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (61 bp):
CCACCAACTCGTGTGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTG
Found at i:384395 original size:61 final size:62
Alignment explanation
Indices: 384139--384499 Score: 492
Period size: 62 Copynumber: 5.8 Consensus size: 62
384129 GTCCTGTTTT
* * * * * *
384139 TTTATGGACAAAAAAGTACCACGAACTCATGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTC
1 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTC
* * * *
384201 TTTGAGGACTAAAATGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAGGCATCCTACTC
1 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTC
* * *
384263 TTTGAGGACTAAAAGGTGCCACCAACTCGTATGGTCCTTTAAAAAGAAAAAGGCATCCTGCTC
1 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGG-GCTTTAAAAAGAAAAAGGCATCCTGCTC
* * *
384326 TTTGAGGACTAAAAGGTGCCACCAACTC-TGTGGGCTTTAAAAAGAAAAAGACATCCTGATC
1 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTC
* * * * *
384387 TTTAAGGACTAAAATGTGCCACTAACTCGTGTAGG-TTTTAAAAGAACAAGGCATCCTGCTC
1 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTC
* *
384448 TTTGAGGACTAAAAGGTGCAACCAACTCGTGTGGGCTTTAAAAAGAAAAAGG
1 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGG
384500 TATCACTAAA
Statistics
Matches: 263, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
61 102 0.39
62 107 0.41
63 54 0.21
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (62 bp):
TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCATCCTGCTC
Found at i:384532 original size:49 final size:49
Alignment explanation
Indices: 384455--384548 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
384445 CTCTTTGAGG
*
384455 ACTAAAAGGTGCAACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTATC
1 ACTAAAAGGTGCAACCAACTCGTATGGGCTTTAAAAAGAAAAAGGTATC
* *
384504 ACTAAAAGGTGCCATCAACTCGTATGGGCTTTAAAAAGAAAAAGG
1 ACTAAAAGGTGCAACCAACTCGTATGGGCTTTAAAAAGAAAAAGG
384549 CATCCTGGTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (49 bp):
ACTAAAAGGTGCAACCAACTCGTATGGGCTTTAAAAAGAAAAAGGTATC
Found at i:384646 original size:172 final size:173
Alignment explanation
Indices: 384170--384668 Score: 664
Period size: 172 Copynumber: 2.8 Consensus size: 173
384160 CGAACTCATG
*
384170 TGGGCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTAG
1 TGGGCTTTAAAAAGAAAAAGGCATCCTGATCTTT-AGGACTAAAATGTGCCACCAACTCGTGTAG
* * *
384235 GCTTTAAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGTCC
65 GATTT-AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGG-GC
* *
384300 TTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCTG
128 TTTAAAAAGAAAAAGG----CTGATC------GACTAAAAGGTGCCACCAACTCTA
* *
384356 TGGGCTTTAAAAAGAAAAAGACATCCTGATCTTTAAGGACTAAAATGTGCCACTAACTCGTGTAG
1 TGGGCTTTAAAAAGAAAAAGGCATCCTGATCTTT-AGGACTAAAATGTGCCACCAACTCGTGTAG
* * * *
384421 GTTTTAAAAGAACAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCAACCAACTCGTGTGGGCTT
65 GATTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGCTT
*
384486 TAAAAAGAAAAAGG-T-ATC-ACTAAAAGGTGCCATCAACTCGTA
130 TAAAAAGAAAAAGGCTGATCGACTAAAAGGTGCCACCAACTC-TA
*
384528 TGGGCTTTAAAAAGAAAAAGGCATCCTGGTCTTTATGGACTAAAATGTGCCACCAACTCGTGTAG
1 TGGGCTTTAAAAAGAAAAAGGCATCCTGATCTTTA-GGACTAAAATGTGCCACCAACTCGTGTAG
** * *
384593 GATTTAAAAGAAAAAGGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTATGAGCTT
65 GATTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGCTT
384658 T-AAAAGAAAAA
130 TAAAAAGAAAAA
384669 AAAACGTCTC
Statistics
Matches: 287, Mismatches: 24, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
171 31 0.11
172 119 0.41
178 2 0.01
179 1 0.00
184 17 0.06
185 52 0.18
186 65 0.23
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (173 bp):
TGGGCTTTAAAAAGAAAAAGGCATCCTGATCTTTAGGACTAAAATGTGCCACCAACTCGTGTAGG
ATTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGCTTT
AAAAAGAAAAAGGCTGATCGACTAAAAGGTGCCACCAACTCTA
Found at i:384758 original size:30 final size:30
Alignment explanation
Indices: 384717--384796 Score: 106
Period size: 32 Copynumber: 2.6 Consensus size: 30
384707 GGTGTTATAG
* * *
384717 AGTCGTTGACTTTGAAAAGAGATGTCACTA
1 AGTCGTGGACTTTGAAAACAGATGCCACTA
*
384747 AGTCGTGGACTTAGAAGATACAGATGCCACTA
1 AGTCGTGGACTTTGAA-A-ACAGATGCCACTA
384779 AGTCGTGGACTTTGAAAA
1 AGTCGTGGACTTTGAAAA
384797 ATGTCGCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
30 15 0.35
31 2 0.05
32 26 0.60
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (30 bp):
AGTCGTGGACTTTGAAAACAGATGCCACTA
Found at i:390963 original size:28 final size:29
Alignment explanation
Indices: 390914--390969 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
390904 AATTTAATAT
*
390914 TTTTGAAATAAAATAGGGTTGGAGTATCC
1 TTTTGAAATAAAACAGGGTTGGAGTATCC
*
390943 TTTTGAAA-ATAACAGGGTTGGAGTATC
1 TTTTGAAATAAAACAGGGTTGGAGTATC
390970 GCCGAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (29 bp):
TTTTGAAATAAAACAGGGTTGGAGTATCC
Found at i:390992 original size:78 final size:76
Alignment explanation
Indices: 390897--391176 Score: 275
Period size: 78 Copynumber: 3.6 Consensus size: 76
390887 TACCTTCGTT
*
390897 GATGAAAAATTTAATATTTTTG-AAATAAAATAGGGTTGGAGTATCCTTTTGAAAATAACAGGGT
1 GATGAAAAATTTAATA-TTTTGAAAATAAAATAGGGTTGGAGTATCCTTTCGAAAATAA-AGGGT
390961 TGGAGTATCGCCGA
64 TGGAGTATC-CCGA
* * ** * *
390975 GATGAAAAATTTAATATTTTTGGAAATAAAA-ACGGGGATGGAGTATCCCCTCAAAAATAATGAG
1 GATGAAAAATTTAATA-TTTTGAAAATAAAATA--GGGTTGGAGTATCCTTTCGAAAATAAAG-G
* * **
391039 GCTAGAGTA-CCCCC
62 GTTGGAGTATCCCGA
* * *
391053 GA-GAAAAATTTAATATTTTGAAAATAAAAATGGGGTTTGAGTAT-CTCTTCGAAAATAATGGGG
1 GATGAAAAATTTAATATTTTGAAAAT-AAAATAGGGTTGGAGTATCCT-TTCGAAAATAA-AGGG
391116 TTGGAGTATCCCCGA
63 TTGGAGTAT-CCCGA
*
391131 GATGAACAATTTAATATTTTGAAAATAAAAGT-GGGTTGGAGTATCC
1 GATGAAAAATTTAATATTTTGAAAATAAAA-TAGGGTTGGAGTATCC
391177 CCTAAGATGA
Statistics
Matches: 165, Mismatches: 24, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
75 1 0.01
76 36 0.22
77 18 0.11
78 47 0.28
79 34 0.21
80 29 0.18
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (76 bp):
GATGAAAAATTTAATATTTTGAAAATAAAATAGGGTTGGAGTATCCTTTCGAAAATAAAGGGTTG
GAGTATCCCGA
Found at i:391108 original size:76 final size:76
Alignment explanation
Indices: 390900--391176 Score: 278
Period size: 76 Copynumber: 3.6 Consensus size: 76
390890 CTTCGTTGAT
* * *
390900 GAAAAATTTAATATTTTTG-AAAT-AAAATAGGGTTGGAGTATCCTTTTGAAAATAA-CAGGGTT
1 GAAAAATTTAATATTTTTGAAAATAAAAATGGGGTTGGAGTATCC-TTCGAAAATAATGA-GGTT
**
390962 GGAGTATCGCCGAGA
64 GGAGTA-C-CCCCGA
* * * * * *
390977 TGAAAAATTTAATATTTTTGGAAATAAAAACGGGGATGGAGTATCCCCTCAAAAATAATGAGGCT
1 -GAAAAATTTAATATTTTTGAAAATAAAAATGGGGTTGGAGTAT-CCTTCGAAAATAATGAGGTT
*
391042 AGAGTACCCCCGA
64 GGAGTACCCCCGA
* *
391055 GAAAAATTTAATA-TTTTGAAAATAAAAATGGGGTTTGAGTATCTCTTCGAAAATAATGGGGTTG
1 GAAAAATTTAATATTTTTGAAAATAAAAATGGGGTTGGAGTATC-CTTCGAAAATAATGAGGTTG
*
391119 GAGTATCCCCGA
65 GAGTACCCCCGA
*
391131 GATGAACAATTTAATA-TTTTGAAAATAAAAGT-GGGTTGGAGTATCC
1 GA--AA-AATTTAATATTTTTGAAAATAAAAATGGGGTTGGAGTATCC
391177 CCTAAGATGA
Statistics
Matches: 168, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
75 1 0.01
76 53 0.32
77 14 0.08
78 37 0.22
79 29 0.17
80 31 0.18
81 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (76 bp):
GAAAAATTTAATATTTTTGAAAATAAAAATGGGGTTGGAGTATCCTTCGAAAATAATGAGGTTGG
AGTACCCCCGA
Found at i:391117 original size:156 final size:153
Alignment explanation
Indices: 390900--391179 Score: 404
Period size: 156 Copynumber: 1.8 Consensus size: 153
390890 CTTCGTTGAT
*
390900 GAAAAATTTAATATTTTTGAAATAAAATAGGGTTGGAGTATCCTTTTGAAAATAACAGGGTTGGA
1 GAAAAATTTAATATTTTTGAAATAAAATAGGGTTGGAGTATCCTTTCGAAAATAACAGGGTTGGA
* *
390965 GTATCGCCGAGATGAAAAATTTAATATTTTTGGAAATAAAAACG-GGGATGGAGTATCCCCTCAA
66 GTATCCCCGAGATGAAAAATTTAATA-TTTTGAAAAT-AAAA-GTGGGATGGAGTATCCCCTCAA
391029 AAATAATGAGGCTAGAGTACCCCCGA
128 AAATAATGAGGCTAGAGTACCCCCGA
* * **
391055 GAAAAATTTAATA-TTTTGAAAATAAAAATGGGGTTTGAGTAT-CTCTTCGAAAATAATGGGGTT
1 GAAAAATTTAATATTTTTG-AAAT-AAAATAGGGTTGGAGTATCCT-TTCGAAAATAACAGGGTT
* *
391118 GGAGTATCCCCGAGATGAACAATTTAATATTTTGAAAATAAAAGTGGGTTGGAGTATCCCCT
63 GGAGTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAGTGGGATGGAGTATCCCCT
391180 AAGATGAAAA
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
153 1 0.01
154 25 0.22
155 28 0.25
156 58 0.52
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (153 bp):
GAAAAATTTAATATTTTTGAAATAAAATAGGGTTGGAGTATCCTTTCGAAAATAACAGGGTTGGA
GTATCCCCGAGATGAAAAATTTAATATTTTGAAAATAAAAGTGGGATGGAGTATCCCCTCAAAAA
TAATGAGGCTAGAGTACCCCCGA
Found at i:393708 original size:20 final size:20
Alignment explanation
Indices: 393683--393735 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
393673 ATTTTAGGCA
393683 TGTATCGATACATTCACTTC
1 TGTATCGATACATTCACTTC
*
393703 TGTATCTATACATTCACTTC
1 TGTATCGATACATTCACTTC
*
393723 -ATATCGATACATT
1 TGTATCGATACATT
393736 TACTGTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTCACTTC
Found at i:396699 original size:20 final size:20
Alignment explanation
Indices: 396676--396748 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
396666 ACAATTCAAA
396676 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
396696 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
396717 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
396737 GTATCGATACAT
1 GTATCGATACAT
396749 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:396720 original size:21 final size:21
Alignment explanation
Indices: 396694--396769 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
396684 ACATGTTGCA
396694 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
396715 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
396735 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
