Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000481.1 Hibiscus syriacus cultivar Beakdansim tig00000913_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 369907
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
File 1 of 2
Found at i:17282 original size:48 final size:48
Alignment explanation
Indices: 17196--17304 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 48
17186 GATAATTTTA
* * * *
17196 ATAATATGATATTATATTTTATTGTTATAATCATATTATT-ATAATAT
1 ATAATATTATATTATATTTTAATGATATAATCATATTATTAATAAAAT
* *
17243 ATAATATTATACTTTTATTTTAATGATAT-ATGATAATTATTAATAAAAT
1 ATAATATTATA-TTATATTTTAATGATATAATCAT-ATTATTAATAAAAT
17292 -TAATATTAT-TTAT
1 ATAATATTATATTAT
17305 TAATTTTGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
46 3 0.06
47 14 0.27
48 29 0.56
49 6 0.12
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (48 bp):
ATAATATTATATTATATTTTAATGATATAATCATATTATTAATAAAAT
Found at i:17385 original size:8 final size:8
Alignment explanation
Indices: 17372--17412 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
17362 GTAATATTCT
17372 TATTTTAA
1 TATTTTAA
17380 TATTTTAA
1 TATTTTAA
*
17388 TATTATAA
1 TATTTTAA
17396 T-TTTTAA
1 TATTTTAA
17403 TATTTTAA
1 TATTTTAA
17411 TA
1 TA
17413 ATATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTTAA
Found at i:17402 original size:15 final size:16
Alignment explanation
Indices: 17372--17412 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
17362 GTAATATTCT
17372 TATTTTAATATTTTAA
1 TATTTTAATATTTTAA
*
17388 TATTATAAT-TTTTAA
1 TATTTTAATATTTTAA
17403 TATTTTAATA
1 TATTTTAATA
17413 ATATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTAATATTTTAA
Found at i:17404 original size:23 final size:22
Alignment explanation
Indices: 17373--17455 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 22
17363 TAATATTCTT
*
17373 ATTTTAATATTTTAATATTATA
1 ATTTTAATATTTTAATAATATA
*
17395 ATTTTTAATATTTTAATAATATT
1 A-TTTTAATATTTTAATAATATA
**
17418 ATTTTAATA-AATAATTAATATA
1 ATTTTAATATTTTAA-TAATATA
17440 ATTTATAATAATTTTA
1 ATTT-TAAT-ATTTTA
17456 TTTTAATAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.06
22 19 0.39
23 24 0.49
24 1 0.02
25 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTAATATTTTAATAATATA
Found at i:17421 original size:37 final size:36
Alignment explanation
Indices: 17380--17486 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 36
17370 CTTATTTTAA
17380 TATTTTAATATTATAATTTTTAATATTTTAATAATAT
1 TATTTTAATA-TATAATTTTTAATATTTTAATAATAT
* * * *
17417 TATTTTAATAAATAATTAATATAAT-TTATAATAATTT
1 TATTTTAATATATAATT--TTTAATATTTTAATAATAT
17454 TATTTTAATAGAATATAATTTTCGTAATATTTT
1 TATTTTAAT---ATATAATTTT--TAATATTTT
17487 TATTTATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
36 6 0.11
37 29 0.53
38 6 0.11
40 11 0.20
41 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (36 bp):
TATTTTAATATATAATTTTTAATATTTTAATAATAT
Found at i:17523 original size:14 final size:14
Alignment explanation
Indices: 17400--17549 Score: 59
Period size: 14 Copynumber: 11.0 Consensus size: 14
17390 TTATAATTTT
17400 TAATATTTTAATAA
1 TAATATTTTAATAA
*
17414 TATTATTTTAAT-A
1 TAATATTTTAATAA
*
17427 -AATA-ATTAAT-A
1 TAATATTTTAATAA
*
17438 TAAT-TTATAATAA
1 TAATATTTTAATAA
**
17451 TTTTATTTTAATAGA
1 TAATATTTTAATA-A
**
17466 -ATATAATTTTCGTAA
1 TA-AT-ATTTTAATAA
* *
17481 T-AT-TTTTATTTA
1 TAATATTTTAATAA
* *
17493 TAAAATTGTAGAT-A
1 TAATATTTTA-ATAA
17507 TAATATTTTAATAA
1 TAATATTTTAATAA
*
17521 TAATA-TTGATATAAA
1 TAATATTTTA-AT-AA
*
17536 TAATATTTAAATAA
1 TAATATTTTAATAA
17550 ATTATTCTAA
Statistics
Matches: 99, Mismatches: 22, Indels: 30
0.66 0.15 0.20
Matches are distributed among these distances:
11 6 0.06
12 17 0.17
13 10 0.10
14 43 0.43
15 13 0.13
16 10 0.10
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (14 bp):
TAATATTTTAATAA
Found at i:17549 original size:15 final size:15
Alignment explanation
Indices: 17506--17551 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
17496 AATTGTAGAT
*
17506 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
* *
17520 ATAATATTGATATAA
1 ATAATATTTAAATAA
17535 ATAATATTTAAATAA
1 ATAATATTTAAATAA
17550 AT
1 AT
17552 TATTCTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:26621 original size:2 final size:2
Alignment explanation
Indices: 26614--26643 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
26604 AATGAAAGTA
26614 AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
26644 GGTTCGAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:28783 original size:19 final size:19
Alignment explanation
Indices: 28759--28841 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
28749 AGGAGCCGTT
*
28759 TGAGCCGAGCCGCTTGAGC
1 TGAGCCGAGCCGTTTGAGC
28778 TGAGCCGAGCCGTTT-A--
1 TGAGCCGAGCCGTTTGAGC
28794 --AGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
28811 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
28830 TGAGCCAAGCCG
1 TGAGCCGAGCCG
28842 AGCCGCCTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
15 1 0.02
18 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:28788 original size:33 final size:33
Alignment explanation
Indices: 28751--28835 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
28741 GAAGCCTGAG
28751 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
* *
28784 GAGCCGTTTAAGCCGAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
*
28817 GAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCC
28836 AAGCCGAGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.20
Consensus pattern (33 bp):
GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
Found at i:28835 original size:14 final size:14
Alignment explanation
Indices: 28751--28817 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
28741 GAAGCCTGAG
28751 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
28765 GAGCCGCTTGAGCTGAGCC
1 GAGCCG-TT----TGAGCC
*
28784 GAGCCGTTTAAGCC
1 GAGCCGTTTGAGCC
*
28798 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
28812 GAGCCG
1 GAGCCG
28818 AGCCGTTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 29 0.64
15 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.19
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:30199 original size:18 final size:18
Alignment explanation
Indices: 30173--30207 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30163 TCGAAAGGAC
*
30173 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
30191 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
30208 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:33984 original size:19 final size:19
Alignment explanation
Indices: 33960--34042 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
33950 AGGAGCCGTT
*
33960 TGAGCCGAGCCGCTTGAGC
1 TGAGCCGAGCCGTTTGAGC
33979 TGAGCCGAGCCGTTT-A--
1 TGAGCCGAGCCGTTTGAGC
33995 --AGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
34012 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
34031 TGAGCCAAGCCG
1 TGAGCCGAGCCG
34043 AGCCGCCTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
14 13 0.23
15 1 0.02
18 1 0.02
19 42 0.74
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:33989 original size:33 final size:33
Alignment explanation
Indices: 33952--34036 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
33942 GAAGCCTGAG
33952 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
* *
33985 GAGCCGTTTAAGCCGAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
*
34018 GAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCC
34037 AAGCCGAGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.20
Consensus pattern (33 bp):
GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
Found at i:34036 original size:14 final size:14
Alignment explanation
Indices: 33952--34018 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
33942 GAAGCCTGAG
33952 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
33966 GAGCCGCTTGAGCTGAGCC
1 GAGCCG-TT----TGAGCC
*
33985 GAGCCGTTTAAGCC
1 GAGCCGTTTGAGCC
*
33999 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
34013 GAGCCG
1 GAGCCG
34019 AGCCGTTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 29 0.64
15 2 0.04
18 2 0.04
19 12 0.27
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.19
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:35399 original size:18 final size:18
Alignment explanation
Indices: 35373--35407 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35363 TCGAAAGGAC
*
35373 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
35391 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
35408 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:38046 original size:2 final size:2
Alignment explanation
Indices: 38039--38074 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
38029 ACCAACCCGA
38039 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38075 TTAAGATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50325 original size:2 final size:2
Alignment explanation
Indices: 50318--50349 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50308 TAAGTGGACC
