Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 179 of 356
Found at i:58170328 original size:26 final size:26
Alignment explanation
Indices: 58170297--58170404 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
58170287 TGAAATGCCC
*
58170297 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
58170323 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58170349 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58170375 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58170401 ATCA
1 ATCA
58170405 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58171397 original size:20 final size:21
Alignment explanation
Indices: 58171372--58171411 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58171362 CTCTTCAAAC
*
58171372 AGGGC-ACACGTCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
58171392 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
58171412 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:58172819 original size:48 final size:47
Alignment explanation
Indices: 58172748--58172916 Score: 196
Period size: 48 Copynumber: 3.6 Consensus size: 47
58172738 AAGCTGACGC
* * * * * *
58172748 CATGTCCGAGATAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TATATATCTCAAGGCCGATG
* ** *
58172796 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATATATCTCAAGGCCGATG
* *
58172842 CATGTCCCAGACATGTCTTACACTGGCCTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTATATATCTCAAGGCCGATG
*
58172890 CATGTACCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
58172917 ACACATATCA
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
46 36 0.35
47 5 0.05
48 61 0.60
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATATATCTCAAGGCCGATG
Found at i:58178231 original size:20 final size:21
Alignment explanation
Indices: 58178206--58178244 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58178196 TTTCATACCC
*
58178206 AAAATTTGA-TGGATATGAGA
1 AAAATTCGAGTGGATATGAGA
58178226 AAAATTCGAGTGGATATGA
1 AAAATTCGAGTGGATATGA
58178245 ACGTTACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.28
Consensus pattern (21 bp):
AAAATTCGAGTGGATATGAGA
Found at i:58188833 original size:13 final size:13
Alignment explanation
Indices: 58188815--58188840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58188805 AGGCCGTGTG
58188815 AGGGACATAGGCT
1 AGGGACATAGGCT
58188828 AGGGACATAGGCT
1 AGGGACATAGGCT
58188841 TGTGCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.38, T:0.15
Consensus pattern (13 bp):
AGGGACATAGGCT
Found at i:58191404 original size:45 final size:42
Alignment explanation
Indices: 58191355--58191451 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 42
58191345 CTGGGACGTT
**
58191355 GGCATCGATATATGTCATTACGTGTAAGACCATGTTTGGGACAAC
1 GGCATCGATAT-T-TCATT-CGTGTAAGACCATGCCTGGGACAAC
* * **
58191400 GGCATCG-TATTTGATTCGTGTAAGACCCTGCCTGGGACAGT
1 GGCATCGATATTTCATTCGTGTAAGACCATGCCTGGGACAAC
58191441 GGCATCGATAT
1 GGCATCGATAT
58191452 GTGACTCCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 27 0.60
42 7 0.16
43 1 0.02
44 3 0.07
45 7 0.16
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
GGCATCGATATTTCATTCGTGTAAGACCATGCCTGGGACAAC
Found at i:58193901 original size:20 final size:20
Alignment explanation
Indices: 58193864--58193902 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58193854 GTATTGTATC
*
58193864 TGTGTGATGTGTTGTCTGTA
1 TGTGTGATGTGGTGTCTGTA
58193884 TGTGTGCATGTGGT-TCTGT
1 TGTGTG-ATGTGGTGTCTGT
58193903 GAAGCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.08, C:0.08, G:0.36, T:0.49
Consensus pattern (20 bp):
TGTGTGATGTGGTGTCTGTA
Found at i:58194429 original size:23 final size:23
Alignment explanation
Indices: 58194403--58194476 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
58194393 CTTTTTATTG
*
58194403 TATTCCAGAATGCCTTTGTGGCA
1 TATTCCAGAATGCCTTTATGGCA
* * *
58194426 TATTCCGGAATACTTTTATGGCA
1 TATTCCAGAATGCCTTTATGGCA
* *
58194449 TATT-CTGTAATGCCTTTATGGCG
1 TATTCCAG-AATGCCTTTATGGCA
58194472 TATTC
1 TATTC
58194477 TGTAATGTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 2 0.05
23 39 0.95
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (23 bp):
TATTCCAGAATGCCTTTATGGCA
Found at i:58194477 original size:23 final size:23
Alignment explanation
Indices: 58194411--58194492 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
58194401 TGTATTCCAG
* * *
58194411 AATGCCTTTGTGGCATATTCCGG
1 AATGCCTTTATGGCATATTCTGT
* *
58194434 AATACTTTTATGGCATATTCTGT
1 AATGCCTTTATGGCATATTCTGT
*
58194457 AATGCCTTTATGGCGTATTCTGT
1 AATGCCTTTATGGCATATTCTGT
*
58194480 AATGTCTTTATGG
1 AATGCCTTTATGG
58194493 TAAGTTTTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (23 bp):
AATGCCTTTATGGCATATTCTGT
Found at i:58194758 original size:96 final size:96
Alignment explanation
Indices: 58194601--58194791 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 96
58194591 ATATAATTGA
* * * *
58194601 TATATGAATTCGCTATGGTTTCGCTAGAATCGATAATTCGAGGCGCTCGAAGTTATGGGTAGTGA
1 TATATGAATTCGCTATGGTTTCGCCAGAATAGAGAATTCAAGGCGCTCGAAGTTATGGGTAGTGA
58194666 AAGTCCTCGCCAAACTAGAGTATATCCATGT
66 AAGTCCTCGCCAAACTAGAGTATATCCATGT
* * * * * *
58194697 TATATGAATTCGCTATGGTTTTGCCATAATAGAGAATTCAATGTGCTTGAAGATT-TTGGTAGTG
1 TATATGAATTCGCTATGGTTTCGCCAGAATAGAGAATTCAAGGCGCTCGAAG-TTATGGGTAGTG
** *
58194761 AAAGTTTTCGCCAAACTAGAGTATTTCCATG
65 AAAGTCCTCGCCAAACTAGAGTATATCCATG
58194792 CTAAGTATAG
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 79 0.98
97 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (96 bp):
TATATGAATTCGCTATGGTTTCGCCAGAATAGAGAATTCAAGGCGCTCGAAGTTATGGGTAGTGA
AAGTCCTCGCCAAACTAGAGTATATCCATGT
Found at i:58198155 original size:46 final size:46
Alignment explanation
Indices: 58198002--58198220 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 46
58197992 TCACTTGTGT
*
58198002 GAGCTAGTGTAAGACATGT-TAGGGACATGCATCGGC-C-ACACTGTGA
1 GAGCTAGTGTAAGACATGTCT-GGGACATGCATCGGCTCGAGAC-GT-A
* * * * *
58198048 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGTATTGAGACG-A
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGAGACGTA
* *
58198096 GTGCTAGTATAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACGTA
* *
58198143 -AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGT-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGTA
* *
58198188 -ATC-AGTGTAAGACCATGTCTGGCACATGACATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACATG-CATC
58198221 AGCATAGATA
Statistics
Matches: 144, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 9 0.06
45 18 0.12
46 68 0.47
47 26 0.18
48 19 0.13
50 1 0.01
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGTA
Found at i:58199297 original size:16 final size:16
Alignment explanation
Indices: 58199276--58199319 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
58199266 CCACACGGGC
*
58199276 GTGTTACGTTTATGGG
1 GTGTTACGTTTATGGA
**
58199292 GTGTTACGAATATGGA
1 GTGTTACGTTTATGGA
*
58199308 GTGTTACATTTA
1 GTGTTACGTTTA
58199320 GTGGTATTAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.41
Consensus pattern (16 bp):
GTGTTACGTTTATGGA
Found at i:58202671 original size:46 final size:46
Alignment explanation
Indices: 58202621--58202789 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
58202611 TGAGCATCCA
58202621 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
58202667 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
58202714 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
58202760 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
58202790 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 57 0.55
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:58202773 original size:93 final size:93
Alignment explanation
Indices: 58202614--58202784 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
58202604 GGATGGTTGA
* *
58202614 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58202679 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
58202707 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58202772 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58202785 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58208180 original size:46 final size:46
Alignment explanation
Indices: 58208036--58208208 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
58208026 CTTGTGTGAA
* * * * *
58208036 CTAGTGTACGACATGTCAGGGACATGCATCGGCCACATTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATACGAGAG
* ** ** * *
58208082 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGTG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAATACGAGAG
58208130 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATACGTA-AG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATACG-AGAG
*
58208176 CTAGTGTAAGACATGTCTTGGACATGCATCGGC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGC
58208209 TACGAGATGT
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 54 0.52
47 28 0.27
