Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 23 of 211
Found at i:6165922 original size:11 final size:11
Alignment explanation
Indices: 6165906--6165936 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6165896 TTTTTTCTTG
6165906 TTTATTAATTA
1 TTTATTAATTA
6165917 TTTATTAATTA
1 TTTATTAATTA
6165928 TTT-TTAATT
1 TTTATTAATT
6165937 TTATTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTAATTA
Found at i:6178303 original size:3 final size:3
Alignment explanation
Indices: 6178295--6178321 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6178285 ACTTGTGTAC
6178295 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
6178322 GCACTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6187051 original size:101 final size:100
Alignment explanation
Indices: 6186937--6187147 Score: 322
Period size: 101 Copynumber: 2.1 Consensus size: 100
6186927 TGTGTTCTAT
6186937 TTTGACAAGTTGAATATGCTTATTATTATTATTA-TTATTACAATAAATGTTATTGCATTTTATT
1 TTTGACAAGTTGAATATGCTTATTATTATTATTATTTATTAC-----ATGTTATTGCATTTTATT
* *
6187001 TAAGGTTAGTATTTG-TTCATTGAT-A-ATATTTTTTTTA
61 TAAGGTTAGTATTTGATACACTGATAATATATTTTTTTTA
6187038 TTTGACAAGTTGAATATGCTTATTATTATTATTATTTATTACATGTTATTGCATTTTATTTAAGG
1 TTTGACAAGTTGAATATGCTTATTATTATTATTATTTATTACATGTTATTGCATTTTATTTAAGG
6187103 TTAGTATTTGATACACTGATAATATATTTTTTTTA
66 TTAGTATTTGATACACTGATAATATATTTTTTTTA
*
6187138 TTTCACAAGT
1 TTTGACAAGT
6187148 AGTCTTAAAA
Statistics
Matches: 103, Mismatches: 3, Indels: 9
0.90 0.03 0.08
Matches are distributed among these distances:
97 33 0.32
98 7 0.07
99 1 0.01
100 21 0.20
101 34 0.33
102 7 0.07
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (100 bp):
TTTGACAAGTTGAATATGCTTATTATTATTATTATTTATTACATGTTATTGCATTTTATTTAAGG
TTAGTATTTGATACACTGATAATATATTTTTTTTA
Found at i:6187133 original size:97 final size:97
Alignment explanation
Indices: 6186937--6187133 Score: 299
Period size: 97 Copynumber: 2.0 Consensus size: 97
6186927 TGTGTTCTAT
6186937 TTTGACAAGTTGAATATGCTTATTATTATTATTATTATTACAATAAATGTTATTGCATTTTATTT
1 TTTGACAAGTTGAATATGCTTATTATTATTATTATTATTAC----AATGTTATTGCATTTTATTT
* * *
6187002 AAGGTTAGTATTTGTTCATTGATAATATTTTTTTTA
62 AAGGTTAGTATTTGTACACTGATAATATTATTTTTA
6187038 TTTGACAAGTTGAATATGCTTATTATTATTATTATTTATTAC-ATGTTATTGCATTTTATTTAAG
1 TTTGACAAGTTGAATATGCTTATTATTATTATTA-TTATTACAATGTTATTGCATTTTATTTAAG
6187102 GTTAGTATTTGATACACTGATAATA-TATTTTT
65 GTTAGTATTTG-TACACTGATAATATTATTTTT
6187134 TTTATTTCAC
Statistics
Matches: 91, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
97 39 0.43
98 11 0.12
101 34 0.37
102 7 0.08
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (97 bp):
TTTGACAAGTTGAATATGCTTATTATTATTATTATTATTACAATGTTATTGCATTTTATTTAAGG
TTAGTATTTGTACACTGATAATATTATTTTTA
Found at i:6191817 original size:5 final size:5
Alignment explanation
Indices: 6191807--6191832 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6191797 GTTTTAACAA
6191807 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
6191833 TATAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:6192459 original size:17 final size:17
Alignment explanation
Indices: 6192439--6192475 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6192429 AATTTTTGAA
6192439 TTAGTGAATTCTATGAT
1 TTAGTGAATTCTATGAT
* *
6192456 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTATGAT
6192473 TTA
1 TTA
6192476 AAAAGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTATGAT
Found at i:6193185 original size:26 final size:26
Alignment explanation
Indices: 6193156--6193216 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
6193146 AATTACAAAT
6193156 AATT-TAATAAATAAAAATAAAAATAA
1 AATTCTAA-AAATAAAAATAAAAATAA
* * *
6193182 AATTCTAAAACTAAAACTAAAACT-A
1 AATTCTAAAAATAAAAATAAAAATAA
*
6193207 AAGTCTAAAA
1 AATTCTAAAA
6193217 GTCTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 10 0.33
26 17 0.57
27 3 0.10
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (26 bp):
AATTCTAAAAATAAAAATAAAAATAA
Found at i:6193197 original size:25 final size:25
Alignment explanation
Indices: 6193167--6193216 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
6193157 ATTTAATAAA
* *
6193167 TAAAAATAAAAATAAAATTCTAAAAC
1 TAAAACTAAAAAT-AAAGTCTAAAAC
*
6193193 TAAAACTAAAACTAAAGTCTAAAA
1 TAAAACTAAAAATAAAGTCTAAAA
6193217 GTCTAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (25 bp):
TAAAACTAAAAATAAAGTCTAAAAC
Found at i:6193262 original size:9 final size:9
Alignment explanation
Indices: 6193248--6193314 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
6193238 GTAGTGATTC
6193248 AATTCGGTT
1 AATTCGGTT
6193257 AATTCGGTT
1 AATTCGGTT
*
6193266 AATTCGGGT
1 AATTCGGTT
*
6193275 AATCCGGTT
1 AATTCGGTT
*
6193284 AATTCGGGT
1 AATTCGGTT
6193293 AATTCGGTT
1 AATTCGGTT
6193302 AATTCGGTT
1 AATTCGGTT
6193311 AATT
1 AATT
6193315 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:6193491 original size:12 final size:12
Alignment explanation
Indices: 6193474--6193498 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6193464 TGTTATTTTG
6193474 GGTCGGTTAACC
1 GGTCGGTTAACC
6193486 GGTCGGTTAACC
1 GGTCGGTTAACC
6193498 G
1 G
6193499 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6193940 original size:46 final size:45
Alignment explanation
Indices: 6193865--6194092 Score: 321
Period size: 46 Copynumber: 5.0 Consensus size: 45
6193855 GGCACAGTGC
* *
6193865 GAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATATTGAGTTGT
1 GAAAAGTAGGTATGGTATTTCG-TGAAGAAAACCATACTGAGTTGT
*
6193911 GAAAAGTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGTTGT
1 GAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATACTGAGTTGT
*
6193957 GAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGT
1 GAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATACTGAGTTGT
* * * *
6194003 GAAAAGTATGTATGGTGTTTCAGTGAAGAAAACCATATTGAGTTCT
1 GAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATACTGAGTTGT
* *
6194049 AAAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGTT
1 GAAAAGTAGGTATGGT-ATTTCGTGAAGAAAACCATACTGAGTT
6194093 ATAGCCTTGT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 159 0.98
47 4 0.02
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (45 bp):
GAAAAGTAGGTATGGTATTTCGTGAAGAAAACCATACTGAGTTGT
Found at i:6194027 original size:92 final size:92
Alignment explanation
Indices: 6193865--6194092 Score: 357
Period size: 92 Copynumber: 2.5 Consensus size: 92
6193855 GGCACAGTGC
* *
6193865 GAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATATTGAGTTGTGAAAAGTAGGTATGGTATT
1 GAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATT
*
6193930 CCAGTGAAGAAAACCATACTGAGTTGT
66 CCAGTGAAGAAAACCATACTGAGTTCT
* *
6193957 GAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTATGTATGGTGTT
1 GAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATT
* *
6194022 TCAGTGAAGAAAACCATATTGAGTTCT
66 CCAGTGAAGAAAACCATACTGAGTTCT
* * * *
6194049 AAAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGTT
1 GAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTT
6194093 ATAGCCTTGT
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 125 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (92 bp):
GAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATT
CCAGTGAAGAAAACCATACTGAGTTCT
Found at i:6199058 original size:22 final size:22
Alignment explanation
Indices: 6199027--6199082 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
6199017 ACCTCAACTA
*
6199027 ATGTTACGAAATGAGAAAAGAC
1 ATGTTGCGAAATGAGAAAAGAC
*
6199049 GTGTTGCGAAATGAGAAAAGAC
1 ATGTTGCGAAATGAGAAAAGAC
*
6199071 ATGTTGCAAAAT
1 ATGTTGCGAAAT
6199083 ATTAAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.21
Consensus pattern (22 bp):
ATGTTGCGAAATGAGAAAAGAC
Found at i:6207772 original size:3 final size:3
Alignment explanation
Indices: 6207764--6207813 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
6207754 ACAAAAGTTA
*
6207764 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6207812 AA
1 AA
6207814 AAGATGGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6212300 original size:24 final size:24
Alignment explanation
Indices: 6212244--6212292 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6212234 CACATTTAGA
6212244 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
6212268 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
6212292 G
1 G
6212293 TTCTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (24 bp):
GAATTTTGTGTTTACGTTTTGAGG
Found at i:6217875 original size:3 final size:3
Alignment explanation
Indices: 6217867--6217916 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
6217857 ACAAAAGTTA
*
6217867 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6217915 AA
1 AA
6217917 AAGATGGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6222400 original size:24 final size:24
Alignment explanation
Indices: 6222344--6222392 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6222334 CACATTTAGA
6222344 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
6222368 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
6222392 G
1 G
6222393 TTCTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (24 bp):
GAATTTTGTGTTTACGTTTTGAGG
Found at i:6223901 original size:20 final size:20
Alignment explanation
Indices: 6223876--6223925 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6223866 TGGCTTAAAA
6223876 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
6223896 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
6223913 GTGGTAGTGGATT
1 TTGGTAGTGGATT
6223926 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:6228530 original size:20 final size:20
Alignment explanation
Indices: 6228505--6228554 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6228495 TGGCTTAAAA
6228505 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
6228525 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
6228542 GTGGTAGTGGATT
1 TTGGTAGTGGATT
6228555 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:6237562 original size:24 final size:24
Alignment explanation
Indices: 6237506--6237554 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6237496 CACATTTAGA
6237506 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
6237530 GAATTTTGTGTTTACGTTTTGAGG
1 GAATTTTGTGTTTACGTTTTGAGG
6237554 G
1 G
6237555 TTCTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (24 bp):
GAATTTTGTGTTTACGTTTTGAGG
Found at i:6241179 original size:16 final size:17
Alignment explanation
Indices: 6241144--6241185 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
6241134 ATTAACAAGA
*
6241144 TTTAAAATAAGTATTCT
1 TTTAAAATAAATATTCT
*
6241161 TTTAAAA-AAATATTGT
1 TTTAAAATAAATATTCT
6241177 TTTAAAATA
1 TTTAAAATA
6241186 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (17 bp):
TTTAAAATAAATATTCT
Found at i:6247251 original size:33 final size:33
Alignment explanation
Indices: 6247209--6247295 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
6247199 AAAGAGGGAT
* *
6247209 TAACAGGTATAGAAGATGAAGGTGAAATAGAGG
1 TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
* * *
6247242 TAACTGGTATAGAGGGTGAAGGAGATATAGAGG
1 TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
6247275 TAACAGGTATAGAAGGTGAAG
1 TAACAGGTATAGAAGGTGAAG
6247296 CTACAGGCTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.41, C:0.03, G:0.36, T:0.20
Consensus pattern (33 bp):
TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
Found at i:6247255 original size:15 final size:15
Alignment explanation
Indices: 6247235--6247287 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
6247225 TGAAGGTGAA
*
6247235 ATAGAGGTAACTGGT
1 ATAGAGGTAACAGGT
* *
6247250 ATAGAGGGTGAAGGAGAT
1 ATAGA-GGT-AA-CAGGT
6247268 ATAGAGGTAACAGGT
1 ATAGAGGTAACAGGT
6247283 ATAGA
1 ATAGA
6247288 AGGTGAAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 13 0.43
16 5 0.17
17 5 0.17
18 7 0.23
ACGTcount: A:0.40, C:0.04, G:0.36, T:0.21
Consensus pattern (15 bp):
ATAGAGGTAACAGGT
Found at i:6249057 original size:20 final size:20
Alignment explanation
Indices: 6249032--6249081 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6249022 TGGCTTAAAA
6249032 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
6249052 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
6249069 GTGGTAGTGGATT
1 TTGGTAGTGGATT
6249082 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:6253695 original size:20 final size:20
Alignment explanation
Indices: 6253670--6253719 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6253660 TGGCTTAAAA
6253670 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
6253690 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
6253707 GTGGTAGTGGATT
1 TTGGTAGTGGATT
6253720 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:6259315 original size:29 final size:27
Alignment explanation
Indices: 6259249--6259315 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
6259239 GTGTTTCACG
* *
6259249 TGTATAATTGCATCAAATTAAAGTTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
6259276 TGTATACAATTGTACATTAAATCAAAATTTA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
6259307 TGTATAATT
1 TGTATAATT
6259316 TTAAGATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.16
29 9 0.28
31 18 0.56
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:6260888 original size:11 final size:11
Alignment explanation
Indices: 6260874--6260906 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6260864 TTTCTTTTTT