396756 ATGTATCGATACAT
1 ATGTATCGATACAT
396770 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:396727 original size:41 final size:41
Alignment explanation
Indices: 396676--396769 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
396666 ACAATTCAAA
*
396676 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
396717 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
396758 GTATCGATACAT
1 GTATCGATACAT
396770 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:396826 original size:13 final size:13
Alignment explanation
Indices: 396808--396833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
396798 TACAGCAAGT
396808 ATGTATCGATACA
1 ATGTATCGATACA
396821 ATGTATCGATACA
1 ATGTATCGATACA
396834 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:400912 original size:15 final size:15
Alignment explanation
Indices: 400892--400922 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
400882 TAAAAATGTC
*
400892 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
400907 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
400922 C
1 C
400923 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:403014 original size:20 final size:21
Alignment explanation
Indices: 402945--403022 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
402935 AATGTCCAAA
402945 ATGTATCGATACATATTTT-T
1 ATGTATCGATACATATTTTCT
* **
402965 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T--ATTTTCT
402990 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATATTTTCT
*
403010 TTGTATCGATACA
1 ATGTATCGATACA
403023 CTGTATCGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 28 0.61
22 1 0.02
23 1 0.02
24 3 0.07
25 13 0.28
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATATTTTCT
Found at i:403029 original size:13 final size:13
Alignment explanation
Indices: 403011--403035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
403001 CATTTTTCTT
403011 TGTATCGATACAC
1 TGTATCGATACAC
403024 TGTATCGATACA
1 TGTATCGATACA
403036 GGGTGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:405502 original size:20 final size:20
Alignment explanation
Indices: 405479--405551 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
405469 ACAATTCAAA
405479 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
405499 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
405520 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
405540 GTATCGATACAT
1 GTATCGATACAT
405552 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:405523 original size:21 final size:21
Alignment explanation
Indices: 405497--405572 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
405487 ACATGTTGCA
405497 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
405518 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
405538 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
405559 ATGTATCGATACAT
1 ATGTATCGATACAT
405573 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:405530 original size:41 final size:41
Alignment explanation
Indices: 405479--405572 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
405469 ACAATTCAAA
*
405479 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
405520 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
405561 GTATCGATACAT
1 GTATCGATACAT
405573 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:405629 original size:13 final size:13
Alignment explanation
Indices: 405611--405636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
405601 TACAGCAAGT
405611 ATGTATCGATACA
1 ATGTATCGATACA
405624 ATGTATCGATACA
1 ATGTATCGATACA
405637 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:411253 original size:20 final size:21
Alignment explanation
Indices: 411222--411260 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
411212 AGGTCAAAAC
411222 CCTAGAAAGTATTGATACAGG
1 CCTAGAAAGTATTGATACAGG
411243 CCTAG-AAGTATTGATACA
1 CCTAGAAAGTATTGATACA
411261 TATTACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (21 bp):
CCTAGAAAGTATTGATACAGG
Found at i:411323 original size:20 final size:19
Alignment explanation
Indices: 411280--411332 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
411270 GTATTGATAT
***
411280 ATTGTATCGATACATGTTA
1 ATTGTATCGATACATAAGA
411299 ATTGTATCGATACATAAAGA
1 ATTGTATCGATACAT-AAGA
*
411319 ATTGTATCAATACA
1 ATTGTATCGATACA
411333 GGAAATTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATAAGA
Found at i:411402 original size:13 final size:13
Alignment explanation
Indices: 411380--411409 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
411370 AATACATGGG
411380 ACATTATATCGAT
1 ACATTATATCGAT
*
411393 ACATTGTATCGAT
1 ACATTATATCGAT
411406 ACAT
1 ACAT
411410 AGTAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:411550 original size:21 final size:21
Alignment explanation
Indices: 411524--411567 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
411514 TAAGCTCCAA
411524 AAGTCAACAATAGCTACAAAC
1 AAGTCAACAATAGCTACAAAC
411545 AAGTCAACAATAGCTACAAAC
1 AAGTCAACAATAGCTACAAAC
411566 AA
1 AA
411568 TCATTCAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.14
Consensus pattern (21 bp):
AAGTCAACAATAGCTACAAAC
Found at i:418070 original size:20 final size:20
Alignment explanation
Indices: 418045--418099 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
418035 GTAGCCATCT
* *
418045 CCAGGTCGCGATCGGCACAC
1 CCAGGTCGCAACCGGCACAC
* *
418065 CCAGGTCACAACCGGTACAC
1 CCAGGTCGCAACCGGCACAC
*
418085 CCAGGTCGTAACCGG
1 CCAGGTCGCAACCGG
418100 TCAGTTCCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (20 bp):
CCAGGTCGCAACCGGCACAC
Found at i:419611 original size:22 final size:22
Alignment explanation
Indices: 419560--419612 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
419550 ATATTTTTAA
*
419560 AAAAGGGAAAATTTTCTTATTT
1 AAAAGGGAAAAATTTCTTATTT
**
419582 AACGGGGAGAAAATTTCTT-TTT
1 AAAAGGGA-AAAATTTCTTATTT
419604 AAAAGGGAA
1 AAAAGGGAA
419613 GTTATAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 15 0.60
23 9 0.36
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (22 bp):
AAAAGGGAAAAATTTCTTATTT
Found at i:420245 original size:20 final size:21
Alignment explanation
Indices: 420208--420246 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
420198 AGGTCAAAAC
**
420208 CCTAGAAAGTATTGATACAGG
1 CCTAGAAAGTATCAATACAGG
420229 CCTAG-AAGTATCAATACA
1 CCTAGAAAGTATCAATACA
420247 TATTGCTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (21 bp):
CCTAGAAAGTATCAATACAGG
Found at i:423014 original size:97 final size:97
Alignment explanation
Indices: 422873--423115 Score: 360
Period size: 97 Copynumber: 2.5 Consensus size: 97
422863 TTTATTTATT
* * *
422873 GGGATACTCCAACCCTATTCCTTTGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTT
*
422938 AAATCTTATTCTCACTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCA
* * * * * *
422970 GGGACACTTCAACCCCATTCCTTCGATGGAATACGCCATCCCCGCTTTTAAACGCATCAAAGTTT
1 GGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTT
* *
423035 AAATTTTATTCTCACTTAAATTGTCATCATTA
66 AAATCTTATTCTCACTTAAATTGTCATCATCA
* *
423067 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 GGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTT
423116 CAATCAAAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 127 1.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (97 bp):
GGGACACTCCAACCCCATTCCTTCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTT
AAATCTTATTCTCACTTAAATTGTCATCATCA
Found at i:427847 original size:16 final size:17
Alignment explanation
Indices: 427826--427869 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
427816 AAAGTCAAAA
427826 GCAAAAGCACAAAAAA-T
1 GCAAAAGCA-AAAAAAGT
427843 G-AAAAG-AAAAAAAGT
1 GCAAAAGCAAAAAAAGT
427858 GCAAAAGCAAAA
1 GCAAAAGCAAAA
427870 TAAAAAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 10 0.42
17 5 0.21
ACGTcount: A:0.68, C:0.11, G:0.16, T:0.05
Consensus pattern (17 bp):
GCAAAAGCAAAAAAAGT
Found at i:427854 original size:23 final size:23
Alignment explanation
Indices: 427811--427853 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
427801 CTTCAAAATG
*
427811 ACAAAAAAGTCAAAAGCAAAAGC
1 ACAAAAAAGTCAAAAGAAAAAGC
*
427834 ACAAAAAA-TGAAAAGAAAAA
1 ACAAAAAAGTCAAAAGAAAAA
427854 AAGTGCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.05
Consensus pattern (23 bp):
ACAAAAAAGTCAAAAGAAAAAGC
Found at i:429212 original size:27 final size:27
Alignment explanation
Indices: 429174--429494 Score: 344
Period size: 27 Copynumber: 11.7 Consensus size: 27
429164 TTTCTTTTCA
429174 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
429201 AAGTCCATAACTCCGTGGCATCCTTGTA
1 AAGTCCACAACTCCGTGGCATCCTT-TT
**
429229 AAGTCCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
429256 AAAGTCCACAACTCCAGTGGCACCCTTTT
1 -AAGTCCACAACTCC-GTGGCATCCTTTT
*
429285 AAAGTCCATAACTCCGTGG-A-CCTTTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
* *
429312 AAAGTCCACAACACCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
429340 AAGTCCACAACTCCATGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
429367 AAGTCCACAACTTCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* *
429394 AAAGTCCACCACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* ** **
429422 AAGTCCATAACTCTATAACATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
429449 AAGTCTACAACTCTGTGGCAT-CTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
429475 AAGTCCACAACTCCATGGCA
1 AAGTCCACAACTCCGTGGCA
429495 GCACCCTTTT
Statistics
Matches: 250, Mismatches: 35, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
26 25 0.10
27 129 0.52
28 68 0.27
29 28 0.11