48 22 0.21
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATACGAGAG
Found at i:58208251 original size:46 final size:45
Alignment explanation
Indices: 58208036--58208251 Score: 163
Period size: 46 Copynumber: 4.7 Consensus size: 45
58208026 CTTGTGTGAA
* * * * *
58208036 CTAGTGTACGACATGTCAGGGACATGCATCGGCCACATTATGA-G-AG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC--GA-GACGTTG
* * *
58208082 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGTG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGACG-TTG
* * *
58208130 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAATACGTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT-TG
* * *
58208176 CTAGTGTAAGACATGTCTTGGACATGCATCGGCTACGAGATGTTT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTTG
*
58208221 C-AGTGTAAGACCATGTCTAGGACATAGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC
58208252 AGCACAGATA
Statistics
Matches: 138, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.07
45 18 0.13
46 64 0.46
47 28 0.20
48 19 0.14
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTTG
Found at i:58221109 original size:32 final size:32
Alignment explanation
Indices: 58221063--58221222 Score: 239
Period size: 32 Copynumber: 5.0 Consensus size: 32
58221053 TATAACTATG
*
58221063 CTACTTTTTTATATGGAAAACTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
* * *
58221095 CTACTTTTTCATATGCTAAACTAATGTTTGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
** *
58221127 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
58221159 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
* *
58221191 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
58221223 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (32 bp):
CTACTTTTTTATATGCAAAACTAATGTATGAT
Found at i:58223251 original size:21 final size:21
Alignment explanation
Indices: 58223225--58223277 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
58223215 CGCTGTTTCT
*
58223225 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
58223246 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
58223267 AATCTCACCGC
1 AATCTCACCGC
58223278 CACCACTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:58224417 original size:17 final size:17
Alignment explanation
Indices: 58224392--58224426 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
58224382 GATTGATACC
58224392 AAAAAA-TTTAATTTTA
1 AAAAAATTTTAATTTTA
58224408 AAAAATATTTTAATTTTA
1 AAAAA-ATTTTAATTTTA
58224426 A
1 A
58224427 TTTTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 1 0.06
18 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAAAATTTTAATTTTA
Found at i:58233120 original size:28 final size:27
Alignment explanation
Indices: 58233071--58233158 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
58233061 CTGCCAGAAT
*
58233071 AGATAATGTGACAGAG-TCACCAGATAC
1 AGATAATGTGGCAGAGCT-ACCAGATAC
58233098 AGATAATCGTGGCAGAGCTACCAGA-AC
1 AGATAAT-GTGGCAGAGCTACCAGATAC
*
58233125 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCTACCAGATAC
58233152 AGATAAT
1 AGATAAT
58233159 TTGTGGCATA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.04
27 36 0.65
28 16 0.29
29 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCTACCAGATAC
Found at i:58233165 original size:55 final size:54
Alignment explanation
Indices: 58233064--58233175 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 54
58233054 AGCATGGCTG
* * *
58233064 CCAGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
58233118 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAGCCA
58233173 CCA
1 CCA
58233176 AGACACTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:58233172 original size:28 final size:28
Alignment explanation
Indices: 58233077--58233175 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 28
58233067 GAATAGATAA
* *
58233077 TGTGACAGAGTCACCAGATACAGATAA-T
1 TGTGGCAGAGCCACCAGAT-CAGATAATT
* * * *
58233105 CGTGGCAGAGCTACCAGAACAGAT-ATA
1 TGTGGCAGAGCCACCAGATCAGATAATT
58233132 TGTGGCAGAGCCACCAGATCAGATAATT
1 TGTGGCAGAGCCACCAGATCAGATAATT
*
58233160 TGTGGCATAGCCACCA
1 TGTGGCAGAGCCACCA
58233176 AGACACTTCC
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 26 0.45
28 31 0.53
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGATCAGATAATT
Found at i:58235708 original size:14 final size:14
Alignment explanation
Indices: 58235689--58235715 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58235679 TCAAAAATCA
58235689 AAATCACATATAAG
1 AAATCACATATAAG
58235703 AAATCACATATAA
1 AAATCACATATAA
58235716 CTCATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATCACATATAAG
Found at i:58236553 original size:26 final size:26
Alignment explanation
Indices: 58236517--58236576 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
58236507 AATTTTCTCG
58236517 AAATTTTATCGAGGG-TAAAACCATCA
1 AAATTTTATCG-GGGATAAAACCATCA
***
58236543 AAATTTTATCGGGGATAAAATTGTCA
1 AAATTTTATCGGGGATAAAACCATCA
58236569 AAATTTTA
1 AAATTTTA
58236577 CAATTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (26 bp):
AAATTTTATCGGGGATAAAACCATCA
Found at i:58239757 original size:18 final size:18
Alignment explanation
Indices: 58239734--58239770 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58239724 AAAGGAGGAG
* *
58239734 AAATGAGAAGAGAAAAGA
1 AAATGAGAAAAAAAAAGA
58239752 AAATGAGAAAAAAAAAGA
1 AAATGAGAAAAAAAAAGA
58239770 A
1 A
58239771 GAAGTTGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (18 bp):
AAATGAGAAAAAAAAAGA
Found at i:58246247 original size:26 final size:26
Alignment explanation
Indices: 58246208--58246276 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
58246198 TTTACATCGT
* * *
58246208 TGCTTACAAAAGCTGTGAAACGGGTC
1 TGCTCACAAGAGCTGTGAAACGAGTC
*
58246234 TGCTCACAAGAGCTGTGAAATGAGTC
1 TGCTCACAAGAGCTGTGAAACGAGTC
*
58246260 TGCTCACAGGAGCTGTG
1 TGCTCACAAGAGCTGTG
58246277 GGTCAGAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (26 bp):
TGCTCACAAGAGCTGTGAAACGAGTC
Found at i:58248886 original size:13 final size:12
Alignment explanation
Indices: 58248851--58248884 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58248841 CTAAATCGTG
*
58248851 AGTCAGATTGGTT
1 AGTCA-ATTTGTT
58248864 AGTCAATTTGTT
1 AGTCAATTTGTT
58248876 AGTCAATTT
1 AGTCAATTT
58248885 TGGTAGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (12 bp):
AGTCAATTTGTT
Found at i:58251402 original size:22 final size:22
Alignment explanation
Indices: 58251374--58251495 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
58251364 TTCCACATCC
58251374 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
58251396 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
58251420 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
58251443 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
58251467 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58251490 ATCACA
1 ATCACA
58251496 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58251409 original size:47 final size:47
Alignment explanation
Indices: 58251346--58251606 Score: 346
Period size: 47 Copynumber: 5.5 Consensus size: 47
58251336 CCCTTCGGGA
* * *
58251346 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58251393 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
58251440 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
58251487 CTTATCACACATACACA-TGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * * *
58251534 CTTATCACATTTACACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58251581 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
58251607 TAGGCCTTAT
Statistics
Matches: 193, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.01
47 178 0.92
48 1 0.01
49 13 0.07
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:58251611 original size:31 final size:31
Alignment explanation
Indices: 58251576--58251637 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
58251566 CATCGGCCAT
58251576 TAGGCCTTATCACATATATATACACTTTCAC
1 TAGGCCTTATCACATATATATACACTTTCAC
58251607 TAGGCCTTATCACATATATATACACTTTCAC
1 TAGGCCTTATCACATATATATACACTTTCAC
58251638 ATTCATCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (31 bp):
TAGGCCTTATCACATATATATACACTTTCAC
Found at i:58251654 original size:80 final size:76
Alignment explanation
Indices: 58251529--58251684 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 76
58251519 CATCGGCCAT
*
58251529 TAGGCCTTATCACATTTACACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TAGGCCTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATA
58251594 TATACACTTTCAC
64 TATACACTTTCAC
* *
58251607 TAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATA
1 TAGGCCTTATCACAT-T-TACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
58251672 TATACACTTTCAC
64 TATACACTTTCAC
58251685 ATTTATTCAA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 31 0.42
79 1 0.01
80 41 0.56
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (76 bp):
TAGGCCTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
TACACTTTCAC
Found at i:58252366 original size:17 final size:17
Alignment explanation
Indices: 58252344--58252382 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
58252334 ATAGGAAATT
58252344 TCTTTGCTCACAAGGTC
1 TCTTTGCTCACAAGGTC
58252361 TCTTTGCTCACAAGGTC
1 TCTTTGCTCACAAGGTC
58252378 TCTTT
1 TCTTT
58252383 TATAAGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.41
Consensus pattern (17 bp):
TCTTTGCTCACAAGGTC
Found at i:58253095 original size:56 final size:56
Alignment explanation
Indices: 58253023--58253142 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
58253013 TATTAGTTTA
*
58253023 TTGCACATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
58253079 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58253135 TTGCCCAT
1 TTGCCCAT
58253143 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58265064 original size:3 final size:3
Alignment explanation
Indices: 58265056--58265081 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58265046 GGAGATAGTG
58265056 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
58265082 CTATATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:58265439 original size:31 final size:32
Alignment explanation
Indices: 58265388--58265449 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
58265378 ATGTAGTTTG
*
58265388 TTTATTTTTTTAACACTATTATCATCATTATA
1 TTTATTTTTTTAACACTATTATCACCATTATA
*
58265420 TTTACTTTTTTTAA-A-TATTATTACCATTAT
1 TTTA-TTTTTTTAACACTATTATCACCATTAT
58265450 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 13 0.48
32 5 0.19
33 9 0.33
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTATTTTTTTAACACTATTATCACCATTATA
Found at i:58265453 original size:25 final size:25
Alignment explanation
Indices: 58265425--58265478 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
58265415 TTATATTTAC
*
58265425 TTTTTTTAAA-TATTATTACCATTA
1 TTTTTTAAAATTATTATTACCATTA
*
58265449 TTTTTTAAAATTATTATTACTATTA
1 TTTTTTAAAATTATTATTACCATTA
58265474 TTTTT
1 TTTTT
58265479 ATTATCCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTTTAAAATTATTATTACCATTA
Found at i:58267671 original size:19 final size:19
Alignment explanation
Indices: 58267649--58267781 Score: 78
Period size: 19 Copynumber: 6.7 Consensus size: 19
58267639 TATAAATTAG
58267649 TAAAATTATTTAAAATTTA
1 TAAAATTATTTAAAATTTA
** * ** *
58267668 TAAAAAAATATTGATTTTTT
1 TAAAATTAT-TTAAAATTTA
58267688 TAAAATTA--T-AAA-TTA
1 TAAAATTATTTAAAATTTA
58267703 GTAAAATTATTTAAAAATTATAA
1 -TAAAATTATTT-AAAATT-T-A
58267726 TTAGTAAAATTATTTAAAATTTA
1 -T---AAAATTATTTAAAATTTA
58267749 TAAAATTATTTAAAATTTA
1 TAAAATTATTTAAAATTTA
*
58267768 -AAATATTAATTAAA
1 TAAA-ATTATTTAAA
58267782 TGTTGATGTG
Statistics
Matches: 88, Mismatches: 13, Indels: 26
0.69 0.10 0.20
Matches are distributed among these distances:
15 2 0.02
16 9 0.10
17 1 0.01
18 4 0.05
19 34 0.39
20 15 0.17
21 1 0.01
22 2 0.02
23 3 0.03
24 1 0.01
25 6 0.07
26 10 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAATTATTTAAAATTTA
Found at i:58267711 original size:9 final size:8
Alignment explanation
Indices: 58267688--58267771 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 8
58267678 TTGATTTTTT
58267688 TAAAATTA
1 TAAAATTA
58267696 T-AAATTA
1 TAAAATTA
58267703 GTAAAATTA
1 -TAAAATTA
58267712 TTTAAAAATTA
1 --T-AAAATTA
58267723 T--AATTA
1 TAAAATTA
58267729 GTAAAATTA
1 -TAAAATTA
58267738 TTTAAAATTTA
1 --TAAAA-TTA
58267749 TAAAATTA
1 TAAAATTA
58267757 TTTAAAATT-
1 --TAAAATTA
58267766 TAAAAT
1 TAAAAT
58267772 ATTAATTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 23
0.72 0.02 0.26
Matches are distributed among these distances:
6 5 0.08
7 13 0.21
8 5 0.08
9 17 0.27
10 13 0.21
11 10 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
TAAAATTA
Found at i:58267727 original size:26 final size:27
Alignment explanation
Indices: 58267630--58267752 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
58267620 AGAAACTATT
58267630 TTTAAAAATTATAAATTAGTAAAATTA
1 TTTAAAAATTATAAATTAGTAAAATTA
* ** * ** *
58267657 TTTAAAATTTATAAAAAAATATTGATTT
1 TTTAAAAATTATAAATTAGTA-AAATTA
*
58267685 TTTTAAAATTATAAATTAGTAAAATTA
1 TTTAAAAATTATAAATTAGTAAAATTA
58267712 TTTAAAAATTAT-AATTAGTAAAATTA
1 TTTAAAAATTATAAATTAGTAAAATTA
*
58267738 TTTAAAATTTATAAA
1 TTTAAAAATTATAAA
58267753 ATTATTTAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.32
27 33 0.43
28 19 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
TTTAAAAATTATAAATTAGTAAAATTA
Found at i:58277011 original size:25 final size:24
Alignment explanation
Indices: 58276955--58277030 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 24
58276945 AAATTGAAAT
*
58276955 AAAAATTATAAATAATTAATATATAATT
1 AAAAA-TAT-AAT-ATTAATAT-TAATG
58276983 AAAAATATCAATATTAATATTAATG
1 AAAAATAT-AATATTAATATTAATG
*
58277008 AAAAATAATTATATTAATATTAA
1 AAAAAT-ATAATATTAATATTAA
58277031 AAAAAATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
25 23 0.52
26 10 0.23
27 6 0.14
28 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
AAAAATATAATATTAATATTAATG
Found at i:58277673 original size:24 final size:24
Alignment explanation
Indices: 58277646--58277698 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
58277636 ATTTTTTTTA
**
58277646 AATATTAATATAATTGTTTTAATT
1 AATATTAATATAATAATTTTAATT
58277670 AATATTAATATAATAATTTTAATT
1 AATATTAATATAATAATTTTAATT
58277694 -ATATT
1 AATATT
58277699 GATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
AATATTAATATAATAATTTTAATT
Found at i:58283242 original size:15 final size:17
Alignment explanation
Indices: 58283212--58283249 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
58283202 TATGTACTCT
58283212 TTTTTCTTTCACTA-GG
1 TTTTTCTTTCACTAGGG
*
58283228 TTTTTGTTTCA-TAGGG
1 TTTTTCTTTCACTAGGG
58283244 TTTTTC
1 TTTTTC
58283250 CTAGTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.11, C:0.13, G:0.16, T:0.61
Consensus pattern (17 bp):
TTTTTCTTTCACTAGGG
Found at i:58283368 original size:24 final size:24
Alignment explanation
Indices: 58283335--58283393 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
58283325 GATGTTGAAC
*
58283335 CTTTCATCTTTCTTAACTT-TTCA-
1 CTTTCATCTTCCTTAA-TTCTTCAT
58283358 CATTTCATCTTCCTTAATTCTTCAT
1 C-TTTCATCTTCCTTAATTCTTCAT
58283383 CTTTCATCTTC
1 CTTTCATCTTC
58283394 TTGTAATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.09
24 28 0.88
25 1 0.03
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (24 bp):
CTTTCATCTTCCTTAATTCTTCAT
Found at i:58286259 original size:19 final size:19
Alignment explanation
Indices: 58286227--58286266 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
58286217 GTTGAGAATG
* *
58286227 ATTTTCTTTTAGAAGCAAA
1 ATTTTATTTAAGAAGCAAA
58286246 ATTTTATTTAAGAAGCAAA
1 ATTTTATTTAAGAAGCAAA
58286265 AT
1 AT
58286267 GAAAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (19 bp):
ATTTTATTTAAGAAGCAAA
Found at i:58300605 original size:47 final size:47
Alignment explanation
Indices: 58300346--58300625 Score: 189
Period size: 47 Copynumber: 5.9 Consensus size: 47
58300336 AAGGTATAAC
*
58300346 GTCGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCATCCATCAA-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCAT-C-TCAAT
* * * ** *
58300393 GTCGATGCCATGTCCCAGGCATCGTCTTACACTGACTATCAAAATCAAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTC-ATCTCAAT
* * * * * * *
58300442 GCCGACGCCATATCCCAGATATGGTCTTACACT-ATC-CCTCACATAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTCA-AT
* * * * *
58300488 CCGTGCTGATGCCACGTCCTAGACATGGTCTTACACTG-ACACATCT-TAT
1 --GT-C-GATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTCAAT
** *
58300537 AACCTATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAAT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCTCAAT
*
58300584 GTCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCAT
58300626 AGTGTGGCCG
Statistics
Matches: 174, Mismatches: 43, Indels: 31
0.70 0.17 0.12
Matches are distributed among these distances:
44 10 0.06
45 15 0.09
46 15 0.09
47 49 0.28
48 23 0.13
49 32 0.18
50 27 0.16
51 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCTCAAT
Found at i:58300648 original size:47 final size:45
Alignment explanation
Indices: 58300542--58300657 Score: 128
Period size: 47 Copynumber: 2.5 Consensus size: 45
58300532 CTTATAACCT
58300542 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGTCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-CTCAATGTCG
* * *
58300588 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCA-T-AGTGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCACTCAATGT---CG
*
58300636 ATGCATGCCCCAGACATGTCTT
1 ATGCATGTCCCAGACATGTCTT
58300658 TCAGTAACAT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
45 4 0.07
46 9 0.15
47 25 0.42
48 22 0.37
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCACTCAATGTCG
Found at i:58307857 original size:13 final size:13