6260874 TTTGTTATATA
1 TTTGTTATATA
6260885 TTTGTTATATA
1 TTTGTTATATA
*
6260896 TATG-TATATA
1 TTTGTTATATA
6260906 T
1 T
6260907 AGTTTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (11 bp):
TTTGTTATATA
Found at i:6261395 original size:19 final size:20
Alignment explanation
Indices: 6261366--6261405 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
6261356 GTAAATGGAC
*
6261366 TATTGTATTTAGTTTTTATT
1 TATTGTATTTAGATTTTATT
6261386 TATT-TATTTAGATTTTATT
1 TATTGTATTTAGATTTTATT
6261405 T
1 T
6261406 GTCTTGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TATTGTATTTAGATTTTATT
Found at i:6264513 original size:3 final size:3
Alignment explanation
Indices: 6264505--6264536 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6264495 GTAAAAGGAA
6264505 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6264537 AGTTAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6266243 original size:44 final size:43
Alignment explanation
Indices: 6266193--6266632 Score: 241
Period size: 44 Copynumber: 10.2 Consensus size: 43
6266183 ATCTACTCTG
* * *
6266193 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTCAATCTGCTCCA
* * * ** * *
6266237 TTGTAACTTCAGGGAGATAGGATAGTGTTTTCGATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * **
6266280 CTGTAATCTCAGGGAGATAAGATCTTTTATTTTAATCCACTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-TTTCAATCTGCTCCA
* ** * * *
6266324 CTGTAACTTCAGGGAGATAAGATAGTGTTTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* ***
6266367 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTTTTCAATCTGCTCCA
* ** **
6266411 CTGTAACCTCAGGGAGATAAGATCCGAAATTCTTT-GGTCTATTCCA
1 CTGTAACCTCAGGGAGATAAGATCC----TTTTTTCAATCTGCTCCA
* ** * * * *
6266457 CTGTAATCTCAGGGAGATAAGA-CCTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * *
6266498 CTGTAACTTCAGAGAGATAAGATCC---TTT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
* * * * * ** * *
6266537 TTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCT-TTTTTCAATCTGCTCCA
* * * *
6266581 CTGTAATCTCAGGGAGATAAGATCTGCTTCTTT-AACCAGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC--CTTTTTTCAATCTGCTCCA
6266625 CTGTAACC
1 CTGTAACC
6266633 AATGAAGGCA
Statistics
Matches: 298, Mismatches: 84, Indels: 28
0.73 0.20 0.07
Matches are distributed among these distances:
39 25 0.08
40 2 0.01
41 29 0.10
42 2 0.01
43 66 0.22
44 139 0.47
45 4 0.01
46 28 0.09
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTTTTCAATCTGCTCCA
Found at i:6266302 original size:87 final size:87
Alignment explanation
Indices: 6266193--6266520 Score: 340
Period size: 87 Copynumber: 3.8 Consensus size: 87
6266183 ATCTACTCTG
* * * * *
6266193 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGG
1 CTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
6266258 ATAGTGTTTTCGATCTGCTCCA
66 ATAGTGTTTTCGATCTGCTCCA
*
6266280 CTGTAATCTCAGGGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
*
6266345 ATAGTGTTTTCGATCTGCTCCG
66 ATAGTGTTTTCGATCTGCTCCA
*** * ** *
6266367 CTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 CTGTAATCTCAGGGAGATAAGATCCT-TTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAA
* ** * * **
6266431 GATCCGAAATTCTTTGGTCTATTCCA
65 GAT-AG-TGTT-TTCGATCTGCTCCA
* * * ** * *
6266457 CTGTAATCTCAGGGAGATAAGA-CC-TGA-TGTGATCTTCTCTACTGTAACTTCAGAGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
6266519 AT
66 AT
6266521 CCTTTAATCC
Statistics
Matches: 205, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
86 1 0.00
87 167 0.81
88 3 0.01
89 2 0.01
90 32 0.16
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (87 bp):
CTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
ATAGTGTTTTCGATCTGCTCCA
Found at i:6266491 original size:131 final size:131
Alignment explanation
Indices: 6266270--6266521 Score: 287
Period size: 131 Copynumber: 1.9 Consensus size: 131
6266260 AGTGTTTTCG
* ****
6266270 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTTTTATTTTAATCCACTCCACTGTAACTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCGAAATTTTAATCCACTCCACTGTAACTTCA
* * * * *
6266335 GGGAGATAAGATAGTGTTTTCGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTT
66 GGGAGATAAGATACTGATGTCGATCTGCTCCACTGTAACT-TCAGAGAGATAAGATCTCTGGCTT
6266399 CA
130 CA
** * *
6266401 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCGAAATTCTTTGGTCTATTCCACTGTAA-TC
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCGAAA-T-TTTAATCCACTCCACTGTAACT-
* * *
6266465 TCAGGGAGATAAGA-CCTGATGT-GATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
63 TCAGGGAGATAAGATACTGATGTCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATC
6266522 CTTTAATCCG
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
131 63 0.63
132 7 0.07
133 30 0.30
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (131 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCCGAAATTTTAATCCACTCCACTGTAACTTCA
GGGAGATAAGATACTGATGTCGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCTCTGGCTTC
A
Found at i:6267753 original size:21 final size:21
Alignment explanation
Indices: 6267727--6267773 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6267717 GGTATAGCAG
6267727 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
6267748 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
6267769 GATCA
1 GATCA
6267774 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:6271397 original size:19 final size:20
Alignment explanation
Indices: 6271368--6271416 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6271358 CACTTCGTGA
* *
6271368 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
6271387 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
6271407 AAATG-AATGC
1 AAATGTAATGC
6271417 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:6273808 original size:3 final size:3
Alignment explanation
Indices: 6273800--6273832 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6273790 AACAAATAGG
6273800 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6273833 AGTTAACAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6276015 original size:17 final size:17
Alignment explanation
Indices: 6275993--6276028 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6275983 TGGCCATTAA
6275993 AATTATAATT-ATAGATT
1 AATTATAATTGATA-ATT
6276010 AATTATAATTGATAATT
1 AATTATAATTGATAATT
6276027 AA
1 AA
6276029 GTGAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTATAATTGATAATT
Found at i:6281158 original size:19 final size:18
Alignment explanation
Indices: 6281128--6281165 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6281118 TGAGGGAAAG
6281128 AGAAAAATAAAGA-TAAA
1 AGAAAAATAAAGAGTAAA
6281145 AGAATAAATAAAAGAGTAAA