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:429241 original size:28 final size:27
Alignment explanation
Indices: 429173--430643 Score: 311
Period size: 28 Copynumber: 51.4 Consensus size: 27
429163 ATTTCTTTTC
429173 AAAGTCCACAACTCCGTGGCATCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* *
429200 TAAGTCCATAACTCCGTGGCATCCTTGT
1 AAAGTCCACAACTCCGTGGCATCCTT-T
**
429228 AAAGTCCACAACTCTATGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCC-TTT
*
429256 AAAGTCCACAACTCCAGTGGCACCCTTTT
1 AAAGTCCACAACTCC-GTGGCATCC-TTT
*
429285 AAAGTCCATAACTCCGTGG-A-CCTTTTT
1 AAAGTCCACAACTCCGTGGCATCC--TTT
* *
429312 AAAGTCCACAACACCGTGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* * * *
429339 TAAGTCCACAACTCCATGGTACCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* * *
429366 TAAGTCCACAACTTCGTGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCA-TCCTTT
* *
429394 AAAGTCCACCACTCCGTGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* * ** **
429421 TAAGTCCATAACTCTATAACATCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* * *
429448 TAAGTCTACAACTCTGTGGCAT-CTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* * *
429474 TAAGTCCACAACTCCATGGCAGCACCCTTTT
1 AAAGTCCACAACTCCGT-G--GCATCC-TTT
* * * ** *
429505 AAAGCCCATAAGTTAGTGGCATCATTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* **
429532 CAAAGTCCACAAGTTAGTGGCATCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * ** * *
429560 CAAA-ACCTACAAGTGAGTAGCATCATTT
1 -AAAGTCC-ACAACTCCGTGGCATCCTTT
* * *
429588 CAAAGCCCACAAGT-CGATGGCAACTCATTT
1 -AAAGTCCACAACTCCG-TGGC-A-TCCTTT
* * ** *
429618 CAAAGCCCACACAAGTTGGTGGCAACTCATTT
1 -AAAG-TC-CACAACTCCGTGGC-A-TCCTTT
* ** * *
429650 GAAAGCTCACACAAGTTGGTGGTAACTCGTTT
1 -AAAG-TC-CACAACTCCGTGG-CA-TCCTTT
* * * *
429682 CAAAGCCCACACAAGTCGGTGGCAACCCGTTT
1 -AAAG-TC-CACAACTCCGTGGC-ATCC-TTT
* * * *
429714 CAAAGCCCACATAAGTCGGTGGCAACCCATTT
1 -AAAGTCCAC--AACTCCGTGGC-ATCC-TTT
* * *
429746 CAAAG-CCAACAAGTCAGTGGCATCATTT
1 -AAAGTCC-ACAACTCCGTGGCATCCTTT
* * *
429774 CAAAGCCCACAAAGT-CGTTGGCAACTCATTT
1 -AAAGTCCAC-AACTCCG-TGGC-A-TCCTTT
* * ** * *
429805 AAAAGCCCACACAAGTTGGTGGCAACTCATTAG
1 -AAAG-TC-CACAACTCCGTGGC-A-TCCTT-T
* * ** * *
429838 AAAGCCCACACAAGTTGGTGGTAACCCATTT
1 AAAG-TC-CACAACTCCGTGG-CATCC-TTT
* * *
429869 CAAAG-CTCACAAATCAGTGGCACCCTTT
1 -AAAGTC-CACAACTCCGTGGCATCCTTT
* * * * * * *
429897 CGAAGCCCATAAGTCAGGGGCACCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * * *
429925 CAAAGCCCATAAGTCAGTGGCATCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * * *
429953 CAAAGTCTACAAGTCGGTGGCATCTTTTT
1 -AAAGTCCACAACTCCGTGGCATC-CTTT
* * * * *
429982 CAAAGCCCATAAGTCAGTGGCATCTTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * * * *
430010 CAAAGCCCATAAGTCAGTGGCACCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* **
430038 CAAAG-CTCACAAGTTAGTGGCATCCTTT
1 -AAAGTC-CACAACTCCGTGGCATCCTTT
* * * *
430066 CAAAGTCCGCAAGTCGGTGGCATCTTTTT
1 -AAAGTCCACAACTCCGTGGCATC-CTTT
* * *
430095 CAAAGCCCACAAGTCAGTGGCATCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * *
430123 CAAAGTCCACAAGTCGGTGGCATCTTTTT
1 -AAAGTCCACAACTCCGTGGCATC-CTTT
* * *
430152 CAAAGCCCACAAGTCAGTGGCATCCTTTT
1 -AAAGTCCACAACTCCGTGGCATCC-TTT
* *
430181 AAAGTCCACAAGTCGGTGGCATCCTTTTT
1 AAAGTCCACAACTCCGTGGCATCC--TTT
* * * *
430210 AAAGCCCACAAGTCGGTGGCATCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTT
* * * *
430237 CAAAGCCCACAAGTCGGTGGCATCTTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * * *
430265 CAAAGCCCACAAGTCGGTGGCATCTTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * * * *
430293 CCAAGCCCACAAATCAGTGGCACCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * **
430321 CAAAGCCCACAAGTTAGTGGCA-CCTTTT
1 -AAAGTCCACAACTCCGTGGCATCC-TTT
* * *
430349 CAAAGCCCACAAGTCAGTGGCATCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* *
430377 CAAAGTCCACAAGTCAGTGGCATCCTTTT
1 -AAAGTCCACAACTCCGTGGCATCC-TTT
* * * ** *
430406 CCAAGCCCACAAATTAGTGGCACCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * *
430434 CAAAGCCCACAAGTCAGTGGCATCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * *
430462 CAAAGTCCACAAGTCAGTGGCATCTTTTTT
1 -AAAGTCCACAACTCCGTGGCATC--CTTT
* * * *
430492 CAAGCCCACAAATCAGTGGCA-CCTTTT
1 AAAGTCCACAACTCCGTGGCATCC-TTT
* ** ** * *
430519 CAAAGCCCACAGGTTAGTGGTACCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * *
430547 CAAAGCCCACAAGTCAGTGGCATCCTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTT
* * *
430575 CAAAGTCCACAAGTCAGTGGCATCTTTTT
1 -AAAGTCCACAACTCCGTGGCATC-CTTT
* * *
430604 CAAAG-CCTACAAGTCAGTGGCATCTTTT
1 -AAAGTCC-ACAACTCCGTGGCATCCTTT
*
430632 CAAAGCCCACAA
1 -AAAGTCCACAA
430644 GTCAATGGCA
Statistics
Matches: 1220, Mismatches: 165, Indels: 117
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.02
27 146 0.12
28 605 0.50
29 225 0.18
30 41 0.03
31 31 0.03
32 147 0.12
33 5 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (27 bp):
AAAGTCCACAACTCCGTGGCATCCTTT
Found at i:429241 original size:55 final size:54
Alignment explanation
Indices: 429173--429494 Score: 344
Period size: 55 Copynumber: 5.9 Consensus size: 54
429163 ATTTCTTTTC
* *
429173 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTGT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTT-T
**
429228 AAAGTCCACAACTCTATGGCATCCTTTTAAAGTCCACAACTCCAGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCC-GTGGCACCC-TTT
* *
429285 AAAGTCCATAACTCCGTGG-A-CCTTTTTAAAGTCCACAACACCGTGGCACCCTTT
1 AAAGTCCACAACTCCGTGGCATCC-TTTT-AAGTCCACAACTCCGTGGCACCCTTT
* * * * * *
429339 TAAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTTCGTGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC-CCTTT
* * * ** ** *
429394 AAAGTCCACCACTCCGTGGCACCCTTTTAAGTCCATAACTCTATAACATCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * * *
429448 TAAGTCTACAACTCTGTGGCAT-CTTTTAAGTCCACAACTCCATGGCA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
429495 GCACCCTTTT
Statistics
Matches: 225, Mismatches: 35, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
53 21 0.09
54 59 0.26
55 84 0.37
56 34 0.15
57 25 0.11
58 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.29
Consensus pattern (54 bp):
AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
Found at i:429411 original size:82 final size:81
Alignment explanation
Indices: 429174--429494 Score: 385
Period size: 82 Copynumber: 3.9 Consensus size: 81
429164 TTTCTTTTCA
* * * *
429174 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTGTAAAGTCCACAA
1 AAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCAT-CTTTTAAAGTCCACAA
* *
429239 CTCTATGGCATCCTTTT
65 CTCCATGGCACCCTTTT
* *
429256 AAAGTCCACAACTCCAGTGGCACCCTTTTAAAGTCCATAACTCCGTGG-ACCTTTTTAAAGTCCA
1 -AAGTCCACAACTCCA-TGGCACCCTTTT-AAGTCCACAACTCCGTGGCATC-TTTTAAAGTCCA
* *
429320 CAACACCGTGGCACCCTTTT
62 CAACTCCATGGCACCCTTTT
* * *
429340 AAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTTCGTGGCACTCTTTTAAAGTCCACCA
1 AAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTAAAGTCCACAA
*
429405 CTCCGTGGCACCCTTTT
65 CTCCATGGCACCCTTTT
* * ** * * *
429422 AAGTCCATAACTCTATAACATCCTTTTAAGTCTACAACTCTGTGGCATCTTTT-AAGTCCACAAC
1 AAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTAAAGTCCACAAC
429486 TCCATGGCA
66 TCCATGGCA
429495 GCACCCTTTT
Statistics
Matches: 208, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
80 18 0.09
81 22 0.11
82 80 0.38
83 31 0.15
84 39 0.19
85 18 0.09
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.29
Consensus pattern (81 bp):
AAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTAAAGTCCACAAC
TCCATGGCACCCTTTT
Found at i:429664 original size:64 final size:64
Alignment explanation
Indices: 429582--430529 Score: 446
Period size: 57 Copynumber: 16.3 Consensus size: 64
429572 GTGAGTAGCA
* *
429582 TCATTTCAAAG-CC-CACAAGTCGATGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
429644 TCATTTGAAAGCTCACACAAGTTGGTGGTAACTCGTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
429708 CCGTTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAG-CCA-ACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
429768 TCATTTCAAAGCCCACA-AAGTCGTTGGCAACTCATTTAAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
** * * * * *
429831 TCATTAGAAAGCCCACACAAGTTGGTGGTAACCCATTTCAAAGCTCACA-AA-TCAGTGGC-AC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
429892 -CCTTTCGAAG-CC-CATAAGTCAGG-GGC-AC-CCTTTCAAAG-CC-CATAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTC-GGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * * *
429947 TCCTTTCAAAG-TC-TACAAGTCGGTGGCATCT-TTTTCAAAG-CC-CATAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * **
430004 TCTTTTCAAAG-CC-CATAAGTCAGTGGC-AC-CCTTTCAAAG--CTCACAAGTTAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
430060 TCCTTTCAAAG-TC-CGCAAGTCGGTGGCATCT-TTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
430117 TCCTTTCAAAG-TC-CACAAGTCGGTGGCATCT-TTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
430174 TCCTTTTAAAG-TC-CACAAGTCGGTGGCATC-CTTTTTAAAG-CC-CACAAGTCGGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
430231 TCTTTTCAAAG-CC-CACAAGTCGGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCGGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * **
430287 TCTTTTCCAAGCCCACA-AA-TCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTTAGTGGC-AC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
430344 -CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-TC-CACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * ** * *
430401 -CTTTTCCAAGCCCACA-AA-TTAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * ** *
430456 TCCTTTCAAAG-TC-CACAAGTCAGTGGCATCTTTTTTC-AAGCCCACA-AA-TCAGTGGC-AC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
