Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008091.1 Hibiscus syriacus cultivar Beakdansim tig00110602_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: 2471235
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:241127 original size:19 final size:19
Alignment explanation
Indices: 241105--241255 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
241095 CGAAATTAAA
241105 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
241124 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
241139 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
241157 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
241171 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
241190 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
241205 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
241223 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
241242 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
241256 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:241151 original size:33 final size:32
Alignment explanation
Indices: 241109--241235 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
241099 ATTAAATTCG
241109 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
241142 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
241175 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
241208 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
241236 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:241198 original size:66 final size:66
Alignment explanation
Indices: 241102--241234 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
241092 ACGCGAAATT
*
241102 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
241167 G
66 G
*
241168 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
241233 G
66 G
241234 A
1 A
241235 TAGTAATTTC
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:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:244855 original size:20 final size:20
Alignment explanation
Indices: 244830--244907 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
244820 ATTCATTTGA
*
244830 CTATCGCAACGCAAAAATGG
1 CTATCGCAACGCGAAAATGG
*
244850 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
244870 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
244890 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
244908 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:245045 original size:14 final size:14
Alignment explanation
Indices: 245026--245062 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
245016 CATCAATTAA
245026 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
245040 ACAAATCATCTTTT
1 ACAAATCAACATTT
245054 ACAAATCAA
1 ACAAATCAA
245063 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:246951 original size:39 final size:37
Alignment explanation
Indices: 246908--247044 Score: 107
Period size: 32 Copynumber: 3.9 Consensus size: 37
246898 TAGTTTACTT
*
246908 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGACTA
1 TCGCAACACGAAAC-TAAAATCGCAACGCGAAATGA-AA
* * * *
246947 TCGCAACGCGGAAA-TGGATATCGCAATGCGAAATGAAAA
1 TCGCAACAC-GAAACT-AAAATCGCAACGCGAAATG-AAA
246986 TCGC-A-ACG--AC-AAAATCGCAACGCGAAATGAAA
1 TCGCAACACGAAACTAAAATCGCAACGCGAAATGAAA
247018 TCGC-A-ACG--AC-AAAATCGCAACGCGAAA
1 TCGCAACACGAAACTAAAATCGCAACGCGAAA
247045 CACAAATCGC
Statistics
Matches: 85, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
32 30 0.35
33 16 0.19
34 1 0.01
36 1 0.01
37 1 0.01
38 2 0.02
39 29 0.34
40 5 0.06
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (37 bp):
TCGCAACACGAAACTAAAATCGCAACGCGAAATGAAA
Found at i:246962 original size:20 final size:18
Alignment explanation
Indices: 246927--247025 Score: 91
Period size: 19 Copynumber: 5.5 Consensus size: 18
246917 GAAACTTAAA
246927 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGA-T
246946 ATCGCAACGCGGAAATGGAT
1 ATCGCAACGC-GAAAT-GAT
* *
246966 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATG-AT
246985 ATCGCAA--CGACAA--A-
1 ATCGCAACGCGA-AATGAT
*
246999 ATCGCAACGCGAAATGAA
1 ATCGCAACGCGAAATGAT
247017 ATCGCAACG
1 ATCGCAACG
247026 ACAAAATCGC
Statistics
Matches: 69, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
14 7 0.10
15 3 0.04
16 3 0.04
17 4 0.06
18 12 0.17
19 23 0.33
20 15 0.22
21 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.13
Consensus pattern (18 bp):
ATCGCAACGCGAAATGAT
Found at i:247001 original size:14 final size:14
Alignment explanation
Indices: 246982--247039 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
246972 ATGCGAAATG
246982 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
246996 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
247012 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
247028 AAAATCGCAACG
1 AAAATCGCAACG
247040 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:247024 original size:32 final size:33
Alignment explanation
Indices: 246966--247044 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
246956 GGAAATGGAT
*
246966 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
246999 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
247031 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
247045 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:247073 original size:19 final size:19
Alignment explanation
Indices: 247051--247132 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 19
247041 GAAACACAAA
247051 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
247070 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
247086 TCG--TTTCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
* *
247102 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
247121 TCGCATTGCGAT
1 TCGCATTGCGAT
247133 AGCCATTTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
14 8 0.16
16 8 0.16
18 8 0.16
19 27 0.53
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:247140 original size:19 final size:20
Alignment explanation
Indices: 247118--247160 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
247108 TGCGATTTTT
247118 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
247137 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
247157 ATTT
1 ATTT
247161 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:247151 original size:20 final size:20
Alignment explanation
Indices: 247126--247171 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
247116 TTATTTCGCA
247126 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
247146 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
247166 TTGCGA
1 TTGCGA
247172 AAGTAAACTA
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:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:247670 original size:18 final size:18
Alignment explanation
Indices: 247644--247688 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
247634 GTCGATCAGA
*
247644 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
247662 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
247680 TGATGGCTC
1 TGATGGCTC
247689 CCGAAGTGGA
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:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:249033 original size:20 final size:20
Alignment explanation
Indices: 249008--249045 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
248998 AATAGTTTCT
249008 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
249028 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
249046 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:249334 original size:22 final size:22
Alignment explanation
Indices: 249309--249352 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
249299 GATTTAGATA
249309 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
249331 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
249353 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:252751 original size:2 final size:2
Alignment explanation
Indices: 252746--252786 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
252736 TTAATTATTA
252746 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
252787 AAATTATCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:254156 original size:43 final size:43
Alignment explanation
Indices: 254058--254324 Score: 308
Period size: 42 Copynumber: 6.3 Consensus size: 43
254048 GTTTGAGAAC
* * **
254058 AACAAACGCCGCAATAGGTTAAGATCTATAGCGGCG-TTTTGG
1 AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
*
254100 AACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGG
1 AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
** *
254143 AACAAACATCGCAAAAGATCGAGATCTATAGCGACG-TTTTGG
1 AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
* * * *
254185 AACAAACACCGC-AAAGATCGATATCTTTAACGGCGTTTTTGG
1 AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
* * * * * *
254227 AAGAAATGCCACAAAAGGTC-ATATCTATAGCGGCATTTTTGG
1 AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
* * *
254269 AACAAATGTCGCAAAAGATCGAGATCTATAGCGGTGTTTTTGG
1 AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
254312 ATACAAACGCCGC
1 A-ACAAACGCCGC
254325 TAATTACCTT
Statistics
Matches: 191, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
41 19 0.10
42 99 0.52
43 64 0.34
44 9 0.05
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (43 bp):
AACAAACGCCGCAAAAGATCGAGATCTATAGCGGCGTTTTTGG
Found at i:254270 original size:126 final size:128
Alignment explanation
Indices: 254089--254324 Score: 352
Period size: 126 Copynumber: 1.9 Consensus size: 128
254079 AGATCTATAG
* *
254089 CGGCGTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACATCG
1 CGGCGTTTTGGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACATCG
254154 CAAAAGATCGAGATCTATAGCGACG-TTTTGGA-ACAAACACCGCAAAGATCGATATCTTTAA
66 CAAAAGATCGAGATCTATAGCGACGTTTTTGGATACAAACACCGCAAAGATCGATATCTTTAA
* * * **
254215 CGGCGTTTTTGGAAGAAATGCCACAAAAGGTC-ATATCTATAGCGGCATTTTTGGAACAAATGTC
1 CGGCG-TTTTGGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACATC
** *
254279 GCAAAAGATCGAGATCTATAGCGGTGTTTTTGGATACAAACGCCGC
65 GCAAAAGATCGAGATCTATAGCGACGTTTTTGGATACAAACACCGC
254325 TAATTACCTT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
126 57 0.59
127 30 0.31
128 10 0.10
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (128 bp):
CGGCGTTTTGGAACAAACGCCACAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACATCG
CAAAAGATCGAGATCTATAGCGACGTTTTTGGATACAAACACCGCAAAGATCGATATCTTTAA
Found at i:256607 original size:12 final size:12