1 AGAA-AAAT-AAAGAGTAAA
6281165 A
1 A
6281166 TAACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 5 0.28
20 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (18 bp):
AGAAAAATAAAGAGTAAA
Found at i:6283908 original size:5 final size:5
Alignment explanation
Indices: 6283893--6283953 Score: 65
Period size: 5 Copynumber: 12.4 Consensus size: 5
6283883 AAATTTATTA
* *
6283893 AATATT AATAT AATAT AATAT AATAT AATAT AA-AT -ATAT ATATAT ATTTT
1 AATA-T AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT AATAT
6283943 AA-AT AATAT AA
1 AATAT AATAT AA
6283954 GTGGGCTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
3 1 0.02
4 7 0.15
5 30 0.64
6 9 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
AATAT
Found at i:6287792 original size:17 final size:17
Alignment explanation
Indices: 6287770--6287803 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6287760 GCCATTAAAG
6287770 TTATAATT-ATAGATTAA
1 TTATAATTGATA-ATTAA
6287787 TTATAATTGATAATTAA
1 TTATAATTGATAATTAA
6287804 GTGAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTATAATTGATAATTAA
Found at i:6294418 original size:22 final size:22
Alignment explanation
Indices: 6294339--6294433 Score: 55
Period size: 22 Copynumber: 4.1 Consensus size: 22
6294329 ATAATATTTT
*
6294339 TATATATAAAATATAAATTTTAAA
1 TATATATAAAAT-TTAA-TTTAAA
* * * * *
6294363 TATTTTTAAATAATTACTATTAAT
1 TATATATAAA-ATTTAAT-TTAAA
* *
6294387 TATTTTTAAAATTTAATTTAAA
1 TATATATAAAATTTAATTTAAA
* * *
6294409 TATATATAAACTATATTTTAAA
1 TATATATAAAATTTAATTTAAA
6294431 TAT
1 TAT
6294434 TAAAATATAA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
22 24 0.44
23 6 0.11
24 24 0.44
25 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATATAAAATTTAATTTAAA
Found at i:6295460 original size:15 final size:15
Alignment explanation
Indices: 6295440--6295517 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
6295430 TTTATGGAAA
6295440 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
6295455 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
6295469 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
6295485 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
6295499 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
6295515 ATC
1 ATC
6295518 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:6295468 original size:30 final size:30
Alignment explanation
Indices: 6295434--6295527 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
6295424 TCCATATTTA
*
6295434 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
6295464 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
6295494 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
6295525 TGG
1 TGG
6295528 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:6300117 original size:15 final size:15
Alignment explanation
Indices: 6300097--6300174 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
6300087 TTTATGGAAA
6300097 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
6300112 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
6300126 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
6300142 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
6300156 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
6300172 ATC
1 ATC
6300175 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:6300125 original size:30 final size:30
Alignment explanation
Indices: 6300091--6300184 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
6300081 TCCATATTTA
*
6300091 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
6300121 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
6300151 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
6300182 TGG
1 TGG
6300185 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:6306698 original size:30 final size:30
Alignment explanation
Indices: 6306662--6306740 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
6306652 AATTAAAAAT
* * *
6306662 AGCACTCAATTGAGCCCTTAATCGAGTTTA
1 AGCACTCAATTGAGCCCTCAATCAAATTTA
* * *
6306692 AGCACTCAACTGAACCCTCAATTAAATTTA
1 AGCACTCAATTGAGCCCTCAATCAAATTTA
* *
6306722 AGCAATCAATTAAGCCCTC
1 AGCACTCAATTGAGCCCTC
6306741 GTTCTTTGAC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (30 bp):
AGCACTCAATTGAGCCCTCAATCAAATTTA
Found at i:6309183 original size:162 final size:161
Alignment explanation
Indices: 6308917--6309238 Score: 590
Period size: 162 Copynumber: 2.0 Consensus size: 161
6308907 TTGACTATGG
* *
6308917 TCATTGAAACAACTTTTTTCTGTCTTTGCAATGCTTTTCATTGAGTATGCAATGCTTGTTCTACA
1 TCATTGAAACAAATTTTTTCTGACTTTGCAATGCTTTTCATTGAGTATGCAATGCTTGTTCTACA
6308982 AGGGATTTTAGATCTGGTCTATATTCATTCAACATGTTATCCTATTAGTTGTAGCAAAAACTCCA
66 AGGGATTTTAGATCTGGTCTATATTCATTCAACATGTTATCCTATTAGTTGTAGCAAAAACTCCA
6309047 TTTATCTATGTGATGATTGTTGTATTATTTT
131 TTTATCTATGTGATGATTGTTGTATTATTTT
6309078 TCATTGAAACAAATTTTTTCTGACTTTGCAATGCTTTTTCATTGAGTATGCAATGCTTGTTCTAC
1 TCATTGAAACAAATTTTTTCTGACTTTGCAATGC-TTTTCATTGAGTATGCAATGCTTGTTCTAC
* * *
6309143 AAGGGATTTTAGATCTGGTCTATATTCATTCAACATGTTATGCTATTAGTTGTAGCGAAAGCTCC
65 AAGGGATTTTAGATCTGGTCTATATTCATTCAACATGTTATCCTATTAGTTGTAGCAAAAACTCC
6309208 ATTTATCTATGTGATGATTGTTGTATTATTT
130 ATTTATCTATGTGATGATTGTTGTATTATTT
6309239 AAGTGCTGGG
Statistics
Matches: 155, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
161 32 0.21
162 123 0.79
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.44
Consensus pattern (161 bp):
TCATTGAAACAAATTTTTTCTGACTTTGCAATGCTTTTCATTGAGTATGCAATGCTTGTTCTACA
AGGGATTTTAGATCTGGTCTATATTCATTCAACATGTTATCCTATTAGTTGTAGCAAAAACTCCA
TTTATCTATGTGATGATTGTTGTATTATTTT
Found at i:6309948 original size:24 final size:24
Alignment explanation
Indices: 6309921--6310048 Score: 175
Period size: 24 Copynumber: 5.3 Consensus size: 24
6309911 TACTGCTGGA
*
6309921 ATGCCTCCCAACAACATGGGAGGG
1 ATGCCACCCAACAACATGGGAGGG
**
6309945 ATGCCACCCCGCAACATGGGAGGG
1 ATGCCACCCAACAACATGGGAGGG
**
6309969 ATGCCACCCCGCAACATGGGAGGG
1 ATGCCACCCAACAACATGGGAGGG
*
6309993 ATGCCACCCAACAACATGGGAAGG
1 ATGCCACCCAACAACATGGGAGGG
* *
6310017 ATGCCACCCAACAATATGGGAGGA
1 ATGCCACCCAACAACATGGGAGGG
*
6310041 ATGACACC
1 ATGCCACC
6310049 GAATCAAGGA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.31, C:0.30, G:0.28, T:0.10
Consensus pattern (24 bp):
ATGCCACCCAACAACATGGGAGGG
Found at i:6312471 original size:10 final size:10
Alignment explanation
Indices: 6312456--6312489 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6312446 GTTATGGTAT
6312456 AAGTAATTAA
1 AAGTAATTAA
*
6312466 AAGTAATGTAT
1 AAGTAAT-TAA
6312477 AAGTAATTAA
1 AAGTAATTAA
6312487 AAG
1 AAG
6312490 CAAGCTCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (10 bp):
AAGTAATTAA
Found at i:6314695 original size:28 final size:28