50318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50350 AAAGTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52037 original size:23 final size:22
Alignment explanation
Indices: 52001--52072 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
51991 AGTCTGCCTG
*
52001 TATGACACATTTTCATATGTTTT
1 TATGACAC-GTTTCATATGTTTT
* *
52024 TATGGCACGCTTTCATATGTCTT
1 TATGACACG-TTTCATATGTTTT
*
52047 TATGACACGTTATCTTATGTCTTT
1 TATGACACGTT-TCATATGT-TTT
52071 TA
1 TA
52073 GCATGTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 2 0.05
23 34 0.85
24 4 0.10
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGACACGTTTCATATGTTTT
Found at i:54379 original size:17 final size:18
Alignment explanation
Indices: 54357--54390 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
54347 ACTGAATTTT
*
54357 GTGGCGATGAC-ACAGCG
1 GTGGCGACGACGACAGCG
54374 GTGGCGACGACGACAGC
1 GTGGCGACGACGACAGC
54391 AATAGGGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.26, G:0.41, T:0.09
Consensus pattern (18 bp):
GTGGCGACGACGACAGCG
Found at i:55155 original size:2 final size:2
Alignment explanation
Indices: 55148--55181 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
55138 AAATATTTAG
55148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55182 TAAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55388 original size:2 final size:2
Alignment explanation
Indices: 55381--55406 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55371 GAATTAAAGC
55381 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
55407 AAAACTACCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55752 original size:2 final size:2
Alignment explanation
Indices: 55745--55774 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55735 GAATTCAAAC
55745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55775 GGGAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57181 original size:31 final size:30
Alignment explanation
Indices: 57135--57235 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 30
57125 GACGTGATTT
* *
57135 TGAAAAAAAATTAAAAGTTTAGATATTAAAA
1 TGAACAAAAA-TAAAAGTTTAGGTATTAAAA
57166 TGAACCAAAAATAAAAGTTTAGGTA-TAATAA
1 TGAA-CAAAAATAAAAGTTTAGGTATTAA-AA
*
57197 TGAA-AAAAATAAAAATTTAGGTATTAAAA
1 TGAACAAAAATAAAAGTTTAGGTATTAAAA
57226 TGAATCAAAA
1 TGAA-CAAAA
57236 CTGATAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
29 24 0.39
30 6 0.10
31 27 0.44
32 5 0.08
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (30 bp):
TGAACAAAAATAAAAGTTTAGGTATTAAAA
Found at i:57215 original size:29 final size:29
Alignment explanation
Indices: 57138--57229 Score: 123
Period size: 29 Copynumber: 3.1 Consensus size: 29
57128 GTGATTTTGA
*
57138 AAAAAAATTAAAAGTTTAGATATTAAAATG
1 AAAAAAA-TAAAAGTTTAGGTATTAAAATG
57168 AACCAAAAATAAAAGTTTAGGTA-TAATAATG
1 AA--AAAAATAAAAGTTTAGGTATTAA-AATG
*
57199 AAAAAAATAAAAATTTAGGTATTAAAATG
1 AAAAAAATAAAAGTTTAGGTATTAAAATG
57228 AA
1 AA
57230 TCAAAACTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
29 24 0.43
30 8 0.14
31 19 0.34
32 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.27
Consensus pattern (29 bp):
AAAAAAATAAAAGTTTAGGTATTAAAATG
Found at i:59059 original size:31 final size:31
Alignment explanation
Indices: 59021--59085 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
59011 ATGGTTGAGG
*
59021 GACTAAAATCGAACGAATCGATAACGTTAGA
1 GACTAAAATCGAACGAATCAATAACGTTAGA
*
59052 GACTAAAATCGAACGAATCAATAACGTTATA
1 GACTAAAATCGAACGAATCAATAACGTTAGA
59083 GAC
1 GAC
59086 CATGTACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (31 bp):
GACTAAAATCGAACGAATCAATAACGTTAGA
Found at i:65365 original size:304 final size:311
Alignment explanation
Indices: 64808--65438 Score: 716
Period size: 304 Copynumber: 2.0 Consensus size: 311
64798 ATAAGGTAAT
* * * *
64808 GTAGTCAAATGAT-TAAAAAATAGCATTCCCTTAATGCATTAAGTACTACATGTTATTGAAAATA
1 GTAGTCAAATGATGAAAAAAATAACATTACCTGAATGCATTAAGTACTA-ATGTTATTGAAAATA
* * * * *
64872 ACCAATTAAGGTAACCTCCAAATGGAAACCGAACGCATTGACAATTACTTATCATTATCCAAATA
65 ACCAATTAAGGTAACCTCCAAATAGAAACCAAACACATTGACAATTACTTATCATCATCCAAACA
* ** ** * *
64937 ACACCTAACTATTTCATTTTTAATGTTCATTACCACTGGAAATTTGAAAATGGCATACTACTCTG
130 ACACCTAACTATTCCATTTTTAACATTCAAAACCAATGGAAA-TCGAAAATGGCATAC-ACTCTG
* * * * * *
65002 CACTGAAGTCAGGTGACAAAAGCAAGTTCTTTTGCAAAGTGAAAAAGTTGTTTCAACTTTCCATT
193 AACTGAACTCAGATGACAAAAGCAAGTTCTTTAGCAAAGTGAAAAAATTGTTTCAACTTTCAATT
* *
65067 TTCCTCC-AATTTTTCTTTACTTTCTCAGTAACCAAACAGGAAGTGAACTAACA
258 TTCCTCCGAATTTTTCTTTACTTTATCAGTAACCAAACAAGAAGTGAACTAACA
65120 GTAGTCAAATGATGAAAAAAATAACATTACCTGAATGCATTAAGTA-T-ATGTTATTGAAAATAA
1 GTAGTCAAATGATGAAAAAAATAACATTACCTGAATGCATTAAGTACTAATGTTATTGAAAATAA
*
65183 CCAATTAAGGGTAATCTCCAAAATAAGAAACCAAACACATTGAGCAATTACTTATC-TCA-CCAA
66 CCAATTAA-GGTAACCTCC-AAAT-AGAAACCAAACACATTGA-CAATTACTTATCATCATCCAA
* * * *
65246 ACAGCACTTAATTGTTCCATTTTTAACATTCAAAACCAAT-GAACA-CG-AAAT-GC-TAC-C-C
127 ACAACACCTAACTATTCCATTTTTAACATTCAAAACCAATGGAA-ATCGAAAATGGCATACACTC
* * *
65304 TTAACTGAACTCAGATGACAAAAGCAGGTTCTTTAGCACAGT-AAAACAATTGTTTCAACTTTCA
191 TGAACTGAACTCAGATGACAAAAGCAAGTTCTTTAGCAAAGTGAAAA-AATTGTTTCAACTTTCA
* ** ** * **
65368 ATTTTCCTCCGAATTTTTGTTTACTTTATTGGTAATTAAACAAGAAGTGAATTAATT
255 ATTTTCCTCCGAATTTTTCTTTACTTTATCAGTAACCAAACAAGAAGTGAACTAACA
65425 GTAGTCAAAT-ATGA
1 GTAGTCAAATGATGA
65439 GAAATGATGT
Statistics
Matches: 271, Mismatches: 40, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
303 4 0.01
304 65 0.24
305 47 0.17
307 3 0.01
308 2 0.01
309 4 0.01
310 25 0.09
311 12 0.04
312 52 0.19
313 45 0.17
314 12 0.04
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (311 bp):
GTAGTCAAATGATGAAAAAAATAACATTACCTGAATGCATTAAGTACTAATGTTATTGAAAATAA
CCAATTAAGGTAACCTCCAAATAGAAACCAAACACATTGACAATTACTTATCATCATCCAAACAA
CACCTAACTATTCCATTTTTAACATTCAAAACCAATGGAAATCGAAAATGGCATACACTCTGAAC
TGAACTCAGATGACAAAAGCAAGTTCTTTAGCAAAGTGAAAAAATTGTTTCAACTTTCAATTTTC
CTCCGAATTTTTCTTTACTTTATCAGTAACCAAACAAGAAGTGAACTAACA
Found at i:65898 original size:331 final size:329
Alignment explanation
Indices: 65120--66051 Score: 815
Period size: 331 Copynumber: 2.8 Consensus size: 329
65110 TGAACTAACA
* * * * * * *
65120 GTAGTCAAATGATGAA-AAAAATAACATTACCTGAATGCATTAAGT---ATATGTTATTGAAAAT
1 GTAGTCAAATGATGAATAAAAACAGCATTGCCCGAATGCATTAAGTACCACATATTATTGAAAAA
* * * * * *
65181 AACCAATT-AAGGGTAATCTCCAAAATAAGAAACCAAACACATTGAGCAATTACTTATCTCACCA
66 AACCAATTCAAGGATAATCTCCAAAATAAG--ATC-GACA-A-T---CACTTA-TCATTTC-CCA
* * * ** *
65245 AACAGCACTTAATTGTTCCATTTTTAACATTCAAAACCAATGAACACGAAATGCTACCCTTAACT
121 AACAACACTTAATTGTTCCAGTTTTAACATTCAAAACCAATGAACA-AAAACACTACCCTTCACT
* *
65310 GAACTCAGATG-ACAAAAGCAGGTTCTTTAGCACAGTAAAACAATTG-TTTCAACTTTCAATTTT
185 GAACTCAGATGAACAAAAGCAGGTTCTTTAGCACAGTGAAACAATTGTTTTCAACTTTCCATTTT
** * * ** ** *
65373 CCTCCGAATTTTTGTTTACTTTATTGGTAATTAAACAAGAAGTGAATTAATTGTAGTCAAATATG
250 CCTCCG-ATTTTCCTTAACTCTAGCGGTAACCAAACAAGAAGTGAAATAATTGTAGTCAAATATG
*
65438 AGAAATGATGTGGTAAT
314 AGAAATGA-GAGGTAAT
* * * * *
65455 GTGGTCGAATGATGAATAAAAACAGCATTGCCCGAATGCATTAAGTACCACGTGTTATTGAAAAT
1 GTAGTCAAATGATGAATAAAAACAGCATTGCCCGAATGCATTAAGTACCACATATTATTGAAAAA
* * * * * * *
65520 AACCAATTTAAGGATAATCTCCTATATGAGATTGACAATCACTTATCATTTTCCAAACAACACCT
66 AACCAATTCAAGGATAATCTCCAAAATAAGATCGACAATCACTTATCATTTCCCAAACAACACTT
*
65585 AATTGTTCCAGTCTTAACATTCAAAACCAATGAACATAAAACACTACCCTTCACTGAACTCAGAT
131 AATTGTTCCAGTTTTAACATTCAAAACCAATGAACA-AAAACACTACCCTTCACTGAACTCAGAT
* * *
65650 GAACAAAAGCAGGTTCTTTAGCACAGTGAAGCAAATGTTTTCAACTTTCCGTTTTCCTCCGATTT
195 GAACAAAAGCAGGTTCTTTAGCACAGTGAAACAATTGTTTTCAACTTTCCATTTTCCTCCGATTT
*** *
65715 TCCTTAACTCTAGCGGTAACCAAATGGGAAGTGAAATAATTGTCA-TCAAGTGA-GAGACAAT-A
260 TCCTTAACTCTAGCGGTAACCAAACAAGAAGTGAAATAATTGT-AGTCAAAT-ATGAGA-AATGA
*
65777 -AGGTATT
322 GAGGTAAT
* * * * *
65784 GTAGTCAAATGATGAA-AAACATATCATTGCCTGAATGCATTAAGTACTACTATATATTATTGAA
1 GTAGTCAAATGATGAATAAAAACAGCATTGCCCGAATGCATTAAGTAC--C-ACATATTATTGAA
* * *
65848 GAAAAACTAA-TCAAGTG-TAATCTCCAAAATAAGATCGATAATTACTTATCATTTCCCAAACAG
63 -AAAAACCAATTCAAG-GATAATCTCCAAAATAAGATCGACAATCACTTATCATTTCCCAAACA-
* * * * *
65911 A-A-TTCAGTTATTCC-GTTTTTAACATTCAAAGCCCATGAA-AACAAACTACCACCCTTTCA-T
125 ACACTT-AATTGTTCCAG-TTTTAACATTCAAAACCAATGAACAA-AAAC-ACTACCC-TTCACT
**
65971 -AAGGCAGATGAACAAAAGCAGGTTCTTTAGCACAGTGAAACAATTGCTTCAAGTTCAACTTTCC
185 GAACTCAGATGAACAAAAGCAGGTTCTTTAGCACAGTGAAACAATTG-TT----TTCAACTTTCC
*
66035 ATTTTCCTCCAATTTTC
245 ATTTTCCTCCGATTTTC
66052 ACTACTTTCT
Statistics
Matches: 491, Mismatches: 80, Indels: 52
0.79 0.13 0.08
Matches are distributed among these distances:
328 27 0.05
329 20 0.04
330 120 0.24
331 170 0.35
332 44 0.09
335 41 0.08
336 26 0.05
337 3 0.01
338 1 0.00
339 22 0.04
340 17 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (329 bp):
GTAGTCAAATGATGAATAAAAACAGCATTGCCCGAATGCATTAAGTACCACATATTATTGAAAAA
AACCAATTCAAGGATAATCTCCAAAATAAGATCGACAATCACTTATCATTTCCCAAACAACACTT
AATTGTTCCAGTTTTAACATTCAAAACCAATGAACAAAAACACTACCCTTCACTGAACTCAGATG
AACAAAAGCAGGTTCTTTAGCACAGTGAAACAATTGTTTTCAACTTTCCATTTTCCTCCGATTTT
CCTTAACTCTAGCGGTAACCAAACAAGAAGTGAAATAATTGTAGTCAAATATGAGAAATGAGAGG
TAAT
Found at i:66412 original size:271 final size:271
Alignment explanation