Alignment explanation
Indices: 256590--256616 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
256580 GAATTGGATC
256590 AAAAGAACTTAG
1 AAAAGAACTTAG
256602 AAAAGAACTTAG
1 AAAAGAACTTAG
256614 AAA
1 AAA
256617 TGTAAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (12 bp):
AAAAGAACTTAG
Found at i:256954 original size:41 final size:40
Alignment explanation
Indices: 256900--257044 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 40
256890 AGAACTGATA
256900 ATTGCGGCGTTTGTATAAAAACGCCACTATAGGTAAATACT
1 ATTGCGGCGTTTGTATAAAAACGCCACTATAGGTAAAT-CT
*
256941 ATTGCGGCGTTTGTATAAAAACG-C-C----GCTAAATCT
1 ATTGCGGCGTTTGTATAAAAACGCCACTATAGGTAAATCT
* * * *
256975 GTTGCGGCGTTTAT-TGAAAAACGCCACTATAGGCGAAACCT
1 ATTGCGGCGTTTGTAT-AAAAACGCCACTATAGG-TAAATCT
* *
257016 ATTGCGGTGTTTGTATAAAAGCGCCACTA
1 ATTGCGGCGTTTGTATAAAAACGCCACTA
257045 AAGTACTAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
33 1 0.01
34 21 0.25
35 7 0.08
36 1 0.01
39 1 0.01
40 2 0.02
41 51 0.60
42 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
ATTGCGGCGTTTGTATAAAAACGCCACTATAGGTAAATCT
Found at i:256995 original size:75 final size:75
Alignment explanation
Indices: 256901--257046 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 75
256891 GAACTGATAA
* *
256901 TTGCGGCGTTTGTATAAAAACGCCACTATAGG-TAAATACTATTGCGGCGTTTGTATAAAAACGC
1 TTGCGGCGTTTATATAAAAACGCCACTATAGGCGAAA-ACTATTGCGGCGTTTGTATAAAAACGC
*
256965 CGCTAAATCTG
65 CACTAAATCTG
* * *
256976 TTGCGGCGTTTAT-TGAAAAACGCCACTATAGGCGAAACCTATTGCGGTGTTTGTATAAAAGCGC
1 TTGCGGCGTTTATAT-AAAAACGCCACTATAGGCGAAAACTATTGCGGCGTTTGTATAAAAACGC
257040 CACTAAA
65 CACTAAA
257047 GTACTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
74 1 0.02
75 59 0.94
76 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (75 bp):
TTGCGGCGTTTATATAAAAACGCCACTATAGGCGAAAACTATTGCGGCGTTTGTATAAAAACGCC
ACTAAATCTG
Found at i:257142 original size:82 final size:82
Alignment explanation
Indices: 256970--257146 Score: 194
Period size: 82 Copynumber: 2.2 Consensus size: 82
256960 AACGCCGCTA
* * * * **
256970 AATCTGTTGCGGCGTTTATTGAAAAACGCCACTATAGGCGAAACCTATTGCGGTGTTTGTATAAA
1 AATCTGTTGCGACATTTATTGAAAAACACCACTATAGACGAAACCTATTGCGGCATTTGTATAAA
*
257035 AGCGCCACTAAAGTACT
66 AACGCCACTAAAGTACT
* * *
257052 AATATGTTGCGACATTTATTGAAAAAACACCACTATAGATG-GACCTATTGCGGCATTTGTATAA
1 AATCTGTTGCGACATTTATTG-AAAAACACCACTATAGACGAAACCTATTGCGGCATTTGTATAA
* *** *
257116 AAATGTTGCTAAAGTATT
65 AAACGCCACTAAAGTACT
*
257134 ACTCTGTTGCGAC
1 AATCTGTTGCGAC
257147 GTTTGTCGAA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
82 61 0.79
83 16 0.21
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (82 bp):
AATCTGTTGCGACATTTATTGAAAAACACCACTATAGACGAAACCTATTGCGGCATTTGTATAAA
AACGCCACTAAAGTACT
Found at i:257385 original size:59 final size:60
Alignment explanation
Indices: 257319--257435 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 60
257309 TGTCATCATT
* * *
257319 AAACTATGA-CTATCGTTATAAATATGTCCTTAAA-TTTTTTAACATTTCAGTTTCATCCC
1 AAACTATGATCT-TCATTATAAATATGTCCTAAAACTTTTTGAACATTTCAGTTTCATCCC
* * *
257378 AAACTATGATCTTCATTCTAAATTTGTCCTAAAACTTTTTGAACATTTTAGTTTCATC
1 AAACTATGATCTTCATTATAAATATGTCCTAAAACTTTTTGAACATTTCAGTTTCATC
257436 TAAAATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 27 0.54
60 23 0.46
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.44
Consensus pattern (60 bp):
AAACTATGATCTTCATTATAAATATGTCCTAAAACTTTTTGAACATTTCAGTTTCATCCC
Found at i:259331 original size:29 final size:29
Alignment explanation
Indices: 259286--259343 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
259276 GTGTTGGTCG
259286 TAGGTCGCCATGCCTTCCAGGCGACCTAC
1 TAGGTCGCCATGCCTTCCAGGCGACCTAC
* * *
259315 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCAGGCGACCTAC
259344 AAGAGATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCAGGCGACCTAC
Found at i:259445 original size:23 final size:23
Alignment explanation
Indices: 259394--259446 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
259384 ATCCGAGGCC
* * *
259394 ATCCGAACGAGCTATGTGAGGGC
1 ATCCGAGCGAGCTATGCGAGGGA
*
259417 AGCCGAGCGAGCTATGCGAGGGA
1 ATCCGAGCGAGCTATGCGAGGGA
259440 ATCCGAG
1 ATCCGAG
259447 GGCAGCCGAG
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:0.23, G:0.38, T:0.13
Consensus pattern (23 bp):
ATCCGAGCGAGCTATGCGAGGGA
Found at i:259497 original size:29 final size:29
Alignment explanation
Indices: 259464--259519 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
259454 GAGCGAGGGT
* *
259464 AGGTCGCCCGGAGTGTATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
259493 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
259520 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:259624 original size:29 final size:29
Alignment explanation
Indices: 259578--259663 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
259568 AAGCAAGGGT
* * *
259578 AGGTCGCCTGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGAAGGGCATGGCGACCTACA
259607 AGGTCGCCCGAAGGGCATGGCGACCTACA
1 AGGTCGCCCGAAGGGCATGGCGACCTACA
259636 AGGTCGCCCGGAA-GGCATGGCGACCTAC
1 AGGTCGCCC-GAAGGGCATGGCGACCTAC
259664 GGCCAACACT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
29 50 0.94
30 3 0.06
ACGTcount: A:0.22, C:0.30, G:0.35, T:0.13
Consensus pattern (29 bp):
AGGTCGCCCGAAGGGCATGGCGACCTACA
Found at i:260060 original size:26 final size:24
Alignment explanation
Indices: 260000--260060 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
259990 TTACTTTTAG
* *
260000 ATATAAAATAACTAAATATAAATA
1 ATATAAAATAAATAAACATAAATA
*
260024 TTATTATAAATAAATAAACATAAATAA
1 ATA-TA-AAATAAATAAACATAAAT-A
260051 ATATACAAAT
1 ATATA-AAAT
260061 GAGTGACATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.07
25 2 0.07
26 22 0.76
27 3 0.10
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATAAAATAAATAAACATAAATA
Found at i:263899 original size:29 final size:29
Alignment explanation
Indices: 263864--263945 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
263854 AAACTAAATT
*
263864 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
263893 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
263922 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
263946 GTAAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:268662 original size:29 final size:29
Alignment explanation
Indices: 268627--268708 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
268617 AAACTAAATT
*
268627 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
268656 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
268685 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
268709 GTAAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:269733 original size:2 final size:2
Alignment explanation
Indices: 269726--269822 Score: 108
Period size: 2 Copynumber: 48.5 Consensus size: 2
269716 TATACTAATA
269726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
* * * * **
269768 AC AA AC AC ACT A- AT AT GC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
269810 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
269823 CATGTGTGTA
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.02
2 79 0.95
3 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:270091 original size:4 final size:4
Alignment explanation
Indices: 270084--270131 Score: 78
Period size: 4 Copynumber: 11.8 Consensus size: 4
270074 ACTATGTTCC
*
270084 TTTA TTTA TTTA TTTA TTTA TTTA TTCA TTTA TTTA TTTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT
270132 CCAAGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 37 0.90
5 4 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:272738 original size:3 final size:3
Alignment explanation
Indices: 272730--272774 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
272720 AACAAAGTAA
*
272730 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
272775 CCACGATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:281203 original size:8 final size:8
Alignment explanation
Indices: 281190--281215 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
281180 TCGGAAGCTT
281190 GAGCTGGA
1 GAGCTGGA
281198 GAGCTGGA
1 GAGCTGGA
281206 GAGCTGGA
1 GAGCTGGA
281214 GA
1 GA
281216 AAAGTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.50, T:0.12
Consensus pattern (8 bp):
GAGCTGGA
Found at i:281558 original size:40 final size:40
Alignment explanation
Indices: 281504--281580 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
281494 CCTTAAATTT
281504 TGAACGAGATACTAAAATGAAACAAAAACTAAAGTTTTTAA
1 TGAACGAGATACTAAAATGAAACAAAAACTAAA-TTTTTAA
* *
281545 TGAACG-GGTACTAAAATGAAACAAAAATTAAATTTT
1 TGAACGAGATACTAAAATGAAACAAAAACTAAATTTT
281581 AGGTATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.12
40 24 0.71
41 6 0.18
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (40 bp):
TGAACGAGATACTAAAATGAAACAAAAACTAAATTTTTAA
Found at i:287422 original size:18 final size:19
Alignment explanation
Indices: 287399--287436 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
287389 CCTAATAATA
287399 TTATTCT-CTGATAATCTT
1 TTATTCTACTGATAATCTT
287417 TTATTCTAACTGATAATCTT
1 TTATTCT-ACTGATAATCTT
287437 ATATCGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATTCTACTGATAATCTT
Found at i:298242 original size:13 final size:13
Alignment explanation
Indices: 298224--298253 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
298214 ATGGTAAATT
298224 AAATAAAGTATAC
1 AAATAAAGTATAC
298237 AAATAAAGTATAC
1 AAATAAAGTATAC
298250 AAAT
1 AAAT
298254 GATAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (13 bp):
AAATAAAGTATAC
Found at i:314710 original size:13 final size:13
Alignment explanation
Indices: 314692--314720 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
314682 TTAAACGCCA
314692 GTCAACGGGTCGG
1 GTCAACGGGTCGG
314705 GTCAACGGGTCGG
1 GTCAACGGGTCGG
314718 GTC
1 GTC
314721 GGGTAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:314720 original size:18 final size:18
Alignment explanation
Indices: 314697--314740 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
314687 CGCCAGTCAA
*
314697 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
*
314715 CGGGTCGGGTAAATGGGT
1 CGGGTCGGGTAAACGGGT
*
314733 CAGGTCGG
1 CGGGTCGG
314741 AACCGATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.18, G:0.50, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:318740 original size:15 final size:15
Alignment explanation