Alignment explanation
Indices: 6314663--6314724 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
6314653 TGAACGTGAA
6314663 CTAGGTTCTGCTTCAGCTTTAGAATCAC
1 CTAGGTTCTGCTTCAGCTTTAGAATCAC
6314691 CTAGGTTCTGCTTCAGCTTTAGAATCAC
1 CTAGGTTCTGCTTCAGCTTTAGAATCAC
6314719 CATAGG
1 C-TAGG
6314725 AGAGCAGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (28 bp):
CTAGGTTCTGCTTCAGCTTTAGAATCAC
Found at i:6325069 original size:21 final size:21
Alignment explanation
Indices: 6325043--6325083 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6325033 ATCTGCTCAA
* *
6325043 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6325064 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6325084 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6329236 original size:159 final size:159
Alignment explanation
Indices: 6328945--6329295 Score: 589
Period size: 159 Copynumber: 2.2 Consensus size: 159
6328935 AGTATCCGTG
*
6328945 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCATTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCACTGAGTTCGTTA
* *
6329010 GATCTGTTTGACTCTGACCTGGTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGAGA
6329075 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
*
6329104 ATTCAATTGAGGTTGGCTTGTTTGTTGAGGATGCACCAAG-TGGTCACTC-GACACTGAGTTCGT
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCT-GTCACTCTG-CACTGAGTTCGT
* ** *
6329167 TATATCTGTTTGACTCTGATGTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTGAGA
64 TAGATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGA
6329232 GATGAATCAGAGTCTGGTTCTGACGTGTTTC
129 GATGAATCAGAGTCTGGTTCTGACGTGTTTC
*
6329263 ATGCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
6329296 TTCCGAAAAG
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
158 2 0.01
159 178 0.99
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (159 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCACTGAGTTCGTTA
GATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGAGA
TGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:6329377 original size:159 final size:158
Alignment explanation
Indices: 6328948--6329362 Score: 573
Period size: 159 Copynumber: 2.6 Consensus size: 158
6328938 ATCCGTGATT
** *
6328948 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCATTGAGTTCGTTAGAT
1 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGAGGTCACT-TGCACTGAGTTCGTTAGAT
* *
6329013 CTGTTTGACTCTGACCTGGTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
65 CTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGAGATGA
*
6329078 ATCAGAGTCTGGTTCTGACGTGTTTCATT
130 ATCAGAGTCTGGTTCTGACGTGTTTCATG
* * * *
6329107 CAATTGAGGTTGGCTTGTTTGTTGAGGATGCACCAAGTGGTCACTCGACACTGAGTTCGTTATAT
1 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGAGGTCACTTG-CACTGAGTTCGTTAGAT
** *
6329172 CTGTTTGACTCTGATGTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTGAGAGATGA
65 CTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGAGATGA
6329237 ATCAGAGTCTGGTTCTGACGTGTTTCATG
130 ATCAGAGTCTGGTTCTGACGTGTTTCATG
** * * * *
6329266 CAATTGAGGTTGGCTTGTTGGTTGAGGATGTTCCGAAAAGGT-ATTATGCACTGAGTGCAG-CAG
1 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACC-AAGAGGTCACT-TGCACTGAGTTC-GTTAG
* * *
6329329 ATCAGTTAGACACTGACCTGCTACATTCGATTGA
63 ATCTGTTTGACTCTGACCTGCTACATTCGATTGA
6329363 CATGGCTGAC
Statistics
Matches: 225, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
158 1 0.00
159 217 0.96
160 7 0.03
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (158 bp):
CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGAGGTCACTTGCACTGAGTTCGTTAGATC
TGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGAGATGAA
TCAGAGTCTGGTTCTGACGTGTTTCATG
Found at i:6329395 original size:159 final size:158
Alignment explanation
Indices: 6328948--6329442 Score: 548
Period size: 159 Copynumber: 3.1 Consensus size: 158
6328938 ATCCGTGATT
** *
6328948 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCTGCATTGAGTTCGTTAGAT
1 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGAGGTCACT-TGCACTGAGTTCGTTAGAT
* *
6329013 CTGTTTGACTCTGACCTGGTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTC-GAGTGATG
65 CTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGA-AGGTCTGAGTGATG
*
6329077 AATCAGAGTCTGGTTCTGACGTGTTTCATT
129 AATCAGAGTCTGGTTCTGACGTGTTTCATG
* * * *
6329107 CAATTGAGGTTGGCTTGTTTGTTGAGGATGCACCAAGTGGTCACTCGACACTGAGTTCGTTATAT
1 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGAGGTCACTTG-CACTGAGTTCGTTAGAT
** * *
6329172 CTGTTTGACTCTGATGTGCTACATTCGATTGAAATTGCCCAGTATGCTG-AGAGTTTGAGAGATG
65 CTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAAG-GTCTGAGTGATG
6329236 AATCAGAGTCTGGTTCTGACGTGTTTCATG
129 AATCAGAGTCTGGTTCTGACGTGTTTCATG
** * * * *
6329266 CAATTGAGGTTGGCTTGTTGGTTGAGGATGTTCCGAAAAGGT-ATTATGCACTGAGTGCAG-CAG
1 CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACC-AAGAGGTCACT-TGCACTGAGTTC-GTTAG
* * * * * ** * * *
6329329 ATCAGTTAGACACTGACCTGCTACATTCGATTGACATGGCTGACTATGCAGAAGGTCTGGGTGAT
63 ATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAAGGTCTGAGTGAT
* *** ** *
6329394 GAATCAGACTCCAATTCTGATATGTTTCCTG
128 GAATCAGAGTCTGGTTCTGACGTGTTTCATG
* *
6329425 CGATTGGGGTTGGCTTGT
1 CAATTGAGGTTGGCTTGT
6329443 GTGATTAAAG
Statistics
Matches: 283, Mismatches: 46, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
157 2 0.01
158 2 0.01
159 270 0.95
160 9 0.03
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (158 bp):
CAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGAGGTCACTTGCACTGAGTTCGTTAGATC
TGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAAGGTCTGAGTGATGAA
TCAGAGTCTGGTTCTGACGTGTTTCATG
Found at i:6343456 original size:24 final size:24
Alignment explanation
Indices: 6343411--6343490 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
6343401 ACCACTCAAC
*
6343411 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* * *
6343435 CCGCCATAACCAGCTGATCCTGGT
1 CCACCATAACCAGTTGAACCTGGT
*
6343459 CCACCATAGCCAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
6343483 CCACCATA
1 CCACCATA
6343491 CCCACCATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (24 bp):
CCACCATAACCAGTTGAACCTGGT
Found at i:6347494 original size:6 final size:6
Alignment explanation
Indices: 6347480--6347521 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
6347470 TTGAATTGGT
*
6347480 GCTGAA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA
1 GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA GCTGGA
6347522 ATTCTCCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.48, T:0.17
Consensus pattern (6 bp):
GCTGGA
Found at i:6349432 original size:24 final size:25
Alignment explanation
