Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001702.1 Hibiscus syriacus cultivar Beakdansim tig00003411_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: 113141
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:195 original size:12 final size:12
Alignment explanation
Indices: 178--202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
168 ATAATATTAG
178 TGAATAAAAATA
1 TGAATAAAAATA
190 TGAATAAAAATA
1 TGAATAAAAATA
202 T
1 T
203 ATGAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (12 bp):
TGAATAAAAATA
Found at i:206 original size:14 final size:13
Alignment explanation
Indices: 178--217 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
168 ATAATATTAG
178 TGAAT-AAAAATA
1 TGAATAAAAAATA
190 TGAATAAAAATATA
1 TGAATAAAAA-ATA
204 TGAATAAATAAATA
1 TGAATAAA-AAATA
218 AAAAAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 4 0.16
14 14 0.56
15 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
TGAATAAAAAATA
Found at i:14097 original size:34 final size:34
Alignment explanation
Indices: 14052--14118 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
14042 AATAGGAATT
*
14052 ACAACTTCTCTC-GATCTAACAAAGAGAAAACAATA
1 ACAACTTCTCTCTGA--TAAAAAAGAGAAAACAATA
14087 ACAA-TTCTCTCTTGATAAAAAAGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAAGAGAAAACAA
14119 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAAGAGAAAACAATA
Found at i:15293 original size:60 final size:60
Alignment explanation
Indices: 15200--15337 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 60
15190 TTGAATGATA
* * * *
15200 ATTTTGTAACTTTTAATAGTCAAAGAATTCAACAAAACAATATCCTATATTCGAAAAATT
1 ATTTTGTAACTTTTAATAGTCAAAGAACTCAACAAAACAATATCATATATTCAAAAAACT
* ** * * *
15260 ATTTTGTAACTTTTAATAGTTAGGGGACTCAACAAAACAATGTTATATATTCAAAAAACT
1 ATTTTGTAACTTTTAATAGTCAAAGAACTCAACAAAACAATATCATATATTCAAAAAACT
*
15320 ATTTTGTAACTTTCAATA
1 ATTTTGTAACTTTTAATA
15338 ATCGAGGACT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTCAAAGAACTCAACAAAACAATATCATATATTCAAAAAACT
Found at i:15357 original size:59 final size:59
Alignment explanation
Indices: 15200--15357 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 59
15190 TTGAATGATA
* * * * * * *
15200 ATTTTGTAACTTTTAATAGTCAAAGAATTCAACAAAACAATATCCTATATTCGAAAAATT
1 ATTTTGTAACTTTTAATAATC-GAGGACTCAACAAAACAATATCATATATTCAAAAAACT
* * * * *
15260 ATTTTGTAACTTTTAATAGTTAGGGGACTCAACAAAACAATGTTATATATTCAAAAAACT
1 ATTTTGTAACTTTTAATA-ATCGAGGACTCAACAAAACAATATCATATATTCAAAAAACT
* *
15320 ATTTTGTAACTTTCAATAATCGAGGACTCAATAAAACA
1 ATTTTGTAACTTTTAATAATCGAGGACTCAACAAAACA
15358 TCATCTTATA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
59 16 0.20
60 64 0.79
61 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAATCGAGGACTCAACAAAACAATATCATATATTCAAAAAACT
Found at i:22923 original size:29 final size:29
Alignment explanation
Indices: 22891--22960 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
22881 AATTATTTGA
*
22891 AATATTTTTTATTAT-TATTTTAAATTTTT
1 AATATTTTTTATTATGT-GTTTAAATTTTT
* **
22920 AATATTTATTATTATGTGTTTATTTTTTT
1 AATATTTTTTATTATGTGTTTAAATTTTT
22949 AATATTTTTTAT
1 AATATTTTTTAT
22961 AAGGGTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 34 0.97
30 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (29 bp):
AATATTTTTTATTATGTGTTTAAATTTTT
Found at i:22971 original size:28 final size:29
Alignment explanation
Indices: 22915--22988 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
22905 TTATTTTAAA
* * * *
22915 TTTTTAATATTTATTATTATGTGTTTATT
1 TTTTTAATATTTTTTATTAAGGGTCTATT
22944 TTTTTAATATTTTTTA-TAAGGGTCTATT
1 TTTTTAATATTTTTTATTAAGGGTCTATT
22972 TTTTTAATTTATTTTTT
1 TTTTTAA--TATTTTTT
22989 GTAATATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 16 0.41
29 15 0.38
30 8 0.21
ACGTcount: A:0.23, C:0.01, G:0.07, T:0.69
Consensus pattern (29 bp):
TTTTTAATATTTTTTATTAAGGGTCTATT
Found at i:23019 original size:26 final size:26
Alignment explanation
Indices: 22983--23034 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
22973 TTTTAATTTA
*
22983 TTTTTTGTAATATTTATATAAATATT
1 TTTTTTATAATATTTATATAAATATT
* *
23009 TTTTTTATAATATTTGTATAAGTATT
1 TTTTTTATAATATTTATATAAATATT
23035 CAATATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (26 bp):
TTTTTTATAATATTTATATAAATATT
Found at i:23130 original size:29 final size:29
Alignment explanation
Indices: 23052--23130 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
23042 TTGTCAATAT
23052 TTTTTTCCAATATTTGTTATTAAAGGCCTAA
1 TTTTTT-CAATATTTGTTA-TAAAGGCCTAA
* * * * *
23083 TTTTTTTAATACTTATTATCATGGTCC-AA
1 TTTTTTCAATATTTGTTATAAAGG-CCTAA
23112 TTTTTTCAATATTTGTTAT
1 TTTTTTCAATATTTGTTAT
23131 TAGGGATATG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 22 0.56
30 11 0.28
31 6 0.15
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.54
Consensus pattern (29 bp):
TTTTTTCAATATTTGTTATAAAGGCCTAA
Found at i:30840 original size:42 final size:42
Alignment explanation
Indices: 30794--30880 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
30784 AAAATTTTAT
* * *
30794 CCGACCCGATCCGAGTTAATTTTTTATTTAAT-AAAAATCGAC
1 CCGACCAGATCC-AATTAATTTTTTATTTAATAAAAAACCGAC
* * * *
30836 CCGACTATATCCAATTTATTTTTTATTTACTAAAAAACCGAC
1 CCGACCAGATCCAATTAATTTTTTATTTAATAAAAAACCGAC