Alignment explanation
Indices: 58307841--58307865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58307831 TATTTTGAAT
58307841 GGCACACGGGCTA
1 GGCACACGGGCTA
58307854 GGCACACGGGCT
1 GGCACACGGGCT
58307866 TATGATTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.40, T:0.08
Consensus pattern (13 bp):
GGCACACGGGCTA
Found at i:58311477 original size:28 final size:28
Alignment explanation
Indices: 58311441--58311533 Score: 75
Period size: 28 Copynumber: 3.3 Consensus size: 28
58311431 AGGAAGATTA
*
58311441 TTTTGAAAGACATTTTCTATGTATCAAG
1 TTTTAAAAGACATTTTCTATGTATCAAG
* * * *
58311469 TTTTAAAAGAAACTTATT-TAGGAAGAT-TA-
1 TTTTAAAAGACA-TT-TTCTATG--TATCAAG
*
58311498 TTTTGAAAGACATTTTCTATGTATCAAG
1 TTTTAAAAGACATTTTCTATGTATCAAG
58311526 TTTTAAAA
1 TTTTAAAA
58311534 AAACTTAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 14
0.65 0.15 0.19
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 22 0.47
29 15 0.32
30 3 0.06
31 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.42
Consensus pattern (28 bp):
TTTTAAAAGACATTTTCTATGTATCAAG
Found at i:58311557 original size:57 final size:57
Alignment explanation
Indices: 58311428--58311540 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
58311418 TTTTGATAAT
58311428 TTTAGGAAGATTATTTTGAAAGACATTTTCTATGTATCAAGTTTTAAAAGAAACTTA
1 TTTAGGAAGATTATTTTGAAAGACATTTTCTATGTATCAAGTTTTAAAAGAAACTTA
58311485 TTTAGGAAGATTATTTTGAAAGACATTTTCTATGTATCAAGTTTTAAAA-AAACTTA
1 TTTAGGAAGATTATTTTGAAAGACATTTTCTATGTATCAAGTTTTAAAAGAAACTTA
58311541 ATTTCTTTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 7 0.12
57 49 0.88
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (57 bp):
TTTAGGAAGATTATTTTGAAAGACATTTTCTATGTATCAAGTTTTAAAAGAAACTTA
Found at i:58313286 original size:53 final size:53
Alignment explanation
Indices: 58313206--58313309 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
58313196 TCTACAATTA
58313206 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCATTC
1 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCATTC
58313259 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCAT
1 AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCAT
58313310 AACACATAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (53 bp):
AACAAAGGTTCTACTTTCTCTTCTTATAAATAGATGGCACCGGTAGGGCATTC
Found at i:58322897 original size:27 final size:27
Alignment explanation
Indices: 58322867--58322985 Score: 80
Period size: 27 Copynumber: 4.4 Consensus size: 27
58322857 TGGCGAGACA
* *
58322867 TTAAACATGGGATACTTCAATGGGATG
1 TTAAACATGGGATACTCCAATGAGATG
* * * *
58322894 TTAAAGACGGGATAGTCCAATGAGACG
1 TTAAACATGGGATACTCCAATGAGATG
* * * * * *
58322921 TTAAACACGAGATAGTTCGA-GAAGAAG
1 TTAAACATGGGATACTCCAATG-AGATG
* *
58322948 TTAAACATGGGATAGC-CCAACGGGATG
1 TTAAACATGGGATA-CTCCAATGAGATG
58322975 TTAAACATGGG
1 TTAAACATGGG
58322986 GATCCTGAAG
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (27 bp):
TTAAACATGGGATACTCCAATGAGATG
Found at i:58325487 original size:26 final size:26
Alignment explanation
Indices: 58325458--58325572 Score: 88
Period size: 26 Copynumber: 4.3 Consensus size: 26
58325448 TTAGTTTACC
*
58325458 AAATTACTAAAATACCCCC-AGTTGTA
1 AAATTACCAAAATACCCCCGA-TTGTA
* * *
58325484 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCCC-GATTGTA
* **
58325511 AAATTACCGAAATACCATCGATTGTA
1 AAATTACCAAAATACCCCCGATTGTA
** * *
58325537 AAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACCAAAATACCCCCGA-TTGTA
*
58325564 GAATTACCA
1 AAATTACCA
58325573 TTTTAGCCTC
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
26 40 0.57
27 30 0.43
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (26 bp):
AAATTACCAAAATACCCCCGATTGTA
Found at i:58325512 original size:27 final size:25
Alignment explanation
Indices: 58325458--58325526 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
58325448 TTAGTTTACC
* *
58325458 AAATTACTAAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTATA
*
58325484 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCAG-TTATA
58325511 AAATTACCGAAATACC
1 AAATTACC-AAATACC
58325527 ATCGATTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.08
26 15 0.41
27 16 0.43
28 3 0.08
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTATA
Found at i:58325582 original size:27 final size:27
Alignment explanation
Indices: 58325551--58325720 Score: 191
Period size: 27 Copynumber: 6.3 Consensus size: 27
58325541 TACTGAAATG
* *
58325551 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
58325578 GCCTCGATTTATAGAATTA-CAGTTTCA
1 CCCTCGATTTATAAAATTACCA-TTTTA
** * *
58325605 CCCTTAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
58325632 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
58325659 CCTTCGATTTA-AAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
58325685 CCCTCAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
58325712 CCCTCGATT
1 CCCTCGATT
58325721 GTGAAATTAC
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 25 0.21
27 93 0.78
28 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:58325695 original size:53 final size:54
Alignment explanation
Indices: 58325565--58325720 Score: 192
Period size: 53 Copynumber: 2.9 Consensus size: 54
58325555 CGATTTGTAG
* * *
58325565 AATTACCATTTTAGCCTCGATTTATAGAATTA-CAGTTTCACCCTT-AATTTACAA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCA-TTTTA-CCTTCGATTTACAA
*
58325619 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTA-AA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTACAA
* * * * *
58325672 AATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCTTCGATT
58325721 GTGAAATTAC
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
53 49 0.54
54 39 0.43
55 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTACAA
Found at i:58325712 original size:80 final size:81
Alignment explanation
Indices: 58325551--58325720 Score: 265
Period size: 80 Copynumber: 2.1 Consensus size: 81
58325541 TACTGAAATG
* * *
58325551 CCCTCGATTTGTAGAATTACCATTTTAGCCTCGATTTATAGAATTACAGTTTCACCCTTAATTTA
1 CCCTCGATTTATAGAATTACCATTTTAGCCTCGATTTATAAAATTACAGTTTCACCCTCAATTTA
58325616 CAAAATTACCGTTTTA
66 CAAAATTACCGTTTTA
*
58325632 CCCTCGATTTATAGAATTACCATTTTA-CCTTCGATTTA-AAAATTACCA-TTTTACCCTCAATT
1 CCCTCGATTTATAGAATTACCATTTTAGCC-TCGATTTATAAAATTA-CAGTTTCACCCTCAATT
58325694 TACAAAATTACCGTTTTA
64 TACAAAATTACCGTTTTA
58325712 CCCTCGATT
1 CCCTCGATT
58325721 GTGAAATTAC
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
80 47 0.57
81 36 0.43
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTAGCCTCGATTTATAAAATTACAGTTTCACCCTCAATTTA
CAAAATTACCGTTTTA
Found at i:58325740 original size:53 final size:53
Alignment explanation
Indices: 58325630--58325740 Score: 116
Period size: 53 Copynumber: 2.1 Consensus size: 53
58325620 ATTACCGTTT
* * * * ***
58325630 TACCCTCGATTTATAGAATTACCATTTTACCTTCGATTTAAAAATTACCATTT
1 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTAAAAATTACCAAAA
* * *
58325683 TACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTGT-GAAATTACTAAAA
1 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATT-TAAAAATTACCAAAA
58325736 TACCC
1 TACCC
58325741 CTGTAGGATA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 46 0.98
54 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.37
Consensus pattern (53 bp):
TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTAAAAATTACCAAAA
Found at i:58325742 original size:27 final size:27
Alignment explanation
Indices: 58325712--58325817 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
58325702 TACCGTTTTA
*
58325712 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
*
58325739 CCCT-G-TAG-GATAAATTACCAAAATAC
1 CCCTCGATTGTG--AAATTACCAAAATAC
* * *
58325765 CCCTGGTTTGTAAAATTACCAAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
*
58325792 CCCTC-ATTTGTGAAATTACCGAAATA
1 CCCTCGA-TTGTGAAATTACCAAAATA
58325818 TCCTTGTAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
24 1 0.02
25 2 0.03
26 19 0.29
27 41 0.63
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
CCCTCGATTGTGAAATTACCAAAATAC
Found at i:58325835 original size:27 final size:27
Alignment explanation
Indices: 58325733--58326062 Score: 321
Period size: 27 Copynumber: 12.3 Consensus size: 27
58325723 GAAATTACTA
* *
58325733 AAATACCCCTGTAGGATA-AATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
** * *
58325759 AAATACCCCTGGT-TTGTAAAATTACCA
1 AAATACCCCT-GTAGGGTAGAATTACCG
* **
58325786 AAATACCCCT-CATTTGT-GAAATTACCG
1 AAATACCCCTGTA-GGGTAG-AATTACCG
* * *
58325813 AAATATCCTTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
58325840 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
58325867 GAATACCCCTGTAGGGTAGAATTA-CT
1 AAATACCCCTGTAGGGTAGAATTACCG
58325893 AGAATACCCCTGTAGGGTAGAATTACC-
1 A-AATACCCCTGTAGGGTAGAATTACCG
*
58325920 AGAATACCCCTGTAGGATAGAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* ** **
58325948 GAATACCCCTGTACAGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
58325975 CAATACCCTTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
58326002 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
58326029 AAATACCCCTGTAGGGTAGAATTGCCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
58326056 AGATACC
1 AAATACC
58326063 TTGTGAGGTA
Statistics
Matches: 255, Mismatches: 39, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
26 13 0.05
27 239 0.94
28 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:58326559 original size:22 final size:22
Alignment explanation
Indices: 58326507--58326571 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
58326497 TTAAAACCTT
* *
58326507 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
58326529 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
58326551 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
58326572 ATGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:58326760 original size:27 final size:27
Alignment explanation
Indices: 58326730--58326831 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
58326720 ATTTTGTTAA
* *
58326730 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
58326757 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
58326784 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
58326811 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
58326832 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:58326789 original size:54 final size:53
Alignment explanation
Indices: 58326730--58326831 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
58326720 ATTTTGTTAA
* * * * *
58326730 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCAC-AATATCTGTTCTG
* *
58326784 GTGGCTCTGCCACAATATCTGTATCTAGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTG
58326832 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:58327006 original size:6 final size:6
Alignment explanation
Indices: 58326969--58327048 Score: 65
Period size: 6 Copynumber: 12.8 Consensus size: 6
58326959 TGCATTCACC
* * *
58326969 TTCTGA TTTTTGA TTCTG- TTACATGA TACTGA TTCTGA TTTTGA TTCT-A
1 TTCTGA -TTCTGA TTCTGA TT-C-TGA TTCTGA TTCTGA TTCTGA TTCTGA
*
58327018 TTACCTGA TACTGA TTCTGA TTCTGA TTCTG
1 TT--CTGA TTCTGA TTCTGA TTCTGA TTCTG
58327049 TCACCTAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.08
6 41 0.69
7 10 0.17
8 3 0.05
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TTCTGA
Found at i:58327014 original size:31 final size:31
Alignment explanation
Indices: 58326969--58327078 Score: 148
Period size: 31 Copynumber: 3.5 Consensus size: 31
58326959 TGCATTCACC
*
58326969 TTCTGATTTTTGATTCTGTTACATGATACTGA
1 TTCTGA-TTTTGATTCTGTTACCTGATACTGA
*
58327001 TTCTGATTTTGATTCTATTACCTGATACTGA
1 TTCTGATTTTGATTCTGTTACCTGATACTGA
* * * **
58327032 TTCTGATTCTGATTCTGTCACCTAATTTTGA
1 TTCTGATTTTGATTCTGTTACCTGATACTGA
58327063 TTCTGATTTTGATTCT
1 TTCTGATTTTGATTCT
58327079 AGTTCTAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
31 63 0.91
32 6 0.09
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (31 bp):
TTCTGATTTTGATTCTGTTACCTGATACTGA
Found at i:58328841 original size:50 final size:48
Alignment explanation
Indices: 58328634--58328905 Score: 183
Period size: 48 Copynumber: 5.7 Consensus size: 48
58328624 ATATTGTATG
* ** * *
58328634 CTAGTATAAGA-CATGTCCGGGACAT-GCATCGGCCA-CGTTATG-AGA
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATAGATATGTAGA
* * *
58328679 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TACGAGATGT-GT
1 -CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATA-GATATGTAGA
*
58328726 C-AGTGTAAGACCATGTCTT-GGACATGGCATCGGCAT-GTATAGAGGT-GA
1 CTAGTGTAAGACCATGT-TTGGGACATGGCATCGGCATAG-AT--ATGTAGA
58328774 -TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATAGATATGTACGAA
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATAGATATGTA-G-A
* * * * * * * *
58328823 CTAGTGTAAAACCATGTTTGGTACATGGCGTCAGCCTCGATTTCGATAGT
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATAGATAT-G-TAGA
* *
58328873 C-AGTGTAAGACCATGTCTGGGACCTGGCATCGG
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGG
58328906 TATTATACGC
Statistics
Matches: 182, Mismatches: 25, Indels: 35
0.75 0.10 0.14
Matches are distributed among these distances:
45 22 0.12
46 25 0.14
47 28 0.15
48 39 0.21
49 28 0.15
50 36 0.20
51 2 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATAGATATGTAGA
Found at i:58335093 original size:15 final size:15
Alignment explanation
Indices: 58335075--58335108 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
58335065 TTATATGCTA
58335075 AATTCAGTAAGAGTG
1 AATTCAGTAAGAGTG
58335090 AATTCAGTAAGAGTG
1 AATTCAGTAAGAGTG
58335105 AATT
1 AATT
58335109 TTGGTTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (15 bp):
AATTCAGTAAGAGTG
Found at i:58338628 original size:48 final size:47
Alignment explanation
Indices: 58338570--58338886 Score: 172
Period size: 48 Copynumber: 6.7 Consensus size: 47
58338560 CCATGTTATC
*
58338570 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-G
* * * * * *
58338618 AGAGCTAGTGTAAGA-CATGTTTAGGACAT-GCATCAGCCTCGAGAT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAG
* * *
58338663 ATAAACCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG--TT-ACGAG
1 A-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GAG
* * * *
58338707 ATGTG-TCAGTGTAAGACCATGCCTTGGACAAGGCATCGGCACGTAT-AGAG
1 A-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGAG
* * ** *
58338757 -GTG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATAG
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAG
* * * * * ** *
58338803 AG-GTGTCAGTGTAAGACCATGTTTGGGACATTGTATCTGCACGGATATG
1 AGAG-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-G
*
58338852 TAAGAGCTAGTGTAACACCATGTCTGGGACATGGC
1 --AGAGCTAGTGTAAGACCATGTCTGGGACATGGC
58338887 GTCAGCCTCG
Statistics
Matches: 214, Mismatches: 37, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 14 0.07
45 12 0.06
46 52 0.24
47 13 0.06
48 88 0.41
49 1 0.00
50 27 0.13
51 5 0.02
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAG
Found at i:58338707 original size:46 final size:45
Alignment explanation
Indices: 58338531--58338708 Score: 130
Period size: 46 Copynumber: 3.8 Consensus size: 45
58338521 TTGTGTGCTT
* * * *
58338531 GTGTAAGACATGTCTGAGACATGCATC-G-ACCATGTTATCAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGTTCGA-GATAT-A-AGCCA
* * *
58338577 GTGTAAGACCATGTCTGGGACATGGCATCGGCATT-GAGACGA-GAGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGG--TTCGAGA-TATAAGCCA
* * ** *
58338625 GTGTAAGACATGTTTAGGACATGCATCAGCCTCGAGATATAAACCA
1 GTGTAAGACATGTCTGGGACATGCATC-GGTTCGAGATATAAGCCA
58338671 GTGTAAGACATGTCTGGGACATGCATCGGTTACGAGAT
1 GTGTAAGACATGTCTGGGACATGCATCGGTT-CGAGAT
58338709 GTGTCAGTGT
Statistics
Matches: 102, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
45 4 0.04
46 51 0.50
47 26 0.25
48 17 0.17
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGTTCGAGATATAAGCCA
Found at i:58338845 original size:96 final size:95
Alignment explanation
Indices: 58338570--58338886 Score: 239
Period size: 96 Copynumber: 3.3 Consensus size: 95
58338560 CCATGTTATC
* *
58338570 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAG-CTAGTGTAAGA
1 AGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGTCA-CGAGA-G-GTGTC-AGTGTAAGA
* * * *
58338633 -CATG-TTTAGGAC-ATGCATCAGCCTCGAGATA--TA
61 CCATGCCTT-GGACAAGGCATC-GGCACG-GATATGTA
* * *
58338666 A-ACCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACGAGATGTGTCAGTGTAAGACCATG
1 AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCACGAGAGGTGTCAGTGTAAGACCATG
*
58338728 CCTTGGACAAGGCATCGGCACGTATA-G-A
66 CCTTGGACAAGGCATCGGCACGGATATGTA
* * *
58338756 GGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CACGGATAGAGGTGTCAGTGTAAGAC
1 AGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGTCAC-G--AGAGGTGTCAGTGTAAGAC
* ** * *
58338820 CATG-TTTGGGACATTGTATCTGCACGGATATGTA
62 CATGCCTT-GGACAAGGCATCGGCACGGATATGTA
*
58338854 AGAGCTAGTGTAACACCATGTCTGGGACATGGC
1 AGAGC-AGTGTAAGACCATGTCTGGGACATGGC
58338887 GTCAGCCTCG
Statistics
Matches: 178, Mismatches: 26, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
90 15 0.08
91 13 0.07
92 29 0.16
93 30 0.17
94 18 0.10
95 3 0.02
96 40 0.22
97 2 0.01
98 28 0.16
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (95 bp):
AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCACGAGAGGTGTCAGTGTAAGACCATG
CCTTGGACAAGGCATCGGCACGGATATGTA
Found at i:58344715 original size:15 final size:15
Alignment explanation
Indices: 58344695--58344754 Score: 102
Period size: 15 Copynumber: 4.0 Consensus size: 15
58344685 TATGATATTG
58344695 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
58344710 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
58344725 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
58344740 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