430514 -CTTTTCAAAGCCCACA
1 TCATTTCAAAGCCCACA
430530 GGTTAGTGGT
Statistics
Matches: 747, Mismatches: 97, Indels: 87
0.80 0.10 0.09
Matches are distributed among these distances:
54 6 0.01
55 13 0.02
56 206 0.28
57 275 0.37
58 24 0.03
59 32 0.04
60 24 0.03
61 14 0.02
62 29 0.04
63 21 0.03
64 103 0.14
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (64 bp):
TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:429997 original size:85 final size:84
Alignment explanation
Indices: 429499--430880 Score: 1279
Period size: 85 Copynumber: 16.0 Consensus size: 84
429489 ATGGCAGCAC
* * * * * *
429499 CCTTTTAAAGCCCATAAGTTAGTGGCATCATTTCAAAGTCCACAAGTTAGTGGCATCC-TTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
* * * *
429563 AACCTACAAGTGAGTAGCAT
65 AGCCCACAAGTCAGTGGCAT
* * ** *
429583 CATTTCAAAGCCCACAAGTC-GATGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 CCTTTCAAAGCCCACAAGTCAG-TGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CT
* ** *
429647 TTTGAAAGCTCACACAAGTTGGTGGTAACT
59 TTTCAAAGC-C-CACAAGTCAGTGG-CA-T
* * * * *
429677 CGTTTCAAAGCCCACACAAGTCGGTGGCAACCCGTTTCAAAGCCCACATAAGTCGGTGGCAACCC
1 CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAGCCCAC--AAGTCAGTGGC-A-CC
* *
429742 ATTTCAAAGCCAACAAGTCAGTGGCAT
58 TTTTCAAAGCCCACAAGTCAGTGGCAT
* * * **
429769 CATTTCAAAGCCCACAAAGTC-GTTGGCAACTCATTTAAAAGCCCACACAAGTTGGTGGCAACTC
1 CCTTTCAAAGCCCAC-AAGTCAG-TGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-C
* ** ** * *
429833 ATTAGAAAGCCCACACAAGTTGGTGGTAAC
58 TTTTCAAAG-CC-CACAAGTCAGTGG-CAT
* * * * * * * *
429863 CCATTTCAAAGCTCACAAATCAGTGGCACCCTTTCGAAGCCCATAAGTCAGGGGCACCCTTTCAA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
*
429928 AGCCCATAAGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* * * * *
429948 CCTTTCAAAGTCTACAAGTCGGTGGCATCTTTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
* *
430013 AGCCCATAAGTCAGTGGCAC
65 AGCCCACAAGTCAGTGGCAT
* * * * * * *
430033 CCTTTCAAAGCTCACAAGTTAGTGGCATCCTTTCAAAGTCCGCAAGTCGGTGGCATCTTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
430098 AGCCCACAAGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* *
430118 CCTTTCAAAGTCCACAAGTCGGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTT-A
1 CCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCA
* *
430182 AAGTCCACAAGTCGGTGGCAT
64 AAGCCCACAAGTCAGTGGCAT
* * * *
430203 CCTTTTTAAAGCCCACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
*
430268 AGCCCACAAGTCGGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* * * * * *
430288 CTTTTCCAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
430353 GCCCACAAGTCAGTGGCAT
66 GCCCACAAGTCAGTGGCAT
* * * * *
430372 CCTTTCAAAGTCCACAAGTCAGTGGCATCCTTTTCCAAGCCCACAAATTAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
430437 AGCCCACAAGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* *
430457 CCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTTTC-AAGCCCACAAATCAGTGGCACCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATC--TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
* * * *
430521 AAGCCCACAGGTTAGTGGTAC
64 AAGCCCACAAGTCAGTGGCAT
* * *
430542 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
*
430607 AGCCTACAAGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* *
430627 CTTTTCAAAGCCCACAAGTCAATGGCATCTTTTTC-AAGCCCACAAGTCAGTGGCACCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAA
**
430691 AGCCCATGAGTCAGTGGCAT
65 AGCCCACAAGTCAGTGGCAT
* * * * * * *
430711 CCTTTCAAAGCCCACATGTTAATGGCATCCTTCCAAAGCCCACGAGTCAATGGCATCC-TTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAA
*
430775 AGCCCACTAAGTTAGTGGCAT
65 AGCCCAC-AAGTCAGTGGCAT
* * * * ** *
430796 -CTCTTCAAAGCCCACAAGTTAGAGGCATCATCTCAAAATCCACAAGTCAGTGGTATCCTTTT-A
1 CCT-TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCA
430859 AAGCCCACACAAGTCAGTGGCA
64 AAG-CC-CACAAGTCAGTGGCA
430881 ACTTTCTCTA
Statistics
Matches: 1091, Mismatches: 161, Indels: 90
0.81 0.12 0.07
Matches are distributed among these distances:
83 8 0.01
84 264 0.24
85 477 0.44
86 99 0.09
87 6 0.01
88 21 0.02
89 4 0.00
90 22 0.02
91 45 0.04
92 30 0.03
93 16 0.01
94 33 0.03
95 18 0.02
96 46 0.04
97 2 0.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (84 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAA
GCCCACAAGTCAGTGGCAT
Found at i:430016 original size:113 final size:113
Alignment explanation
Indices: 429501--430897 Score: 1214
Period size: 113 Copynumber: 12.1 Consensus size: 113
429491 GGCAGCACCC
* * * * * * *
429501 TTTT-AAAGCCCATAAGTTAGTGGCATCATTTCAAAGTCCACAAGTTAGTGGCATCCTTTCAAAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * *
429565 CCTACAAGTGAGTAGCATCATTTCAAAGCCCACAAGTC-GATGGCAACT
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAG-TGGCATCT
* ** * * ** *
429613 CATTTCAAAGCCCACACAAGTTGGTGGCAACTCATTTGAAAGCTCACACAAGTTGGTGGTAACTC
1 -TTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAGC-C-CACAAGTCAGTGG-CAC-C
* * * * * *
429678 GTTTCAAAGCCCACACAAGTCGGTGGCAACCCGTTTCAAAGCCCACATAAGTCGGTGGCAACCC
57 CTTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAAGCCCAC--AAGTCAGTGGC-ATCT
* * * * *
429742 ATTTCAAAGCCAACAAGTCAGTGGCATCATTTCAAAGCCCACAAAGTC-GTTGGCAACTCATTTA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAC-AAGTCAG-TGGC-AC-CCTTTC
** * ** ** * * *
429806 AAAGCCCACACAAGTTGGTGGCAACTCATTAGAAAGCCCACACAAGTTGGTGGTAACCC
62 AAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAGTGG-CATCT
* * * * * * * *
429865 ATTTCAAAGCTCACAAATCAGTGGCACCCTTTCGAAGCCCATAAGTCAGGGGCACCCTTTCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
429930 CCCATAAGTCAGTGGCATCCTTTCAAAGTCTACAAGTCGGTGGCATCT
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* *
429978 TTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * *
430043 CTCACAAGTTAGTGGCATCCTTTCAAAGTCCGCAAGTCGGTGGCATCT
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * **
430091 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCGGTGGCATCTTTTTCAAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAA
* * *
430156 GCCCACAAGTCAGTGGCATCCTTTTAAAGTCCACAAGTCGGTGGCATCCT
65 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT-CT
* * * *
430206 TTTT-AAAGCCCACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * *
430270 CCCACAAGTCGGTGGCATCTTTTCCAAGCCCACAAATCAGTGGCA-CC
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
430317 CTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * *
430382 TCCACAAGTCAGTGGCATCCTTTTCCAAGCCCACAAATTAGTGGCA-CC
66 CCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * **
430430 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTTTC-A
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-C-CCTTTCAA
* * * * *
430494 AGCCCACAAATCAGTGGCA-CCTTTTCAAAGCCCACAGGTTAGTGGTA-CC
64 AGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * **
430543 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTTCAAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAA
* * *
430608 GCCTACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAATGGCATCT
65 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* ** *
430657 TTTTC-AAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCATGAGTCAGTGGCATCCTTTCAAAG
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * * *
430721 CCCACATGTTAATGGCATCCTTCCAAAGCCCACGAGTCAATGGCATC-
66 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * * * *
430768 CTTTCAAAGCCCACTAAGTTAGTGGCATCTCTTCAAAGCCCACAAGTTAGAGGCATCATCTCAAA
1 TTTTCAAAGCCCAC-AAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
** * * *
430833 ATCCACAAGTCAGTGGTATCCTTTTAAAGCCCACACAAGTCAGTGGCAACT
65 GCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGCATCT
*
430884 TTCTCTAAAGCCCA
1 TTTTC-AAAGCCCA
430898 TACAAGTTGG
Statistics
Matches: 1082, Mismatches: 162, Indels: 76
0.82 0.12 0.06
Matches are distributed among these distances:
111 8 0.01
112 134 0.12
113 503 0.46
114 138 0.13
115 27 0.02
116 23 0.02
117 10 0.01
118 21 0.02
119 3 0.00
120 20 0.02
121 3 0.00
122 20 0.02
123 95 0.09
124 24 0.02
125 6 0.01
126 24 0.02
127 2 0.00
128 18 0.02
129 3 0.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (113 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:430644 original size:28 final size:28
Alignment explanation
Indices: 429500--430897 Score: 1235
Period size: 28 Copynumber: 48.5 Consensus size: 28
429490 TGGCAGCACC
* *
429500 CTTTT-AAAGCCCATAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
429527 CATTTCAAAGTCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
429555 CCTTTCAAAACCTACAAGTGAGTAGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
429583 CATTTCAAAGCCCACAAGTC-GATGGCAACT
1 CTTTTCAAAGCCCACAAGTCAG-TGGC-A-T
* **
429613 CATTTCAAAGCCCACACAAGTTGGTGGCAACT
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* * ** *
429645 CATTTGAAAGCTCACACAAGTTGGTGGTAACT
1 CTTTTCAAAGC-C-CACAAGTCAGTGG-CA-T
* * *
429677 CGTTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* * *
429709 CGTTTCAAAGCCCACATAAGTCGGTGGCAACC
1 CTTTTCAAAGCCCAC--AAGTCAGTGGC-A-T
* *
429741 CATTTCAAAGCCAACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
429769 CATTTCAAAGCCCACAAAGTC-GTTGGCAACT
1 CTTTTCAAAGCCCAC-AAGTCAG-TGGC-A-T
* * **
429800 CATTTAAAAGCCCACACAAGTTGGTGGCAACT
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* ** ** * *
429832 CATTAGAAAGCCCACACAAGTTGGTGGTAACC
1 CTTTTCAAAG-CC-CACAAGTCAGTGG-CA-T
* * * *
429864 CATTTCAAAGCTCACAAATCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
429892 CCTTTCGAAGCCCATAAGTCAGGGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
429920 CCTTTCAAAGCCCATAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