30878 CCG
1 CCG
30881 GCAATAAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
41 16 0.43
42 21 0.57
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.34
Consensus pattern (42 bp):
CCGACCAGATCCAATTAATTTTTTATTTAATAAAAAACCGAC
Found at i:30893 original size:42 final size:41
Alignment explanation
Indices: 30812--30894 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
30802 ATCCGAGTTA
* * **
30812 ATTTTTTATTTAATAAAAATCGACCCGACTATATCCAATTT
1 ATTTTTTATTTAATAAAAACCGACCCGACAATAAACAATTT
* *
30853 ATTTTTTATTTACTAAAAAACCGACCCGGCAATAAACAATTT
1 ATTTTTTATTTAAT-AAAAACCGACCCGACAATAAACAATTT
30895 CTCGTGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (41 bp):
ATTTTTTATTTAATAAAAACCGACCCGACAATAAACAATTT
Found at i:35379 original size:24 final size:23
Alignment explanation
Indices: 35324--35382 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
35314 TAGTGTAATA
* *
35324 AAAATAATTCTTTAAAATTTATAT
1 AAAATAATT-TTTAAAAATTAAAT
35348 AAATATAATTTTTAAAAATTAAAT
1 AAA-ATAATTTTTAAAAATTAAAT
*
35372 CATAATAATTT
1 -AAAATAATTT
35383 AATAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATAATTTTTAAAAATTAAAT
Found at i:36332 original size:20 final size:20
Alignment explanation
Indices: 36307--36399 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
36297 TTTTCCCAAT
*
36307 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
36327 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAG-AAAA
*
36348 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
36368 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
36389 TCGCAATGCGA
1 TCGCAATGCGA
36400 TATTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:36352 original size:41 final size:41
Alignment explanation
Indices: 36307--36399 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
36297 TTTTCCCAAT
36307 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
*
36348 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
36389 TCGCAATGCGA
1 TCGCAATGCGA
36400 TATTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
Found at i:36430 original size:41 final size:41
Alignment explanation
Indices: 36385--36522 Score: 133
Period size: 41 Copynumber: 3.4 Consensus size: 41
36375 GCGAATTGGG
* *
36385 AAAATCGCAATGCGATATTGACTATT-GCAATGCGATAATAC
1 AAAATCGCAACGCGATATTGACT-TTCGCAACGCGATAATAC
* *
36426 AAAATCGCAACGAGATACTT-ACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATA-TTGACTTTCGCAACGCGATAAT-AC
**
36468 --TTTCGCAACGCGAT-TCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATAT-TGACTTTCGCAACGCGATAATAC
* *
36507 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
36523 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 31 0.39
41 40 0.51
42 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATATTGACTTTCGCAACGCGATAATAC
Found at i:36455 original size:20 final size:20
Alignment explanation
Indices: 36430--36502 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
36420 TAATACAAAA
* *
36430 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
36450 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
36470 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
36490 TCGCAACGCGATA
1 TCGCAACGCGATA
36503 ATACATAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:36718 original size:22 final size:22
Alignment explanation
Indices: 36690--36733 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36680 CACTCTCTCA
36690 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
36712 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
36734 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:37021 original size:20 final size:20
Alignment explanation
Indices: 36977--37040 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
36967 GCGATTTTAG
36977 TTTCGCGTTGCGATAGTCGA-
1 TTTCGCGTTGCGATAGTC-AT
*
36997 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
37017 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
37037 TTTC
1 TTTC
37041 AGAAACTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 1 0.03
20 37 0.97
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:38383 original size:18 final size:18
Alignment explanation
Indices: 38362--38406 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
38352 TCCACTTCGG
*
38362 GAGCCATCACATCGCCCA
1 GAGCCATCACATCACCCA
* *
38380 GAGCTATCACCTCACCCA
1 GAGCCATCACATCACCCA
38398 GAGCCATCA
1 GAGCCATCA
38407 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.42, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACATCACCCA
Found at i:38941 original size:19 final size:20
Alignment explanation
Indices: 38887--38932 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
38877 TAGTTTACTT
* *
38887 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
38907 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
38927 TCGCAA
1 TCGCAA
38933 TGTGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:39002 original size:32 final size:33
Alignment explanation
Indices: 38927--38995 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
38917 GAAATGGCTA
*
38927 TCGCAATGTGAAATGAAAATCGCAACGACAATT
1 TCGCAATGCGAAATGAAAATCGCAACGACAATT
38960 TCGCAATGCGAAATG-AAATCGCAACGACAATT
1 TCGCAATGCGAAATGAAAATCGCAACGACAATT