Indices: 318725--318777 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
318715 GCTTCTCTTC
318725 TCTTCA-TTCTTCTTCT
1 TCTTCATTTCTTC--CT
318741 TCTTCATTTCTTCCT
1 TCTTCATTTCTTCCT
318756 TCTTCATTTCTTCCT
1 TCTTCATTTCTTCCT
318771 TCTTCAT
1 TCTTCAT
318778 CTACTTCAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
15 24 0.67
16 6 0.17
17 6 0.17
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTTCATTTCTTCCT
Found at i:321500 original size:2 final size:2
Alignment explanation
Indices: 321493--321643 Score: 302
Period size: 2 Copynumber: 75.5 Consensus size: 2
321483 AAAATATTTG
321493 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
321535 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
321577 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
321619 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
321644 ATTTAAGAAT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 149 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:323106 original size:60 final size:60
Alignment explanation
Indices: 322986--323109 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
322976 CCGGATGACT
* ** **
322986 ATTTTGTAACTTATAATAGTTAAGGACTCAACAAAAACATCGCTTTATAATTGAGGGATC
1 ATTTTATAACTTATAATAGTTAAGGACTCAACAAAAACATCGCTTTATAATCAAAAGATC
323046 ATTTTATAACTT-TCAATAGTTAAAGGACTCAAC-AAAACAAT-G-TCTTATAATCAAAAGATC
1 ATTTTATAACTTAT-AATAGTT-AAGGACTCAACAAAAAC-ATCGCT-TTATAATCAAAAGATC
323106 ATTT
1 ATTT
323110 ATGTGTTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
59 2 0.04
60 40 0.73
61 13 0.24
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (60 bp):
ATTTTATAACTTATAATAGTTAAGGACTCAACAAAAACATCGCTTTATAATCAAAAGATC
Found at i:323394 original size:36 final size:36
Alignment explanation
Indices: 323347--323416 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
323337 TCATTTTATG
323347 AAAAAAGCTCATAACGTTTAATCAAATAATTACTAC
1 AAAAAAGCTCATAACGTTTAATCAAATAATTACTAC
* *
323383 AAAAAATCTCATAACGTTTCATCAAATAATTACT
1 AAAAAAGCTCATAACGTTTAATCAAATAATTACT
323417 TTGGCCTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (36 bp):
AAAAAAGCTCATAACGTTTAATCAAATAATTACTAC
Found at i:325193 original size:43 final size:41
Alignment explanation
Indices: 325127--325258 Score: 138
Period size: 43 Copynumber: 3.1 Consensus size: 41
325117 GGTAACAAAA
*** **
325127 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTATTGGAC
1 AAACGCCGCAATAGGTGTTGATAT-TAGCGGCGTTT-TCCGAC
* *
325170 AAACGCCGCAATAGGTGTTGATATTTGGCGGCGCTTTTCCTAC
1 AAACGCCGCAATAGGTGTTGATA-TTAGCGGCG-TTTTCCGAC
* *
325213 AAACGCCGCAATAGGTGTTGAGATTGAGCGGCGTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGATATT-AGCGGCGTTTTCCGAC
325255 AAAC
1 AAAC
325259 ACCGTAAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
42 14 0.18
43 58 0.76
44 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (41 bp):
AAACGCCGCAATAGGTGTTGATATTAGCGGCGTTTTCCGAC
Found at i:325486 original size:21 final size:21
Alignment explanation
Indices: 325460--325518 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
325450 ATTTTCCAAT
*
325460 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
325481 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
325502 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
325519 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:327559 original size:41 final size:41
Alignment explanation
Indices: 327446--327786 Score: 346
Period size: 41 Copynumber: 8.3 Consensus size: 41
327436 TTGTAAACTT
* * * *
327446 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACAAGTCTTTA
* *
327489 GCGGCGTTTGAAT-AAAACGCCACTAAAGTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
* * **
327529 GCGGCGTTTTTATAAAAACACCACTAAAGTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
* * * **
327570 GCGGTGTTTGTATAAAAACACCACTAAATTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
* * * *
327611 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATA-TATATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACA-AGTCTTTA
* * * *
327654 ACGACGTTTGTATAAAAACGCCACTAAAGTACAATTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
* * *
327695 GCGGCGTTTGTAT-AAAATGCCACTAAATTACAAGTCTTTC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
* * * *
327735 GCGGCGTTTGTATAAAAACTCCACTAAAGTACTACTCTTTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
327776 GCGGCGTTTGT
1 GCGGCGTTTGT
327787 TGAAAAAACG
Statistics
Matches: 252, Mismatches: 40, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
40 69 0.27
41 141 0.56
42 2 0.01
43 39 0.15
44 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTA
Found at i:327720 original size:165 final size:165
Alignment explanation
Indices: 327446--327786 Score: 463
Period size: 165 Copynumber: 2.1 Consensus size: 165
327436 TTGTAAACTT
* * *
327446 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTGAATAAAACGCCA
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTATATAACGACGTTTGAATAAAACGCCA
* * * ** *
327511 CTAAAGTACGAGTCTTTAGCGGCGTTTTTATAAAAACACCACTAAAGTATGAGTCTTTAGCGGTG
66 CTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACAAGTCTTTAGCGGCG
* *
327576 TTTGTATAAAAACACCACTAAATTA-TGAGTCTTTA
131 TTTGTATAAAAACACCACTAAAGTACT-ACTCTTTA
*
327611 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATA-TATATAACGACGTTTGTATAAAAACGC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACA-AGTATATAACGACGTTTGAAT-AAAACGC
* ** * *
327675 CACTAAAGTACAATTCTATAGCGGCGTTTGTAT-AAAATGCCACTAAATTACAAGTCTTTCGCGG
64 CACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACAAGTCTTTAGCGG
* *
327739 CGTTTGTATAAAAACTCCACTAAAGTACTACTCTTTT
129 CGTTTGTATAAAAACACCACTAAAGTACTACTCTTTA
327776 GCGGCGTTTGT
1 GCGGCGTTTGT
327787 TGAAAAAACG
Statistics
Matches: 154, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
165 116 0.75
166 38 0.25
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (165 bp):
GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTATATAACGACGTTTGAATAAAACGCCA
CTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACAAGTCTTTAGCGGCG
TTTGTATAAAAACACCACTAAAGTACTACTCTTTA
Found at i:329390 original size:4 final size:4
Alignment explanation
Indices: 329381--329414 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
329371 TAATCAATAA
329381 GGAT GGAT GGAT GGAT GGAT GGAT GGAT GGAT GG
1 GGAT GGAT GGAT GGAT GGAT GGAT GGAT GGAT GG
329415 TGTTAGTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.53, T:0.24
Consensus pattern (4 bp):
GGAT
Found at i:331729 original size:35 final size:35
Alignment explanation
Indices: 331690--331762 Score: 94
Period size: 37 Copynumber: 2.1 Consensus size: 35
331680 AGTTTTAATG
*
331690 TTTTTGATT-TAGTTAAAAATATTATAAAATATAAAT
1 TTTTTGATTATAATTAAAAATATTAT-AAATA-AAAT
* *
331726 TTTTTTATTATAATTTAAAATATTATAAATAAAAT
1 TTTTTGATTATAATTAAAAATATTATAAATAAAAT
331761 TT
1 TT
331763 ACATTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 6 0.18
36 13 0.39
37 14 0.42
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTTTGATTATAATTAAAAATATTATAAATAAAAT
Found at i:355154 original size:28 final size:27
Alignment explanation
Indices: 355112--355165 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
355102 CTGTGTTTTA
* *
355112 ATTATGTCTTTGAGCTAATGCTTGAAAC
1 ATTATGTCATCGAGC-AATGCTTGAAAC
*
355140 ATTATGTCATCGAGCAATTCTTGAAA
1 ATTATGTCATCGAGCAATGCTTGAAA
355166 GCAACGACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTATGTCATCGAGCAATGCTTGAAAC
Found at i:358642 original size:29 final size:29
Alignment explanation
Indices: 358600--358676 Score: 154
Period size: 29 Copynumber: 2.7 Consensus size: 29
358590 CTTCCCAGCA
358600 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
358629 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
358658 TAGGTCGCCATGCACTCCT
1 TAGGTCGCCATGCACTCCT
358677 CCTGCTCCTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.14, C:0.35, G:0.26, T:0.25
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:358757 original size:14 final size:14
Alignment explanation
Indices: 358738--358769 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
358728 TCGAATGGCA
358738 TCGGTCGGATGCCC
1 TCGGTCGGATGCCC
*
358752 TCGGTCGGATGCCT
1 TCGGTCGGATGCCC
358766 TCGG
1 TCGG
358770 ATGCCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.38, T:0.25
Consensus pattern (14 bp):
TCGGTCGGATGCCC
Found at i:374414 original size:21 final size:21
Alignment explanation
Indices: 374388--374427 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
374378 CCCCCTTTGA
*
374388 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
374409 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
374428 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:378610 original size:24 final size:22
Alignment explanation
Indices: 378555--378610 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
378545 AGCCTTTCAA
* *
378555 AATCCTAAAAACAATGAAAGAT
1 AATCCTAAAAAAAATAAAAGAT
*
378577 AATTCTTAAACAAAAATAAAAGAT
1 AA-TCCTAAA-AAAAATAAAAGAT
378601 ATATCCTAAA
1 A-ATCCTAAA
378611 GATAAATCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 2 0.07
23 6 0.22
24 18 0.67
25 1 0.04
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.23
Consensus pattern (22 bp):
AATCCTAAAAAAAATAAAAGAT
Found at i:378760 original size:26 final size:26
Alignment explanation
Indices: 378710--378779 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
378700 CTAATTATAT
* *
378710 CTTCTAGAATATTGCTACTGATTGGAC
1 CTTCTAGAA-ACTGCCACTGATTGGAC
378737 CTTCTAGAAACTGCCACTGATTGGAC
1 CTTCTAGAAACTGCCACTGATTGGAC
*
378763 TTTCTAGAAACTGCCAC
1 CTTCTAGAAACTGCCAC
378780 AGCAGACCGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 31 0.77
27 9 0.22
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (26 bp):
CTTCTAGAAACTGCCACTGATTGGAC
Found at i:383674 original size:21 final size:21
Alignment explanation
Indices: 383650--383689 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
383640 AAACTATTAA
383650 TTTTAATAAAT-AAACTTAACT
1 TTTTAA-AAATCAAACTTAACT
*
383671 TTTTAAAAATCATACTTAA
1 TTTTAAAAATCAAACTTAA
383690 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTTAAAAATCAAACTTAACT
Found at i:383902 original size:20 final size:21
Alignment explanation
Indices: 383848--383904 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
383838 AAATATATTT
* *
383848 TAAAAATTATTATTTAAATAC
1 TAAAAATGATAATTTAAATAC
*
383869 TAAAAATGATAATTTAAATAT
1 TAAAAATGATAATTTAAATAC
*
383890 TAAATAT-ATAATTTA
1 TAAAAATGATAATTTA