Indices: 65832--66649 Score: 1260
Period size: 271 Copynumber: 3.0 Consensus size: 271
65822 ATTAAGTACT
* * * * * *
65832 ACTATATATTATTGAAGAAAAACTAATCAAGTGTAATCTCCAAAATAAGATCGATAATTACTTAT
1 ACTATATACTATTGAAGAAAAACTAATTAAGTGTAATCTCGAAAATAAGATTGAAAATCACTTAT
* * *
65897 CATTTCCCAAACAGAA-TTCAGTTATTCCGTTTTTAACATTCAAAGCCCATGAAAACAAACTACC
66 CATTTCCCAAACAGAACAT-AGTTATTCCGTTTTTAACATTCAAAGCCAATGAAAATAAACTACC
* ** *
65961 ACCCTTTCATAAGGCAGATGAACAAAAGCAGGTTCTTTAGCACAGTGAAACAATTGCTTCAAGTT
130 ACCCTTTCGTAACTCAGATGAACAAAAGCAGGTTCTTCAGCACAGTGAAACAATTG---C---TT
66026 CAACTTTCCATTTTCCTCCAATTTTCACTACTTTCTCGGCAACCAAACAGCTGGTAAGCTCATTG
189 CAACTTTCCATTTTCCTCCAATTTTCACTACTTTCTCGGCAACCAAACAGCTGGTAAGCTCATTG
66091 TCTAGCAAAAACAACAGC
254 TCTAGCAAAAACAACAGC
66109 ACTATATACTATTGAAGAAAAACTAATTAAGTGTAATCTCGAAAATAAGATTGAAAATCACTTAT
1 ACTATATACTATTGAAGAAAAACTAATTAAGTGTAATCTCGAAAATAAGATTGAAAATCACTTAT
* * *
66174 AATTTCCCAAACAGAACATAGTTATTCCGTTTTTAGCATTCGAAGCCAATGAAAATAAACTACCA
66 CATTTCCCAAACAGAACATAGTTATTCCGTTTTTAACATTCAAAGCCAATGAAAATAAACTACCA
* *
66239 CCCTTTCGTAACTCAGATTAACAAAAGCAGCTTCTTCAGCACAGTGAAACAATTGCTTCAACTTT
131 CCCTTTCGTAACTCAGATGAACAAAAGCAGGTTCTTCAGCACAGTGAAACAATTGCTTCAACTTT
** * *
66304 GAATTTTCCACCAATTTTCACTACTTTCTCGGCAACCAAACAGTTGGTAAGCTCATTGTCTAGCA
196 CCATTTTCCTCCAATTTTCACTACTTTCTCGGCAACCAAACAGCTGGTAAGCTCATTGTCTAGCA
66369 AAAACAACAGC
261 AAAACAACAGC
* *
66380 AGTATATACTATTGAAGAAAAACTAATTAAGTGTGATCTCGAAAATAAGATTGAAAATCACTTAT
1 ACTATATACTATTGAAGAAAAACTAATTAAGTGTAATCTCGAAAATAAGATTGAAAATCACTTAT
* * *
66445 CATTTCCCAAACAGAACATAGCTATTCCGTTTTTAACATTCAAAGCCAACGAAAATAAACTATCA
66 CATTTCCCAAACAGAACATAGTTATTCCGTTTTTAACATTCAAAGCCAATGAAAATAAACTACCA
*
66510 CCCTTTCGTAACTCAGATGAACAAAAGCAGGTTCTTCAGCACAGTGAAACAACTGCTTCAACTTT
131 CCCTTTCGTAACTCAGATGAACAAAAGCAGGTTCTTCAGCACAGTGAAACAATTGCTTCAACTTT
* * * * * *
66575 CCATTTTTCTCCTATTTTCACTACTTTCTCGGTAAGCAAACAGCTGGTAAACTCATTTTCTAGCA
196 CCATTTTCCTCCAATTTTCACTACTTTCTCGGCAACCAAACAGCTGGTAAGCTCATTGTCTAGCA
66640 AAAACAACAG
261 AAAACAACAG
66650 ACCAACCAGC
Statistics
Matches: 497, Mismatches: 43, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
271 330 0.66
274 1 0.00
277 165 0.33
278 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (271 bp):
ACTATATACTATTGAAGAAAAACTAATTAAGTGTAATCTCGAAAATAAGATTGAAAATCACTTAT
CATTTCCCAAACAGAACATAGTTATTCCGTTTTTAACATTCAAAGCCAATGAAAATAAACTACCA
CCCTTTCGTAACTCAGATGAACAAAAGCAGGTTCTTCAGCACAGTGAAACAATTGCTTCAACTTT
CCATTTTCCTCCAATTTTCACTACTTTCTCGGCAACCAAACAGCTGGTAAGCTCATTGTCTAGCA
AAAACAACAGC
Found at i:67209 original size:26 final size:25
Alignment explanation
Indices: 67154--67216 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
67144 GCATTATATG
*
67154 TATATTAAATATTTTTTTTGACAAA
1 TATATTAAATATTTTTTTGGACAAA
* **
67179 -GTATTAAATATTTTTTTGGGTAAA
1 TATATTAAATATTTTTTTGGACAAA
67203 TTATATTAAATATT
1 -TATATTAAATATT
67217 AGCGTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 20 0.65
26 11 0.35
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (25 bp):
TATATTAAATATTTTTTTGGACAAA
Found at i:67612 original size:29 final size:29
Alignment explanation
Indices: 67566--67633 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
67556 GAACATAATG
*
67566 AATAGTCGAGTGACCATTTTGTAACTTTT
1 AATAGTCGAGTAACCATTTTGTAACTTTT
*
67595 AATAGTCGAGTAATCATTTTGTAACTTTT
1 AATAGTCGAGTAACCATTTTGTAACTTTT
67624 AATAGTCGAG
1 AATAGTCGAG
67634 CGACTTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (29 bp):
AATAGTCGAGTAACCATTTTGTAACTTTT
Found at i:71340 original size:34 final size:39
Alignment explanation
Indices: 71304--71377 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
71294 TAATGTTAAA
71304 TTTTGAACGG-G-G-TACTAAAATGAAAC-AAAACTAATT
1 TTTTGAACGGTGAGATACTAAAATGAAACAAAAACTAA-T
* *
71340 TTTTTATCGGTGAGATACTAAAATGAAACAAAAACTAA
1 TTTTGAACGGTGAGATACTAAAATGAAACAAAAACTAA
71378 ACTTTATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 8 0.25
37 1 0.03
38 1 0.03
39 14 0.44
40 8 0.25
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (39 bp):
TTTTGAACGGTGAGATACTAAAATGAAACAAAAACTAAT
Found at i:72185 original size:4 final size:4
Alignment explanation
Indices: 72176--72218 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
72166 CCAGCACCAG
* * *
72176 GTAT GTAT GTAT GTAT ATAT GTAT ATAT GTAT TTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
72219 ATTATATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (4 bp):
GTAT
Found at i:72198 original size:16 final size:16
Alignment explanation
Indices: 72177--72218 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
72167 CAGCACCAGG
72177 TATGTATGTATGTATA
1 TATGTATGTATGTATA
* *
72193 TATGTATATATGTATT
1 TATGTATGTATGTATA
72209 TATGTATGTA
1 TATGTATGTA
72219 ATTATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (16 bp):
TATGTATGTATGTATA
Found at i:78843 original size:31 final size:31
Alignment explanation
Indices: 78794--78853 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
78784 AATACGTCTA
**
78794 ATACCTAAACTATTAATTTT-GATCCGTTTTC
1 ATACCTAAACTAAAAATTTTAG-TCCGTTTTC
*
78825 ATACCTAAATTAAAAATTTTAGTCCGTTT
1 ATACCTAAACTAAAAATTTTAGTCCGTTT
78854 AAATATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (31 bp):
ATACCTAAACTAAAAATTTTAGTCCGTTTTC
Found at i:83018 original size:24 final size:24
Alignment explanation
Indices: 82991--83070 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
82981 AATTATTTTA
82991 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCCGATC-TGAATTCTGT
* *
83015 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCCGATCTGAATTCTGT
* * * *
83039 TCTGATATCTGTTCTGAATTCTAT
1 TCTGATTTCCGATCTGAATTCTGT
*
83063 TTTGATTT
1 TCTGATTT
83071 TTGATATCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 46 0.98
25 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (24 bp):
TCTGATTTCCGATCTGAATTCTGT
Found at i:85942 original size:21 final size:21
Alignment explanation
Indices: 85921--85961 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85911 GTTAAATTTA
85921 AAATATTTT-TTTGAAATATT
1 AAATATTTTCTTTGAAATATT
* *
85941 AATTTTTTTCTTTGAAATATT
1 AAATATTTTCTTTGAAATATT
85962 TTTTTACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
AAATATTTTCTTTGAAATATT
Found at i:94578 original size:22 final size:22
Alignment explanation
Indices: 94552--94599 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
94542 TTTGTATCAT
* *
94552 GTCACATCTCTATTTACGTTAA
1 GTCACATCTCCATTTACATTAA
94574 GTCACATCTCCATTTACATTAA
1 GTCACATCTCCATTTACATTAA
94596 GTCA
1 GTCA
94600 ATGATAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (22 bp):
GTCACATCTCCATTTACATTAA
Found at i:96109 original size:37 final size:37
Alignment explanation
Indices: 96055--96136 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
96045 ACAATGACAT
* * *
96055 AATTAATAACACCATTAACCA-TCTTAATTAATAACTC
1 AATTAATAACACAATTAACCAGT-ATAATTAATAACCC
* * *
96092 AATTAATAACATAATTAACTAGTATAATTAATGACCC
1 AATTAATAACACAATTAACCAGTATAATTAATAACCC
96129 AATTAATA
1 AATTAATA
96137 TTTCAATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (37 bp):
AATTAATAACACAATTAACCAGTATAATTAATAACCC
Found at i:96133 original size:49 final size:49
Alignment explanation
Indices: 96080--96236 Score: 219
Period size: 49 Copynumber: 3.2 Consensus size: 49
96070 TAACCATCTT
* * *
96080 AATTAATAACTCAATTAATAACATAATTAACTAGT-ATAATTAATGACCC
1 AATTAATAATTCAATTACTAACATAATTAACCA-TCATAATTAATGACCC
* *
96129 AATTAATATTTCAATTGCTAACATAATTAACCATCATAATTAATGACCC
1 AATTAATAATTCAATTACTAACATAATTAACCATCATAATTAATGACCC
* *
96178 AATTAAT-ATTCCAATTACTAACCTAATTAACCATCATAATTAATGACCT
1 AATTAATAATT-CAATTACTAACATAATTAACCATCATAATTAATGACCC
96227 AATTAATAAT
1 AATTAATAAT
96237 CACAACTAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
48 3 0.03
49 91 0.95
50 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (49 bp):
AATTAATAATTCAATTACTAACATAATTAACCATCATAATTAATGACCC
Found at i:96205 original size:24 final size:24
Alignment explanation
Indices: 96129--96207 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
96119 TTAATGACCC
* * *
96129 AATTAATATTTCAATTGCTAACAT
1 AATTAATATTCCAATTACTAACCT
* * * * *
96153 AATTAACCA-TCATAATTAATGACCC
1 AATTAA-TATTC-CAATTACTAACCT
96178 AATTAATATTCCAATTACTAACCT
1 AATTAATATTCCAATTACTAACCT
96202 AATTAA
1 AATTAA
96208 CCATCATAAT
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
24 23 0.59
25 16 0.41
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (24 bp):
AATTAATATTCCAATTACTAACCT
Found at i:96246 original size:25 final size:25
Alignment explanation
Indices: 96047--96246 Score: 95
Period size: 25 Copynumber: 8.1 Consensus size: 25
96037 CTAATACCAC
* *
96047 AATGACATAATTAATAA-CACCATT
1 AATGACCTAATTAATAATCACAATT
** * *
96071 AACCATCTTAATTAATAA-CTCAATT
1 AATGA-CCTAATTAATAATCACAATT
* * * *
96096 AATAACATAATTAACTAGT-ATAATT
1 AATGACCTAATTAA-TAATCACAATT
* **
96121 AATGACCCAATTAAT-ATTTCAATT
1 AATGACCTAATTAATAATCACAATT
** * * ** *
96145 GCTAACATAATTAACCATCATAATT
1 AATGACCTAATTAATAATCACAATT
* *
96170 AATGACCCAATTAATATTC-CAATT
1 AATGACCTAATTAATAATCACAATT
* * ** *
96194 ACTAACCTAATTAACCATCATAATT
1 AATGACCTAATTAATAATCACAATT
*
96219 AATGACCTAATTAATAATCACAACT