38992 TCGC
1 TCGC
38996 GTTGCGATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 21 0.60
33 14 0.40
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGACAATT
Found at i:40892 original size:14 final size:14
Alignment explanation
Indices: 40873--40908 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
40863 ATTGTTTAAT
40873 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
40887 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
40901 TGATTTGT
1 TGATTTGT
40909 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:41047 original size:19 final size:19
Alignment explanation
Indices: 41025--41092 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
41015 ATCGCAACGA
41025 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
41044 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
41063 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
41077 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
41093 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:41136 original size:20 final size:20
Alignment explanation
Indices: 41111--41168 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
41101 TCGCATTGCG
*
41111 ATTTTCTCGTTGCGATAGCC
1 ATTTTCACGTTGCGATAGCC
* *
41131 ATTTTCGCGTTCCGATAGCC
1 ATTTTCACGTTGCGATAGCC
41151 ATTTTCACGTTGCGATAG
1 ATTTTCACGTTGCGATAG
41169 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTTCACGTTGCGATAGCC
Found at i:42252 original size:24 final size:24
Alignment explanation
Indices: 42225--42278 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
42215 GTATTCGAAA
* *
42225 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
42249 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
42273 TTTGAT
1 TTTGAT
42279 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:42470 original size:12 final size:12
Alignment explanation
Indices: 42453--42477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42443 ATATAATCCT
42453 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42465 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42477 G
1 G
42478 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:44786 original size:19 final size:19
Alignment explanation
Indices: 44764--44894 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
44754 GGAAATTACT
44764 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44783 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
44797 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
44816 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
44830 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
44849 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
44863 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44882 ATCGCAACGCGAA
1 ATCGCAATGCGAA
44895 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:44806 original size:33 final size:33
Alignment explanation
Indices: 44764--44890 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
44754 GGAAATTACT
44764 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
44797 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
44829 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
44863 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
44891 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:44871 original size:66 final size:66
Alignment explanation
Indices: 44765--44897 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
44755 GAAATTACTA
*
44765 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
44830 T
66 T
*
44831 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
44896 T
66 T
44897 T
1 T
44898 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:44912 original size:19 final size:20
Alignment explanation
Indices: 44890--44928 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44880 AAATCGCAAC
44890 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
44909 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
44929 ACGATTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.46
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:45092 original size:14 final size:14
Alignment explanation
Indices: 45073--45109 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
45063 CATCAATTAA
45073 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
45087 ACAAATCACCTTTT
1 ACAAATCAACTTTT
45101 ACAAATCAA
1 ACAAATCAA
45110 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:46552 original size:42 final size:42
Alignment explanation
Indices: 46506--46585 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
46496 CGATGACAGT
* *
46506 GGCCTCTTAAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
46548 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGA
46586 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTAAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:48638 original size:20 final size:19
Alignment explanation
Indices: 48593--48651 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
48583 TCTTTTGGTT
48593 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
48612 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
48633 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