383905 CAGTAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAAAATGATAATTTAAATAC
Found at i:386765 original size:60 final size:59
Alignment explanation
Indices: 386663--386849 Score: 189
Period size: 60 Copynumber: 3.1 Consensus size: 59
386653 ATATGGATGG
* * * * * **
386663 ATTTGGGGTGAAATTGGAAGGTCTAAAAGTTTAAAGG-TTAATTTAGAATTAGTTTCATA
1 ATTTGGGATGAAATTGGAATGTTTAAAAGTTT-AAGGACTAATTTAGAATGAGAGTCATA
* *
386722 GTTTTGGGATGAAATTTGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATA
1 -ATTTGGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATA
* * * * *
386782 ATTTGAGGATGTAATTGGAATGTTTAAAAATTAAACGACTAATTTCA-AATGAGGGTCATA
1 ATTTG-GGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTT-AGAATGAGAGTCATA
*
386842 GTTTGGGA
1 ATTTGGGA
386850 ATATATAATG
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
59 11 0.10
60 95 0.89
61 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
ATTTGGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATA
Found at i:388596 original size:31 final size:32
Alignment explanation
Indices: 388552--388636 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 32
388542 GTTTTTGTTT
* * *
388552 TTTTAGTACGTTTTAGTATCTAAAC-TATTAG
1 TTTTGGTATGTTTTAGTACCTAAACATATTAG
388583 TTTTGGTATGTTTTAGTACCT-AACATATTAG
1 TTTTGGTATGTTTTAGTACCTAAACATATTAG
* *
388614 TTTTGGTCTGATTTAGTACCTAA
1 TTTTGGTATGTTTTAGTACCTAA
388637 TTTTTTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
30 3 0.06
31 43 0.91
32 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (32 bp):
TTTTGGTATGTTTTAGTACCTAAACATATTAG
Found at i:388976 original size:23 final size:21
Alignment explanation
Indices: 388946--388993 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
388936 TTTATAGTCA
*
388946 AAAT-CATTTAGAACAGTATCAC
1 AAATACATTCAGAACA--ATCAC
*
388968 AAATACATTCAGGACAATCAC
1 AAATACATTCAGAACAATCAC
388989 AAATA
1 AAATA
388994 AAATATAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 9 0.39
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (21 bp):
AAATACATTCAGAACAATCAC
Found at i:389460 original size:21 final size:21
Alignment explanation
Indices: 389436--389475 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
389426 TAAGGGTATG
389436 TTTAGTTTTAAAAATATATAT
1 TTTAGTTTTAAAAATATATAT
* *
389457 TTTATTTTTTAAAATATAT
1 TTTAGTTTTAAAAATATAT
389476 TTAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAGTTTTAAAAATATATAT
Found at i:389483 original size:21 final size:21
Alignment explanation
Indices: 389441--389483 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
389431 GTATGTTTAG
*
389441 TTTTAAAAATATATATTTTAT
1 TTTTAAAAATATATATTATAT
*
389462 TTTTTAAAATATAT-TTAATAT
1 TTTTAAAAATATATATT-ATAT
389483 T
1 T
389484 AATTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAAAAATATATATTATAT
Found at i:389511 original size:29 final size:28
Alignment explanation
Indices: 389458--389514 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
389448 AATATATATT
389458 TTATTTTTTAAAATATATTTAATATTAA
1 TTATTTTTTAAAATATATTTAATATTAA
* * *
389486 TTATATTTTTAATATATTTTTCATATTAA
1 TTAT-TTTTTAAAATATATTTAATATTAA
389515 AATGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATTTTTTAAAATATATTTAATATTAA
Found at i:403858 original size:31 final size:31
Alignment explanation
Indices: 403820--403880 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
403810 TTATGTGCAT
*
403820 ATCTGAATCAGTGTACATATGTCATAGTCTA
1 ATCTGAATCAGTGTACATATGCCATAGTCTA
403851 ATCTGAATCAGTGTACATATGCCATAGTCT
1 ATCTGAATCAGTGTACATATGCCATAGTCT
403881 TAACGTGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (31 bp):
ATCTGAATCAGTGTACATATGCCATAGTCTA
Found at i:412829 original size:14 final size:14
Alignment explanation
Indices: 412812--412846 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
412802 TATGTTCGTC
412812 TATGTTCGTTCATT
1 TATGTTCGTTCATT
412826 TATGTTCGTTCATT
1 TATGTTCGTTCATT
412840 TATGTTC
1 TATGTTC
412847 CAACAGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:412982 original size:13 final size:13
Alignment explanation
Indices: 412964--412990 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
412954 AGCTTATTTA
412964 TGATTTATGTATG
1 TGATTTATGTATG
412977 TGATTTATGTATG
1 TGATTTATGTATG
412990 T
1 T
412991 TTTTGTCGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (13 bp):
TGATTTATGTATG
Found at i:414437 original size:31 final size:31
Alignment explanation
Indices: 414399--414507 Score: 173
Period size: 31 Copynumber: 3.5 Consensus size: 31
414389 ATTTAATACA
* * * *
414399 TAAACTATCAGTTTTTGTCTGTTTTAGTACC
1 TAAACTATCAATTTTGGTATGTCTTAGTACC
414430 TAAACTATCAATTTTGGTATGTCTTAGTACC
1 TAAACTATCAATTTTGGTATGTCTTAGTACC
414461 TAAACTATCAATTTTGGTATGTCTTAGTACC
1 TAAACTATCAATTTTGGTATGTCTTAGTACC
414492 TAAACTATCAAATTTT
1 TAAACTATC-AATTTT
414508 CCCCAAAATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 67 0.92
32 6 0.08
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (31 bp):
TAAACTATCAATTTTGGTATGTCTTAGTACC
Found at i:422456 original size:4 final size:4
Alignment explanation
Indices: 422447--422471 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
422437 ATTCGTAAAA
422447 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
422472 CATTAAATTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:428490 original size:16 final size:16
Alignment explanation
Indices: 428471--428508 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
428461 TTATTAATAG
428471 TAAATATATAA-AAAAT
1 TAAA-ATATAAGAAAAT
428487 TAAAATATAAGAAAATT
1 TAAAATATAAGAAAA-T
428504 TAAAA
1 TAAAA
428509 ATTACCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAATATAAGAAAAT
Found at i:432349 original size:15 final size:16
Alignment explanation
Indices: 432321--432355 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
432311 ACCGCCTATT
432321 TAAGGTTAAAAAATAA
1 TAAGGTTAAAAAATAA
432337 TAAGGTT-AAAAATAA
1 TAAGGTTAAAAAATAA
432352 TAAG
1 TAAG
432356 AAATTGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (16 bp):
TAAGGTTAAAAAATAA
Found at i:434032 original size:15 final size:16
Alignment explanation
Indices: 434012--434046 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
434002 ATAACATGTA
434012 ATATATTTG-ATAAAT
1 ATATATTTGTATAAAT
*
434027 ATATATTTGTATCAAT
1 ATATATTTGTATAAAT
434043 ATAT
1 ATAT
434047 TTATAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (16 bp):
ATATATTTGTATAAAT
Found at i:434107 original size:17 final size:17
Alignment explanation
Indices: 434077--434120 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
434067 TATTTTATAG
* * *
434077 TTTATATTATAAATTAT
1 TTTATATAAGAAATAAT
434094 TTTATATAAGAAATAAT
1 TTTATATAAGAAATAAT
*
434111 TATATATAAG
1 TTTATATAAG
434121 TTAGGTAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (17 bp):
TTTATATAAGAAATAAT
Found at i:434734 original size:19 final size:20
Alignment explanation
Indices: 434698--434735 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
434688 ATAAAATGAT
*
434698 ATAAAAAACACATGATTTAC
1 ATAAAAAACACATCATTTAC
*
434718 ATAAAAAA-ACGTCATTTA
1 ATAAAAAACACATCATTTA
434736 ATCATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAAAAACACATCATTTAC
Found at i:435680 original size:11 final size:11
Alignment explanation
Indices: 435664--435695 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
435654 GGGATGGCAA
435664 CGGGCCGGGTT
1 CGGGCCGGGTT
435675 CGGGCCGGGTT
1 CGGGCCGGGTT
435686 CGGGCCGGGT
1 CGGGCCGGGT
435696 ATTGGTCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.56, T:0.16
Consensus pattern (11 bp):
CGGGCCGGGTT
Found at i:435962 original size:24 final size:25
Alignment explanation
Indices: 435897--435962 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 25
435887 CGGGCCGGGT
435897 ATATATATATATATATATTTAAATTAA
1 ATATATAT-TATAT-TATTTAAATTAA
*
435924 ATATATATT-TTTTATTTAAATTAA
1 ATATATATTATATTATTTAAATTAA
435948 AT-T-TATTAATATTAT
1 ATATATATT-ATATTAT
435963 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 4 0.11
23 1 0.03
24 19 0.54
25 2 0.06
26 1 0.03
27 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATATATTATATTATTTAAATTAA
Found at i:436026 original size:13 final size:13
Alignment explanation
Indices: 435996--436039 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
435986 TTTAATATTT
*
435996 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
436008 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
*
436021 ATCGGGGCGGATA
1 ATCGGGGCGGGTA
436034 ATCGGG
1 ATCGGG
436040 TAATTGGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.16, C:0.16, G:0.50, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:439966 original size:4 final size:4
Alignment explanation
Indices: 439957--439985 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
439947 TCTATTCATT
439957 TCCA TCCA TCCA TCCA TCCA TCCA TCCA T
1 TCCA TCCA TCCA TCCA TCCA TCCA TCCA T
439986 ACAAGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (4 bp):
TCCA
Found at i:440261 original size:16 final size:16
Alignment explanation
Indices: 440236--440275 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
440226 TATTTCATAT
440236 ATACATACATAAACAC
1 ATACATACATAAACAC
* *
440252 ATATATACATAAATAC
1 ATACATACATAAACAC
440268 ATACATAC
1 ATACATAC
440276 CTGTATGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (16 bp):
ATACATACATAAACAC
Found at i:444209 original size:4 final size:4
Alignment explanation
Indices: 444200--444276 Score: 145
Period size: 4 Copynumber: 19.2 Consensus size: 4
444190 AACATTTCAT
*
444200 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
444248 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
444277 ATAATCGATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:446486 original size:18 final size:18
Alignment explanation
Indices: 446463--446528 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
446453 TGTTTCTGAG
446463 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
446481 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
446499 GGAATTGGAA--TATGAA
1 GGAATTGGAATCTGTGAA
446515 GGAATTGGAATCTG
1 GGAATTGGAATCTG
446529 AATTTGAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.34
18 29 0.66
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.27
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:447591 original size:30 final size:30
Alignment explanation
Indices: 447549--448012 Score: 333
Period size: 30 Copynumber: 15.2 Consensus size: 30
447539 CCATTACTTT
*
447549 CTCCGTACAAGTATGAGTCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
* ** * *
447579 CTCCATATAAGTACAAGTCACC-CTCACCTC
1 CTCCATACAAGTATGAGTCACCAC-CTCCAC
* *
447609 CTCCGTACAAGTATGAGTCACCACCTCCAA
1 CTCCATACAAGTATGAGTCACCACCTCCAC
** * * *
447639 CTCCATACAAGTACAAGTCACCATCACCTC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
* * *
447669 CTCCGTACAAGAATGAGTCATCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
* * *
447699 CTCCATACAAGTA-CATGTCACCACCACCTC
1 CTCCATACAAGTATGA-GTCACCACCTCCAC
* * * *
447729 CTCCGTACAAGTATGAGTCGCCTCCTCCTC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
* ** *
447759 CTCCGTACAAGTACAAGTCACC-CCTACCTC
1 CTCCATACAAGTATGAGTCACCACCT-CCAC
**
447789 CTCTGTACAAGTATGAGTCACCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
* * * ** *
447819 CTCTATATAAATACAAGTCACCACCACCAC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
* * * * *
447849 CTCCGTACAAATATGAGTCTCCGCCTCCAG
1 CTCCATACAAGTATGAGTCACCACCTCCAC
** *
447879 CTCCATACAAGTACAAGTCACCACCACTC-C
1 CTCCATACAAGTATGAGTCACCACCTC-CAC
*
447909 CTCCTTACAAGTATGAGTCACCACCTCCACCTCCAC
1 CTCCATACAAGTATGAGT---CA---CCACCTCCAC
* * *
447945 CTCCATACAAGTATAAATCACCACCACCACCAC
1 CTCCATACAAGTATGAGT---CACCACCTCCAC
* **
447978 CTCCTTACAAGTATGAGTTTCCACCTCCAC
1 CTCCATACAAGTATGAGTCACCACCTCCAC
448008 CTCCA
1 CTCCA
448013 CCTCCATACA
Statistics
Matches: 336, Mismatches: 84, Indels: 28
0.75 0.19 0.06
Matches are distributed among these distances:
29 5 0.01
30 271 0.81
31 6 0.02
33 26 0.08
35 1 0.00
36 27 0.08
ACGTcount: A:0.29, C:0.40, G:0.10, T:0.21
Consensus pattern (30 bp):
CTCCATACAAGTATGAGTCACCACCTCCAC
Found at i:447620 original size:60 final size:60
Alignment explanation
Indices: 447523--448043 Score: 582
Period size: 60 Copynumber: 8.4 Consensus size: 60
447513 AGCATGCTCG
* ** * *
447523 ATACAAGTACGAGTCACCATTACTTTCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
1 ATACAAGTACAAGTCACCACCACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
* *
447583 ATATAAGTACAAGTCACC-CTCACCTCCTCCGTACAAGTATGAGTCACCACCTCCAACTCC
1 ATACAAGTACAAGTCACCAC-CACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
* * *
447643 ATACAAGTACAAGTCACCATCACCTCCTCCGTACAAGAATGAGTCATCACCTCCACCTCC
1 ATACAAGTACAAGTCACCACCACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
* * * *
447703 ATACAAGTACATGTCACCACCACCTCCTCCGTACAAGTATGAGTCGCCTCCTCCTCCTCC
1 ATACAAGTACAAGTCACCACCACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
* * *
447763 GTACAAGTACAAGTCACC-CCTACCTCCTCTGTACAAGTATGAGTCACCACCTCCACCTCT
1 ATACAAGTACAAGTCACCACC-ACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
* * * * * * *
447823 ATATAAATACAAGTCACCACCACCACCTCCGTACAAATATGAGTCTCCGCCTCCAGCTCC
1 ATACAAGTACAAGTCACCACCACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
*
447883 ATACAAGTACAAGTCACCACCA-CTCCCTCCTTACAAGTATGAGTCACCACCTCCACCTCCACCT
1 ATACAAGTACAAGTCACCACCACCT-CCTCCGTACAAGTATGAGT---CA---CCACCTCCACCT
447947 CC
59 CC
* * * *
447949 ATACAAGTATAAATCACCACCACCACCACCTCCTTACAAGTATGAGTTTCCACCTCCACCTCCAC
1 ATACAAGTACAAGT---CACCACCACCTCCTCCGTACAAGTATGAG--T-CA---CCACCTCCAC
448014 CTCC
57 CTCC
*
448018 ATACAAGTACAAGTC-CCCCCACCTCC
1 ATACAAGTACAAGTCACCACCACCTCC
448044 CCCATATGCT
Statistics
Matches: 393, Mismatches: 51, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.01
60 293 0.75
61 2 0.01
63 1 0.00
65 9 0.02
66 25 0.06
69 58 0.15
70 1 0.00
71 1 0.00
ACGTcount: A:0.29, C:0.40, G:0.10, T:0.21
Consensus pattern (60 bp):
ATACAAGTACAAGTCACCACCACCTCCTCCGTACAAGTATGAGTCACCACCTCCACCTCC
Found at i:447912 original size:36 final size:36
Alignment explanation
Indices: 447872--448040 Score: 151
Period size: 36 Copynumber: 5.0 Consensus size: 36
447862 TGAGTCTCCG
* *
447872 CCTCCAGCTCCATACAAGTACAAGT---CACCACCA
1 CCTCCACCTCCATACAAGTATAAGTCACCACCACCA
* * *
447905 -CT-C-CCTCCTTACAAGTATGAGTCACCACCTCCA
1 CCTCCACCTCCATACAAGTATAAGTCACCACCACCA
*
447938 CCTCCACCTCCATACAAGTATAAATCACCACCACCA
1 CCTCCACCTCCATACAAGTATAAGTCACCACCACCA
* * ** *
447974 ---CCACCTCCTTACAAGTATGAGTTTCCACCTCCA
1 CCTCCACCTCCATACAAGTATAAGTCACCACCACCA
* *
448007 CCTCCACCTCCATACAAGTACAAGTC-CCCCCACC
1 CCTCCACCTCCATACAAGTATAAGTCACCACCACC
448041 TCCCCCATAT
Statistics
Matches: 106, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
30 15 0.14
31 1 0.01
32 2 0.02
33 34 0.32
34 2 0.02
35 7 0.07
36 45 0.42
ACGTcount: A:0.29, C:0.44, G:0.07, T:0.20
Consensus pattern (36 bp):
CCTCCACCTCCATACAAGTATAAGTCACCACCACCA
Found at i:448689 original size:2 final size:2
Alignment explanation
Indices: 448682--448719 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
448672 ACTCAATTTA
448682 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
448720 TGAATTGTTT
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:449871 original size:18 final size:18
Alignment explanation
Indices: 449850--449887 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
449840 GAGTTTCTCT
449850 ATCATTAAAAGTTACAAA
1 ATCATTAAAAGTTACAAA
449868 ATCATTAAAAGTTACAAA
1 ATCATTAAAAGTTACAAA
449886 AT
1 AT
449888 GATCACTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (18 bp):
ATCATTAAAAGTTACAAA
Found at i:450236 original size:30 final size:30
Alignment explanation
Indices: 450202--451323 Score: 794
Period size: 30 Copynumber: 37.4 Consensus size: 30
450192 CCTCTATACG
*
450202 AGTCACCACCACCACCAT-CATACAAATACA
1 AGTCACCACCACCACC-TCCATACAAGTACA
* *** * *
450232 AGTCACCATCACCTTTTCCGTACAAATACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * * * *
450262 AGTCTCCTCCTCCTCCTCCATAGAAATACA
1 AGTCACCACCACCACCTCCATACAAGTACA
** *
450292 AGTCACCACCACCACCTCTGTACAAGTACG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * *
450322 AGTCACCACCTCTACCTCCATACAAGTACG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * *
450352 AGTCCCCACCTCCACCTCCATGCAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
450382 AGTCATCACCACCACCTCCATACAAGTATA
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
450412 AGTCCCCACCTCCACCTCCATACAAGT-C-
1 AGTCACCACCACCACCTCCATACAAGTACA
* **
450440 A-CCACCACCACCACCT---TACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * *
450466 AGTCGCCACCTCCACATTCATACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * **
450496 AATCAACACCACCACCTCCTTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
450526 AGTCTCCACCTCCACCTCCATACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * **
450556 AGTCAACACCACCACCTCCTTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
450586 AGTCCCCACCTCCACCTCCATACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * ** **
450616 AATCACCACCACCACATCTTTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
450646 AGTTC-CCACCTCCACCTCCATACAAGTATA
1 AG-TCACCACCACCACCTCCATACAAGTACA
* * * * **
450676 AATCAACACCACCACCTCCTTATAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * *
450706 AGTCCCCA-CATTCACCTCCAAACAAGTACA
1 AGTCACCACCA-CCACCTCCATACAAGTACA
* * **
450736 AGTCACC-CCACCTCCTCCGTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * *
450765 AGTCCCCACCTCTACCTCCATTCAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* **
450795 AGTCACCACCACCACCACCACTTCCTTACAAGTATG
1 AGT---CACCACCACCA-C-C-TCCATACAAGTACA
* * **
450831 AGTCACCACCTCCACCTCCTTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * **
450861 AGTCACCACCACCACCTCCGTACAAATATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * *
450891 AGTCTCCACCTCCACCTCCGTACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * * * **
450921 ATTTACTC-CCACCTCCTTCGTACAAGTATG
1 AGTCAC-CACCACCACCTCCATACAAGTACA
* * * *
450951 AGTCTCCACCTCTACCTACATACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * **
450981 AGCCACCACCACCACCTCCTTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * *
451011 AGTCCCCACCTCCACCTCCATATATGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * **
451041 AATCACCACCACCACCTCCTTATAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
*
451071 AGTCACCA-CATCCACCTCTATACAAGTACA
1 AGTCACCACCA-CCACCTCCATACAAGTACA
* * * * **
451101 AATCACTACCACCACCTCCTTACAGGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * * **
451131 AGTCACCACCACCATCTCCGTACAAATATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
451161 AGTCCCCACCTCCACCTCCATACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * *
451191 AGTCACC-CCTACCTCCTTCATACAAATACA
1 AGTCACCACC-ACCACCTCCATACAAGTACA
* * * *
451221 AGTTACCACCTCCACCTCCACACGAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* * **
451251 AATCACCACCACCACCTCCTTACAAGTATG
1 AGTCACCACCACCACCTCCATACAAGTACA
* * *
451281 AGTCTCCACCTCCACCTCTATACAAGTACA
1 AGTCACCACCACCACCTCCATACAAGTACA
* *
451311 AGTCTCCCCCACC
1 AGTCACCACCACC
451324 TCTTCTATAT
Statistics
Matches: 835, Mismatches: 233, Indels: 48
0.75 0.21 0.04
Matches are distributed among these distances:
24 7 0.01
26 1 0.00
27 23 0.03
28 1 0.00
29 29 0.03
30 732 0.88
31 8 0.01
32 1 0.00
33 18 0.02
34 1 0.00
35 1 0.00
36 13 0.02
ACGTcount: A:0.31, C:0.40, G:0.08, T:0.21
Consensus pattern (30 bp):
AGTCACCACCACCACCTCCATACAAGTACA
Found at i:450400 original size:120 final size:120
Alignment explanation
Indices: 450292--451308 Score: 1030
Period size: 120 Copynumber: 8.5 Consensus size: 120
450282 TAGAAATACA
* ** * * * * * *
450292 AGTCACCACCACCACCTCTGTACAAGTACGAGTCACCACCTCTACCTCCATACAAGTACGAGTCC
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTCA
* * * *
450357 CCACCTCCACCTCCATGCAAGTACAAGTCATCACCACCACCTCCATACAAGTATA
66 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * *
450412 AGTCCCCACCTCCACCT-C---C-A-TACAAGTCACCACCACCACCACCTTACAAGTATGAGTCG
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTCA
* * * *
450471 CCACCTCCACATTCATACAAGTACAAATCAACACCACCACCTCCTTACAAGTATG
66 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * *
450526 AGTCTCCACCTCCACCTCCATACAAGTACAAGTCAACACCACCACCTCCTTACAAGTATGAGTCC
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTCA
* * *
450591 CCACCTCCACCTCCATACAAGTACAAATCACCACCACCACATCTTTACAAGTATG
66 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * * *
450646 AGTTC-CCACCTCCACCTCCATACAAGTATAAATCAACACCACCACCTCCTTATAAGTATGAGTC
1 AG-TCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTC
* * * * * *
450710 CCCACATTCACCTCCAAACAAGTACAAGTCACC-CCACCTCCTCCGTACAAGTATG
65 ACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * *
450765 AGTCCCCACCTCTACCTCCATTCAAGTACAAGTCACCACCACCACCACCACTTCCTTACAAGTAT
1 AGTCACCACCTCCACCTCCATACAAGTACAAGT---CACCACCACCA-C-C-TCCTTACAAGTAT