58344755 AATCCTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:58349439 original size:18 final size:19
Alignment explanation
Indices: 58349412--58349449 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
58349402 ATGGAAATAA
58349412 GTTGAATGAA-TACTTGAT
1 GTTGAATGAACTACTTGAT
*
58349430 GTTGATTGAAGCTACTTGAT
1 GTTGAATGAA-CTACTTGAT
58349450 AAATTAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (19 bp):
GTTGAATGAACTACTTGAT
Found at i:58359887 original size:26 final size:26
Alignment explanation
Indices: 58359857--58359913 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
58359847 ACATTCTCTC
*
58359857 AAGCCATATAA-CAGGAAGTTCACAAA
1 AAGCCAT-TAATCAGGAAGCTCACAAA
* *
58359883 GAGCCATTAATCGGGAAGCTCACAAA
1 AAGCCATTAATCAGGAAGCTCACAAA
58359909 AAGCC
1 AAGCC
58359914 TATCAAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (26 bp):
AAGCCATTAATCAGGAAGCTCACAAA
Found at i:58359991 original size:26 final size:26
Alignment explanation
Indices: 58359962--58360026 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
58359952 ATAAGAGTCA
* *
58359962 TAATCAGGAAGTTCACA-AAGAACTTT
1 TAATCAGGAAGCTCA-AGAAGAACCTT
* *
58359988 TAATTAGGAAGCTCAAGAAGAGCCTT
1 TAATCAGGAAGCTCAAGAAGAACCTT
58360014 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
58360027 TGGATAGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 6 0.18
26 27 0.82
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCAAGAAGAACCTT
Found at i:58361081 original size:28 final size:28
Alignment explanation
Indices: 58361050--58361105 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
58361040 TAACTAGGGT
58361050 TTCCATGTCTTTTTAATTGGGAAAGATG
1 TTCCATGTCTTTTTAATTGGGAAAGATG
58361078 TTCCATGTCTTTTTAATTGGGAAAGATG
1 TTCCATGTCTTTTTAATTGGGAAAGATG
58361106 AACATAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (28 bp):
TTCCATGTCTTTTTAATTGGGAAAGATG
Found at i:58368726 original size:18 final size:17
Alignment explanation
Indices: 58368685--58368728 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
58368675 AATTTGATCA
*
58368685 ATTAAATTAAAAAAATT
1 ATTAAAATAAAAAAATT
* *
58368702 ATAAAAATAAAAACATT
1 ATTAAAATAAAAAAATT
58368719 ATTTAAAATA
1 A-TTAAAATA
58368729 TGATTCAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAAAATAAAAAAATT
Found at i:58377118 original size:11 final size:11
Alignment explanation
Indices: 58377102--58377132 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
58377092 ATACCCATAC
58377102 CCCATACCTTG
1 CCCATACCTTG
*
58377113 CCCATACCTTT
1 CCCATACCTTG
58377124 CCCATACCT
1 CCCATACCT
58377133 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:58377769 original size:18 final size:18
Alignment explanation
Indices: 58377682--58377772 Score: 146
Period size: 18 Copynumber: 5.1 Consensus size: 18
58377672 CGTTTACGGC
* *
58377682 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGT
58377700 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
*
58377718 ACTATTCACGTATACGGT
1 ACTATTCACGTATACAGT
58377736 ACTATTCACGTATACAGT
1 ACTATTCACGTATACAGT
*
58377754 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
58377772 A
1 A
58377773 GTTGGGATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:58381860 original size:10 final size:11
Alignment explanation
Indices: 58381822--58381852 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
58381812 ATACCCATAC
58381822 CCCATACCTTT
1 CCCATACCTTT
58381833 CCCATACCTTT
1 CCCATACCTTT
58381844 CCCATACCT
1 CCCATACCT
58381853 ACCCATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.32
Consensus pattern (11 bp):
CCCATACCTTT
Found at i:58386395 original size:22 final size:22
Alignment explanation
Indices: 58386367--58386410 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
58386357 TGACTGGCCA
58386367 TGGCATTTATATATATATATAT
1 TGGCATTTATATATATATATAT
58386389 TGGCATTTATATATATATATAT
1 TGGCATTTATATATATATATAT
58386411 GCATGCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
TGGCATTTATATATATATATAT
Found at i:58394938 original size:3 final size:3
Alignment explanation
Indices: 58394932--58394964 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58394922 TTGTTGTTGA
58394932 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
58394965 TGCAAGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:58396674 original size:18 final size:18
Alignment explanation
Indices: 58396653--58396700 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
58396643 TGAAAAATTA
58396653 AAATTAAAAAATATATAT
1 AAATTAAAAAATATATAT
* * *
58396671 AAATGAAAAAAAATATTT
1 AAATTAAAAAATATATAT
*
58396689 AAAATAAAAAAT
1 AAATTAAAAAAT
58396701 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATTAAAAAATATATAT
Found at i:58396708 original size:9 final size:10
Alignment explanation
Indices: 58396659--58396855 Score: 53
Period size: 10 Copynumber: 20.5 Consensus size: 10
58396649 ATTAAAATTA
58396659 AAAAATATAT
1 AAAAATATAT
* *
58396669 ATAAATGA-AA
1 AAAAAT-ATAT
58396679 AAAAATAT-T
1 AAAAATATAT
*
58396688 TAAAATA-A-
1 AAAAATATAT
*
58396696 AAAATTAT-T
1 AAAAATATAT
58396705 AAAAATATAT
1 AAAAATATAT
*
58396715 AAAAATA-CT
1 AAAAATATAT
* *
58396724 CAAAATTTAT
1 AAAAATATAT
*
58396734 AAAAACATAT
1 AAAAATATAT
*
58396744 AGAAAACT-TCT
1 A-AAAA-TATAT
* *
58396755 AAAAATTTAA
1 AAAAATATAT
*
58396765 AAAAAT-TCT
1 AAAAATATAT
* *
58396774 TAAAA-ACAT
1 AAAAATATAT
58396783 AAAAAT-TA-
1 AAAAATATAT
**
58396791 AAATTTATTAT
1 AAAAATA-TAT
*
58396802 ATAAAGTATCAT
1 A-AAAATAT-AT
*
58396814 -AAAATATAA
1 AAAAATATAT
*
58396823 AAAAAT-TAG
1 AAAAATATAT
58396832 AAAAATAT-T
1 AAAAATATAT
* *
58396841 TAAAATTTAT
1 AAAAATATAT
58396851 AAAAA
1 AAAAA
58396856 AATTAAAATT
Statistics
Matches: 130, Mismatches: 37, Indels: 40
0.63 0.18 0.19
Matches are distributed among these distances:
8 9 0.07
9 47 0.36
10 58 0.45
11 10 0.08
12 6 0.05
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATATAT
Found at i:58396718 original size:19 final size:19
Alignment explanation
Indices: 58396679--58396863 Score: 64
Period size: 19 Copynumber: 9.7 Consensus size: 19
58396669 ATAAATGAAA
*
58396679 AAAAATATTTAAAATA-A-
1 AAAAATATTAAAAATATAT
*
58396696 AAAATTATTAAAAATATAT
1 AAAAATATTAAAAATATAT
* * *
58396715 AAAAATACTCAAAATTTAT
1 AAAAATATTAAAAATATAT
* *
58396734 AAAAACATATAGAAAACT-TCT
1 AAAAATAT-TA-AAAA-TATAT
* *
58396755 AAAAAT-TTAAAAAAATTCTT
1 AAAAATATTAAAAATA-T-AT
*
58396775 AAAAACA-TAAAAAT-TA-
1 AAAAATATTAAAAATATAT
**
58396791 AAATTTATTATATAAAGTATCAT
1 AAAAATATTA-A-AAA-TAT-AT
* *
58396814 -AAAATA-TAAAAAAATTAG
1 AAAAATATTAAAAATA-TAT
* *
58396832 AAAAATATTTAAAATTTAT
1 AAAAATATTAAAAATATAT
*
58396851 AAAAAAATTAAAA
1 AAAAATATTAAAA
58396864 TTAAAAATAT
Statistics
Matches: 120, Mismatches: 29, Indels: 36
0.65 0.16 0.19
Matches are distributed among these distances:
16 4 0.03
17 16 0.13
18 9 0.08
19 50 0.42
20 21 0.17
21 14 0.12
22 6 0.05
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATATTAAAAATATAT
Found at i:58396760 original size:31 final size:29
Alignment explanation
Indices: 58396693--58396769 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
58396683 ATATTTAAAA
* *
58396693 TAAAAAATTATTAAAAATATATAAAAATAC
1 TAAAAATTTA-TAAAAACATATAAAAATAC
* *
58396723 TCAAAATTTATAAAAACATATAGAAAACTTC
1 TAAAAATTTATAAAAACATATA-AAAA-TAC
*
58396754 TAAAAATTTAAAAAAA
1 TAAAAATTTATAAAAA
58396770 TTCTTAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 11 0.28
30 12 0.31
31 16 0.41
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (29 bp):
TAAAAATTTATAAAAACATATAAAAATAC
Found at i:58396765 original size:29 final size:28
Alignment explanation
Indices: 58396703--58396767 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
58396693 TAAAAAATTA
* *
58396703 TTAAAAATATATAAAAATACTCAAAATT
1 TTAAAAACATATAAAAATACTCAAAAAT
*
58396731 TATAAAAACATATAGAAA-ACTTCTAAAAAT
1 T-TAAAAACATATAAAAATAC-TC-AAAAAT
58396761 TTAAAAA
1 TTAAAAA
58396768 AATTCTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 22 0.71
30 6 0.19
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (28 bp):
TTAAAAACATATAAAAATACTCAAAAAT
Found at i:58396878 original size:44 final size:45
Alignment explanation
Indices: 58396813--58396901 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 45
58396803 TAAAGTATCA
*
58396813 TAAAATATAAAAAAATTAGAAAAATATTTAAAATTTATAAAAAAAT
1 TAAAATATAAAAAAATTAGAAAAAT-TTTAAAAATTATAAAAAAAT
* ** *
58396859 TAAAAT-TAAAAATA-TAGAAAGCTTTTAAAAATTATTAAAAAAT
1 TAAAATATAAAAAAATTAGAAAAATTTTAAAAATTATAAAAAAAT
58396902 ATAGGTCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
43 18 0.47
44 7 0.18
45 7 0.18
46 6 0.16
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (45 bp):
TAAAATATAAAAAAATTAGAAAAATTTTAAAAATTATAAAAAAAT
Found at i:58397260 original size:18 final size:19
Alignment explanation
Indices: 58397237--58397278 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
58397227 AGAAATGAAG
*
58397237 AAATATAT-TTAGATATGC