Indices: 6349405--6349451 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
6349395 TTATTTTATT
*
6349405 TTTATAAAAAAT-TTAAAAATATAA
1 TTTATAAAAAATACTAAAAATATAA
*
6349429 TTTATTAAAAATACTAAAAATAT
1 TTTATAAAAAATACTAAAAATAT
6349452 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTATAAAAAATACTAAAAATATAA
Found at i:6349694 original size:22 final size:22
Alignment explanation
Indices: 6349652--6349696 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6349642 AAAACAATAA
*
6349652 GAAAATAACAGCAAAATAGTGG
1 GAAAATAACAGCAAAACAGTGG
* *
6349674 GAAAATAGCAGCAAAGCAGTGG
1 GAAAATAACAGCAAAACAGTGG
6349696 G
1 G
6349697 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.29, T:0.11
Consensus pattern (22 bp):
GAAAATAACAGCAAAACAGTGG
Found at i:6354747 original size:17 final size:17
Alignment explanation
Indices: 6354711--6354743 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6354701 ATTTAAATGA
6354711 AACTGCATACATATTAC
1 AACTGCATACATATTAC
*
6354728 AACT-CATACGTATTAC
1 AACTGCATACATATTAC
6354744 CAACAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AACTGCATACATATTAC
Found at i:6356812 original size:21 final size:21
Alignment explanation
Indices: 6356762--6356832 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
6356752 CTTAATAAAA
*
6356762 ATTTCAAAAAAATT--AG-AG
1 ATTTTAAAAAAATTAAAGAAG
*
6356780 ATTTAAATAAAAATTTCAAA-AA-
1 ATTTTAA-AAAAA-TT-AAAGAAG
6356802 ATTTTAAAAAAATTAAAGAAG
1 ATTTTAAAAAAATTAAAGAAG
6356823 ATTTTAAAAA
1 ATTTTAAAAA
6356833 TGTTTAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
18 6 0.14
19 8 0.19
20 6 0.14
21 15 0.35
22 6 0.14
23 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (21 bp):
ATTTTAAAAAAATTAAAGAAG
Found at i:6356999 original size:2 final size:2
Alignment explanation
Indices: 6356992--6357031 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6356982 AATTGGAGTA
6356992 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
6357032 TCGTGAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6361950 original size:15 final size:16
Alignment explanation
Indices: 6361930--6361961 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6361920 TACTAGATAG
6361930 ATATGAAATAA-TATA
1 ATATGAAATAAGTATA
6361945 ATATGAAATAAGTATA
1 ATATGAAATAAGTATA
6361961 A
1 A
6361962 AGTTTAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (16 bp):
ATATGAAATAAGTATA
Found at i:6366852 original size:21 final size:22
Alignment explanation
Indices: 6366813--6366853 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6366803 CAATTTTTTT
*
6366813 CATTTTTAATTATTGATTTAAG
1 CATTTTAAATTATTGATTTAAG
*
6366835 CATTTTAAATT-TTTATTTA
1 CATTTTAAATTATTGATTTA
6366854 TGTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CATTTTAAATTATTGATTTAAG
Found at i:6369070 original size:13 final size:14
Alignment explanation
Indices: 6369049--6369077 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6369039 GTTGATTAAA
6369049 AATTAAAATTAACT
1 AATTAAAATTAACT
6369063 AATT-AAATTAACT
1 AATTAAAATTAACT
6369076 AA
1 AA
6369078 AGAAAGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAAATTAACT
Found at i:6383653 original size:21 final size:21
Alignment explanation
Indices: 6383627--6383667 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6383617 AGACGAGCAA
* *
6383627 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6383648 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6383668 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6394815 original size:30 final size:33
Alignment explanation
Indices: 6394781--6394841 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
6394771 ATAGCTACAC
6394781 ATAAATATT-AAAAACTT-AATTAAA-AATTAT
1 ATAAATATTCAAAAACTTAAATTAAACAATTAT
*
6394811 ATAAATATTCAAAAAGTTAAATTAAACAATT
1 ATAAATATTCAAAAACTTAAATTAAACAATT
6394842 CCAATAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.33
31 7 0.26
32 7 0.26
33 4 0.15
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (33 bp):
ATAAATATTCAAAAACTTAAATTAAACAATTAT
Found at i:6396420 original size:59 final size:59
Alignment explanation
Indices: 6396321--6396473 Score: 148
Period size: 59 Copynumber: 2.6 Consensus size: 59
6396311 GTTTACCTCC
* * * * * * * *
6396321 AAAGTTTATACATTTTATTAATTTGATTCAAAATCTAAAAATTGAATAAATTT-AGCCCT
1 AAAGTTTATAAAATTTA-TCATTTAATTCTAATTCTAAAAAATCAATAAATTTAAGCCCT
* *
6396380 AAAGTTTATAAAATTTATCATTTAATTCTAATTCTAAAAAAATCAATAAATTTAATCTCT
1 AAAGTTTATAAAATTTATCATTTAATTCTAATTCT-AAAAAATCAATAAATTTAAGCCCT
* *
6396440 AACA-TTTACAAAATTTGTCAATTTAATTCTAATT
1 AA-AGTTTATAAAATTTATC-ATTTAATTCTAATT
6396474 TTATTGGTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
58 14 0.18
59 30 0.38
60 19 0.24
61 15 0.19
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (59 bp):
AAAGTTTATAAAATTTATCATTTAATTCTAATTCTAAAAAATCAATAAATTTAAGCCCT
Found at i:6414985 original size:16 final size:16
Alignment explanation
Indices: 6414966--6415024 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
6414956 AGTGAAATAA
6414966 AATTCGAGTTAAGTCG
1 AATTCGAGTTAAGTCG
* * *
6414982 AATT-GAGTGAA-ACC
1 AATTCGAGTTAAGTCG
6414996 ATATTCGAGTTAAGTCG
1 A-ATTCGAGTTAAGTCG
6415013 AATTCGAGTTAA
1 AATTCGAGTTAA
6415025 ATTAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 9 0.26
16 21 0.62
17 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (16 bp):
AATTCGAGTTAAGTCG
Found at i:6414988 original size:31 final size:31
Alignment explanation
Indices: 6414948--6415031 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
6414938 TTTTTTCAAA
*
6414948 TCGATTTGAGTGAAATAAAATTCGAGTTAAG
1 TCGAATTGAGTGAAATAAAATTCGAGTTAAG
** *
6414979 TCGAATTGAGTGAAACCATATTCGAGTTAAG
1 TCGAATTGAGTGAAATAAAATTCGAGTTAAG
*
6415010 TCGAATTCGAGTTAAATTAAAA
1 TCGAATT-GAGTGAAA-TAAAA
6415032 AAAATTAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 34 0.79
32 7 0.16
33 2 0.05
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (31 bp):
TCGAATTGAGTGAAATAAAATTCGAGTTAAG
Found at i:6415218 original size:10 final size:9
Alignment explanation
Indices: 6415203--6415302 Score: 50
Period size: 10 Copynumber: 11.1 Consensus size: 9
6415193 CCAAGATTAT
6415203 TATTTTAGAA
1 TATTTTA-AA
6415213 TATTTTAAA
1 TATTTTAAA
6415222 -A-TTTAAA
1 TATTTTAAA
* *
6415229 CTTTTTTATA
1 -TATTTTAAA
6415239 TATTTTTAGAA
1 TA-TTTTA-AA
*
6415250 TTTTTTAGAA
1 TATTTTA-AA
6415260 T-TTTTAAA
1 TATTTTAAA
* *
6415268 -AATATAAA
1 TATTTTAAA
6415276 T-TTTGTAAA
1 TATTT-TAAA
*
6415285 TATTTTGAA
1 TATTTTAAA
6415294 T-TTTTAAA
1 TATTTTAAA
6415302 T
1 T
6415303 TTATTTTGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
7 6 0.09
8 16 0.23
9 17 0.24
10 29 0.41
11 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (9 bp):
TATTTTAAA
Found at i:6415279 original size:35 final size:34