1 AATGACCTAATTAATAATCACAATT
96244 AAT
1 AAT
96247 ATATATTTAT
Statistics
Matches: 122, Mismatches: 48, Indels: 11
0.67 0.27 0.06
Matches are distributed among these distances:
23 1 0.01
24 42 0.34
25 79 0.65
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (25 bp):
AATGACCTAATTAATAATCACAATT
Found at i:97224 original size:31 final size:32
Alignment explanation
Indices: 97160--97224 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 32
97150 AGCTCACGTT
* **
97160 AATATCGGATCGGTTAGATTTTGGGTTGGGTC
1 AATATCAGATCGGTTAGATTTTGGGTTAAGTC
*
97192 AATATCAGATCGGTT-GATTTTTGGTTAAGTC
1 AATATCAGATCGGTTAGATTTTGGGTTAAGTC
97223 AA
1 AA
97225 CCTTTAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (32 bp):
AATATCAGATCGGTTAGATTTTGGGTTAAGTC
Found at i:97706 original size:20 final size:19
Alignment explanation
Indices: 97683--97738 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
97673 TGTTTTCTAT
97683 TATTTTTATTATAAATATAA
1 TATTTTTATTATAAAT-TAA
*
97703 TATTTTTA--ATAAATTAT
1 TATTTTTATTATAAATTAA
*
97720 TAATTTTATT-TAAATTAA
1 TATTTTTATTATAAATTAA
97738 T
1 T
97739 TTATTATTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 9 0.29
18 14 0.45
20 8 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTTATTATAAATTAA
Found at i:99067 original size:12 final size:12
Alignment explanation
Indices: 99050--99075 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99040 TAGAAAAGCA
99050 TCGTCGTCGTAG
1 TCGTCGTCGTAG
99062 TCGTCGTCGTAG
1 TCGTCGTCGTAG
99074 TC
1 TC
99076 ATCATCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.31, T:0.35
Consensus pattern (12 bp):
TCGTCGTCGTAG
Found at i:105894 original size:21 final size:21
Alignment explanation
Indices: 105870--105910 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
105860 GGTGTTGGTG
105870 TGACAATTC-ACGGTGCTGACA
1 TGACAA-TCAACGGTGCTGACA
*
105891 TGACGATCAACGGTGCTGAC
1 TGACAATCAACGGTGCTGAC
105911 GTATCAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (21 bp):
TGACAATCAACGGTGCTGACA
Found at i:107167 original size:6 final size:6
Alignment explanation
Indices: 107155--107211 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
107145 CATTGTAATG
* * *
107155 ATGTAT CTGTAT CTGTAT TTGTAT -TCGTA- ACTGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT-GTAT A-TGTAT ATGTAT ATGTAT
107203 ATGTAT ATG
1 ATGTAT ATG
107212 CATTCGTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
5 1 0.02
6 42 0.93
7 2 0.04
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:107207 original size:18 final size:17
Alignment explanation
Indices: 107155--107223 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 17
107145 CATTGTAATG
*
107155 ATGTATCTGTATCTGTAT
1 ATGTAT-TGTATATGTAT
*
107173 TTGTATTCGTA-ACTGTAT
1 ATGTATT-GTATA-TGTAT
107191 ATGTATATGTATATGTAT
1 ATGTAT-TGTATATGTAT
*
107209 ATGCATTCGTATATG
1 ATGTATT-GTATATG
107224 CAAATAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.05
18 38 0.90
19 2 0.05
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (17 bp):
ATGTATTGTATATGTAT
Found at i:110366 original size:16 final size:16
Alignment explanation
Indices: 110342--110383 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
110332 TGAACTCAGA
*
110342 TGCCAATGCCACCAAG
1 TGCCCATGCCACCAAG
110358 TGCCCATGCCACCAAG
1 TGCCCATGCCACCAAG
110374 TGCCCATGCC
1 TGCCCATGCC
110384 TTTGATCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.43, G:0.19, T:0.14
Consensus pattern (16 bp):
TGCCCATGCCACCAAG
Found at i:112792 original size:19 final size:18
Alignment explanation
Indices: 112761--112806 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
112751 TGATGATCAA
112761 ATTTAATTTAATTTAA-ATT
1 ATTT-ATTTAATTTAATA-T
112780 ATTTATTTAAATTTAATAT
1 ATTTATTT-AATTTAATAT
112799 ATTTATTT
1 ATTTATTT
112807 TCTACCAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATTTAATTTAATAT
Found at i:113050 original size:11 final size:12
Alignment explanation
Indices: 113034--113063 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
113024 TTTTTATTTT
113034 ATATATTG-AAA
1 ATATATTGAAAA
113045 ATATATTGAAAA
1 ATATATTGAAAA
113057 ATATATT
1 ATATATT
113064 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (12 bp):
ATATATTGAAAA
Found at i:113085 original size:39 final size:37
Alignment explanation
Indices: 112966--113105 Score: 137
Period size: 38 Copynumber: 3.8 Consensus size: 37
112956 ACCCAAGCTA
* * *
112966 ACATTTAAAATATATT-TAAATATA-TTTTATCTTA-
1 ACATTGAAAATATATTAAAAATATATTTTTATTTTAT
* **
113000 ACATT-AACAT-TAAAAATAAATATATTTTTATTTTAT
1 ACATTGAAAATATATTAA-AAATATATTTTTATTTTAT
*
113036 ATATTGAAAATATATTGAAAAATATATTTTTATTTTTAT
1 ACATTGAAAATATATT-AAAAATATATTTTTA-TTTTAT
* *
113075 ACATTTAAAATATATTAAAAACATATTTTTA
1 ACATTGAAAATATATTAAAAATATATTTTTA
113106 ATGTTAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
32 2 0.02
33 4 0.05
34 12 0.14
35 9 0.10
36 4 0.05
37 4 0.05
38 29 0.34
39 22 0.26
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (37 bp):
ACATTGAAAATATATTAAAAATATATTTTTATTTTAT
Found at i:114038 original size:31 final size:33
Alignment explanation
Indices: 113994--114057 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
113984 ATAAAGGGTA
*
113994 AATTACATGTTTAGTATCTAAATTATTAGTTTT
1 AATTACATGTTTAGTACCTAAATTATTAGTTTT
* *
114027 AATT-CAT-TTTAGTACCTAAATTTTTATTTTT
1 AATTACATGTTTAGTACCTAAATTATTAGTTTT
114058 TAAAAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 21 0.75
32 3 0.11
33 4 0.14
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (33 bp):
AATTACATGTTTAGTACCTAAATTATTAGTTTT
Found at i:117596 original size:2 final size:2
Alignment explanation
Indices: 117589--117626 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
117579 TAGTTGTACA
117589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117627 TATGCTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129191 original size:4 final size:4
Alignment explanation
Indices: 129184--129220 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
129174 ACACACACAC
129184 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
129221 CACATGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:135795 original size:2 final size:2
Alignment explanation
Indices: 135790--135814 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
135780 TATAAGTGTG
135790 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
135815 GCGTACATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:135851 original size:17 final size:17
Alignment explanation
Indices: 135826--135860 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
135816 CGTACATACG
*
135826 TGGATAAACGTAAGATT
1 TGGACAAACGTAAGATT
135843 TGGACAAACGTAAGATT
1 TGGACAAACGTAAGATT
135860 T
1 T
135861 TATGTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (17 bp):
TGGACAAACGTAAGATT
Found at i:137022 original size:60 final size:60
Alignment explanation
Indices: 136899--137022 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 60
136889 TGATCCCCGT
* * *
136899 CTATAGAATATTGCTTTATTAAGTTCATCAACTATTAAAAGTTATAAAATAGTCCTCCTA
1 CTATAGAATATTGCTTTATTAAGTTCATCAACTATAAAAAGTTAAAAAATAGTCCACCTA
* * * * *
136959 CTATAGAGTGTTGCTTTGTTGAG-TCACTCAACTATAAAAAGTTAAAAAATGGT-CACCTGA
1 CTATAGAATATTGCTTTATTAAGTTCA-TCAACTATAAAAAGTTAAAAAATAGTCCACCT-A
137019 CTAT
1 CTAT
137023 TCATTATGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 7 0.13
60 47 0.87
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (60 bp):
CTATAGAATATTGCTTTATTAAGTTCATCAACTATAAAAAGTTAAAAAATAGTCCACCTA
Found at i:138086 original size:30 final size:30
Alignment explanation
Indices: 138052--138128 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 30
138042 AAACTTAACA
138052 CGTTTAGTACCTAAACTATCAGTTTTGGTC
1 CGTTTAGTACCTAAACTATCAGTTTTGGTC
138082 CGTTTAGTACCTAAACTATCAGTTTTGGTC
1 CGTTTAGTACCTAAACTATCAGTTTTGGTC
*
138112 CATTTAGTACCTAAACT
1 CGTTTAGTACCTAAACT
138129 TTTAATTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (30 bp):
CGTTTAGTACCTAAACTATCAGTTTTGGTC
Found at i:165116 original size:39 final size:39
Alignment explanation
Indices: 165062--165136 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
165052 CTATGGGGGT
*
165062 AAAACTGAATCGGAAACTTAG-TCAATCTTTAGGACAACC
1 AAAACTCAATCGGAAAC-TAGATCAATCTTTAGGACAACC
*
165101 AAAACTCAATCGGAAACTCGATCAATCTTTAGGACA
1 AAAACTCAATCGGAAACTAGATCAATCTTTAGGACA
165137 TAACCAACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (39 bp):
AAAACTCAATCGGAAACTAGATCAATCTTTAGGACAACC
Found at i:165431 original size:2 final size:2
Alignment explanation
Indices: 165424--165453 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
165414 TCTAAATCGT
165424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165454 ATGCCATGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:170012 original size:2 final size:2
Alignment explanation
Indices: 170005--170064 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
169995 AAACTAAAAG
170005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
170047 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
170065 TAAATTAACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:173163 original size:19 final size:19