48652 TAGAATCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:48711 original size:47 final size:48
Alignment explanation
Indices: 48618--48711 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 48
48608 ACGAGATAAT
* * *
48618 GAGAATCGCAACGCGGAAATGACTATCGCAACGATAGAATCACAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCACAACGA
* *
48666 GAGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCACAACG
48712 CGAAATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 27 0.66
48 14 0.34
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.12
Consensus pattern (48 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCACAACGA
Found at i:48728 original size:19 final size:19
Alignment explanation
Indices: 48702--48810 Score: 173
Period size: 19 Copynumber: 5.7 Consensus size: 19
48692 GCGACCAGAC
48702 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
48721 AATTGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
48741 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
48760 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
48779 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
48798 AATCGCAATGCGA
1 AATCGCAACGCGA
48811 TTTTTGTTTC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
19 66 0.80
20 17 0.20
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:48842 original size:19 final size:19
Alignment explanation
Indices: 48806--48850 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
48796 AAAATCGCAA
*
48806 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
48825 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
48844 TGCGATT
1 TGCGATT
48851 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.07, C:0.16, G:0.24, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:49428 original size:20 final size:20
Alignment explanation
Indices: 49403--49455 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
49393 GCGCTATGTA
*
49403 AATCGCGTTGTGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
49423 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
49443 TATCTCGTTGCGA
1 AATCGCGTTGCGA
49456 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:49489 original size:20 final size:20
Alignment explanation
Indices: 49464--49517 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
49454 GATTTTGTAT
49464 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
49484 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
49504 TATCGCATTGCGAT
1 TATCGCATTGCGAT
49518 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:49536 original size:61 final size:61
Alignment explanation
Indices: 49404--49538 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
49394 CGCTATGTAA
* * * * * * ** *
49404 ATCGCGTTGTGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
49465 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
49527 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
49539 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:49628 original size:21 final size:21
Alignment explanation
Indices: 49588--49628 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49578 ACTGTATACC
**
49588 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
49609 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
49629 GCGAATTTGC
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:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:53687 original size:15 final size:15
Alignment explanation
Indices: 53655--53689 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
53645 TCATCTCTAA
53655 ATTTTTAATTACATT
1 ATTTTTAATTACATT
53670 ATTTTGTAATTACA-T
1 ATTTT-TAATTACATT
53685 ATTTT
1 ATTTT
53690 ATTCTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (15 bp):
ATTTTTAATTACATT
Found at i:54055 original size:21 final size:21
Alignment explanation
Indices: 54025--54252 Score: 129
Period size: 21 Copynumber: 11.0 Consensus size: 21
54015 GATTTACATA
* *
54025 TTCGCATTGCTATAATCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
54046 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCATTGCGA--TAGTCCAAG
*
54069 TT--CATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
54088 TTCGCGTTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTCCAAG
* *
54109 TTCGCATTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
54132 TTCG--TTGCGATAGATTCCAAG
1 TTCGCATTGCGATAG--TCCAAG
*
54153 TTCG--TTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCCAAG
* * * *
54172 TTCGCGTTGCGATTTATTTCAAA
1 TTCGCATTGCGA--TAGTCCAAG
*
54195 TTCG--TTGCGGTAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
54214 TTCG--TTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TAGTCCAAG
54235 TTCG--TTGCGATAGTCCAA
1 TTCGCATTGCGATAGTCCAA
54253 AATTGCAACG
Statistics
Matches: 166, Mismatches: 27, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
19 42 0.25
21 95 0.57
23 29 0.17
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:54089 original size:42 final size:42
Alignment explanation
Indices: 54029--54252 Score: 217
Period size: 42 Copynumber: 5.4 Consensus size: 42
54019 TACATATTCG
* *
54029 CATTGCTATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
* * *
54071 CATTGCGATAGTCGAAGTTCGCGTTGCGA--TAGTCTAAGTT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