Alignment explanation
Indices: 6415235--6415301 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
6415225 TAAACTTTTT
* *
6415235 TATATATTTT-TAGAATTTTTTAGAATTTTTAAAAA
1 TATAAATTTTGTA-AATATTTT-GAATTTTTAAAAA
6415270 TATAAATTTTGTAAATATTTTGAATTTTTAAA
1 TATAAATTTTGTAAATATTTTGAATTTTTAAA
6415302 TTTATTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 11 0.38
35 16 0.55
36 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (34 bp):
TATAAATTTTGTAAATATTTTGAATTTTTAAAAA
Found at i:6415288 original size:46 final size:45
Alignment explanation
Indices: 6415205--6415298 Score: 120
Period size: 47 Copynumber: 2.1 Consensus size: 45
6415195 AAGATTATTA
* * *
6415205 TTTTAGAATATTTTAAAATTTAAACTTTTTTATATATTTTTAGAATT
1 TTTTAGAATATTTTAAAATATAAACTTTTGTAAATA-TTTT-GAATT
6415252 TTTTAGAAT-TTTTAAAAATATAAA-TTTTGTAAATATTTTGAATT
1 TTTTAGAATATTTT-AAAATATAAACTTTTGTAAATATTTTGAATT
6415296 TTT
1 TTT
6415299 AAATTTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 8 0.19
45 4 0.09
46 13 0.30
47 18 0.42
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (45 bp):
TTTTAGAATATTTTAAAATATAAACTTTTGTAAATATTTTGAATT
Found at i:6415297 original size:18 final size:18
Alignment explanation
Indices: 6415240--6415317 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
6415230 TTTTTTATAT
6415240 ATTTTTAGAATT-TTTTAGA
1 ATTTTTA-AATTATTTT-GA
* * *
6415259 ATTTTTAAA--AATATAA
1 ATTTTTAAATTATTTTGA
6415275 ATTTTGTAAA-TATTTTGA
1 ATTTT-TAAATTATTTTGA
6415293 ATTTTTAAATTTATTTTGA
1 ATTTTTAAA-TTATTTTGA
6415312 ATTTTT
1 ATTTTT
6415318 TGTTGAGAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.12
17 10 0.21
18 11 0.23
19 21 0.44
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
ATTTTTAAATTATTTTGA
Found at i:6415774 original size:59 final size:59
Alignment explanation
Indices: 6415698--6415811 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
6415688 AACTTCAAGC
*
6415698 AAGCTCTTGTAAACTAATTTAGGTTAACTATACAATAAAAATAGGATATTTTGAGGTTG
1 AAGCTCTTGTAAACTAATGTAGGTTAACTATACAATAAAAATAGGATATTTTGAGGTTG
* *
6415757 AAGCTCTTGTAACCTAATGTAGGTTAACTATACAATATAAATAGGATATTTTGAG
1 AAGCTCTTGTAAACTAATGTAGGTTAACTATACAATAAAAATAGGATATTTTGAG
6415812 AGAGACTGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (59 bp):
AAGCTCTTGTAAACTAATGTAGGTTAACTATACAATAAAAATAGGATATTTTGAGGTTG
Found at i:6420675 original size:9 final size:9
Alignment explanation
Indices: 6420649--6420703 Score: 56
Period size: 9 Copynumber: 5.6 Consensus size: 9
6420639 TTCAATTGAA
*
6420649 AAAAAAACAA
1 AAAAAAA-AT
6420659 AAATAAAAAT
1 AAA-AAAAAT
6420669 AAAAAAAAT
1 AAAAAAAAT
6420678 AAAAAAAAT
1 AAAAAAAAT
6420687 AAATGAAAAAT
1 AAA--AAAAAT
6420698 GAAAAA
1 -AAAAA
6420704 GAAAAGAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 18 0.45
10 9 0.22
11 10 0.25
12 3 0.08
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6420696 original size:15 final size:14
Alignment explanation
Indices: 6420648--6420685 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
6420638 CTTCAATTGA
6420648 AAAAAAAACAAAAAT
1 AAAAAAAA-AAAAAT
6420663 AAAAATAAAAAAAAT
1 AAAAA-AAAAAAAAT
6420678 AAAAAAAA
1 AAAAAAAA
6420686 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.08
Consensus pattern (14 bp):
AAAAAAAAAAAAAT
Found at i:6420696 original size:24 final size:23
Alignment explanation
Indices: 6420645--6420696 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
6420635 ATACTTCAAT
*
6420645 TGAAAAAAAAACAAAAATAAAAA
1 TGAAAAAAAAACAAAAAAAAAAA
*
6420668 T-AAAAAAAATA-AAAAAAATAAA
1 TGAAAAAAAA-ACAAAAAAAAAAA
6420690 TGAAAAA
1 TGAAAAA
6420697 TGAAAAAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.12
Consensus pattern (23 bp):
TGAAAAAAAAACAAAAAAAAAAA
Found at i:6421243 original size:108 final size:108
Alignment explanation
Indices: 6421054--6421249 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
6421044 TTTGTATTCT
6421054 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATTTT
6421119 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * **
6421162 AGCAAAATTTGCTGTCTTGATTAATTTTTTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAAC-AAATTTCCATTT
* * *
6421226 TGTCTATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
6421250 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 74 0.93
109 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATTTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:6421830 original size:87 final size:87
Alignment explanation
Indices: 6421706--6422534 Score: 1018
Period size: 87 Copynumber: 9.5 Consensus size: 87
6421696 GCCTCCACCA
* **
6421706 GTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
6421771 AAACAAAACCTTGCCTCCCTCG
66 AAACAAAACCTTGCCTCTCTCG
* * * *
6421793 TTTGTAGTGGAGCCGATTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* *
6421858 AAACAAAACATTGCCTCCCTCG
66 AAACAAAACCTTGCCTCTCTCG
* * * *
6421880 TTTGTAGTGGAGCCGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
6421945 AAACACAAACCTTGCCTCTCTTG
66 AAACA-AAACCTTGCCTCTCTCG
* ** * * *
6421968 GCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTACATTAACAGTGAAACAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* *
6422033 AAACAAAACCTTGTCTTTCTCG
66 AAACAAAACCTTGCCTCTCTCG
* ** * * * *
6422055 GGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGTCTTCCTACATTAACAGTGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
6422120 AGACACAAACCTTGCCTCTCTCG
66 AAACA-AAACCTTGCCTCTCTCG
* ** *
6422143 GGTGTAGCAGAGCTGG-TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* *
6422207 AGACACAAACCTTGTCTCTCTCG
66 AAACA-AAACCTTGCCTCTCTCG
* * ** * * *
6422230 GTTGTGGTGGAGCTAGTTGAAGGCAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTC-A
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
6422294 AAGACACAAACCTTGCCTCTCTCG
66 AA-ACA-AAACCTTGCCTCTCTCG
** * * *
6422318 GTTGTAGTGGAGCTGGTTGAAGATAATAGATCTTGCCTTCTTGTATTAACAGTGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* *
6422383 AAACAAAACATTGCCTC-CATCA
66 AAACAAAACCTTGCCTCTC-TCG
* * * * * * *
6422405 GTTGCAGTGGAGCTGGTTAAAAATAGCAGATTTTGCATTCCTGCGTTAACAGAGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
6422470 AAACAAAACCTTACCTC-CATCG
66 AAACAAAACCTTGCCTCTC-TCG
* *
6422492 GTTGCAGTGGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTG
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
6422535 TAGTAACGAC
Statistics
Matches: 653, Mismatches: 83, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.00
87 428 0.66
88 221 0.34
89 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
AAACAAAACCTTGCCTCTCTCG
Found at i:6422039 original size:175 final size:175
Alignment explanation
Indices: 6421706--6422534 Score: 1038
Period size: 175 Copynumber: 4.7 Consensus size: 175