* ** * *
450830 GAGTCACCACCTCCACCTCCTTACAAGTATGAGTCACCACCACCACCTCCGTACAAATATG
60 GAGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * * * * * *
450891 AGTCTCCACCTCCACCTCCGTACAAGTACAATTTACTC-CCACCTCCTTCGTACAAGTATGAGTC
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCAC-CACCACCACCTCCTTACAAGTATGAGTC
* * * *
450955 TCCACCTCTACCTACATACAAGTACAAGCCACCACCACCACCTCCTTACAAGTATG
65 ACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * * * *
451011 AGTCCCCACCTCCACCTCCATATATGTACAAATCACCACCACCACCTCCTTATAAGTATGAGTCA
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTCA
* * * * *
451076 CCACATCCACCTCTATACAAGTACAAATCACTACCACCACCTCCTTACAGGTATG
66 CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * * * ** * * * **
451131 AGTCACCACCACCATCTCCGTACAAATATGAGTCCCCACCTCCACCTCCATACAAGTACAAGTCA
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTCA
* * * * * ** * **
451196 CC-CCTACCTCCTTCATACAAATACAAGTTACCACCTCCACCTCCACACGAGTACA
66 CCACCT-CCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
* * * ** * *
451251 AATCACCACCACCACCTCCTTACAAGTATGAGTCTCCACCTCCACCT-CTATACAAGTA
1 AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCT-TACAAGTA
451309 CAAGTCTCCC
Statistics
Matches: 752, Mismatches: 126, Indels: 38
0.82 0.14 0.04
Matches are distributed among these distances:
114 96 0.13
115 2 0.00
116 1 0.00
118 3 0.00
119 49 0.07
120 486 0.65
121 3 0.00
122 11 0.01
123 8 0.01
124 2 0.00
125 43 0.06
126 48 0.06
ACGTcount: A:0.31, C:0.40, G:0.08, T:0.21
Consensus pattern (120 bp):
AGTCACCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATGAGTCA
CCACCTCCACCTCCATACAAGTACAAGTCACCACCACCACCTCCTTACAAGTATG
Found at i:450405 original size:24 final size:24
Alignment explanation
Indices: 450378--450462 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
450368 TCCATGCAAG
450378 TACAAGTCATCACCACCACCTCCA
1 TACAAGTCATCACCACCACCTCCA
* *
450402 TACAAGTATAAGTCCCCACCTCCACCTCCA
1 TACAAG--TCA-T---CACCACCACCTCCA
* * *
450432 TACAAGTCACCACCACCACCACCT
1 TACAAGTCATCACCACCACCTCCA
450456 TACAAGT
1 TACAAGT
450463 ATGAGTCGCC
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 24 0.50
26 2 0.04
27 1 0.02
28 2 0.04
30 19 0.40
ACGTcount: A:0.33, C:0.44, G:0.06, T:0.18
Consensus pattern (24 bp):
TACAAGTCATCACCACCACCTCCA
Found at i:461964 original size:17 final size:19
Alignment explanation
Indices: 461944--461978 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
461934 TCCCCAGGAA
461944 TTTAAAA-AAAA-ACTTTG
1 TTTAAAACAAAATACTTTG
461961 TTTAAAACAAAATACTTT
1 TTTAAAACAAAATACTTT
461979 AATTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (19 bp):
TTTAAAACAAAATACTTTG
Found at i:462317 original size:2 final size:2
Alignment explanation
Indices: 462277--462304 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
462267 TTCAATATGC
462277 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
462305 CATGACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:462328 original size:20 final size:20
Alignment explanation
Indices: 462277--462317 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
462267 TTCAATATGC
*
462277 ATATATATAT-AT-ATATAT
1 ATATATATATCATGACATAT
462295 ATATATATATCATGACATAT
1 ATATATATATCATGACATAT
462315 ATA
1 ATA
462318 ATCATGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 2 0.10
20 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATATATATCATGACATAT
Found at i:462530 original size:22 final size:19
Alignment explanation
Indices: 462504--462556 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
462494 TTCAGTATTC
462504 GTCCCGAAGGACTGCTATATAT
1 GTCCCGAAGGACT-C-A-ATAT
* *
462526 GTCCCGTAGGAC-CACTAT
1 GTCCCGAAGGACTCAATAT
462544 GTCCCGAAGGACT
1 GTCCCGAAGGACT
462557 ACAACACCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.52
19 1 0.04
20 1 0.04
22 11 0.41
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (19 bp):
GTCCCGAAGGACTCAATAT
Found at i:462861 original size:14 final size:15
Alignment explanation
Indices: 462834--462862 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
462824 ATATCATATA
462834 TCTTATGTTTTATGC
1 TCTTATGTTTTATGC
462849 TCTTATG-TTTATGC
1 TCTTATGTTTTATGC
462863 ATATCATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TCTTATGTTTTATGC
Found at i:463244 original size:19 final size:20
Alignment explanation
Indices: 463207--463245 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
463197 TTTTTCATTT
463207 AGGGGGAATCGATACCCCCC
1 AGGGGGAATCGATACCCCCC
463227 AGGGGGAATCGATACCCCC
1 AGGGGGAATCGATACCCCC
463246 TGGACATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.33, G:0.31, T:0.10
Consensus pattern (20 bp):
AGGGGGAATCGATACCCCCC
Found at i:464300 original size:21 final size:22
Alignment explanation
Indices: 464271--464324 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
464261 CCGTGGGGGT
* *
464271 ATCGATTCCC-TCAATGAGGGA
1 ATCGGTTCCCATCAAAGAGGGA
*
464292 ATCGGTTCCCATTCAAAGGGGGA
1 ATCGGTTCCCA-TCAAAGAGGGA
464315 ATCGGTTCCC
1 ATCGGTTCCC
464325 CTTCAAGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.32
23 19 0.68
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (22 bp):
ATCGGTTCCCATCAAAGAGGGA
Found at i:464335 original size:22 final size:23
Alignment explanation
Indices: 464288--464346 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
464278 CCCTCAATGA
464288 GGGAATCGGTTCCCATTCAAAGG
1 GGGAATCGGTTCCCATTCAAAGG
*
464311 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGGTTCCCATTCAAAGG
* *
464333 GGGTATCGATTCCC
1 GGGAATCGGTTCCC
464347 TCTGCACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 16 0.48
23 17 0.52
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (23 bp):
GGGAATCGGTTCCCATTCAAAGG
Found at i:468444 original size:117 final size:118
Alignment explanation
Indices: 468224--468444 Score: 279
Period size: 117 Copynumber: 1.9 Consensus size: 118
468214 CTTTCAAATC
* *
468224 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAGGCTCTAAATCCTTCTTCAAGATTT
1 AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
* *
468289 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
* * * *
468342 AAAA-TTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAACAT
1 AAAATTTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACAT
* * **
468404 TTCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAA
64 TTCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAA
468445 TATCATTTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
116 2 0.02
117 78 0.89
118 8 0.09
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (118 bp):
AAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:490026 original size:50 final size:50
Alignment explanation
Indices: 489951--490084 Score: 243
Period size: 49 Copynumber: 2.7 Consensus size: 50
489941 ATGGGTAAGT
489951 GAAAGCAAGTTAGTAAGGTATACATTTTTTTATCATTTTAATTTTGCAAA
1 GAAAGCAAGTTAGTAAGGTATACATTTTTTTATCATTTTAATTTTGCAAA
490001 GAAAGCAAGTTAGTAAGGTATACA-TTTTTTATCATTTTAATTTTGCAAA
1 GAAAGCAAGTTAGTAAGGTATACATTTTTTTATCATTTTAATTTTGCAAA
* *
490050 GAAAGCAAGTTAGTAAGTTATACATTTTTTGATCA
1 GAAAGCAAGTTAGTAAGGTATACATTTTTTTATCA
490085 GGTTACGAAC
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
49 48 0.59
50 33 0.41
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (50 bp):
GAAAGCAAGTTAGTAAGGTATACATTTTTTTATCATTTTAATTTTGCAAA
Found at i:491395 original size:15 final size:15
Alignment explanation
Indices: 491371--491410 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
491361 ATCATCGTCG
491371 TCGTCGTCGTCA-CTA
1 TCGTCGTCGTCATC-A
*
491386 TCGTCATCGTCATCA
1 TCGTCGTCGTCATCA
491401 TCGTCGTCGT
1 TCGTCGTCGT
491411 AAATCATCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.35
Consensus pattern (15 bp):
TCGTCGTCGTCATCA
Found at i:491401 original size:9 final size:9
Alignment explanation
Indices: 491362--491408 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
491352 CTCGCTGTCA
491362 TCATCGTCG
1 TCATCGTCG
*
491371 TCGTCGTCG
1 TCATCGTCG
*
491380 TCA-CTATCG
1 TCATC-GTCG
*
491389 TCATCGTCA
1 TCATCGTCG
491398 TCATCGTCG
1 TCATCGTCG
491407 TC
1 TC
491409 GTAAATCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
8 1 0.03
9 28 0.93
10 1 0.03
ACGTcount: A:0.13, C:0.34, G:0.19, T:0.34
Consensus pattern (9 bp):
TCATCGTCG
Found at i:491797 original size:20 final size:18
Alignment explanation
Indices: 491752--491805 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
491742 GCGATGGCGA
*
491752 CATCATATATGGCTGCGG
1 CATCATATATGGATGCGG
*
491770 CATCATATATGGATGTGG
1 CATCATATATGGATGCGG
491788 CATCATATATGGATGCGG
1 CATCATATATGGATGCGG
491806 TGGCTGCTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (18 bp):
CATCATATATGGATGCGG
Found at i:493420 original size:112 final size:111
Alignment explanation
Indices: 493285--493507 Score: 374
Period size: 112 Copynumber: 2.0 Consensus size: 111
493275 AATTACAAAA
*
493285 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTACTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATACTACTAATAATTTAAATTA
* *
493350 AATTAAAACGTTAAAAATATTACCTTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTT-AAAATATTACCGTATCAGCAAAGTGTAGAGATAT
*
493397 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATACTACTAATAATTTAAATTA
* * *
493462 AATTAAAACGTTAAAATGTTACGGTATTAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
493508 ATGATTTCCA
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
111 29 0.28
112 75 0.72
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATACTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:493651 original size:10 final size:11
Alignment explanation
Indices: 493633--493668 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
493623 AAGATAGAGT
493633 ATTTGAGAGAA
1 ATTTGAGAGAA
493644 ATTT-AGAG-A
1 ATTTGAGAGAA
493653 ATTTGAGAG-A
1 ATTTGAGAGAA
493663 ATTTGA
1 ATTTGA
493669 TGTGATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.21
10 15 0.62
11 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:498943 original size:75 final size:74
Alignment explanation
Indices: 498857--499252 Score: 461
Period size: 75 Copynumber: 5.3 Consensus size: 74
498847 TTTATATATG
* * * * *
498857 TATATATTATATAATTTTGAAAACATTTTG-AAAATCTATATGATATATAGATTTTAAAACATTT
1 TATATATTATATAGTTTTTAAAACATTTTGAAAAATATATATAATATATAGTTTTTAAAACATTT
498921 TTGAAAACATA
66 TTG-AAA-ATA
* * *
498932 TATATATTATATGGTTTTTAAAATATTTT-AAAAATATATATAATATATAGTTTTTTAAA-ATAT
1 TATATATTATATAGTTTTTAAAACATTTTGAAAAATATATATAATATATAGTTTTTAAAACAT-T