* * **
54111 CGCATTGCGATTTATTCCAAATT--CGTTGCGATAGATTCCAAGTT
1 --CATTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
* * * *
54155 CGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTTCAAATT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
* * *
54197 CGTTGCGGTAGTCCAAGTT--CGTTGCGATTTATTCCAAATT
1 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
*
54237 CGTTGCGATAGTCCAA
1 CATTGCGATAGTCCAA
54253 AATTGCAACG
Statistics
Matches: 151, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
40 52 0.34
42 83 0.55
44 16 0.11
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (42 bp):
CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
Found at i:54112 original size:63 final size:61
Alignment explanation
Indices: 54043--54224 Score: 265
Period size: 63 Copynumber: 2.9 Consensus size: 61
54033 GCTATAATCC
* * * *
54043 AAGTTCGCGTTGCGATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCT
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGATAGTCA
*
54106 AAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGATTCCAAGTTCGTTGCGATAGTCA
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG--TCCAAGTTCGTTGCGATAGTCA
* *
54169 AAGTTCGCGTTGCGATTTATTTCAAATTCGTTGCGGTAGTCCAAGTTCGTTGCGAT
1 AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGAT
54225 TTATTCCAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
61 17 0.16
63 85 0.78
65 7 0.06
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (61 bp):
AAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGATAGTCA
Found at i:54370 original size:5 final size:6
Alignment explanation
Indices: 54338--54374 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
54328 GACACGTATT
54338 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
54375 TGAGACGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:55466 original size:23 final size:23
Alignment explanation
Indices: 55440--55500 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
55430 CTCATATAAA
*
55440 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
55463 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
55486 TGCATCGTAGTGCCA
1 TGCACCGTAGTGCCA
55501 TATAATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:55687 original size:103 final size:103
Alignment explanation
Indices: 55516--55836 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
55506 TAATGTCCAT
* * *
55516 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
55581 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
55619 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
55684 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
55722 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
55787 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
55825 AAGGACAACATA
1 AAGGACCACATA
55837 GACCCTCGAA
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 214 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:57042 original size:21 final size:21
Alignment explanation
Indices: 57016--57059 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
57006 ATTTTATTCG
*
57016 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTATCGATTCCC
*
57037 CTTGAATGGGTATCGATTCCC
1 CTTGAAGGGGTATCGATTCCC
57058 CT
1 CT
57060 AGCCCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
CTTGAAGGGGTATCGATTCCC
Found at i:60819 original size:23 final size:23
Alignment explanation
Indices: 60793--60844 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
60783 CTCATATAAA
*
60793 TGCACTAAAGTGCCACATAGAAT
1 TGCACCAAAGTGCCACATAGAAT
** * *
60816 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCAAAGTGCCACATAGAAT
60839 TGCACC
1 TGCACC
60845 GTAGTGCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (23 bp):
TGCACCAAAGTGCCACATAGAAT
Found at i:60845 original size:23 final size:23
Alignment explanation
Indices: 60801--60851 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
60791 AATGCACTAA
60801 AGTGCCACATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
* *
60824 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
60847 AGTGC
1 AGTGC
60852 TATATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.22
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCGT
Found at i:61040 original size:103 final size:103
Alignment explanation
Indices: 60869--61086 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
60859 TAATGTCCAT
* * *
60869 AAGGACCACGTATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
60934 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
60972 AAGGACCACATATCATTCCTTAAGAATCATATACGTATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
61037 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
61075 AAGGACAACATA
1 AAGGACCACATA
61087 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:62289 original size:21 final size:21
Alignment explanation
Indices: 62263--62306 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
62253 ATTTTATTCG
*
62263 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTATCGATTCCC
*
62284 CTTGAATGGGTATCGATTCCC
1 CTTGAAGGGGTATCGATTCCC
62305 CT
1 CT
62307 AGCCCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (21 bp):
CTTGAAGGGGTATCGATTCCC
Found at i:66070 original size:23 final size:23