Alignment explanation
Indices: 173139--173180 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
173129 ATACTAATTG
173139 TTTTGTAATTTTTATGATT
1 TTTTGTAATTTTTATGATT
*
173158 TTTTGTATTTTTTATGATT
1 TTTTGTAATTTTTATGATT
173177 TTTT
1 TTTT
173181 TAAATTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTGTAATTTTTATGATT
Found at i:177126 original size:15 final size:16
Alignment explanation
Indices: 177108--177140 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
177098 ATGGCAGATC
177108 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
177123 AAAATCCAGAACGGGA
1 AAAATCCAGAACGGGA
177139 AA
1 AA
177141 GAAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.18, G:0.24, T:0.06
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:187710 original size:2 final size:2
Alignment explanation
Indices: 187703--187729 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
187693 TCTTTTTATG
187703 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
187730 GAGCATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:192377 original size:4 final size:4
Alignment explanation
Indices: 192368--192392 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
192358 CATTTTTAAC
192368 CCCT CCCT CCCT CCCT CCCT CCCT C
1 CCCT CCCT CCCT CCCT CCCT CCCT C
192393 TCTCTCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (4 bp):
CCCT
Found at i:193134 original size:8 final size:8
Alignment explanation
Indices: 193121--193614 Score: 988
Period size: 8 Copynumber: 61.8 Consensus size: 8
193111 TTTAGAAAAT
193121 TATGTACG
1 TATGTACG
193129 TATGTACG
1 TATGTACG
193137 TATGTACG
1 TATGTACG
193145 TATGTACG
1 TATGTACG
193153 TATGTACG
1 TATGTACG
193161 TATGTACG
1 TATGTACG
193169 TATGTACG
1 TATGTACG
193177 TATGTACG
1 TATGTACG
193185 TATGTACG
1 TATGTACG
193193 TATGTACG
1 TATGTACG
193201 TATGTACG
1 TATGTACG
193209 TATGTACG
1 TATGTACG
193217 TATGTACG
1 TATGTACG
193225 TATGTACG
1 TATGTACG
193233 TATGTACG
1 TATGTACG
193241 TATGTACG
1 TATGTACG
193249 TATGTACG
1 TATGTACG
193257 TATGTACG
1 TATGTACG
193265 TATGTACG
1 TATGTACG
193273 TATGTACG
1 TATGTACG
193281 TATGTACG
1 TATGTACG
193289 TATGTACG
1 TATGTACG
193297 TATGTACG
1 TATGTACG
193305 TATGTACG
1 TATGTACG
193313 TATGTACG
1 TATGTACG
193321 TATGTACG
1 TATGTACG
193329 TATGTACG
1 TATGTACG
193337 TATGTACG
1 TATGTACG
193345 TATGTACG
1 TATGTACG
193353 TATGTACG
1 TATGTACG
193361 TATGTACG
1 TATGTACG
193369 TATGTACG
1 TATGTACG
193377 TATGTACG
1 TATGTACG
193385 TATGTACG
1 TATGTACG
193393 TATGTACG
1 TATGTACG
193401 TATGTACG
1 TATGTACG
193409 TATGTACG
1 TATGTACG
193417 TATGTACG
1 TATGTACG
193425 TATGTACG
1 TATGTACG
193433 TATGTACG
1 TATGTACG
193441 TATGTACG
1 TATGTACG
193449 TATGTACG
1 TATGTACG
193457 TATGTACG
1 TATGTACG
193465 TATGTACG
1 TATGTACG
193473 TATGTACG
1 TATGTACG
193481 TATGTACG
1 TATGTACG
193489 TATGTACG
1 TATGTACG
193497 TATGTACG
1 TATGTACG
193505 TATGTACG
1 TATGTACG
193513 TATGTACG
1 TATGTACG
193521 TATGTACG
1 TATGTACG
193529 TATGTACG
1 TATGTACG
193537 TATGTACG
1 TATGTACG
193545 TATGTACG
1 TATGTACG
193553 TATGTACG
1 TATGTACG
193561 TATGTACG
1 TATGTACG
193569 TATGTACG
1 TATGTACG
193577 TATGTACG
1 TATGTACG
193585 TATGTACG
1 TATGTACG
193593 TATGTACG
1 TATGTACG
193601 TATGTACG
1 TATGTACG
193609 TATGTA
1 TATGTA
193615 GCTTTACTTG
Statistics
Matches: 486, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 486 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (8 bp):
TATGTACG
Found at i:196398 original size:5 final size:5
Alignment explanation
Indices: 196388--196416 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
196378 AAAACCCAAA
196388 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
196417 TCCCTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:201443 original size:18 final size:18
Alignment explanation
Indices: 201420--201455 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
201410 CCTCGACTAT
201420 ATGATGTTACTCTGTTGA
1 ATGATGTTACTCTGTTGA
201438 ATGATGTTACTCTGTTGA
1 ATGATGTTACTCTGTTGA
201456 GTCCCCTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (18 bp):
ATGATGTTACTCTGTTGA
Found at i:201816 original size:18 final size:18
Alignment explanation
Indices: 201793--201830 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
201783 CATGAGACTC
201793 AATAAAACAGTGTCCCAT
1 AATAAAACAGTGTCCCAT
*
201811 AATAAAACATTGTCCCAT
1 AATAAAACAGTGTCCCAT
201829 AA
1 AA
201831 ACGCGTGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (18 bp):
AATAAAACAGTGTCCCAT
Found at i:206630 original size:45 final size:49
Alignment explanation
Indices: 206556--206654 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 49
206546 TTATTTTCGT
*
206556 TTTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGG-TTTA
1 TTTTTTCGAATAAATGCATGCGAACTAGATATCATGAGGTTAGGATTTA
* *
206604 TTTTTT-GAAT-AA-GCATGCGAATTAGATATCATGAGGTTAGGATTTC
1 TTTTTTCGAATAAATGCATGCGAACTAGATATCATGAGGTTAGGATTTA
206650 TTTTT
1 TTTTT
206655 GTGGATAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
45 27 0.57
46 10 0.21
47 4 0.09
48 6 0.13
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (49 bp):
TTTTTTCGAATAAATGCATGCGAACTAGATATCATGAGGTTAGGATTTA
Found at i:216322 original size:19 final size:18
Alignment explanation
Indices: 216298--216344 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
216288 AAGAAGAAAT
216298 AAAAGAGAAAA-AATGAGAA
1 AAAAGA-AAAATAATG-GAA
216317 AAAAGAAAAATAATGGAA
1 AAAAGAAAAATAATGGAA
216335 AAAACGAAAA
1 AAAA-GAAAA
216345 GAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (18 bp):
AAAAGAAAAATAATGGAA
Found at i:216323 original size:7 final size:7
Alignment explanation
Indices: 216313--216404 Score: 51
Period size: 8 Copynumber: 12.0 Consensus size: 7
216303 AGAAAAAATG
216313 AGAAAAA
1 AGAAAAA
216320 AGAAAAATA
1 AG-AAAA-A
216329 ATGGAAAAA
1 A--GAAAAA
216338 ACGAAAAGA
1 A-GAAAA-A
*
216347 AAAAAAA
1 AGAAAAA
*
216354 AAAAAAGA
1 AGAAAA-A
216362 AGAAAAA
1 AGAAAAA
* *
216369 TG-GAAA
1 AGAAAAA
216375 AGAAAAA
1 AGAAAAA
216382 ATGAAAAA
1 A-GAAAAA
*
216390 TGAAAAA
1 AGAAAAA
216397 GAGAAAAA
1 -AGAAAAA
216405 TTAAAAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
6 4 0.06
7 21 0.31
8 31 0.46
9 6 0.09
10 4 0.06
11 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (7 bp):
AGAAAAA
Found at i:216326 original size:18 final size:17
Alignment explanation
Indices: 216298--216396 Score: 62
Period size: 18 Copynumber: 5.6 Consensus size: 17
216288 AAGAAGAAAT
216298 AAAAGAGAAAAAATGAGAA
1 AAAAGA-AAAAAATG-GAA
216317 AAAAGAAAAATAATGGAA
1 AAAAGAAAAA-AATGGAA
***
216335 AAAACGAAAAGAAAAAAAAAA
1 AAAA-G--AA-AAAAATGGAA
216356 AAAAGAAGAAAAATGG--
1 AAAAGAA-AAAAATGGAA
216372 AAAAG-AAAAAAT-GAA
1 AAAAGAAAAAAATGGAA
*
216387 AAATGAAAAA
1 AAAAGAAAAA
216397 GAGAAAAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
13 1 0.02
14 6 0.09
15 5 0.08
16 9 0.14
18 19 0.29
19 11 0.17
20 1 0.02
21 10 0.15
22 3 0.05
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAAATGGAA
Found at i:216348 original size:31 final size:32
Alignment explanation
Indices: 216288--216404 Score: 93
Period size: 31 Copynumber: 3.7 Consensus size: 32
216278 ATTTTGCTTG
*
216288 AAGAAGAAATAAAAGAGAAAAAATG---AGAAAA
1 AAGAA-AAAT-AAAGAGAAAAAACGAAAAGAAAA
*
216319 AAGAAAAATAATG-GAAAAAACGAAAAGAAAA
1 AAGAAAAATAAAGAGAAAAAACGAAAAGAAAA
**
216350 AA-AAAAA-AAAGAAGAAAAATGGAAAAGAAAA
1 AAGAAAAATAAAG-AGAAAAAACGAAAAGAAAA
*
216381 AATGAAAAATGAAAAAGAGAAAAA
1 AA-GAAAAAT-AAAGAGA-AAAAA
216405 TTAAAAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
28 8 0.12
29 6 0.09
30 9 0.13
31 31 0.45
33 5 0.07
34 3 0.04
35 7 0.10
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (32 bp):
AAGAAAAATAAAGAGAAAAAACGAAAAGAAAA
Found at i:216353 original size:15 final size:15
Alignment explanation
Indices: 216333--216382 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
216323 AAAATAATGG
*
216333 AAAAAACGAAAAGAA
1 AAAAAAAGAAAAGAA
*
216348 AAAAAAAAAAAAGAA
1 AAAAAAAGAAAAGAA
**
216363 GAAAAATGGAAAAGAA
1 -AAAAAAAGAAAAGAA
216379 AAAA
1 AAAA
216383 TGAAAAATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (15 bp):
AAAAAAAGAAAAGAA
Found at i:216388 original size:39 final size:38
Alignment explanation
Indices: 216315--216405 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 38
216305 AAAAAATGAG
216315 AAAAAAGAAAAATAATGGAAAAAACGAAAAGAAAAAAAA
1 AAAAAAGAAAAATAATGGAAAAAAC-AAAAGAAAAAAAA
**
216354 AAAAAAGAAGAAA-AATGGAAAAGAA-AAAATGAAAAATGA
1 AAAAAAGAA-AAATAATGGAAAA-AACAAAA-GAAAAAAAA
*
216393 AAAAGAGAAAAAT
1 AAAAAAGAAAAAT
216406 TAAAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
38 7 0.16
39 33 0.73
40 5 0.11
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (38 bp):
AAAAAAGAAAAATAATGGAAAAAACAAAAGAAAAAAAA
Found at i:216394 original size:15 final size:15
Alignment explanation
Indices: 216364--216412 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
216354 AAAAAAGAAG
*
216364 AAAAATGGAAAA-GA
1 AAAAATGAAAAATGA
216378 AAAAATGAAAAATGA
1 AAAAATGAAAAATGA
*
216393 AAAAGA-GAAAAATTA
1 AAAA-ATGAAAAATGA
216408 AAAAA
1 AAAAA
216413 AATAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.39