1 AAATATATGTTAAATATGC
*
58397255 AAATATATGTTAAATATGT
1 AAATATATGTTAAATATGC
58397274 AAATA
1 AAATA
58397279 ATATATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (19 bp):
AAATATATGTTAAATATGC
Found at i:58400421 original size:93 final size:93
Alignment explanation
Indices: 58400262--58400448 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
58400252 GTTTTGGACA
58400262 AGGAATACTTCTACAAGCTGGTTGTGATCAATAACTATATGGTTACTATAACTTTGATTGGGGAA
1 AGGAATACTTCTACAAGCTGGTTGTGATCAATAACTATATGGTTACTATAACTTTGATTGGGGAA
58400327 GTTGTCATTTAAAGCGATGATCCCTCAC
66 GTTGTCATTTAAAGCGATGATCCCTCAC
58400355 AGGAATACTTCTACAAGCTGGTTGTGATCAATAACTATATGGTTACTATAACTTTGATTGGGGAA
1 AGGAATACTTCTACAAGCTGGTTGTGATCAATAACTATATGGTTACTATAACTTTGATTGGGGAA
58400420 GTTGTCATTTAAAGCGATGATCCCTCAC
66 GTTGTCATTTAAAGCGATGATCCCTCAC
58400448 A
1 A
58400449 AGGTATTTTG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (93 bp):
AGGAATACTTCTACAAGCTGGTTGTGATCAATAACTATATGGTTACTATAACTTTGATTGGGGAA
GTTGTCATTTAAAGCGATGATCCCTCAC
Found at i:58401283 original size:20 final size:20
Alignment explanation
Indices: 58401258--58401323 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
58401248 CAAGGTTTAC
58401258 CAAACTAATTGGCATTATTT
1 CAAACTAATTGGCATTATTT
* ***
58401278 CAAACTAA--GTCACTT-GCC
1 CAAACTAATTGGCA-TTATTT
58401296 CAAACTAATTGGCATTATTT
1 CAAACTAATTGGCATTATTT
58401316 CAAACTAA
1 CAAACTAA
58401324 GTCACTTGCC
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
18 11 0.32
19 4 0.12
20 19 0.56
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (20 bp):
CAAACTAATTGGCATTATTT
Found at i:58401299 original size:38 final size:38
Alignment explanation
Indices: 58401257--58401333 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
58401247 CCAAGGTTTA
58401257 CCAAACTAATTGGCATTATTTCAAACTAAGTCACTTGC
1 CCAAACTAATTGGCATTATTTCAAACTAAGTCACTTGC
58401295 CCAAACTAATTGGCATTATTTCAAACTAAGTCACTTGC
1 CCAAACTAATTGGCATTATTTCAAACTAAGTCACTTGC
58401333 C
1 C
58401334 TACCAAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (38 bp):
CCAAACTAATTGGCATTATTTCAAACTAAGTCACTTGC
Found at i:58402664 original size:42 final size:42
Alignment explanation
Indices: 58402565--58402718 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 42
58402555 TCGAAAGCTA
* * * *
58402565 AACAAAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTC
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTT
* * *
58402607 AACAGAATCTCGTAAGAGCTAAACAAAAACTCATAAGAGTTT
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTT
* * *
58402649 AATAGAAGCTTGTAAGAGCTGAACAGAAACTTATAAGA-TTT
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTT
* **
58402690 GAACAGAAGCTCGCAAGAATTGAACAGAA
1 -AACAGAAGCTCGTAAGAGCTGAACAGAA
58402719 GCTCGAAAGA
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 3 0.03
42 90 0.97
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTT
Found at i:58402676 original size:21 final size:21
Alignment explanation
Indices: 58402546--58402752 Score: 130
Period size: 21 Copynumber: 10.0 Consensus size: 21
58402536 TAGATATACC
*
58402546 AACAGAAGCTCG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTG
* * *
58402565 AACAAAAGCTCATAAAAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * * *
58402586 AACAGAAACTCATAAGAGTTC
1 AACAGAAGCTCGTAAGAGCTG
* *
58402607 AACAGAATCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* * * * *
58402628 AACAAAAACTCATAAGAGTTT
1 AACAGAAGCTCGTAAGAGCTG
* *
58402649 AATAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* ** **
58402670 AACAGAAACTTATAAGATTTG
1 AACAGAAGCTCGTAAGAGCTG
* **
58402691 AACAGAAGCTCGCAAGAATTG
1 AACAGAAGCTCGTAAGAGCTG
* *
58402712 AACAGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* * *
58402733 AATAGAACCTCGAAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
58402753 AAAAAGAAAG
Statistics
Matches: 146, Mismatches: 40, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
19 10 0.07
20 2 0.01
21 134 0.92
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:58402729 original size:84 final size:84
Alignment explanation
Indices: 58402581--58402739 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
58402571 AGCTCATAAA
* * *
58402581 AGCTGAACAGAAACTCATAAGAGTTCAACAGAATCTCGTAAGAGCTAAACAAAAACTCATAAGAG
1 AGCTGAACAGAAACTCATAAGAGTTCAACAGAAGCTCGCAAGAACTAAACAAAAACTCATAAGAG
* *
58402646 TTTAATAGAAGCTTGTAAG
66 CTAAATAGAAGCTTGTAAG
* * * * * * *
58402665 AGCTGAACAGAAACTTATAAGATTTGAACAGAAGCTCGCAAGAATTGAACAGAAGCTCGA-AAGA
1 AGCTGAACAGAAACTCATAAGAGTTCAACAGAAGCTCGCAAGAACTAAACAAAAACTC-ATAAGA
58402729 GCTAAATAGAA
65 GCTAAATAGAA
58402740 CCTCGAAAGA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
84 61 0.98
85 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (84 bp):
AGCTGAACAGAAACTCATAAGAGTTCAACAGAAGCTCGCAAGAACTAAACAAAAACTCATAAGAG
CTAAATAGAAGCTTGTAAG
Found at i:58402753 original size:21 final size:21
Alignment explanation
Indices: 58402715--58402760 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
58402705 AGAATTGAAC
* *
58402715 AGAAGCTCGAAAGAGCTAAAT
1 AGAACCTCGAAAGAGCTAAAA
58402736 AGAACCTCGAAAGAGCTAAAA
1 AGAACCTCGAAAGAGCTAAAA
58402757 AGAA
1 AGAA
58402761 AGTAAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.15, G:0.22, T:0.11
Consensus pattern (21 bp):
AGAACCTCGAAAGAGCTAAAA
Found at i:58404906 original size:10 final size:10
Alignment explanation
Indices: 58404891--58404967 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 10
58404881 TCTTTTATAT
58404891 TAATTTTTTA
1 TAATTTTTTA
58404901 TAA-TTTTTA
1 TAATTTTTTA
58404910 -AATGTTTATTA
1 TAAT-TTT-TTA
58404921 T-A-TTTTTA
1 TAATTTTTTA
*
58404929 TGATTTTTTTA
1 T-AATTTTTTA
*
58404940 TAAATTTTTAA
1 T-AATTTTTTA
*
58404951 TAATTTTGTA
1 TAATTTTTTA
58404961 T-ATTTTT
1 TAATTTTT
58404968 ATATTTTATA
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
8 6 0.11
9 14 0.26
10 14 0.26
11 19 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:58404980 original size:28 final size:28
Alignment explanation
Indices: 58404860--58404981 Score: 111
Period size: 30 Copynumber: 4.2 Consensus size: 28
58404850 AATAGAAATT
* *
58404860 TAATAATTTTATGTATTTTTATCTTTTA
1 TAATAATTTTATATATTTTTATATTTTA
* * *
58404888 TATTAATTTTTTATAATTTTTAAATGTTTA
1 TAATAATTTTATAT-ATTTTTATAT-TTTA
* * *
58404918 TTATATTTTTATGATTTTTTTATAAATTTT-
1 TAATAATTTTAT-ATATTTTTAT--ATTTTA
*
58404948 TAATAATTTTGTATATTTTTATATTTTA
1 TAATAATTTTATATATTTTTATATTTTA
58404976 TAATAA
1 TAATAA
58404982 AATTTACTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
27 5 0.07
28 17 0.23
29 17 0.23
30 27 0.37
31 5 0.07
32 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (28 bp):
TAATAATTTTATATATTTTTATATTTTA
Found at i:58405049 original size:18 final size:19
Alignment explanation
Indices: 58405026--58405064 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
58405016 ATAAATTTTT
58405026 TAAATTTTCT-AT-TTTTAA
1 TAAATTTT-TAATATTTTAA
58405044 TAAATTTTTAATATTTTAA
1 TAAATTTTTAATATTTTAA
58405063 TA
1 TA
58405065 TTATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TAAATTTTTAATATTTTAA
Found at i:58405051 original size:77 final size:77
Alignment explanation
Indices: 58404914--58405056 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 77
58404904 TTTTTAAATG
* * * *
58404914 TTTATTATATTTTTATGATTTTTTTATAAATTTTTAATAATTTTGTATATTTTTATATTTTATAA
1 TTTATTATATTTTTATGAGTTTTGTATAAATTTTTAATAATTTTCTATATTTTTAAATTTT-TAA
58404979 TAAAATTTACTTT
65 TAAAATTTACTTT
*
58404992 TTTA-TATATTTTTAAT-AGTTTTGTATAAATTTTTTA-AATTTTCTAT-TTTTAATAAATTTTT
1 TTTATTATATTTTT-ATGAGTTTTGTATAAATTTTTAATAATTTTCTATATTTT--TAAATTTTT
58405053 AATA
63 AATA
58405057 TTTTAATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
75 4 0.07
76 14 0.25
77 33 0.58
78 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (77 bp):
TTTATTATATTTTTATGAGTTTTGTATAAATTTTTAATAATTTTCTATATTTTTAAATTTTTAAT
AAAATTTACTTT
Found at i:58405088 original size:18 final size:18
Alignment explanation
Indices: 58405035--58405088 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
58405025 TTAAATTTTC
*
58405035 TATTTTTAATA-AATTTT
1 TATTTTTAATATAATTTA
*
58405052 TAATATTTTAATATTATTTA
1 T-AT-TTTTAATATAATTTA
*
58405072 TATTTTTAAAATAATTT
1 TATTTTTAATATAATTT
58405089 TCAATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.03
18 14 0.47
19 10 0.33
20 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTAATATAATTTA
Found at i:58414340 original size:31 final size:30
Alignment explanation
Indices: 58414305--58414363 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
58414295 TACCCTTAAA
* *
58414305 ATATTTTCACTATT-ATCCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCC-TCAAATTTTTC
58414336 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
58414364 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:58415639 original size:17 final size:17
Alignment explanation
Indices: 58415604--58415642 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