Alignment explanation
Indices: 66052--66104 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
66042 AATGCACTGA
66052 AGTGCCACATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
** *
66075 AGTGCTGCGTAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
66098 AGTGCCA
1 AGTGCCA
66105 TATAATAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCGT
Found at i:66299 original size:103 final size:103
Alignment explanation
Indices: 66120--66337 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
66110 TAATGTCCAT
* * *
66120 AAGGACCACGTATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
66185 GACTTCACACATGTTCCAAAGAATACATATATCTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATCTCCCG
*
66223 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
66288 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATCTCCCG
*
66326 AAGGACAACATA
1 AAGGACCACATA
66338 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATCTCCCG
Found at i:68395 original size:6 final size:6
Alignment explanation
Indices: 68379--68416 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
68369 TCTCGTCTCG
*
68379 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCAT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
68417 AATACGTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.03, C:0.16, G:0.50, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:68529 original size:19 final size:19
Alignment explanation
Indices: 68505--68603 Score: 63
Period size: 21 Copynumber: 4.8 Consensus size: 19
68495 TCGTTGCGAT
*
68505 TTTGGACTATCACAACGAA
1 TTTGGACTATCGCAACGAA
*
68524 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
* *
68547 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
* *
68566 TTTGGAATAAATCGTAATGCGAA
1 TTTGGACT--ATCGCAA--CGAA
*
68589 CTTGGACTATCGCAA
1 TTTGGACTATCGCAA
68604 TACGAATATG
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
19 16 0.27
21 25 0.42
23 19 0.32
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:68568 original size:42 final size:42
Alignment explanation
Indices: 68509--68603 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
68499 TGCGATTTTG
*
68509 GACTATCACAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
68551 GACTATCGCAACGAATTTGGAATAAATCGTAATGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
68593 GACTATCGCAA
1 GACTATCGCAA
68604 TACGAATATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:68579 original size:21 final size:21
Alignment explanation
Indices: 68517--68579 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
68507 TGGACTATCA
68517 CAACGAATTTGGAATAAATCG
1 CAACGAATTTGGAATAAATCG
* * *
68538 CAACGCGAACTTCGACT--ATCG
1 CAA--CGAATTTGGAATAAATCG
68559 CAACGAATTTGGAATAAATCG
1 CAACGAATTTGGAATAAATCG
68580 TAATGCGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 9 0.28
21 14 0.44
23 9 0.28
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (21 bp):
CAACGAATTTGGAATAAATCG
Found at i:68588 original size:23 final size:22
Alignment explanation
Indices: 68520--68594 Score: 66
Period size: 23 Copynumber: 3.5 Consensus size: 22
68510 ACTATCACAA
*
68520 CGAATTTGGAATAAATCGCAACG
1 CGAACTTGGAATAAATCGCAA-G
* *
68543 CGAACTTCGACT--ATCGCAA-
1 CGAACTTGGAATAAATCGCAAG
* *
68562 CGAATTTGGAATAAATCGTAATG
1 CGAACTTGGAATAAATCGCAA-G
68585 CGAACTTGGA
1 CGAACTTGGA
68595 CTATCGCAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 9 0.22
21 13 0.32
23 18 0.45
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
CGAACTTGGAATAAATCGCAAG
Found at i:68671 original size:21 final size:21
Alignment explanation
Indices: 68647--68694 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
68637 TTTGGAATAA
68647 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
68668 ATCGCAATGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
68689 ATCGCA
1 ATCGCA
68695 TTGTGAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:68755 original size:21 final size:21
Alignment explanation
Indices: 68726--68779 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
68716 GATTTACATA
*
68726 TTCGTATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
68747 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
68768 TTCACGTTGCGA
1 TTCGCATTGCGA
68780 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:73308 original size:16 final size:16
Alignment explanation
Indices: 73287--73317 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
73277 ATAAATAAAT
73287 GAACATAAACGAACAC
1 GAACATAAACGAACAC
73303 GAACATAAACGAACA
1 GAACATAAACGAACA
73318 AAATTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:73467 original size:16 final size:16
Alignment explanation
Indices: 73387--73464 Score: 111
Period size: 16 Copynumber: 4.9 Consensus size: 16
73377 TAATAAATAA
*
73387 ACGAACATAAACGCGC
1 ACGAACATAAACGAGC
*
73403 ACGAACATAAACGCGC
1 ACGAACATAAACGAGC
73419 ACGAACATAAACGAGC
1 ACGAACATAAACGAGC
* * *
73435 ACGAAGATAAATGAAC
1 ACGAACATAAACGAGC
73451 ACGAACATAAACGA
1 ACGAACATAAACGA
73465 ACATAAACGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 56 1.00
ACGTcount: A:0.50, C:0.24, G:0.18, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAGC
Found at i:73712 original size:11 final size:11