15 18 0.58
16 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
AAAAATGAAAAATGA
Found at i:216397 original size:21 final size:21
Alignment explanation
Indices: 216349--216411 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
216339 CGAAAAGAAA
* *
216349 AAAAAAAAAAAGAAGAAAAATG
1 AAAAAGAAAAA-ATGAAAAATG
*
216371 GAAAAGAAAAAATGAAAAATG
1 AAAAAGAAAAAATGAAAAATG
*
216392 AAAAAGAGAAAAATTAAAAA
1 AAAAAGA-AAAAATGAAAAA
216412 AAATAAAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (21 bp):
AAAAAGAAAAAATGAAAAATG
Found at i:217781 original size:55 final size:53
Alignment explanation
Indices: 217727--218090 Score: 394
Period size: 51 Copynumber: 6.9 Consensus size: 53
217717 CAAATTCGTT
217727 TATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
1 TATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
*
217780 --TTGAAGATTGAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
1 TATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
217831 --TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
1 TATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
*
217882 --TTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACAAGTT--
1 TATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
* * * * *
217931 TGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTC-
1 TATTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGA-CAAGTTCG
* * *
217988 -A-TGAAGATTGTTTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTT--
1 TATTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
* * * *
218041 TGTTAAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 TATTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
218091 CCGTTTTATG
Statistics
Matches: 281, Mismatches: 18, Indels: 22
0.88 0.06 0.07
Matches are distributed among these distances:
51 155 0.55
54 8 0.03
55 111 0.40
56 7 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (53 bp):
TATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCG
Found at i:218096 original size:55 final size:55
Alignment explanation
Indices: 217738--218196 Score: 545
Period size: 55 Copynumber: 8.6 Consensus size: 55
217728 ATTGAAGATT
* *
217738 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
*
217789 GAG-TCATATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* *
217840 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* *
217891 GAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACAAGTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* * ** *
217946 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCA-TTTCATGAAGATTGTTT
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGA-CAAGTTTGTTGAAGATTGTTC
* * *
218001 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACACGTTTGTTAAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* **
218056 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGT-TGAAGATTGTTC
* * * * *
218111 GAGTTCTATACTCCCTGAATGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* *
218166 GAG-TCTTATACTCCCTGAACGAATAGGGAGC
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGC
218197 AGACTCGTCA
Statistics
Matches: 371, Mismatches: 26, Indels: 18
0.89 0.06 0.04
Matches are distributed among these distances:
50 1 0.00
51 143 0.39
52 1 0.00
54 6 0.02
55 218 0.59
56 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
Found at i:219590 original size:51 final size:51
Alignment explanation
Indices: 219529--219887 Score: 459
Period size: 51 Copynumber: 6.8 Consensus size: 51
219519 TCGTTTATTA
219529 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
1 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
219580 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
1 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
219631 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
1 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
*
219682 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTG
1 AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
* * * * *
219733 AAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCATTTC-ATG
1 AAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGA-CAAGTTCGTTG
* * * * * * *
219788 AAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACACGTTTGATA
1 AAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
* *
219843 AAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
219888 CCGTTTTATG
Statistics
Matches: 288, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
51 156 0.54
54 5 0.02
55 123 0.43
56 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (51 bp):
AAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTG
Found at i:219777 original size:55 final size:55
Alignment explanation
Indices: 219535--219993 Score: 543
Period size: 55 Copynumber: 8.6 Consensus size: 55
219525 ATTAAAGATT
* *
219535 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* *
219586 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* *
219637 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
*
219688 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* * **
219743 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCA-TTTCATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGA-CAAGTTTGTTGAAGATTGTTC
* * * * *
219798 GAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACACGTTTGATAAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* **
219853 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGT-TGAAGATTGTTC
* * * * * *
219908 GAGTTCTATACTCCCTGAATGAATAAGGAGCAGACACGTTTGCTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
* *
219963 GAG-TCTTATACTCCCTGAACGAATAGGGAGC
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGC
219994 AGACTCGTCA
Statistics
Matches: 375, Mismatches: 24, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
51 150 0.40
54 5 0.01
55 218 0.58
56 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTC
Found at i:243237 original size:5 final size:5
Alignment explanation
Indices: 243227--243252 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
243217 TAGAGAAGAA
243227 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
243253 TGGCATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:243473 original size:31 final size:30
Alignment explanation
Indices: 243430--243492 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
243420 AAATAATGGG
* *
243430 AAAAATAAAAAAATA-TAGTAATAAATAAAT
1 AAAAATAAAAAAAAACTA-AAATAAATAAAT
243460 AAAAACTAAAAAAAAACTAAAATAAATAAAT
1 AAAAA-TAAAAAAAAACTAAAATAAATAAAT
243491 AA
1 AA
243493 CTATAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 22 0.76
32 2 0.07
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (30 bp):
AAAAATAAAAAAAAACTAAAATAAATAAAT
Found at i:245058 original size:41 final size:41
Alignment explanation
Indices: 245013--245135 Score: 228
Period size: 41 Copynumber: 3.0 Consensus size: 41
245003 TAAATAAAAT
* *
245013 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAGTACTATAAAAGTGTGGAG
245054 TAATACTAATATATATATGTAAGTACTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAGTACTATAAAAGTGTGGAG
245095 TAATACTAATATATATATGTAAGTACTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAGTACTATAAAAGTGTGGAG
245136 ACGAAATTAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (41 bp):
TAATACTAATATATATATGTAAGTACTATAAAAGTGTGGAG
Found at i:255981 original size:10 final size:10
Alignment explanation
Indices: 255966--255996 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
255956 TCTTAAGTCG
255966 AAGAAAGAAA
1 AAGAAAGAAA
255976 AAGAAAGAAA
1 AAGAAAGAAA
255986 AA-AAAGAAA
1 AAGAAAGAAA
255995 AA
1 AA
255997 ACATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:256086 original size:24 final size:23
Alignment explanation
Indices: 256050--256105 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
256040 CCCTAAATTG
* * *
256050 AAAAAAAATAAAAGGAAAAGAGA
1 AAAAAAAACAAAAGAAAAAAAGA
256073 AAAAAATAACAAAAGAAAAAAAGA
1 AAAAAA-AACAAAAGAAAAAAAGA
256097 AAAGAAAAA
1 AAA-AAAAA
256106 TAAGGTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 19 0.68
25 3 0.11
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (23 bp):
AAAAAAAACAAAAGAAAAAAAGA
Found at i:259450 original size:24 final size:25
Alignment explanation
Indices: 259423--259475 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
259413 TAATATGTAC
*
259423 TTATATTTTATTATCATTA-T-TTTT
1 TTATATTTTATT-TAATTACTGTTTT
*
259447 TTATTTTTTATTTAATTACTGTTTT
1 TTATATTTTATTTAATTACTGTTTT
259472 TTAT
1 TTAT
259476 TTCTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 12 0.48
25 8 0.32
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (25 bp):
TTATATTTTATTTAATTACTGTTTT
Found at i:260628 original size:2 final size:2
Alignment explanation
Indices: 260621--260653 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
260611 TTTAAATTAA
260621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
260654 AATTAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:270980 original size:64 final size:63
Alignment explanation
Indices: 270864--271004 Score: 178
Period size: 64 Copynumber: 2.2 Consensus size: 63
270854 CAATGTGAAT