429948 CCTTTCAAAGTCTACAAGTCGGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
429976 CTTTTTCAAAGCCCATAAGTCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430005 CTTTTCAAAGCCCATAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
430033 CCTTTCAAAGCTCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
430061 CCTTTCAAAGTCCGCAAGTCGGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
430089 CTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
430118 CCTTTCAAAGTCCACAAGTCGGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
430146 CTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430175 CCTTTT-AAAGTCCACAAGTCGGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430203 CCTTTTTAAAGCCCACAAGTCGGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430232 CTTTTCAAAGCCCACAAGTCGGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430260 CTTTTCAAAGCCCACAAGTCGGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
430288 CTTTTCCAAGCCCACAAATCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
430316 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
430344 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430372 CCTTTCAAAGTCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
430400 CCTTTTCCAAGCCCACAAATTAGTGGCAC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430429 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430457 CCTTTCAAAGTCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430485 CTTTTTTC-AAGCCCACAAATCAGTGGCAC
1 C--TTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
430514 CTTTTCAAAGCCCACAGGTTAGTGGTAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430542 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430570 CCTTTCAAAGTCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430598 CTTTTTCAAAGCCTACAAGTCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
*
430627 CTTTTCAAAGCCCACAAGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430655 CTTTTTC-AAGCCCACAAGTCAGTGGCAC
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
**
430683 CTTTTCAAAGCCCATGAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
430711 CCTTTCAAAGCCCACATGTTAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
430739 CCTTCCAAAGCCCACGAGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
430767 CCTTTCAAAGCCCACTAAGTTAGTGGCAT
1 CTTTTCAAAGCCCAC-AAGTCAGTGGCAT
* * *
430796 CTCTTCAAAGCCCACAAGTTAGAGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * ** *
430824 CATCTCAAAATCCACAAGTCAGTGGTAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
430852 CCTTTT-AAAGCCCACACAAGTCAGTGGCAA
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
430882 CTTTCTCTAAAGCCCA
1 CTTT-TC-AAAGCCCA
430898 TACAAGTTGG
Statistics
Matches: 1168, Mismatches: 163, Indels: 77
0.83 0.12 0.05
Matches are distributed among these distances:
27 15 0.01
28 705 0.60
29 210 0.18
30 57 0.05
31 18 0.02
32 157 0.13
33 6 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:433971 original size:96 final size:97
Alignment explanation
Indices: 433869--434108 Score: 331
Period size: 96 Copynumber: 2.5 Consensus size: 97
433859 AATTTTATTT
* * * *
433869 ATCGAGGATACTCCAACCCTATTCTTCCGAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
1 ATCGAGGACACTCCAACCCCATTCCTCCAAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
*
433934 GTTTAAATCTT-TTCTCACTTAAATTGTCCTC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
* ** * **
433965 ATCGAGGACACTTCAACCCCATTCCTCCAAAAGGATACTCCAACCTTGCTTTTAAATGCATCAAA
1 ATCGAGGACACTCCAACCCCATTCCTCCAAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
* * *
434030 GTTTAAATTTTATTTTTACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATTGTCATC
434062 ATCG-GAGACACTCCAACCCCATTCCTCCAAGGGGATACTCCAACCTC
1 ATCGAG-GACACTCCAACCCCATTCCTCCAAGGGGATACTCCAACCTC
434109 ATTTTTCAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
96 66 0.53
97 58 0.47
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (97 bp):
ATCGAGGACACTCCAACCCCATTCCTCCAAGGGGATACTCCAACCTCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATTGTCATC
Found at i:435490 original size:20 final size:20
Alignment explanation
Indices: 435465--435539 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
435455 AAGTACCCAG
435465 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
** * *
435485 ATGTATCGATACACGTATGA
1 ATGTATCGATACATTTTTCA
*
435505 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
435525 ATGTATCGATACATT
1 ATGTATCGATACATT
435540 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:442662 original size:21 final size:23
Alignment explanation
Indices: 442627--442668 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
442617 TTTTTGGGAA
442627 CTGGACTATATTGGCCACCTATT
1 CTGGACTATATTGGCCACCTATT
442650 CTGGA-TAT-TTGGCCACCTA
1 CTGGACTATATTGGCCACCTA
442669 GAGAAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
CTGGACTATATTGGCCACCTATT
Found at i:451644 original size:51 final size:51
Alignment explanation
Indices: 451580--451697 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
451570 CTCAGAATTG
* *
451580 ATGAGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAA
1 ATGAGGTTGGAGTATCCCCAACATGAAAATTTTAATATTTTAGAAATAAAA
* **
451631 ATGGGGTTGGAGTATCCCTGACATGAAAATTTTAATATTTTAGAAATAAAA
1 ATGAGGTTGGAGTATCCCCAACATGAAAATTTTAATATTTTAGAAATAAAA
*
451682 GTGAGGTTGGAGTATC
1 ATGAGGTTGGAGTATC
451698 TCCTCAGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (51 bp):
ATGAGGTTGGAGTATCCCCAACATGAAAATTTTAATATTTTAGAAATAAAA
Found at i:451736 original size:130 final size:128
Alignment explanation
Indices: 451459--451779 Score: 443
Period size: 130 Copynumber: 2.5 Consensus size: 128
451449 GAAATAATAG
* * * *
451459 GGTTGGAGTA-CCCTCAAGA--AAAA-TTAAATATTTTAGAAATAAAAATAGGGTTAGAGTATCC
1 GGTTGGAGTATCCC-CAAGATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCC
* * *
451520 CGAGATGAAAAATTTAGCATTTTGGAAATAAAAATGGGTTAGAGTATCCCCTCAGAATTGATGA
65 CGACATGAAAAATTTAACATTTTAGAAATAAAAATGGGTTAGAGTATCCCCTCAGAATTGATGA
451584 GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCC
* * * * * *
451649 TGACATGAAAATTTTAATATTTTAGAAATAAAAGTGAGGTTGGAGTATCTCCTCAGAATTGATGG
66 -GACATGAAAAATTTAACATTTTAGAAATAAAAATG-GGTTAGAGTATCCCCTCAGAATTGATGA
* *
451714 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTTGGAAATAAAATTGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCAAGATGAAAATTTTAATA-TTTTGGAAATAAAAATGGGGTTGGAGTATCC
451779 C
65 C
451780 CTAAAATGAA
Statistics
Matches: 174, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
125 15 0.09
126 3 0.02
127 4 0.02
128 35 0.20
129 29 0.17
130 57 0.33
131 31 0.18
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (128 bp):
GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAGTATCCC
GACATGAAAAATTTAACATTTTAGAAATAAAAATGGGTTAGAGTATCCCCTCAGAATTGATGA
Found at i:455351 original size:22 final size:22
Alignment explanation
Indices: 455313--455360 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
455303 GAACCGAGAA
455313 TGCTGTTGTTGGTTGTTGCTGT
1 TGCTGTTGTTGGTTGTTGCTGT
* *
455335 TGCTTTTGCTTGG-TGTTGCTTT
1 TGCTGTTG-TTGGTTGTTGCTGT
455357 TGCT
1 TGCT
455361 ACTTAAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.31, T:0.56
Consensus pattern (22 bp):
TGCTGTTGTTGGTTGTTGCTGT
Found at i:455401 original size:22 final size:22
Alignment explanation
Indices: 455369--455439 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
455359 CTACTTAAGT
*
455369 TGCTGTCGCTGCTTGGTGTTGC
1 TGCTGTTGCTGCTTGGTGTTGC
455391 TGCTGTTGCTGCCGTT-G-GTTGC
1 TGCTGTTGCTG-C-TTGGTGTTGC
* *
455413 TGCTGTTGGTGCTTGGTGTTGT
1 TGCTGTTGCTGCTTGGTGTTGC
455435 TGCTG
1 TGCTG
455440 CTAGTTGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.05
21 2 0.05
22 34 0.81
23 2 0.05
24 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.38, T:0.44
Consensus pattern (22 bp):
TGCTGTTGCTGCTTGGTGTTGC
Found at i:455432 original size:13 final size:13
Alignment explanation
Indices: 455387--455481 Score: 79
Period size: 13 Copynumber: 7.4 Consensus size: 13
455377 CTGCTTGGTG
*
455387 TTGCTGCTGTTGC
1 TTGCTGTTGTTGC
*
455400 -TGCCGTTGGTTGC
1 TTGCTGTT-GTTGC
*
455413 -TGCTGTTGGTGC
1 TTGCTGTTGTTGC
*
455425 TTGGTGTTGTTGC
1 TTGCTGTTGTTGC
*
455438 -TGCTAGTTGTTGA
1 TTGCT-GTTGTTGC
*
455451 TTGCTATTGTTGC
1 TTGCTGTTGTTGC
* *
455464 TTGGTGTTGCTGC
1 TTGCTGTTGTTGC
455477 TTGCT
1 TTGCT
455482 TGCTTCAACT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
12 12 0.19
13 48 0.75
14 4 0.06
ACGTcount: A:0.03, C:0.16, G:0.34, T:0.47
Consensus pattern (13 bp):
TTGCTGTTGTTGC
Found at i:455656 original size:26 final size:25
Alignment explanation
Indices: 455608--455658 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
455598 TTGCTTTCTC
455608 TCCTTTTTTTCTATCGTTGTTTGTTT
1 TCCTTTTTTTCTATC-TTGTTTGTTT
455634 TCCTTTTTATTCTAT-TTGCTTTGTT
1 TCCTTTTT-TTCTATCTTG-TTTGTT
455659 GTTTCGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.13
26 14 0.61
27 6 0.26
ACGTcount: A:0.06, C:0.16, G:0.10, T:0.69
Consensus pattern (25 bp):
TCCTTTTTTTCTATCTTGTTTGTTT
Found at i:456073 original size:3 final size:3
Alignment explanation
Indices: 456065--456127 Score: 80
Period size: 3 Copynumber: 21.7 Consensus size: 3
456055 TGGCCTTCTT
456065 TTA TTA TTA TTA TTA TTA -TA TT- TATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
456109 TTA TTA -TA TTTA TT- TTA TT
1 TTA TTA TTA -TTA TTA TTA TT
456128 TTAAATAACC
Statistics
Matches: 54, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
2 7 0.13
3 44 0.81
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:457110 original size:19 final size:19
Alignment explanation