Alignment explanation
Indices: 73696--73724 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
73686 TCGAGACTCG
73696 AGCTCGATTCA
1 AGCTCGATTCA
73707 AGCTCGATTCA
1 AGCTCGATTCA
73718 AGCTCGA
1 AGCTCGA
73725 CATTGCCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:76254 original size:2 final size:2
Alignment explanation
Indices: 76247--76294 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
76237 TGATTGCATA
76247 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
*
76289 TT AT AT
1 AT AT AT
76295 GATTTGGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:76826 original size:23 final size:23
Alignment explanation
Indices: 76800--76844 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
76790 GACATTATAT
*
76800 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTATACGC
*
76823 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTATACG
76845 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCATTTATACGC
Found at i:77767 original size:14 final size:14
Alignment explanation
Indices: 77750--77805 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
77740 AATGAACATA
77750 AACGAACATAACCG
1 AACGAACATAACCG
*
77764 AACGAATAT-A---
1 AACGAACATAACCG
* *
77774 AATGAACATAACTG
1 AACGAACATAACCG
77788 AACGAACATAACCG
1 AACGAACATAACCG
77802 AACG
1 AACG
77806 TTCATGAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
10 7 0.21
11 1 0.03
13 1 0.03
14 24 0.73
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.12
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:77774 original size:24 final size:24
Alignment explanation
Indices: 77743--77804 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
77733 ATAAATGAAT
77743 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
* * *
77767 GAATATAAATGAACATAACTGAAC
1 GAACATAAACGAACATAACCGAAC
*
77791 GAACATAACCGAAC
1 GAACATAAACGAAC
77805 GTTCATGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.21, G:0.13, T:0.13
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:79325 original size:5 final size:5
Alignment explanation
Indices: 79308--79340 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
79298 AAAGAAGGTA
*
79308 ATTTT ATTCT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
79341 ATTAATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:82280 original size:36 final size:38
Alignment explanation
Indices: 82239--82312 Score: 125
Period size: 36 Copynumber: 2.0 Consensus size: 38
82229 AACCGAAATC
*
82239 TCACTATTTGCTAAAGAAAACTT-AAA-AGAATTAGTT
1 TCACTATTTACTAAAGAAAACTTAAAAGAGAATTAGTT
82275 TCACTATTTACTAAAGAAAACTTAAAAGAGAATTAGTT
1 TCACTATTTACTAAAGAAAACTTAAAAGAGAATTAGTT
82313 CTCTCCTAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 22 0.63
37 3 0.09
38 10 0.29
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (38 bp):
TCACTATTTACTAAAGAAAACTTAAAAGAGAATTAGTT
Found at i:85151 original size:46 final size:45
Alignment explanation
Indices: 85053--85155 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
85043 GTGCACTAAG
* * * *
85053 AGTGCATTGATGCATCAAGTGCATTCGATGTTTCAAAATAGCTAG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATACCTAC
85098 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCT-C
1 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATA-CCTAC
85144 AGTGCATCGATG
1 AGTGCATCGATG
85156 AATGGTATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 28 0.55
46 18 0.35
47 5 0.10
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (45 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATACCTAC
Found at i:93743 original size:17 final size:18
Alignment explanation
Indices: 93721--93756 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93711 GTGCACTAAG
93721 AGTGCA-TCGATGCTTCA
1 AGTGCATTCGATGCTTCA
*
93738 AGTGCATTCGATGTTTCA
1 AGTGCATTCGATGCTTCA
93756 A
1 A
93757 AATAGCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (18 bp):
AGTGCATTCGATGCTTCA
Found at i:93819 original size:46 final size:45
Alignment explanation
Indices: 93716--93826 Score: 136
Period size: 45 Copynumber: 2.4 Consensus size: 45
93706 CATCGGTGCA
* * *
93716 CTAAGAGTGCATCGATGCTTCAAGTGCATTCGATGTTTCAAAATAG
1 CTAA-AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAC
93762 CTAAAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATC
1 CTAAAGTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATA-C
*
93809 CT-TAGTGCATCGATGCAT
1 CTAAAGTGCATCGATGCAT
93827 GGTATGTGCA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
45 28 0.48
46 25 0.43
47 5 0.09
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (45 bp):
CTAAAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAC
Found at i:93902 original size:65 final size:64
Alignment explanation
Indices: 93767--93892 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 64
93757 AATAGCTAAA
*
93767 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTTAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGTAT
* ** * *
93832 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGG
93893 ATTGGTGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
63 3 0.06
64 23 0.43
65 28 0.52
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTAT
Found at i:95246 original size:23 final size:23