* *
270864 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTA
* * * * *
270927 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
270991 GTGCATCGATGCAC
1 GTGCATCGATGCAC
271005 ATGTTAAAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
63 18 0.26
64 50 0.74
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
Found at i:271037 original size:20 final size:22
Alignment explanation
Indices: 270992--271049 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
270982 GCATGGGTAG
270992 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
271016 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
271036 TGCATCGATGCACT
1 TGCATCGATGCACT
271050 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:273112 original size:47 final size:47
Alignment explanation
Indices: 273037--273188 Score: 252
Period size: 47 Copynumber: 3.3 Consensus size: 47
273027 ACATAAATGA
* * *
273037 TGATATGTATGCAATTTTTATATAAAAAGCATATGAGTGAGATGATT
1 TGATATGTATGTAATTGTTATATGAAAAGCATATGAGTGAGATGATT
* *
273084 TGATATGTATGTAATTGTTCTATGAAAAGCATATGAGGGAGATGATT
1 TGATATGTATGTAATTGTTATATGAAAAGCATATGAGTGAGATGATT
273131 TGATATGTATGTAATTGTTATATGAAAAGCATATGAGTGAGATGATT
1 TGATATGTATGTAATTGTTATATGAAAAGCATATGAGTGAGATGATT
273178 TGATATG-ATGT
1 TGATATGTATGT
273189 GTATGATATG
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 4 0.04
47 94 0.96
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (47 bp):
TGATATGTATGTAATTGTTATATGAAAAGCATATGAGTGAGATGATT
Found at i:274858 original size:2 final size:2
Alignment explanation
Indices: 274847--274883 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
274837 GCATCTCGAG
274847 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
274884 TAAAGTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:275359 original size:60 final size:60
Alignment explanation
Indices: 275236--275349 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
275226 GAATAGTCGG
* *
275236 ATGACCATTTTATAACTTTTAATAATCGATAGACTCAATAAAACAACACTCTATTGTCAA
1 ATGACCATTTTATAACTTTTAATAATCGATAGACTCAACAAAACAACACCCTATTGTCAA
* * * * *
275296 ATGACCATTTTATAGCTTTTAATAGTCGATGGACTCAACAAAGCATCACCCTAT
1 ATGACCATTTTATAACTTTTAATAATCGATAGACTCAACAAAACAACACCCTAT
275350 ATTCGAATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (60 bp):
ATGACCATTTTATAACTTTTAATAATCGATAGACTCAACAAAACAACACCCTATTGTCAA
Found at i:290009 original size:24 final size:24
Alignment explanation
Indices: 289981--290037 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
289971 GATGGTGGTG
*
289981 CTATGAAAGCTGAATTCCAAAAAGT
1 CTATGAAAGCTGAAATCCAAAAA-T
* *
290006 -TATGAAAGTTGAAATCCAGAAAT
1 CTATGAAAGCTGAAATCCAAAAAT
290029 CTATGAAAG
1 CTATGAAAG
290038 ATATGGATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (24 bp):
CTATGAAAGCTGAAATCCAAAAAT
Found at i:290105 original size:42 final size:43
Alignment explanation
Indices: 290016--290107 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
290006 TATGAAAGTT
* *
290016 GAAATCCAGAAATCTATGAAAGATATGGATGATACGGAAGCTA
1 GAAATCCAGAAATCTAGGAAAGATATGCATGATACGGAAGCTA
* * * *
290059 -AAATCCAGGAATTTAGGAAAGATATGCATGCTACGGAGGC-A
1 GAAATCCAGAAATCTAGGAAAGATATGCATGATACGGAAGCTA
290100 GAAATCCA
1 GAAATCCA
290108 AAGAATTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (43 bp):
GAAATCCAGAAATCTAGGAAAGATATGCATGATACGGAAGCTA
Found at i:304987 original size:30 final size:30
Alignment explanation
Indices: 304953--305046 Score: 170
Period size: 30 Copynumber: 3.1 Consensus size: 30
304943 TTACAGAAAG
304953 ACACCGTTTAAAGGCGTAGGGAATGATGAA
1 ACACCGTTTAAAGGCGTAGGGAATGATGAA
*
304983 ACACCGTTTAAAAGCGTAGGGAATGATGAA
1 ACACCGTTTAAAGGCGTAGGGAATGATGAA
*
305013 ACACCGTTTAAAGGCGTAGGGAACGATGAA
1 ACACCGTTTAAAGGCGTAGGGAATGATGAA
305043 ACAC
1 ACAC
305047 TGGCTAATGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (30 bp):
ACACCGTTTAAAGGCGTAGGGAATGATGAA
Found at i:309142 original size:24 final size:23
Alignment explanation
Indices: 309107--309151 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
309097 TGAACAAGCT
309107 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
309131 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
309152 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:309258 original size:39 final size:39
Alignment explanation
Indices: 309215--309311 Score: 194
Period size: 39 Copynumber: 2.5 Consensus size: 39
309205 AAGGTTAAAC
309215 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
309254 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
309293 AAGTTCTTCTCATTATGAA
1 AAGTTCTTCTCATTATGAA
309312 ATTTCTCTGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (39 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
Found at i:309262 original size:19 final size:19
Alignment explanation
Indices: 309238--309301 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
309228 TATGAACTTC
309238 TTCTTCCTCTTCAGATAAG
1 TTCTTCCTCTTCAGATAAG
**
309257 TTCTT-CTCATT-ATGA-ACTTC
1 TTCTTCCTC-TTCA-GATA--AG
309277 TTCTTCCTCTTCAGATAAG
1 TTCTTCCTCTTCAGATAAG
309296 TTCTTC
1 TTCTTC
309302 TCATTATGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
18 5 0.15
19 15 0.44
20 9 0.26
21 5 0.15
ACGTcount: A:0.19, C:0.27, G:0.08, T:0.47
Consensus pattern (19 bp):
TTCTTCCTCTTCAGATAAG
Found at i:309262 original size:22 final size:22
Alignment explanation
Indices: 309235--309302 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
309225 CATTATGAAC
309235 TTCTTCTTCCTCTTCAGATAAG
1 TTCTTCTTCCTCTTCAGATAAG
* *
309257 TTCTTC-T-C-ATT---ATGAAC
1 TTCTTCTTCCTCTTCAGAT-AAG
309274 TTCTTCTTCCTCTTCAGATAAG
1 TTCTTCTTCCTCTTCAGATAAG
309296 TTCTTCT
1 TTCTTCT
309303 CATTATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
16 2 0.06
17 8 0.23
18 1 0.03
19 3 0.09
20 3 0.09
21 1 0.03
22 15 0.43
23 2 0.06
ACGTcount: A:0.18, C:0.26, G:0.07, T:0.49
Consensus pattern (22 bp):
TTCTTCTTCCTCTTCAGATAAG
Found at i:309317 original size:151 final size:152
Alignment explanation
Indices: 309106--309425 Score: 518
Period size: 151 Copynumber: 2.1 Consensus size: 152
309096 TTGAACAAGC
* * *
309106 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAAATTTCTCTGG
** *
309171 AAAAGTTAATCCATCAAGTGATGAATTC-GAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
66 AAAAAATAATCCATCAAGTGATGAATTCAG-GCAAAAGGTTAAACAAATTCTTCTCATTATGAAC
309235 TTCTTCTTCCTCTTCAGATAAGT
130 TTCTTCTTCCTCTTCAGATAAGT
309258 TCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAAATTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAAATTTCTCTGG
* * * *
309322 AAAAAATAATTCATCAAGTGATGAATTCAGGGAAAAGGTTGAACAAATTCTTCTCATTATGAATT
66 AAAAAATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTAAACAAATTCTTCTCATTATGAACT
*
309387 TCTTCTTCCTCTTCAGATGAGT
131 TCTTCTTCCTCTTCAGATAAGT
309409 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
309426 CTAACTGGCA
Statistics
Matches: 156, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
151 129 0.83
152 27 0.17
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (152 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAAATTTCTCTGG
AAAAAATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTAAACAAATTCTTCTCATTATGAACT
TCTTCTTCCTCTTCAGATAAGT
Found at i:309701 original size:113 final size:113
Alignment explanation
Indices: 309254--309798 Score: 679
Period size: 112 Copynumber: 4.9 Consensus size: 113
309244 CTCTTCAGAT
* * * *
309254 AAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAAATTTCT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCA
** * * * * * * *
309318 CTGGAAAAAATAATTCATC-AAGTGATGAATTCAGGGAAAAGGTTGAAC
66 CTGGAAATGATGATCCATCGAA-TGATGGATTTAAGCAAAAAGTTGAAC
* * *
309366 AAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCTAA
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCA
* * * * ** *
309430 CTGGCACTGCTGATCCACCGGGTGATGAATTTAAGCAAAAAGTTGAAC
66 CTGGAAATGATGATCCATCGAATGATGGATTTAAGCAAAAAGTTGAAC
* *
309478 AAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAAATGAGTTCTTCTCATTATGAACTCTAA
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCA
* * *
309542 CTGGTAATGATGATCCATCAAATGATGAATTTAAGCAAAAAGTTGAAC
66 CTGGAAATGATGATCCATCGAATGATGGATTTAAGCAAAAAGTTGAAC
* *
309590 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCA
* * *
309655 CTGGAAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAAC
66 CTGGAAATGATGATCCATCGAATGATGGATTTAAGCAAAAAGTTGAAC
* * * *
309703 AAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTC-GA
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCA
* *
309767 CCTGG-AATGTTGATCCATTGAATGATGGATTT
66 -CTGGAAATGATGATCCATCGAATGATGGATTT
309799 GAACTTTGCT
Statistics
Matches: 380, Mismatches: 49, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
111 1 0.00
112 243 0.64
113 136 0.36
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCA
CTGGAAATGATGATCCATCGAATGATGGATTTAAGCAAAAAGTTGAAC
Found at i:310227 original size:22 final size:22
Alignment explanation
Indices: 310202--310254 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
310192 TAAAGCTTTT
*
310202 ATCTTTGAAAAGAGAATCTGTC
1 ATCTTTGAAAAGAGAATCTATC
* *
310224 ATCTTTAAAAAGGGAATCTATC