Indices: 457086--457141 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
457076 TGTCTCGATA
457086 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGCT
*
457105 CATTGTATCGATACATACT
1 CATTGTATCGATACATGCT
*
457124 CAATTGTATTGATACATG
1 C-ATTGTATCGATACATG
457142 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:458790 original size:13 final size:13
Alignment explanation
Indices: 458772--458797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
458762 TACAGCAAGT
458772 ATGTATCGATACA
1 ATGTATCGATACA
458785 ATGTATCGATACA
1 ATGTATCGATACA
458798 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:462883 original size:15 final size:15
Alignment explanation
Indices: 462863--462893 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
462853 TAAAAATGTC
*
462863 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
462878 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
462893 C
1 C
462894 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:464993 original size:13 final size:13
Alignment explanation
Indices: 464975--465000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
464965 ACATTTTTCT
464975 TTGTATCGATACA
1 TTGTATCGATACA
464988 TTGTATCGATACA
1 TTGTATCGATACA
465001 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:465164 original size:20 final size:20
Alignment explanation
Indices: 465121--465166 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
465111 AAATCTTTTG
465121 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
465142 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
465162 CAAAA
1 CAAAA
465167 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:467549 original size:13 final size:13
Alignment explanation
Indices: 467531--467556 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
467521 TACAGCAAGT
467531 ATGTATCGATACA
1 ATGTATCGATACA
467544 ATGTATCGATACA
1 ATGTATCGATACA
467557 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:469889 original size:263 final size:258
Alignment explanation
Indices: 469546--470102 Score: 768
Period size: 260 Copynumber: 2.1 Consensus size: 258
469536 CATTTGCATA
**
469546 CATTTAAGTCA-TTTCTATGATTTAGAAATTATTATATCATTTCATGCATTTTCGAGATATTGAA
1 CATTTAAGTCATTTTCTATGATTTAGAAATTATTATATCATTTCATGCATTTTAAAGATATTGAA
* *
469610 GTTTTTTTCCATGATCTA-GAAATTTTTTGTCATTTCATGTATTTTAAGGATTTT-TGCGTCATC
66 ATTTTTTT-CATGATCTAGGAAATTTTTTGTCATTTCATGCATTTTAAGGATTTTAT--GTCATC
** * *
469673 CCATGCA-TTTTTAGAGATTAATATATAATTTCATGTGTCTTAGTTACTATTATACAATTTCATG
128 CCATGCATTTTTTAG-GATTAATATATAATTTCATGCATCTT-GTTACTAGTATACAATGTCATG
*
469737 CATTTTAGAGTTACTTTAGTAAATTTT-CACTGTTTTAGGGATTATTATGTAATCGTATGCATTT
191 CATTTTAGAGTTACTTTAGT-AATTTTGCA-TG-TTTAAGGATTATTATGTAATCGTATGCATTT
469801 TAAGAT
253 TAAGAT
469807 CATTTAAGTCATTTTCTATGATTTAGAAATTACTATATATCATTTCA-GCATTTTAAAGATATTG
1 CATTTAAGTCATTTTCTATGATTTAGAAATTA-T-TATATCATTTCATGCATTTTAAAGATATTG
* * *
469871 AAATCATTTTTT-ATGATCTAGGAACTTTTTTGTCTTTTTATGCATTTTAAGGATTTTATGTCAT
64 AAAT--TTTTTTCATGATCTAGGAAATTTTTTGTCATTTCATGCATTTTAAGGATTTTATGTCAT
** *
469935 CTTATGCATTTTTTAGGATTAATATATAATTTCATGCATCTTGTTACTAGTATGCAATGTCATGC
127 CCCATGCATTTTTTAGGATTAATATATAATTTCATGCATCTTGTTACTAGTATACAATGTCATGC
* * *
470000 ATTTTTGAGTTACTTTAGTCATTTTGCATGTTTAAGGATTATTATGTAATTGTATGCATTTTAAG
192 ATTTTAGAGTTACTTTAGTAATTTTGCATGTTTAAGGATTATTATGTAATCGTATGCATTTTAAG
470065 AT
257 AT
** *
470067 CATTTTGGTCATTTTCTATGATTTAGAAATCATTAT
1 CATTTAAGTCATTTTCTATGATTTAGAAATTATTAT
470103 GCAAATTCTT
Statistics
Matches: 266, Mismatches: 21, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
258 3 0.01
259 1 0.00
260 64 0.24
261 18 0.07
262 60 0.23
263 62 0.23
264 51 0.19
265 7 0.03
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (258 bp):
CATTTAAGTCATTTTCTATGATTTAGAAATTATTATATCATTTCATGCATTTTAAAGATATTGAA
ATTTTTTTCATGATCTAGGAAATTTTTTGTCATTTCATGCATTTTAAGGATTTTATGTCATCCCA
TGCATTTTTTAGGATTAATATATAATTTCATGCATCTTGTTACTAGTATACAATGTCATGCATTT
TAGAGTTACTTTAGTAATTTTGCATGTTTAAGGATTATTATGTAATCGTATGCATTTTAAGAT
Found at i:473141 original size:165 final size:165
Alignment explanation
Indices: 472838--473417 Score: 701
Period size: 165 Copynumber: 3.5 Consensus size: 165
472828 ATTTCTCCTA
* * * * *
472838 TTTT-CAAATTACGATA-TTTTCTTCTTCGTAAATTTTTTCGAGAGAATTTTTCTAGGTATTTT-
1 TTTTCCAAAATACGA-AGTTTTCTACTCCGTAAATTTTTTCGGGA-AATTTTTCTTGGT-TTTTG
* * *
472900 ATTTTTAAAATTCAACAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAGTTCATTAA
63 ATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCA
* *
472965 TTTCTATAAATTTTGAA-TTTTTCTTTGAAATTCTCCC
128 TTTCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCC
* * *
473002 TTTTCTAAAATACAAAGTTTTCTACTCCGTAAATTTTTTTTGGGAAATTTTTCTTGGTTTTTGAT
1 TTTTCCAAAATACGAAGTTTTCTACTCCGTAAA-TTTTTTCGGGAAATTTTTCTTGGTTTTTGAT
* * * *
473067 TTTTCAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATC
65 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATT
**
473132 TCCATAAATTTTGAATTTTTTCCTTGAAATT-TCTTT
130 TCCATAAATTTTGAATTTTTTCCTTGAAATTCTC-CC
* * *
473168 TTTTCCGAAATACGGAGTTTTCTACTCCGTAAATTTTTTCGGGAGATTTTTCTTGGTTTTTGATT
1 TTTTCCAAAATACGAAGTTTTCTACTCCGTAAATTTTTTCGGGAAATTTTTCTTGGTTTTTGATT
*
473233 TTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCCA-TTTTCGAAAATTCATTCATT
66 TTTAAAATTCATCAAATATTATTATTTATTTCATATTAATT-CAGTTTTCAAAAATTCATTCATT
* *
473297 TCCATGAATTTTAAATTTTTTCCTTGAAA-TC-CCC
130 TCCATAAATTTTGAATTTTTTCCTTGAAATTCTCCC
* * ** * ***
473331 TTTCTCCAAAAAACCGAA-TTTTCTACTCCATAAATTTTTTCGATAGAATTTTTCTTGATTTAAA
1 TTT-TCCAAAATA-CGAAGTTTTCTACTCCGTAAATTTTTTCGGGA-AATTTTTCTTGGTTTTTG
* *
473395 ATTTTTAAAATTAATCTAATATT
63 ATTTTTAAAATTCATCAAATATT
473418 GTCATTGAAT
Statistics
Matches: 358, Mismatches: 47, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
163 3 0.01
164 42 0.12
165 260 0.73
166 53 0.15
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (165 bp):
TTTTCCAAAATACGAAGTTTTCTACTCCGTAAATTTTTTCGGGAAATTTTTCTTGGTTTTTGATT
TTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTT
CCATAAATTTTGAATTTTTTCCTTGAAATTCTCCC
Found at i:473928 original size:13 final size:13
Alignment explanation
Indices: 473907--473936 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
473897 TAGCGGAAGG
*
473907 AAGAGAGAGAAAA
1 AAGAAAGAGAAAA
473920 AAGAAAGAGAAAA
1 AAGAAAGAGAAAA
473933 AAGA
1 AAGA
473937 GAAAAATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAAGAGAAAA
Found at i:473949 original size:11 final size:11
Alignment explanation
Indices: 473926--473965 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
473916 AAAAAAGAAA
473926 GAGAAAAA-A-
1 GAGAAAAATAG
473935 GAGAAAAATAG
1 GAGAAAAATAG
473946 GAG-AAAATAG
1 GAGAAAAATAG
473956 GTAGAAAAAT
1 G-AGAAAAAT
473966 TAGAAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 9 0.33
11 5 0.19
12 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (11 bp):
GAGAAAAATAG
Found at i:474506 original size:42 final size:42
Alignment explanation
Indices: 474447--474527 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
474437 AAGTGTTTTT
*
474447 GTGTAGTTTAAGTGGTTAAGGACCAAAGTGCAAATATCCAAA
1 GTGTAGTTTAAGTGGTTAAAGACCAAAGTGCAAATATCCAAA
474489 GTGTAGTTTAAGTGGTTAAAGACCAAAGTGCAAATATCC
1 GTGTAGTTTAAGTGGTTAAAGACCAAAGTGCAAATATCC
474528 GATTTTTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (42 bp):
GTGTAGTTTAAGTGGTTAAAGACCAAAGTGCAAATATCCAAA
Found at i:475413 original size:19 final size:19
Alignment explanation
Indices: 475355--475425 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
475345 CAATTTCATA
*
475355 TATCGATACAATTAAGTATG
1 TATCGATACAATGAA-TATG
**
475375 TATCGATACAATGAGCATG
1 TATCGATACAATGAATATG
475394 TATCGATACAATGAATATG
1 TATCGATACAATGAATATG
* *
475413 TACCAATACAATG
1 TATCGATACAATG
475426 TATCGACACA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 31 0.70
20 13 0.30
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAATATG
Found at i:476137 original size:13 final size:13
Alignment explanation
Indices: 476119--476144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
476109 TACACCAAGT
476119 ATGTATCGATACA
1 ATGTATCGATACA
476132 ATGTATCGATACA
1 ATGTATCGATACA
476145 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:476142 original size:32 final size:33
Alignment explanation
Indices: 476101--476164 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
476091 TAGCCAAACT
**
476101 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
476133 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
476165 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:477400 original size:13 final size:13
Alignment explanation
Indices: 477382--477438 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
477372 CATAAAGTGT
477382 TGTATCGATACAA
1 TGTATCGATACAA
*
477395 TGTATCGATATATAA
1 TGTATCG--ATACAA
477410 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
477427 TGTATCGATACA
1 TGTATCGATACA
477439 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 19 0.53
15 5 0.14
17 5 0.14
19 7 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:477417 original size:32 final size:32
Alignment explanation
Indices: 477362--477459 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
477352 TTCAACGATT
477362 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
477395 TGTATCGATATATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
477427 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
477459 T
1 T
477460 ATAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 50 0.81
33 12 0.19
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:477451 original size:19 final size:18
Alignment explanation
Indices: 477360--477457 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