58415594 TTAAGATAAG
*
58415604 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
58415621 TATTAAATTT-ATTAAAA
1 TATTAAATTTAATT-AAA
58415638 TATTA
1 TATTA
58415643 TTATATTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:58429777 original size:80 final size:79
Alignment explanation
Indices: 58429693--58429864 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
58429683 GGACTAAGAT
*
58429693 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
58429757 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
58429773 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
58429838 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
58429852 CCGAAGGCATTTG
1 CCGAAGGCATTTG
58429865 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:58429844 original size:39 final size:39
Alignment explanation
Indices: 58429640--58429862 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
58429630 TTGAATGCTG
* * * * *
58429640 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
58429680 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
58429719 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
58429760 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
58429800 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
58429839 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58429863 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:58429882 original size:79 final size:80
Alignment explanation
Indices: 58429720--58429897 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
58429710 AGATACAAAT
* * * *
58429720 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
58429785 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
58429800 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
58429864 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
58429879 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
58429898 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:58433165 original size:6 final size:6
Alignment explanation
Indices: 58433148--58433190 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
58433138 GCAAATGAAA
* * *
58433148 CATTTCT CATTTT CATTTT CATTTC CATTTC CATTTC CATTTT
1 CATTT-T CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
58433191 AAGAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (6 bp):
CATTTT
Found at i:58433171 original size:12 final size:12
Alignment explanation
Indices: 58433148--58433190 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
58433138 GCAAATGAAA
*
58433148 CATTTCTCATTTT
1 CATTT-TCATTTC
58433161 CATTTTCATTTC
1 CATTTTCATTTC
*
58433173 CATTTCCATTTC
1 CATTTTCATTTC
58433185 CATTTT
1 CATTTT
58433191 AAGAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:58433182 original size:18 final size:19
Alignment explanation
Indices: 58433148--58433189 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
58433138 GCAAATGAAA
* *
58433148 CATTTCTCATTTTCATTTT
1 CATTTCTCATTTCCATTTC
58433167 CATTTC-CATTTCCATTTC
1 CATTTCTCATTTCCATTTC
58433185 CATTT
1 CATTT
58433190 TAAGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (19 bp):
CATTTCTCATTTCCATTTC
Found at i:58434965 original size:43 final size:43
Alignment explanation
Indices: 58434904--58434995 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
58434894 TATCCTAAGG
* *
58434904 GACACACGGCCGTGTAATATGACCGTGTGTCGCACACGACTGA
1 GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGACTAA
*
58434947 GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGGCTAA
1 GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGACTAA
58434990 GACACA
1 GACACA
58434996 TGCCCGTATC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (43 bp):
GACACACAGCCGTGTAATATGACCGTGTGTCGCACACGACTAA
Found at i:58435956 original size:47 final size:47
Alignment explanation
Indices: 58435884--58436014 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
58435874 CAAATTTGAT
* * *
58435884 AAGTACCTATACCATAGCCCTTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
* * * *
58435931 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCTCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
* *
58435978 AAATACCTATATCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
58436015 TTATTTGCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
Found at i:58437175 original size:13 final size:13
Alignment explanation
Indices: 58437157--58437181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58437147 ACAAACGATA
58437157 AAATTTTCACACG
1 AAATTTTCACACG
58437170 AAATTTTCACAC
1 AAATTTTCACAC
58437182 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:58446022 original size:21 final size:21
Alignment explanation
Indices: 58445981--58446021 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58445971 TAAATGAAAT
58445981 AAAAGAAAAAAAAGCATAAAAC
1 AAAAG-AAAAAAAGCATAAAAC
*
58446003 AAAAGAAACAAAGC-TAAAA
1 AAAAGAAAAAAAGCATAAAA
58446022 AGAAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAAAGCATAAAAC
Found at i:58446082 original size:16 final size:16
Alignment explanation
Indices: 58446048--58446081 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
58446038 CGAACAGGGG
*
58446048 AAAGAAAGAAAGAAGA
1 AAAGAAAGAAAAAAGA
58446064 AAAGAAA-AAAAAAGA
1 AAAGAAAGAAAAAAGA
58446079 AAA
1 AAA
58446082 AACTAGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAAGA
Found at i:58446807 original size:18 final size:18
Alignment explanation
Indices: 58446784--58446820 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58446774 TCTGTGATCA
58446784 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
58446802 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
58446820 A
1 A
58446821 TATGAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:58446809 original size:12 final size:12
Alignment explanation
Indices: 58446784--58446820 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
58446774 TCTGTGATCA
58446784 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
58446796 AAAGTGAAATTG
1 AAATTGAAAGTG
58446808 AAATTGAAAGTG
1 AAATTGAAAGTG
58446820 A
1 A
58446821 TATGAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:58446833 original size:18 final size:19
Alignment explanation
Indices: 58446784--58446833 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
58446774 TCTGTGATCA
58446784 AAATTGAAA-GTGAAAGTG
1 AAATTGAAATGTGAAAGTG
58446802 AAATTGAAAT-TGAAAGTG
1 AAATTGAAATGTGAAAGTG
* *
58446820 ATA-TGAATTGTGAA
1 AAATTGAAATGTGAA
58446834 TTGAAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 23 0.82
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (19 bp):
AAATTGAAATGTGAAAGTG
Found at i:58460893 original size:14 final size:14
Alignment explanation
Indices: 58460874--58460902 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
58460864 AAGAAGGAGA
58460874 TACCAGAGTATGTC
1 TACCAGAGTATGTC
58460888 TACCAGAGTATGTC
1 TACCAGAGTATGTC
58460902 T
1 T
58460903 CAAGTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (14 bp):
TACCAGAGTATGTC
Found at i:58465368 original size:37 final size:36
Alignment explanation
Indices: 58465299--58465369 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
58465289 ATATATAACT
* **
58465299 TAAAAAATTAAAATTATCAAATAATGTCTAAAAATA
1 TAAAAAATAAAAATTATCAAATAAAATCTAAAAATA
58465335 TAAATAAATAAAAATTATCTAAATAAAAT-TAAAAA
1 TAAA-AAATAAAAATTATC-AAATAAAATCTAAAAA
58465370 GCTCCAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 4 0.13
37 19 0.63
38 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (36 bp):
TAAAAAATAAAAATTATCAAATAAAATCTAAAAATA
Found at i:58468292 original size:21 final size:21
Alignment explanation
Indices: 58468252--58468307 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
58468242 GTCACACATG
*
58468252 TCTCACCACT--AATTTTTAA
1 TCTCACCACTACAATATTTAA
**
58468271 TCTCATTACTACAATATTTAA
1 TCTCACCACTACAATATTTAA
58468292 TCTCACCACTACAATA
1 TCTCACCACTACAATA
58468308 ACCAATCTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 8 0.27
21 22 0.73
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.38
Consensus pattern (21 bp):
TCTCACCACTACAATATTTAA
Found at i:58470840 original size:24 final size:24
Alignment explanation
Indices: 58470804--58470850 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
58470794 TGAAGAAGAC
*
58470804 TCGGCACTGCTATCTTCAATGTAT
1 TCGGCACTACTATCTTCAATGTAT
58470828 TCGGCACTACTATCTTCAATGTA
1 TCGGCACTACTATCTTCAATGTA
58470851 CTGGACAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (24 bp):
TCGGCACTACTATCTTCAATGTAT
Found at i:58477616 original size:16 final size:17
Alignment explanation
Indices: 58477585--58477617 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58477575 TTCATAAGTA
58477585 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
58477602 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
58477618 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Done.