Alignment explanation
Indices: 95220--95264 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
95210 ACAATTTCTC
95220 ACCAATAAAAAATTAGA-GACATT
1 ACCAA-AAAAAATTAGATGACATT
* *
95243 ACCAAGAAGAATTAGATGACAT
1 ACCAAAAAAAATTAGATGACAT
95265 AATGAAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (23 bp):
ACCAAAAAAAATTAGATGACATT
Found at i:96859 original size:33 final size:33
Alignment explanation
Indices: 96817--96885 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
96807 AACAATAAAT
* * *
96817 AAAGTACAAGACGTGGAAGCCACCATAAGGAGA
1 AAAGTACAAGACATGGAAGCCACCACAAGAAGA
*
96850 AAAGTACAAGGCATGGAAGCCACCACAAGAAGA
1 AAAGTACAAGACATGGAAGCCACCACAAGAAGA
96883 AAA
1 AAA
96886 AAATAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.25, T:0.07
Consensus pattern (33 bp):
AAAGTACAAGACATGGAAGCCACCACAAGAAGA
Found at i:97035 original size:23 final size:23
Alignment explanation
Indices: 96994--97057 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
96984 GCAAGGCATC
* *
96994 ACCTTTAGGATCACATTTAGAATA
1 ACCTTT-GTATCACCTTTAGAATA
97018 ACCTTTGTATCACCTTTAGAATA
1 ACCTTTGTATCACCTTTAGAATA
*
97041 ACATTTGTATCACCTTT
1 ACCTTTGTATCACCTTT
97058 TCCACTACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
23 31 0.84
24 6 0.16
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (23 bp):
ACCTTTGTATCACCTTTAGAATA
Found at i:98511 original size:21 final size:20
Alignment explanation
Indices: 98487--98529 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
98477 AATCGTGAGT
98487 CTCTAGGCAAAAGTATCGATA
1 CTCT-GGCAAAAGTATCGATA
** *
98508 CTCTTTCAAAAGTATTGATA
1 CTCTGGCAAAAGTATCGATA
98528 CT
1 CT
98530 TTGGGTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
CTCTGGCAAAAGTATCGATA
Found at i:100860 original size:26 final size:26
Alignment explanation
Indices: 100823--100875 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
100813 GGTCTAATTT
*
100823 AAATTTCTTGTTCTTGGGTGAACAAG
1 AAATTTCATGTTCTTGGGTGAACAAG
100849 AAATTTCATGTTCTTGGGTGAACAAG
1 AAATTTCATGTTCTTGGGTGAACAAG
100875 A
1 A
100876 TGGGGAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (26 bp):
AAATTTCATGTTCTTGGGTGAACAAG
Found at i:101487 original size:26 final size:25
Alignment explanation
Indices: 101456--101511 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
101446 AATCTTTGAG
*
101456 GGGGAAGATGGATGAAGGAAAGGAGA
1 GGGGAAGATGGATGAAGGAAAAGA-A
101482 GGGGAAGATGGATGAAGGAAAAGAA
1 GGGGAAGATGGATGAAGGAAAAGAA
101507 GGGGA
1 GGGGA
101512 TCACCTGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.43, C:0.00, G:0.50, T:0.07
Consensus pattern (25 bp):
GGGGAAGATGGATGAAGGAAAAGAA
Found at i:101958 original size:14 final size:14
Alignment explanation
Indices: 101931--101968 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
101921 GATTTAGGGG
101931 TTAGGGTTT-A-AT
1 TTAGGGTTTAAGAT
101943 TTAGGGTTTAAGAT
1 TTAGGGTTTAAGAT
*
101957 TTAGGATTTAAG
1 TTAGGGTTTAAG
101969 GTTTGTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTAAGAT
Found at i:103570 original size:22 final size:22
Alignment explanation
Indices: 103542--103584 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
103532 TATTTTAATA
*
103542 TTTTAATAATATAATACTATAT
1 TTTTAATAATATAATAATATAT
103564 TTTTAATAATATAATAATATA
1 TTTTAATAATATAATAATATA
103585 AAATATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTAATAATATAATAATATAT
Found at i:103599 original size:30 final size:28
Alignment explanation
Indices: 103525--103611 Score: 104
Period size: 30 Copynumber: 3.0 Consensus size: 28
103515 TTAAAATATT
* *
103525 TAAAATATATTTTAATATTTTAATAATA
1 TAAAATATATTTTAATAATATAATAATA
*
103553 TAATACTATATTTTTAATAATATAATAATA
1 TAA-AATATA-TTTTAATAATATAATAATA
103583 TAAAATATTATATTTAATAATAT-ATAATA
1 TAAAATA-TAT-TTTAATAATATAATAATA
103612 AATTATTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
28 3 0.06
29 15 0.29
30 33 0.65
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAAATATATTTTAATAATATAATAATA
Found at i:103618 original size:22 final size:21
Alignment explanation
Indices: 103567--103623 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
103557 ACTATATTTT
103567 TAATA-ATATAATAATATAAAA
1 TAATATAT-TAATAATATAAAA
* *
103588 TATTATATTTAATAATATATAA
1 TAATATA-TTAATAATATAAAA
103610 TAA-ATTATTAATAA
1 TAATA-TATTAATAA
103624 AATTTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 12 0.40
22 17 0.57
23 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATATATTAATAATATAAAA
Found at i:104576 original size:60 final size:59
Alignment explanation
Indices: 104481--104630 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 59
104471 CATCACATGT
* * * * * *
104481 CCTAAAATTATGACCCTCATTTTAAATTCAACCTTAAACTTTTAAATATTCCAATTTCATC
1 CCTAAAA-TATGACACTCATTCTAAATT-AACCTTAAAATTTTAAACATTACAATTTCAAC
* * * * *
104542 CCTAAACTATGACTCTCATTCTAAATTAGTCCTTAAAATTTTGAACATTAGAATTTCAAC
1 CCTAAAATATGACACTCATTCTAAATTA-ACCTTAAAATTTTAAACATTACAATTTCAAC
* *
104602 CCTAAAAAATGACACTCTTTCTAAATTAA
1 CCTAAAATATGACACTCATTCTAAATTAA
104631 TCCCCAAACT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
59 1 0.01
60 66 0.90
61 6 0.08
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (59 bp):
CCTAAAATATGACACTCATTCTAAATTAACCTTAAAATTTTAAACATTACAATTTCAAC
Done.