498995 TTTGAAAATA
65 TTTGAAAATA
*
499005 TATA-A-TATATAGTTTTTTAAAATATTTTGAAAATATATATATAATATATAGTTTTTAAAACA-
1 TATATATTATATAG-TTTTTAAAACATTTTGAAAA-ATATATATAATATATAGTTTTTAAAACAT
499067 TTTTGAAAA-A
64 TTTTGAAAATA
499077 -ATATATTATATAGTTTTTAAAACATTTTGAAAACATATATATATATTATATAGTTTTTAAAACA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAA-ATATATATA-A-TATATAGTTTTTAAAACA
**
499141 TTTTAAAAAACTTA
63 TTTTTGAAAA--TA
* * *
499155 TATATATTATATAATTTTTAAAACGTTTTTGAAAAATATATATAATATATAAGTATTTAAAACAA
1 TATATATTATATAGTTTTTAAAAC-ATTTTGAAAAATATATATAATATAT-AGTTTTTAAAAC-A
*
499220 ATTTTGAAAATA
63 TTTTTGAAAATA
*
499232 TA-A-ATTATATAGTTTTGAAAA
1 TATATATTATATAGTTTTTAAAA
499253 TTATTTTTTA
Statistics
Matches: 281, Mismatches: 22, Indels: 36
0.83 0.06 0.11
Matches are distributed among these distances:
71 9 0.03
72 46 0.16
73 28 0.10
74 48 0.17
75 79 0.28
76 1 0.00
77 9 0.03
78 13 0.05
79 39 0.14
80 9 0.03
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (74 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAAATATATATAATATATAGTTTTTAAAACATTT
TTGAAAATA
Found at i:498951 original size:39 final size:38
Alignment explanation
Indices: 498857--499273 Score: 411
Period size: 39 Copynumber: 11.1 Consensus size: 38
498847 TTTATATATG
* *
498857 TATATATTATATAATTTTGAAAACATTTTGAAAATC-TA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAA-CATA
* *
498895 TAT-GA-TATATAGATTTTAAAACATTTTTGAAAACATA
1 TATATATTATATAGTTTTTAAAACA-TTTTGAAAACATA
* *
498932 TATATATTATATGGTTTTTAAAATATTTT-AAAA-ATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
* *
498968 TATATAATATATAGTTTTTTAAAATATTTTG-AAA-ATA
1 TATATATTATATAG-TTTTTAAAACATTTTGAAAACATA
* *
499005 TATA-A-TATATAGTTTTTTAAAATATTTTGAAAATATA
1 TATATATTATATAG-TTTTTAAAACATTTTGAAAACATA
*
499042 TATATAATATATAGTTTTTAAAACATTTTG-AAA-A-A
1 TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
499077 -ATATATTATATAGTTTTTAAAACATTTTGAAAACATATA
1 TATATATTATATAGTTTTTAAAACATTTTGAAAAC--ATA
* *
499116 TATATATTATATAGTTTTTAAAACATTTTAAAAAACTTA
1 TATATATTATATAGTTTTTAAAACATTTT-GAAAACATA
* *
499155 TATATATTATATAATTTTTAAAACGTTTTTGAAAA-ATA
1 TATATATTATATAGTTTTTAAAAC-ATTTTGAAAACATA
* *
499193 TATATAATATATAAGTATTTAAAACAAATTTTG-AAA-ATA
1 TATATATTATAT-AGTTTTTAAAAC--ATTTTGAAAACATA
* * **
499232 TA-A-ATTATATAGTTTTGAAAATTATTTTTTAAACATA
1 TATATATTATATAGTTTTTAAAA-CATTTTGAAAACATA
499269 TATAT
1 TATAT
499274 TATATGGTTT
Statistics
Matches: 326, Mismatches: 28, Indels: 49
0.81 0.07 0.12
Matches are distributed among these distances:
34 28 0.09
35 33 0.10
36 48 0.15
37 65 0.20
38 40 0.12
39 70 0.21
40 37 0.11
41 5 0.02
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (38 bp):
TATATATTATATAGTTTTTAAAACATTTTGAAAACATA
Found at i:499311 original size:3 final size:3
Alignment explanation
Indices: 499296--499328 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
499286 GAAAATGTTT
499296 TTA TTA -TA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
499329 ACCTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:506250 original size:22 final size:22
Alignment explanation
Indices: 506214--506255 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
506204 GTAATATTCG
*
506214 TGAACCGTTCGAATAATGTTTT
1 TGAACCGTTCAAATAATGTTTT
*
506236 TGAACCGTTTAAATAATGTT
1 TGAACCGTTCAAATAATGTT
506256 CATTATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (22 bp):
TGAACCGTTCAAATAATGTTTT
Found at i:510860 original size:31 final size:31
Alignment explanation
Indices: 510825--510883 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
510815 TTAAAATGTA
*
510825 ACATTAAGTTTTGAAAACCTAAAAGTTTTAG
1 ACATTAAGTTTTGAAAAACTAAAAGTTTTAG
*
510856 ACATTAAGTTTTGAAAAATTAAAAGTTT
1 ACATTAAGTTTTGAAAAACTAAAAGTTT
510884 AATACTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (31 bp):
ACATTAAGTTTTGAAAAACTAAAAGTTTTAG
Found at i:510883 original size:17 final size:17
Alignment explanation
Indices: 510830--510883 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
510820 ATGTAACATT
**
510830 AAGTTTTGAAAACCTAA
1 AAGTTTTGAAAAATTAA
* *
510847 AAGTTTT-AGACATT--
1 AAGTTTTGAAAAATTAA
510861 AAGTTTTGAAAAATTAA
1 AAGTTTTGAAAAATTAA
510878 AAGTTT
1 AAGTTT
510884 AATACTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 7 0.25
15 5 0.18
16 3 0.11
17 13 0.46
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (17 bp):
AAGTTTTGAAAAATTAA
Found at i:513436 original size:26 final size:27
Alignment explanation
Indices: 513407--513462 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
513397 TGGAGAAATA
513407 TAAAATTAC-TTG-AATATATATTTTAT
1 TAAAATTACATTGTAATATATATTTT-T
*
513433 T-AAATTACATTTGTGATATATATTTTT
1 TAAAATTACA-TTGTAATATATATTTTT
513460 TAA
1 TAA
513463 TAAATAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
25 7 0.28
26 1 0.04
27 5 0.20
28 12 0.48
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (27 bp):
TAAAATTACATTGTAATATATATTTTT
Found at i:524520 original size:6 final size:6
Alignment explanation
Indices: 524511--524885 Score: 729
Period size: 6 Copynumber: 63.0 Consensus size: 6
524501 ATATGTGCAG
524511 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524559 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524607 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524655 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524703 A-AC-- ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524748 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524796 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524844 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
524886 GCACGATAGA
Statistics
Matches: 366, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
3 1 0.00
4 2 0.01
5 2 0.01
6 361 0.99
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ACACAT
Found at i:524711 original size:9 final size:8
Alignment explanation
Indices: 524523--524884 Score: 78
Period size: 8 Copynumber: 45.4 Consensus size: 8
524513 ACATACACAT
524523 ACACATAC
1 ACACATAC
* *
524531 ACATACAC
1 ACACATAC
* * *
524539 ATACACAT
1 ACACATAC
524547 ACACATAC
1 ACACATAC
* *
524555 ACATACAC
1 ACACATAC
* * *
524563 ATACACAT
1 ACACATAC
524571 ACACATAC
1 ACACATAC
* *
524579 ACATACAC
1 ACACATAC
* * *
524587 ATACACAT
1 ACACATAC
524595 ACACATAC
1 ACACATAC
* *
524603 ACATACAC
1 ACACATAC
* * *
524611 ATACACAT
1 ACACATAC
524619 ACACATAC
1 ACACATAC
* *
524627 ACATACAC
1 ACACATAC
* * *
524635 ATACACAT
1 ACACATAC
524643 ACACATAC
1 ACACATAC
* *
524651 ACATACAC
1 ACACATAC
* * *
524659 ATACACAT
1 ACACATAC
524667 ACACATAC
1 ACACATAC
* *
524675 ACATACAC
1 ACACATAC
* * *
524683 ATACACAT
1 ACACATAC
524691 ACACATAC
1 ACACATAC
*
524699 ACATA-AC
1 ACACATAC
524706 ACACATAC
1 ACACATAC
* *
524714 ACATACAC
1 ACACATAC
* * *
524722 ATACACAT
1 ACACATAC
524730 ACACATAC
1 ACACATAC
* *
524738 ACATACAC
1 ACACATAC
* * *
524746 ATACACAT
1 ACACATAC
524754 ACACATAC
1 ACACATAC
* *
524762 ACATACAC
1 ACACATAC
* * *
524770 ATACACAT
1 ACACATAC
524778 ACACATAC
1 ACACATAC
* *
524786 ACATACAC
1 ACACATAC
* * *
524794 ATACACAT
1 ACACATAC
524802 ACACATAC
1 ACACATAC
* *
524810 ACATACAC
1 ACACATAC
* * *
524818 ATACACAT
1 ACACATAC
524826 ACACATAC
1 ACACATAC
* *
524834 ACATACAC
1 ACACATAC
* * *
524842 ATACACAT
1 ACACATAC
524850 ACACATAC
1 ACACATAC
* *
524858 ACATACAC
1 ACACATAC
* * *
524866 ATACACAT
1 ACACATAC
524874 ACACATAC
1 ACACATAC
524882 ACA
1 ACA
524885 TGCACGATAG
Statistics
Matches: 239, Mismatches: 114, Indels: 2
0.67 0.32 0.01
Matches are distributed among these distances:
7 6 0.03
8 233 0.97
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.16
Consensus pattern (8 bp):
ACACATAC
Found at i:528230 original size:15 final size:15
Alignment explanation
Indices: 528206--528238 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
528196 TGGCAGATCC
*
528206 AAATCTAGAACGGGA
1 AAATCAAGAACGGGA
528221 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
528236 AAA
1 AAA
528239 AAAGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.12, G:0.24, T:0.09
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:534098 original size:66 final size:66
Alignment explanation
Indices: 533992--534263 Score: 431
Period size: 66 Copynumber: 4.1 Consensus size: 66
533982 CAGGTTGACC
*
533992 TTGAGGAATCCAAAAAACAGGAAAGTGCAAAGTTTGAATCTACTTTGAAGAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGAAGAAGATGCAACTTGAG
534057 T
66 T
* *
534058 TTGAGGAATCCAAAAAACAGGAAAATGCAAGGTTTGAATCTACTTTGCAGAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGAAGAAGATGCAACTTGAG
534123 T
66 T
* *
534124 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTATGAATCTACCTT-ACAGAAGATGCAACTTGA
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGA-AGAAGATGCAACTTGA
534188 GT
65 GT
* * *
534190 TTGAGGAATCTAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCAA-AAGAAGCAACTTGA
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTG-AAGAAGATGCAACTTGA
534254 GT
65 GT
*
534256 TTCAGGAA
1 TTGAGGAA
534264 CTGCAAGCTG
Statistics
Matches: 190, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
66 188 0.99
67 1 0.01
68 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.24
Consensus pattern (66 bp):
TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGAAGAAGATGCAACTTGAG
T
Found at i:534652 original size:96 final size:96
Alignment explanation
Indices: 534485--534795 Score: 378
Period size: 96 Copynumber: 3.2 Consensus size: 96
534475 AGAATTTGGG
* * *
534485 ACTTGAGCTTCTGCAAACAAAAGAGTTGCTAGAACAGGAAAGTGCAAGGTTTGAATCTTCTATT-
1 ACTTGAGCTTCAGCAAACAAAAGAGTTACTAGAACAGGAAAGTGCAAGGTTTGAATCTACT-TTG
* *
534549 CATAAGAAGCAACTTGAGTTTCATGAACTGCA
65 CAAAAGAAGCAACTTGAGTTTCACGAACTGCA
* * * * **
534581 ACTTGAGCTTCAGCAATCAAAAGAGTTACTAGCACAGGAAACTGAAAGGTTACAATCTACTTTGC
1 ACTTGAGCTTCAGCAAACAAAAGAGTTACTAGAACAGGAAAGTGCAAGGTTTGAATCTACTTTGC
* *
534646 AAAAGAAGGAACTTGAGTTTCAGGAACTGCA
66 AAAAGAAGCAACTTGAGTTTCACGAACTGCA
* * * *
534677 ACTTGAGCTTCAGAAAAC-AAAGAGTTACAAGAAGAGGAAAGTGCAAGGTTTGAATCTACCTTG-
1 ACTTGAGCTTCAGCAAACAAAAGAGTTACTAGAACAGGAAAGTGCAAGGTTTGAATCTACTTTGC
*
534740 AATGAA-AAGCAACTTGAGTTTCACGAACTGCG
66 AA--AAGAAGCAACTTGAGTTTCACGAACTGCA
* * *
534772 ACTTCAGCTTCAGGAAACACAAGA
1 ACTTGAGCTTCAGCAAACAAAAGA
534796 CTTGCTAGTT
Statistics
Matches: 183, Mismatches: 28, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
94 2 0.01
95 78 0.43
96 103 0.56
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (96 bp):