1 ATCTTTGAAAAGAGAATCTATC
310246 ATCTTTGAA
1 ATCTTTGAA
310255 GAGTATAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAGAATCTATC
Found at i:310680 original size:50 final size:50
Alignment explanation
Indices: 310626--310755 Score: 199
Period size: 50 Copynumber: 2.6 Consensus size: 50
310616 TCACTGGTTC
* * *
310626 GTAAAACGTTTGATAACACATTCATCATTTCCTGTGGCTTCTGTTTGGAT
1 GTAAAACGTTTGACAACATATTCATCATTTCCTGTGGCTTCTGCTTGGAT
* *
310676 GTAAAACATTTGACAACATATTCATCATTCCCTGTGGCTTCTGCTTGGAT
1 GTAAAACGTTTGACAACATATTCATCATTTCCTGTGGCTTCTGCTTGGAT
310726 GTAAAACAG-TTGACAACATATTCATCATTT
1 GTAAAAC-GTTTGACAACATATTCATCATTT
310756 TTCTTGGATT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAAAACGTTTGACAACATATTCATCATTTCCTGTGGCTTCTGCTTGGAT
Found at i:313106 original size:115 final size:114
Alignment explanation
Indices: 312792--313132 Score: 565
Period size: 114 Copynumber: 3.0 Consensus size: 114
312782 GATCATGCAG
* * * * * * *
312792 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
312857 ACACTTCCAGAAGATGCTATTGGGTCTCCTTACTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
312906 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
312971 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
313020 TTCATCTTTAAAATCTAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGG-TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
313085 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
313133 CATGGCACTT
Statistics
Matches: 214, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 127 0.59
115 87 0.41
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:319415 original size:18 final size:18
Alignment explanation
Indices: 319388--319433 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
319378 TAATACCTTC
*
319388 ATAA-ATAAAAAATATTA
1 ATAATATAAAAAATAATA
319405 ATAATAT-AAAAATAATA
1 ATAATATAAAAAATAATA
319422 AGTAATA-AAAAA
1 A-TAATATAAAAA
319434 TTTGAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAATATAAAAAATAATA
Found at i:324039 original size:21 final size:21
Alignment explanation
Indices: 324015--324055 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
324005 AAAATAGAAG
324015 AAAGAAAAATAAAAAAAAATC
1 AAAGAAAAATAAAAAAAAATC
* * *
324036 AAAGAAGATTAAAAAGAAAT
1 AAAGAAAAATAAAAAAAAAT
324056 TTAAAAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAGAAAAATAAAAAAAAATC
Found at i:324063 original size:24 final size:25
Alignment explanation
Indices: 324036--324084 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
324026 AAAAAAAATC
*
324036 AAAGAAGATTAAAAAG-AAATTTAA
1 AAAGAAAATTAAAAAGAAAATTTAA
*
324060 AAAGAAAATTTAAAAGAAAATTTAA
1 AAAGAAAATTAAAAAGAAAATTTAA
324085 TATGGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAGAAAATTAAAAAGAAAATTTAA
Found at i:324068 original size:13 final size:13
Alignment explanation
Indices: 324044--324084 Score: 68
Period size: 12 Copynumber: 3.3 Consensus size: 13
324034 TCAAAGAAGA
324044 TTAAAAAG-AAAT
1 TTAAAAAGAAAAT
324056 TTAAAAAGAAAAT
1 TTAAAAAGAAAAT
324069 TT-AAAAGAAAAT
1 TTAAAAAGAAAAT
324081 TTAA
1 TTAA
324085 TATGGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (13 bp):
TTAAAAAGAAAAT
Found at i:324079 original size:12 final size:12
Alignment explanation
Indices: 324036--324084 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
324026 AAAAAAAATC
* *
324036 AAAGAAGATTAA
1 AAAGAAAATTTA
324048 AAAG-AAATTTAA
1 AAAGAAAATTT-A
324060 AAAGAAAATTTA
1 AAAGAAAATTTA
324072 AAAGAAAATTTA
1 AAAGAAAATTTA
324084 A
1 A
324085 TATGGTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.70
13 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (12 bp):
AAAGAAAATTTA
Found at i:324564 original size:44 final size:45
Alignment explanation
Indices: 324516--324610 Score: 102
Period size: 45 Copynumber: 2.1 Consensus size: 45
324506 ATGTTGTATA
* * *
324516 ACCCGGACCTAACTTAAGGTA-TTGGGAGGTGCCGATGCTATGTG
1 ACCCGGACCTAACCTAAGATACTTGGGAGATGCCGATGCTATGTG
* ** * * *
324560 ACCCGAACCTTGCCTGAGATACTTGGGAGATGCTGATGCTGTGTG
1 ACCCGGACCTAACCTAAGATACTTGGGAGATGCCGATGCTATGTG
324605 ACCCGG
1 ACCCGG
324611 GTCTACCCAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
44 15 0.38
45 25 0.62
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (45 bp):
ACCCGGACCTAACCTAAGATACTTGGGAGATGCCGATGCTATGTG
Found at i:325609 original size:64 final size:64
Alignment explanation
Indices: 325541--325701 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
325531 GAATAAATTT
* * * * *
325541 AACATCCAATGCAATTTATGCATCGATGCACTCTCCATGAATCGATGCACTCAGG-TT-TTAATG
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGAATCGATACACTCAGGCTTATTAA--
325604 A
64 A
* * * *
325605 AACATCGAATGCATTTTATGAATCGATGCACACACCATGCATCGATACACTTAGGCTTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGAATCGATACACTCAGGCTTATTAAA
*
325669 AACTTCGAATGCATTTTATGCATCGATGCACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
325702 TTAGTGCACC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 79 0.94
65 2 0.02
66 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGAATCGATACACTCAGGCTTATTAAA
Found at i:326682 original size:65 final size:63
Alignment explanation
Indices: 326565--326772 Score: 217
Period size: 65 Copynumber: 3.2 Consensus size: 63
326555 TTTCAAAGTG
* * * **
326565 ATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATAAATTG-AACATCGAATGCATTT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTATGG-CTATTTTGAAACATCGAATGCATTT
326629 C
63 C
*
326630 ATGCATCGATGCACATACTATGCATCGATGCACTCA-GAG-T-TTTATGAAAACATCGAATGCAT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACT-ATG-GCTATTT-TG-AAACATCGAATGCAT
*
326692 TTG
61 TTC
* *
326695 ATGCATCGATGTACCAGCCATGCATCGATGCACTATGGCTATTTTGAAACATCGAATGCATTTC
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTATGGCTATTTTGAAACATCGAATGCATTTC
*
326759 ATGCATCGGTGCAC
1 ATGCATCGATGCAC
326773 TCTTAGTGTA
Statistics
Matches: 121, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 48 0.40
65 63 0.52
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTATGGCTATTTTGAAACATCGAATGCATTTC
Found at i:328559 original size:49 final size:49
Alignment explanation
Indices: 328498--328597 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
328488 AATTGAAGAA
328498 GAAGGATCAATCAAAGATTAAGCACAAGGCTCACGTGGCTACATGGACC
1 GAAGGATCAATCAAAGATTAAGCACAAGGCTCACGTGGCTACATGGACC
*
328547 GAAGGGTCAATCAAAGATTAAGCACAAGGCTCACGTGGCTACATGGACC
1 GAAGGATCAATCAAAGATTAAGCACAAGGCTCACGTGGCTACATGGACC
328596 GA
1 GA
328598 TGAAGAAGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.26, T:0.16
Consensus pattern (49 bp):
GAAGGATCAATCAAAGATTAAGCACAAGGCTCACGTGGCTACATGGACC
Found at i:334030 original size:64 final size:64
Alignment explanation
Indices: 333962--334115 Score: 177
Period size: 64 Copynumber: 2.4 Consensus size: 64
333952 TTGAATATCG
* * * *
333962 AATGCAGTTTATGCATCGATGCACTCTCCATGCATCGATGTACTCAGG-TT-TTAATGAAACATC
1 AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGCTTATTAA--AAACATC
334025 A
64 A
* * * * * *
334026 AATGCATTTTATTCATCGATACACACACCATGCATCGATGCACTTAGGCTTATTCAAAACTTCG
1 AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGCTTATTAAAAACATCA
*
334090 AATGTATTTTATGCATCGATGCACAC
1 AATGCATTTTATGCATCGATGCACAC
334116 TTAGTGCACC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 70 0.93
65 2 0.03
66 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (64 bp):
AATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCAGGCTTATTAAAAACATCA
Found at i:336527 original size:31 final size:32
Alignment explanation
Indices: 336492--336553 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
336482 AATAATTACT
*
336492 ATTTTTACATAGTGGTCC-TTAATTTTGATAA
1 ATTTTTACATAGTGGTCCTTTAACTTTGATAA
** *
336523 ATTTTTATTTTGTGGTCCTTTAACTTTGATA
1 ATTTTTACATAGTGGTCCTTTAACTTTGATA
336554 TCCATCACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTTTTACATAGTGGTCCTTTAACTTTGATAA
Found at i:336900 original size:60 final size:58
Alignment explanation
Indices: 336768--336928 Score: 151
Period size: 60 Copynumber: 2.7 Consensus size: 58
336758 CAAACAATGC
* * * *
336768 TATTTTTTGCTTTAAGTACCTAAACTATATTTTGATCAAACTAAGTCCTTAAACTATTA
1 TATTTTTTACTTTAAGTACCTAAACTAT-TTTTGGTCAAAATAAGTCCCTAAACTATTA
** * * * *
336827 TATGTAATCACTTTAAGTACCAAAACTATTTCTTGGTCAAAATAAGTCCCTAAATTATGTC
1 TAT-TTTTTACTTTAAGTACCTAAACTATTT-TTGGTCAAAATAAGTCCCTAAACTAT-TA
* **
336888 TCTTTTTTACTTTAAGCCCCTAAACTATTTTTTTGGTCAAA
1 TATTTTTTACTTTAAGTACCTAAACTA--TTTTTGGTCAAA
336929 CAAGTACATA
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
59 5 0.06
60 60 0.75
61 12 0.15
62 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.42
Consensus pattern (58 bp):
TATTTTTTACTTTAAGTACCTAAACTATTTTTGGTCAAAATAAGTCCCTAAACTATTA
Found at i:339651 original size:10 final size:10
Alignment explanation
Indices: 339636--339675 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
339626 TTTTATGTTC
339636 GTTCGTTTAT
1 GTTCGTTTAT
*
339646 GTTCGTTTAC
1 GTTCGTTTAT
*
339656 GTTCGTATAT
1 GTTCGTTTAT
*
339666 ATTCGTTTAT
1 GTTCGTTTAT
339676 CATTTTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.55
Consensus pattern (10 bp):
GTTCGTTTAT
Done.