477350 ATTTCAACGA
477360 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
477379 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
477395 --TGTATCGATATATAAG
1 TTTGTATCGATACATAAG
477411 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
477427 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
477443 TTTTGTATCGATACA
1 -TTTGTATCGATACA
477458 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:477562 original size:52 final size:52
Alignment explanation
Indices: 477520--477648 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
477510 CACTGATCTT
477520 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
477572 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
477624 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
477649 TCATATTTCG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:489159 original size:130 final size:130
Alignment explanation
Indices: 488926--489187 Score: 479
Period size: 130 Copynumber: 2.0 Consensus size: 130
488916 AGTACTGAAA
* * * *
488926 GATTTGTAGTGTCTAGGACTAATCTAGAGTAATTCTAAGAACTCACTTCGTTTGTTTTAGCCCGA
1 GATTTGTAGGGTCTAAGACTAATCCAGAGTAATTCCAAGAACTCACTTCGTTTGTTTTAGCCCGA
488991 AACATGCGAAGATCTTTTTGTAATGGGTGTGAACATGTCATACCATCATTTTGGAAATAAGATGC
66 AACATGCGAAGATCTTTTTGTAATGGGTGTGAACATGTCATACCATCATTTTGGAAATAAGATGC
*
489056 GATTTTTAGGGTCTAAGACTAATCCAGAGTAATTCCAAGAACTCACTTCGTTTGTTTTAGCCCGA
1 GATTTGTAGGGTCTAAGACTAATCCAGAGTAATTCCAAGAACTCACTTCGTTTGTTTTAGCCCGA
489121 AACATGCGAAGATCTTTTTGTAATGGGTGTGAACATGTCATACCATCATTTTGGAAATAAGATGC
66 AACATGCGAAGATCTTTTTGTAATGGGTGTGAACATGTCATACCATCATTTTGGAAATAAGATGC
489186 GA
1 GA
489188 ACTTTTGTCT
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (130 bp):
GATTTGTAGGGTCTAAGACTAATCCAGAGTAATTCCAAGAACTCACTTCGTTTGTTTTAGCCCGA
AACATGCGAAGATCTTTTTGTAATGGGTGTGAACATGTCATACCATCATTTTGGAAATAAGATGC
Found at i:490391 original size:40 final size:40
Alignment explanation
Indices: 490336--490417 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
490326 CAAAAGGAAG
*
490336 TAAGAAGTTTCTTGGGAAGGTTGAATTACATTACTTGTTT
1 TAAGAAGTTTCTTGGGAAGGTTGAATTACATTACTCGTTT
*
490376 TAAGAAGTTTCTTGGGAAGGTTGAATTACATTGCTCGTTT
1 TAAGAAGTTTCTTGGGAAGGTTGAATTACATTACTCGTTT
490416 TA
1 TA
490418 TTTCTCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (40 bp):
TAAGAAGTTTCTTGGGAAGGTTGAATTACATTACTCGTTT
Found at i:494506 original size:32 final size:33
Alignment explanation
Indices: 494445--494507 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
494435 GGCCCAGAAG
* *
494445 TATCGATACATATTGCTTTGTATCGATACACTA
1 TATCGATACATATTGCTTGGTATCAATACACTA
494478 TATCGATACATGA-T-CTTGGTATCAATACAC
1 TATCGATACAT-ATTGCTTGGTATCAATACAC
494508 AGCGAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 14 0.52
33 12 0.44
34 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (33 bp):
TATCGATACATATTGCTTGGTATCAATACACTA
Found at i:500159 original size:19 final size:19
Alignment explanation
Indices: 500135--500199 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
500125 AGTGATACAT
500135 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
500154 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
* *
500167 TGTATCAATACAACACTTA
1 TGTATCGATACAAAACTTA
500186 TGTATCGATACAAA
1 TGTATCGATACAAA
500200 TTGTTGAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.62
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:500169 original size:32 final size:32
Alignment explanation
Indices: 500128--500197 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
500118 GCTTCGTAGT
*
500128 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCAATACAAAACTTATGTATC
*
500160 GATACATTGTATCAATACAACACTTATGTATC
1 GATACATTGTATCAATACAAAACTTATGTATC
500192 GATACA
1 GATACA
500198 AATTGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
GATACATTGTATCAATACAAAACTTATGTATC
Found at i:500261 original size:21 final size:20
Alignment explanation
Indices: 500235--500273 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
500225 GTTGGGACCT
500235 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
500256 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
500274 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:501101 original size:101 final size:101
Alignment explanation
Indices: 500923--502107 Score: 1562
Period size: 101 Copynumber: 11.9 Consensus size: 101
500913 ATGAGAAGAA
* * * * ** *
500923 TGCCAATATGTTGATTCAAGGCCAACGGCATTGGGTTTTAAAGATGACGAAGACGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACGAAGGCGCCAATATGCT
500988 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
501025 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGATGAAGGTGCCACTATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
*
501090 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
501126 TGCCACTGTGCTGATTC-AGAACCAGTGACATTGGACTTAAAGATGACGAAGGCGCCAACATGCT
1 TGCCAATGTGCTGATTCAAG-GCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
501190 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
501227 TGCCAATGTGCTGATTC-GGGACTAGTGACATTGGACTTAAAGATGATGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
501291 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
501328 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACGAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
501393 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
501429 TGCCAATGTGCTGATTC-GGGACTAGTGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
501493 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * **
501530 TGCCACTGTGCTGATTC-AGAACCAGTAACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAG-GCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
*
501594 GATTCAAGGCTAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
501631 TGCCAATGTGCTGATTC-GGGACTAGTGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCT
501695 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
501732 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGTTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* * *
501797 ATTCAAGGCCAACGACACTGGACTTAAAGATGATAATGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATG--AA-GG
* * * * * *
501836 CGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-T-----T-A--AAGGTGCCAATGTGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* * * *
501892 ATTCAAGGCCAACGACATTGGTCTTAAAGA-CAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
501927 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
*
501988 ATTCAAGGCCAACGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
502018 TGCCAATGTGCAGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* * *
502080 ATTCAAGGCTAGAGATATTGGGCTTAAA
66 ATTCAAGGCCAGCGATATTGGACTTAAA
502108 AGAAGATGCC
Statistics
Matches: 985, Mismatches: 78, Indels: 47
0.89 0.07 0.04
Matches are distributed among these distances:
91 80 0.08
92 42 0.04
95 43 0.04
96 39 0.04
97 1 0.00
98 1 0.00
100 4 0.00
101 704 0.71
102 33 0.03
103 3 0.00
104 35 0.04
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:502061 original size:91 final size:92
Alignment explanation
Indices: 501874--502107 Score: 337
Period size: 91 Copynumber: 2.5 Consensus size: 92
501864 TATTGGACTT
* * * *
501874 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGTGCCAATATGCA
501939 GATTCAAGGCCAGCGACATTGGTCTTAAAGAC
61 GATTCAAGGCCAGCGACATTGGTCTTAAAGAC
*
501971 -AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCAGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCAGATTC
502035 AAGGCCAGCGACATTGGTCTTAAAGAC
66 AAGGCCAGCGACATTGGTCTTAAAGAC
* *
502062 AAAGGTGCCAATATGCTGATTCAAGGCTAGA-GATATTGGGCTTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCA-ACGATATTGGACTTAAA
502108 AGAAGATGCC
Statistics
Matches: 128, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
91 46 0.36
92 42 0.33
93 1 0.01
96 39 0.30
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATATGCAGATTC
AAGGCCAGCGACATTGGTCTTAAAGAC
Found at i:502212 original size:27 final size:30
Alignment explanation
Indices: 502180--502423 Score: 169
Period size: 35 Copynumber: 7.8 Consensus size: 30
502170 AGGAGAAAGA
502180 TGCCACGGAGTTGTGGAC-TTAAAAG-G-G
1 TGCCACGGAGTTGTGGACTTTAAAAGAGAG
*
502207 TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGCG
1 TGCCACGGAGTTGTGGACTTTAAAA--G----AGAG
*
502242 TGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAAAG----AGAG
502277 TGCCACGGAGTTGTGGACTTTAAAAG-GA-
1 TGCCACGGAGTTGTGGACTTTAAAAGAGAG
* *
502305 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTT-AAAAG--AGA-G
* * *
502339 TGCCACGGAGTTGTGGGCTTCGAAGAAAAGA-
1 TGCCACGGAGTTGTGGACTT-TAA-AAGAGAG
* * *
502370 TGCCACTGAGTCGTGGACTTTAAAAGGAGAT
1 TGCCACGGAGTTGTGGACTTTAAAA-GAGAG
* *
502401 TGCCACTGAGTCGTGGACTTTAA
1 TGCCACGGAGTTGTGGACTTTAA
502424 GAAGGTATTT
Statistics
Matches: 184, Mismatches: 13, Indels: 36
0.79 0.06 0.15
Matches are distributed among these distances:
27 24 0.13
28 20 0.11
29 10 0.05
30 5 0.03
31 40 0.22
32 1 0.01
33 2 0.01
34 28 0.15
35 48 0.26
36 2 0.01
37 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (30 bp):
TGCCACGGAGTTGTGGACTTTAAAAGAGAG
Found at i:502283 original size:97 final size:92
Alignment explanation
Indices: 502175--502420 Score: 289
Period size: 97 Copynumber: 2.6 Consensus size: 92
502165 TGAAAAGGAG
502175 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGAAAA
1 AAAGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTGAAAA--GAAAA
502238 AGCGTGCCACGAAGTTGTGGACTTTAAAAAGAA
64 AG-GTGCCACGAAGTTGTGGAC-TT-AAAAG-A
* *
502271 AAAGAGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1 AAAGA-TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTGAAAAGAAAA
* * **
502336 AGGTGCCACGGAGTTGTGGGCTTCGAAGA
64 AGGTGCCACGAAGTTGTGGACTTAAAAGA
* * * *
502365 AAAGATGCCACTGAGTCGTGGACTTTAAAAGGAGATTGCCACTGAGTCGTGGACTT
1 AAAGATGCCACGGAGTTGTGGACTTTAAAAGG-G--TGCCACGGAGTTGTGGACTT
502421 TAAGAAGGTA
Statistics
Matches: 131, Mismatches: 12, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
93 25 0.19
94 6 0.05
95 5 0.04
96 22 0.17
97 35 0.27
98 32 0.24
99 2 0.02
100 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22
Consensus pattern (92 bp):
AAAGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTGAAAAGAAAAAG
GTGCCACGAAGTTGTGGACTTAAAAGA
Found at i:502310 original size:63 final size:63
Alignment explanation
Indices: 502200--502394 Score: 205
Period size: 63 Copynumber: 3.0 Consensus size: 63
502190 TTGTGGACTT
* * *
502200 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGCGTGCCACGAAGTTGTGGACTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTT-CAA--G-AAAAG-ATGCCACG-AGTTGTGGACTTTAA
502265 AAAG
60 AAAG
* * * *
502269 AAAAAGAGTGCCACGGAGTTGTGGACTT-TA-AAAGGATGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTCAAGAAAAGATGCCAC-GAGTTGTGGACTTTAAAAAG
* *
502332 AAAAAGGTGCCACGGAGTTGTGGGCTTCGAAGAAAAGATGCCACTGAGTCGTGGACTTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTC-AAGAAAAGATGCCAC-GAGTTGTGGACTTTAAAA
502395 GGAGATTGCC
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
62 20 0.19
63 29 0.27
64 6 0.06
65 26 0.24
68 1 0.01
69 5 0.05
70 21 0.19
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (63 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTCAAGAAAAGATGCCACGAGTTGTGGACTTTAAAAAG
Found at i:502405 original size:62 final size:62
Alignment explanation
Indices: 502175--502426 Score: 207
Period size: 62 Copynumber: 4.0 Consensus size: 62
502165 TGAAAAGGAG
502175 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAG---G-GTGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAGATGCCACGGAGTTGTGGACTTTAAAAAGAAAGAGTGCCACGGAGTTGTGGACTT--AA--G
502234 AA
62 -A
* * *
502236 AAAGCGTGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTA-A
1 AAAG-ATGCCACGGAGTTGTGGACTTTAAAAAG--AAAGAGTGCCACGGAGTTGTGGACTTAAGA
* * * * *
502300 AAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTCGAAGA
1 AAAGATGCCACGGAGTTGTGGACTTTAAAAAGAAAGA-GTGCCACGGAGTTGTGGACTT--AAGA
* * * * * *
502365 AAAGATGCCACTGAGTCGTGGACTTT-AAAAG-GAGATTGCCACTGAGTCGTGGACTTTAAGA
1 AAAGATGCCACGGAGTTGTGGACTTTAAAAAGAAAGAGTGCCACGGAGTTGTGGAC-TTAAGA
502426 A
1 A
502427 GGTATTTGAA
Statistics
Matches: 156, Mismatches: 21, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
61 13 0.08
62 52 0.33
63 30 0.19
64 15 0.10
65 23 0.15
68 1 0.01
69 1 0.01
70 21 0.13
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (62 bp):
AAAGATGCCACGGAGTTGTGGACTTTAAAAAGAAAGAGTGCCACGGAGTTGTGGACTTAAGA
Found at i:503741 original size:12 final size:12
Alignment explanation
Indices: 503726--503784 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
503716 TTTGTGTATT
503726 TTTTTGTTTTTG
1 TTTTTGTTTTTG
503738 TTTTTGTTTTT-
1 TTTTTGTTTTTG
*
503749 TTGTT-TTTTT-
1 TTTTTGTTTTTG
*
503759 TTTTTG-TGTTG
1 TTTTTGTTTTTG
503770 TTTTT-TTTTGTG
1 TTTTTGTTTT-TG
503782 TTT
1 TTT
503785 GCATTTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 12 0.31
11 11 0.28
12 16 0.41
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTG
Found at i:503742 original size:15 final size:14
Alignment explanation
Indices: 503712--503784 Score: 83
Period size: 14 Copynumber: 4.9 Consensus size: 14
503702 GCTCTCTTCC
*
503712 TTTTTTTGTGTATTT
1 TTTTTTTTTGT-TTT
503727 TTTTGTTTTTGTTTT
1 TTTT-TTTTTGTTTT
*
503742 TGTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
503756 TTTTTTTTGTGTTGTT
1 TTTTTTTT-TGTT-TT
*
503772 TTTTTTTGTGTTT
1 TTTTTTTTTGTTT
503785 GCATTTTTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
14 18 0.35
15 18 0.35
16 15 0.29
ACGTcount: A:0.01, C:0.00, G:0.15, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:503755 original size:26 final size:26
Alignment explanation
Indices: 503724--503776 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
503714 TTTTTGTGTA
*
503724 TTTTTTTGTTTTTGTTTTTGTTTTTTTG
1 TTTTTTT-TTTTTG-TGTTGTTTTTTTG
503752 TTTTTTTTTTTTGTGTTGTTTTTTT
1 TTTTTTTTTTTTGTGTTGTTTTTTT
503777 TTGTGTTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 11 0.46
27 6 0.25
28 7 0.29
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (26 bp):
TTTTTTTTTTTTGTGTTGTTTTTTTG
Found at i:505454 original size:32 final size:32
Alignment explanation
Indices: 505399--505499 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
505389 TTTAACGATT
505399 TGTATCGATACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACAT-AAGTGTTGTATCAATACAA
*
505432 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
505464 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
505496 TGTA
1 TGTA
505500 AGCTACTACC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:505456 original size:19 final size:18
Alignment explanation
Indices: 505397--505494 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
505387 ATTTTAACGA
505397 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
505416 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
505432 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
505448 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
505464 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
505480 TTTTGTATCAATACA
1 -TTTGTATCGATACA
505495 ATGTAAGCTA
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.37
20 11 0.17
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:505469 original size:13 final size:13
Alignment explanation
Indices: 505451--505475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
505441 ACATAAGTGT
505451 TGTATCGATACAA
1 TGTATCGATACAA
505464 TGTATCGATACA
1 TGTATCGATACA
505476 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:505520 original size:65 final size:65
Alignment explanation
Indices: 505399--505527 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 65
505389 TTTAACGATT
* ***
505399 TGTATCGATACATAAAGTGTTGTATCAATACAATGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAATGTAGCGATACATAAGAAATGTATCGATACAA
* *
505464 TGTATCGATACAT-AAGTTTTGTATCAATACAATGTAAGCTACTACCA-AA-AAATGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCAATACAATGT-AGCGA-TA-CATAAGAAATGTATCGATA
505526 CA
63 CA
505528 TTACTCAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
64 21 0.38
65 28 0.51
66 4 0.07
67 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (65 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAATGTAGCGATACATAAGAAATGTATCGATACAA
Found at i:508999 original size:440 final size:440
Alignment explanation
Indices: 508178--509061 Score: 1768
Period size: 440 Copynumber: 2.0 Consensus size: 440
508168 TCTCTATGTT
508178 TCCCATCTCTCCGAGGCGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTCATGCA
1 TCCCATCTCTCCGAGGCGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTCATGCA
508243 AAATTCATACATTCAAAGGGGATCATATCAAAATAATGATAAATCAAAATCAATGCAACCAATAT
66 AAATTCATACATTCAAAGGGGATCATATCAAAATAATGATAAATCAAAATCAATGCAACCAATAT
508308 CGAGTCAAAACGTTGCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTCGTACCTCTTTGT
131 CGAGTCAAAACGTTGCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTCGTACCTCTTTGT
508373 GCATAACCAACTCCCGAACCCAACCAGCGAATCTCTAAAGTACGCAGACCACGGGATCTATGTTT
196 GCATAACCAACTCCCGAACCCAACCAGCGAATCTCTAAAGTACGCAGACCACGGGATCTATGTTT
508438 TGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCTTGCCTAGCCCGAAATGATCG
261 TGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCTTGCCTAGCCCGAAATGATCG
508503 GTGGTGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCA
326 GTGGTGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCA
508568 TCTACTGATCTTCCCCCTTAATCAACATACTTTTTGTCATGCCATAGAAA
391 TCTACTGATCTTCCCCCTTAATCAACATACTTTTTGTCATGCCATAGAAA
508618 TCCCATCTCTCCGAGGCGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTCATGCA
1 TCCCATCTCTCCGAGGCGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTCATGCA
508683 AAATTCATACATTCAAAGGGGATCATATCAAAATAATGATAAATCAAAATCAATGCAACCAATAT
66 AAATTCATACATTCAAAGGGGATCATATCAAAATAATGATAAATCAAAATCAATGCAACCAATAT
508748 CGAGTCAAAACGTTGCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTCGTACCTCTTTGT
131 CGAGTCAAAACGTTGCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTCGTACCTCTTTGT
508813 GCATAACCAACTCCCGAACCCAACCAGCGAATCTCTAAAGTACGCAGACCACGGGATCTATGTTT
196 GCATAACCAACTCCCGAACCCAACCAGCGAATCTCTAAAGTACGCAGACCACGGGATCTATGTTT
508878 TGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCTTGCCTAGCCCGAAATGATCG
261 TGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCTTGCCTAGCCCGAAATGATCG
508943 GTGGTGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCA
326 GTGGTGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCA
509008 TCTACTGATCTTCCCCCTTAATCAACATACTTTTTGTCATGCCATAGAAA
391 TCTACTGATCTTCCCCCTTAATCAACATACTTTTTGTCATGCCATAGAAA
509058 TCCC
1 TCCC
509062 TAATCGCGAG
Statistics
Matches: 444, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
440 444 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (440 bp):
TCCCATCTCTCCGAGGCGCATATGAGATGAAAACTTTTATCAAAACCTGGATTTATTTTCATGCA
AAATTCATACATTCAAAGGGGATCATATCAAAATAATGATAAATCAAAATCAATGCAACCAATAT
CGAGTCAAAACGTTGCTAGTAAGGTACCGATTTTGGGCATCGCGAGGAGGTTCGTACCTCTTTGT
GCATAACCAACTCCCGAACCCAACCAGCGAATCTCTAAAGTACGCAGACCACGGGATCTATGTTT
TGAGTTTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCTTGCCTAGCCCGAAATGATCG
GTGGTGACTCCAAAATCTCGGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCA
TCTACTGATCTTCCCCCTTAATCAACATACTTTTTGTCATGCCATAGAAA
Done.