ACTTGAGCTTCAGCAAACAAAAGAGTTACTAGAACAGGAAAGTGCAAGGTTTGAATCTACTTTGC
AAAAGAAGCAACTTGAGTTTCACGAACTGCA
Found at i:535370 original size:274 final size:271
Alignment explanation
Indices: 534800--536115 Score: 1485
Period size: 274 Copynumber: 4.8 Consensus size: 271
534790 ACAAGACTTG
* * * * * * * *
534800 CTAGTTAAGGAACGTGAAGCTGCAAAGAGCATTGCTGAACAAGTTCCCGCGATTAAGGAGATCCC
1 CTAGTTGAGGAACATGAAGCTGAAAAGAACATTGCTGAACAAGTTCCTGCGGTTCAGGAGAACCC
* * * *
534865 AGCTATTGACAATGAATTGATGAATAAACTTACCT-CTCAAAATGAGCAGCTGAAGGTATTTTTA
66 -GTTATTGACAATGAATTGATGAATAAACCTA-CTGCTGAAAATGAGCAGCTGAAGGTATTGTTA
* *
534929 GACATTTGTTGCTTCAAATAAGATA-TTAGGTTTGACTAAAGGCTTTCTTGATGCCATTTTTAAA
129 GACATTTGTTGCTTCAAATAAGATAGATAGGTTTGACTAAAGGCTTTCTTGATGTCATTTTTAAA
* * ** *
534993 CTTGG---CTGTT-CTTTATGTTTCTTGAAATCTTGCTTGGCACAATCTCATTGTAAGTTCAGGA
194 CTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGCTTGGCACAATGACATTGTAGGTTCAGGA
535054 AACAAAGGAGTCA
259 AACAAAGGAGTCA
* * *
535067 CTAGTTGAGGAACCTGAAGCCGAAAAGAACATTTCTGAACAAGTTCCTGCGGTTCAGGAGGAACC
1 CTAGTTGAGGAACATGAAGCTGAAAAGAACATTGCTGAACAAGTTCCTGCGGTTCAGGA-GAACC
* * *
535132 CGTTATTGACAACGAATTGATGAGTAAACCTACTGCTGAAAATGAGCAGCCGAAGGTATTGTTAG
65 CGTTATTGACAATGAATTGATGAATAAACCTACTGCTGAAAATGAGCAGCTGAAGGTATTGTTAG
** * * * * * *
535197 ACATTTGTTGCTTTGAACAAGAATAAGATAGGCTTGATTTGAA-GCTGTGTTGATGTCATTTTTA
130 ACATTTGTTGCTTCAAATAAG-AT-AGATAGGTTTGA-CTAAAGGCTTTCTTGATGTCATTTTTA
* * * *
535261 AACTTGGTTGTTCTTTCTTTATGTTTCTTGAAATCTTGCTTCGCACAATGACATTGTCGGTTCAG
192 AACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGCTTGGCACAATGACATTGTAGGTTCAG
535326 GAAACAAAGGAGTCA
257 GAAACAAAGGAGTCA
** **
535341 CTAGTTCTGGAATGTGAAGCTGAAAAGAACATTGCTGAACAAGTTCCTGCGGTTCAGGAGAACCT
1 CTAGTTGAGGAACATGAAGCTGAAAAGAACATTGCTGAACAAGTTCCTGCGGTTCAGGAGAACC-
* ** *
535406 CGTTATTGGA-AATGAATTGATGAATGAACCTACTGCTGAAAATGAGCAGCAAAAGGTATTGCTA
65 CGTTATT-GACAATGAATTGATGAATAAACCTACTGCTGAAAATGAGCAGCTGAAGGTATTGTTA
* *
535470 GACATTTGTTGCTTCGAATAAGAACAAGATCTTAGGTTTGACTAGAA-GCTTTCTTGATGTCATT
129 GACATTTGTTGCTTCAAATAAG-A-TAGA---TAGGTTTGACTA-AAGGCTTTCTTGATGTCATT
* * *
535534 TTT-AACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGTTTGGCACAATGGCGTTGTAGGT
188 TTTAAACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGCTTGGCACAATGACATTGTAGGT
*
535598 TCAGGAAACAAA-GAGTTA
253 TCAGGAAACAAAGGAGTCA
* * * *
535616 CTAGTTGAGGAACACGAAGCTGCAAAGAACATTGCTGAACAAGTTCCTGCAGTTCAGGAGAGCTC
1 CTAGTTGAGGAACATGAAGCTGAAAAGAACATTGCTGAACAAGTTCCTGCGGTTCAGGAGAAC-C
* * * * * * * *
535681 CGTCATTGTCAACGAATTGATGAATAAACCAACTGCTGATAATGAGCAGCTAAAGGTATTTTTAC
65 CGTTATTGACAATGAATTGATGAATAAACCTACTGCTGAAAATGAGCAGCTGAAGGTATTGTTAG
* ** *
535746 ACATCTGTTGCTTCAAATAAGAT-CTTAGGTTTGACTAAAGGCTTTTTTTGATGTCATTTTTAAA
130 ACATTTGTTGCTTCAAATAAGATAGATAGGTTTGACTAAAGGC-TTTCTTGATGTCATTTTTAAA
** * * * * * *
535810 CTTAATTATTGTTCCTTTATGTTTCTTTAAATCTTGTTTGGGACAATGCCATTGTAGGTTCAAGA
194 CTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGCTTGGCACAATGACATTGTAGGTTCAGGA
* *
535875 AACAAAAGAGTTA
259 AACAAAGGAGTCA
* * **** * *
535888 CTAGTTGAGGAACATGAAGCT-ACAAA-AAGCATTACTGAACTAGTTCCTATAATTAAGGAGATT
1 CTAGTTGAGGAACATGAAGCTGA-AAAGAA-CATTGCTGAACAAGTTCCTGCGGTTCAGGAGA-A
* * **
535951 CCCATTATTGACATTGAATTGATGAA-AGAAATTACTGCTGAAAATGAGCAGCTGAAGGTATTGT
63 CCCGTTATTGACAATGAATTGATGAATA-AACCTACTGCTGAAAATGAGCAGCTGAAGGTATTGT
* ** **
536015 TAAACATTTGTTGCTTCAAATAAGAT-CTTAGGTTTGACTAAAGGCTTTCACGATGTCATTTTTA
127 TAGACATTTGTTGCTTCAAATAAGATAGATAGGTTTGACTAAAGGCTTTCTTGATGTCATTTTTA
*
536079 AACTTTGTTATTCTTCCTTTATGTTTCTTGAAATCTT
192 AACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTT
536116 TTTTGTTCAA
Statistics
Matches: 899, Mismatches: 123, Indels: 50
0.84 0.11 0.05
Matches are distributed among these distances:
266 2 0.00
267 122 0.14
268 9 0.01
269 15 0.02
270 50 0.06
271 120 0.13
272 148 0.16
273 9 0.01
274 194 0.22
275 134 0.15
276 68 0.08
277 28 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (271 bp):
CTAGTTGAGGAACATGAAGCTGAAAAGAACATTGCTGAACAAGTTCCTGCGGTTCAGGAGAACCC
GTTATTGACAATGAATTGATGAATAAACCTACTGCTGAAAATGAGCAGCTGAAGGTATTGTTAGA
CATTTGTTGCTTCAAATAAGATAGATAGGTTTGACTAAAGGCTTTCTTGATGTCATTTTTAAACT
TGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGCTTGGCACAATGACATTGTAGGTTCAGGAAA
CAAAGGAGTCA
Found at i:535908 original size:547 final size:543
Alignment explanation
Indices: 534780--536120 Score: 1625
Period size: 547 Copynumber: 2.5 Consensus size: 543
534770 CGACTTCAGC
* * * * *
534780 TTCAGGAAACACAAGACTTGCTAGTTAAGGAACGTGAAGCTGCAAAGAGCATTGCTGAACAAGTT
1 TTCAGGAAACAAAAGAGTTACTAGTTAAGGAACGTGAAGCTGAAAAGAACATTGCTGAACAAGTT
* * * *
534845 CCCGCGATTAAGGAGATCCCAGCTATTGACAATGAATTGATGAATAAACTTACCT-CTCAAAATG
66 CCTGCGATTAAGGAGATCCC-GTTATTGACAATGAATTGATGAATGAACTTA-CTGCTGAAAATG
* *
534909 AGCAGCTGAAGGTATTTTTAGACATTTGTTGCTTCAAATAAGATATTAGGTTTGACTAAAGGCTT
129 AGCAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATAAGATCTTAGGTTTGACTAAAGGCTT
* * * *
534974 TCTTGATGCCATTTTTAAACTTGG---CTGTT-CTTTATGTTTCTTGAAATCTTGCTTGGCACAA
194 TCTTGATGTCATTTTTAAACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGTTTGGCACAA
*
535035 TCTCATTGTAAGTTCAGGAAACAAAGGAGTCACTAGTTGAGGAACCTGAAGCCGAAAAGAACATT
259 TCGCATTGTAAGTTCAGGAAACAAAGGAGTCACTAGTTGAGGAACCTGAAGCCGAAAAGAACATT
* * * * *
535100 TCTGAACAAGTTCCTGCGGTTCAGGAGGAACCCGTTATTGACAACGAATTGATGAGTAAACCTAC
324 GCTGAACAAGTTCCTGCAGTTCAGGAGGAACCCGTCATTGACAACGAATTGATGAATAAACCAAC
* * * ** *
535165 TGCTGAAAATGAGCAGCCGAAGGTATTGTTAGACATTTGTTGCTTTGAACAAGAATAAGATAGGC
389 TGCTGAAAATGAGCAGCCAAAGGTATTGTTACACATCTGTTGCTTCAAACAAGAAT-ACATAGGC
* * ** * *
535230 TTGATTTGAAGCTGTGTTGATGTCATTTTTAAACTTGGTTGTTCTTTCTTTATGTTTCTTGAAAT
453 TTGATCTAAAGCTGTGTTGATGTCATTTTTAAACTTAATTATTCTTCCTTTATGTTTCTTGAAAT
*
535295 CTTGCTTCGCACAATGACATTGTCGG
518 CTTGCTTCGCACAATGACATTGTAGG
* * ** *
535321 TTCAGGAAACAAAGGAGTCACTAGTTCTGGAATGTGAAGCTGAAAAGAACATTGCTGAACAAGTT
1 TTCAGGAAACAAAAGAGTTACTAGTTAAGGAACGTGAAGCTGAAAAGAACATTGCTGAACAAGTT
* * * *
535386 CCTGCGGTTCAGGAGAACCTCGTTATTGGA-AATGAATTGATGAATGAACCTACTGCTGAAAATG
66 CCTGCGATTAAGGAGATCC-CGTTATT-GACAATGAATTGATGAATGAACTTACTGCTGAAAATG
** * *
535450 AGCAGCAAAAGGTATTGCTAGACATTTGTTGCTTCGAATAAGAACAAGATCTTAGGTTTGACTAG
129 AGCAGCTGAAGGTATTGTTAGACATTTGTTGCTTC-----A-AATAAGATCTTAGGTTTGACTA-
535515 AA-GCTTTCTTGATGTCATTTTT-AACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGTTT
187 AAGGCTTTCTTGATGTCATTTTTAAACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGTTT
* * * * * *
535578 GGCACAATGGCGTTGTAGGTTCAGGAAACAAA-GAGTTACTAGTTGAGGAACAC-GAAGCTGCAA
252 GGCACAATCGCATTGTAAGTTCAGGAAACAAAGGAGTCACTAGTTGAGGAAC-CTGAAGCCGAAA
* *
535641 AGAACATTGCTGAACAAGTTCCTGCAGTTCAGGA-GAGCTCCGTCATTGTCAACGAATTGATGAA
316 AGAACATTGCTGAACAAGTTCCTGCAGTTCAGGAGGAAC-CCGTCATTGACAACGAATTGATGAA
* * * *
535705 TAAACCAACTGCTGATAATGAGCAGCTAAAGGTATTTTTACACATCTGTTGCTTCAAATAAG-AT
380 TAAACCAACTGCTGAAAATGAGCAGCCAAAGGTATTGTTACACATCTGTTGCTTCAAACAAGAAT
* * * * *
535769 -CTTAGGTTTGA-CTAAAGGCTTTTTTTGATGTCATTTTTAAACTTAATTATTGTTCCTTTATGT
445 ACATAGGCTTGATCTAAA-GC-TGTGTTGATGTCATTTTTAAACTTAATTATTCTTCCTTTATGT
* * * * *
535832 TTCTTTAAATCTTGTTTGGGACAATGCCATTGTAGG
508 TTCTTGAAATCTTGCTTCGCACAATGACATTGTAGG
* * * * *
535868 TTCAAGAAACAAAAGAGTTACTAGTTGAGGAACATGAAGCT-ACAAA-AAGCATTACTGAACTAG
1 TTCAGGAAACAAAAGAGTTACTAGTTAAGGAACGTGAAGCTGA-AAAGAA-CATTGCTGAACAAG
*** * * * *
535931 TTCCTATAATTAAGGAGATTCCCATTATTGACATTGAATTGATGAAAGAAATTACTGCTGAAAAT
64 TTCCTGCGATTAAGGAGA-TCCCGTTATTGACAATGAATTGATGAATGAACTTACTGCTGAAAAT
*
535996 GAGCAGCTGAAGGTATTGTTAAACATTTGTTGCTTCAAATAAGATCTTAGGTTTGACTAAAGGCT
128 GAGCAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATAAGATCTTAGGTTTGACTAAAGGCT
** * *
536061 TTCACGATGTCATTTTTAAACTTTGTTATTCTTCCTTTATGTTTCTTGAAATCTTTTTTG
193 TTCTTGATGTCATTTTTAAACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGTTTG
536121 TTCAATCCCA
Statistics
Matches: 678, Mismatches: 98, Indels: 47
0.82 0.12 0.06
Matches are distributed among these distances:
540 4 0.01
541 173 0.26
542 44 0.06
545 3 0.00
546 23 0.03
547 234 0.35
548 9 0.01
549 135 0.20
550 53 0.08
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (543 bp):
TTCAGGAAACAAAAGAGTTACTAGTTAAGGAACGTGAAGCTGAAAAGAACATTGCTGAACAAGTT
CCTGCGATTAAGGAGATCCCGTTATTGACAATGAATTGATGAATGAACTTACTGCTGAAAATGAG
CAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATAAGATCTTAGGTTTGACTAAAGGCTTTC
TTGATGTCATTTTTAAACTTGGTTATTCTTCCTTTATGTTTCTTGAAATCTTGTTTGGCACAATC
GCATTGTAAGTTCAGGAAACAAAGGAGTCACTAGTTGAGGAACCTGAAGCCGAAAAGAACATTGC
TGAACAAGTTCCTGCAGTTCAGGAGGAACCCGTCATTGACAACGAATTGATGAATAAACCAACTG
CTGAAAATGAGCAGCCAAAGGTATTGTTACACATCTGTTGCTTCAAACAAGAATACATAGGCTTG
ATCTAAAGCTGTGTTGATGTCATTTTTAAACTTAATTATTCTTCCTTTATGTTTCTTGAAATCTT
GCTTCGCACAATGACATTGTAGG
Found at i:538868 original size:23 final size:23
Alignment explanation
Indices: 538842--538918 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
538832 TAATAAGAAC
538842 AAATTTCAAAATATATGATGTTA
1 AAATTTCAAAATATATGATGTTA
*** * *
538865 AAATATTCTGCTATATAAT-AAG-AA
1 AAAT-TTC-AAAATAT-ATGATGTTA
538889 CAAATTTCAAAATATATGATGTTA
1 -AAATTTCAAAATATATGATGTTA
538913 AAATTT
1 AAATTT
538919 TCTGCTACAG
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 2 0.05
23 16 0.42
24 8 0.21
25 10 0.26
26 2 0.05
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (23 bp):
AAATTTCAAAATATATGATGTTA
Found at i:538885 original size:48 final size:48
Alignment explanation
Indices: 538829--538925 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
538819 AATCTAGATG
538829 ATATAATAAGAACAAATTTCAAAATATATGATGTTAAAATATTCTGCT
1 ATATAATAAGAACAAATTTCAAAATATATGATGTTAAAATATTCTGCT
*
538877 ATATAATAAGAACAAATTTCAAAATATATGATGTTAAAATTTTCTGCT
1 ATATAATAAGAACAAATTTCAAAATATATGATGTTAAAATATTCTGCT
538925 A
1 A
538926 CAGCCTTCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (48 bp):
ATATAATAAGAACAAATTTCAAAATATATGATGTTAAAATATTCTGCT
Found at i:538904 original size:25 final size:25
Alignment explanation
Indices: 538829--538905 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
538819 AATCTAGATG
538829 ATATAATAAGAACAAATTTCAAAAT
1 ATATAATAAGAACAAATTTCAAAAT
* * ***
538854 ATATGAT--GTTA-AAATATTC-TGCT
1 ATATAATAAG-AACAAAT-TTCAAAAT
538877 ATATAATAAGAACAAATTTCAAAAT
1 ATATAATAAGAACAAATTTCAAAAT
538902 ATAT
1 ATAT
538906 GATGTTAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
23 12 0.33
24 8 0.22
25 16 0.44
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (25 bp):
ATATAATAAGAACAAATTTCAAAAT
Done.