6421696 GCCTCCACCA
* ** *
6421706 GTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * * * *
6421771 AAACA-AAACCTTGCCTCCCTCGTTTGTAGTGGAGCCGATTGAAGACAGCAGATCTTGCCTTCCT
66 AAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
6421835 GCATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCCTCG
131 GCATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCCTCG
* * *
6421880 TTTGTAGTGGAGCCGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * **
6421945 AAACACAAACCTTGCCTCTCTTGGCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
66 AAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* * * * * **
6422010 ACATTAACAGTGAAACAGATCGAAAACAAAACCTTGTCTTTCTCG
131 GCATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCCTCG
* ** * * *
6422055 GGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGTCTTCCTACATTAACAGTGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * **
6422120 AGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGG-TGAAGATAGCAGATCTTGCCTTCCT
66 AAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* * * * *
6422184 GCATTAACAGCGAAGCAGATTGAAGACACAAACCTTGTCTCTCTCG
131 GCATTAACAGCGAAGCAGATCGAAAACA-AAACATTGCCTCCCTCG
* * * * * *
6422230 GTTGTGGTGGAGCTAGTTGAAGGCAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTC-A
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
** *
6422294 AAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAATAGATCTTGCCTTCT
66 AA-ACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
* * * *
6422359 TGTATTAACAGTGAAGCAGATCGAAAACAAAACATTGCCTCCATCA
130 TGCATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCCTCG
* * * * * * * *
6422405 GTTGCAGTGGAGCTGGTTAAAAATAGCAGATTTTGCATTCCTGCGTTAACAGAGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * *
6422470 AAACA-AAACCTTACCTC-CATCGGTTGCAGTGGAGCTGGTTGAAGATATCAGATCTTGCCTTCC
66 AAACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCC
6422533 TG
130 TG
6422535 TAGTAACGAC
Statistics
Matches: 561, Mismatches: 88, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
173 1 0.00
174 166 0.30
175 345 0.61
176 49 0.09
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (175 bp):
GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
AAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCCTCG
Found at i:6422172 original size:262 final size:261
Alignment explanation
Indices: 6421706--6422534 Score: 1047
Period size: 262 Copynumber: 3.2 Consensus size: 261
6421696 GCCTCCACCA
* **
6421706 GTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * * *
6421771 AAACAAAACCTTGCCTCCCTCGTTTGTAGTGGAGCCGATTGAAGACAGCAGATCTTGCCTTCCTG
66 AAACAAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTG
* * *
6421836 CATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCCTCGTTTGTAGTGGAGCCGGTTGAA
131 CATTAACAGTGAAGCAGATCGAAAACAAAACATTGCCT-CCTCGGTTGTAGTGGAGCTGGTTGAA
*
6421901 GACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCT
195 GATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCT
*
6421966 TG
260 CG
* ** * * *
6421968 GCTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTACATTAACAGTGAAACAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * * ** * *
6422033 AAACAAAACCTTGTCTTTCTCGGGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGTCTTCCTA
66 AAACAAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTG
* * * **
6422098 CATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGG-TGA
131 CATTAACAGTGAAGCAGATCGAAAACA-AAACATTGCCTC-CTCGGTTGTAGTGGAGCTGGTTGA
* * * *
6422162 AGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGAAGACACAAACCTTGTCTCTC
194 AGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTC
6422227 TCG
259 TCG
* * ** * * *
6422230 GTTGTGGTGGAGCTAGTTGAAGGCAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTC-A
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* ** *
6422294 AAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAATAGATCTTGCCTTCT
66 AA-ACA-AAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCC
* * * *
6422359 TGTATTAACAGTGAAGCAGATCGAAAACAAAACATTGCCTCCATCAGTTGCAGTGGAGCTGGTTA
129 TGCATTAACAGTGAAGCAGATCGAAAACAAAACATTGCCTCC-TCGGTTGTAGTGGAGCTGGTTG
* * * * *
6422424 AAAATAGCAGATTTTGCATTCCTGCGTTAACAGA-GAAGCAGATCGAAAACA-AAACCTTACCTC
193 AAGATAGCAGATCTTGCCTTCCTGCATTAACA-ACGAAGCAGATCGAAAACACAAACCTTGCCTC
6422487 -CATCG
257 TC-TCG
* *
6422492 GTTGCAGTGGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTG
1 GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTG
6422535 TAGTAACGAC
Statistics
Matches: 477, Mismatches: 82, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
261 5 0.01
262 329 0.69
263 143 0.30
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (261 bp):
GTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
AAACAAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTG
CATTAACAGTGAAGCAGATCGAAAACAAAACATTGCCTCCTCGGTTGTAGTGGAGCTGGTTGAAG
ATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCTC
G
Found at i:6422743 original size:40 final size:40
Alignment explanation
Indices: 6422698--6423018 Score: 360
Period size: 40 Copynumber: 7.8 Consensus size: 40
6422688 AGAAACCAGA
6422698 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * *
6422738 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG
6422781 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * *
6422822 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG
*
6422865 TCTTATCTTCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * *
6422905 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-CATCAAG
** **
6422948 ATCTTATCTCCCTAAGCAGTAGTGGAGTGGATTGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
*
6422989 TCTTATCTCTCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
6423019 CGAAAGAAAC
Statistics
Matches: 237, Mismatches: 27, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.01
40 120 0.51
41 9 0.04
42 4 0.02
43 41 0.17
44 59 0.25
45 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
Found at i:6422778 original size:84 final size:84
Alignment explanation
Indices: 6422686--6423063 Score: 643
Period size: 84 Copynumber: 4.5 Consensus size: 84
6422676 AGTAGAGTAC
6422686 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
1 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
6422751 AGCAGTAGTGGAGCAGACG
66 AGCAGTAGTGGAGCAGACG
6422770 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
1 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
6422835 AGCAGTAGTGGAGCAGACG
66 AGCAGTAGTGGAGCAGACG
*
6422854 AAAGAAACCAG-TCTTATCTTCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
1 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
6422918 AGCAGTAGTGGAGCAGACG
66 AGCAGTAGTGGAGCAGACG
** ** *
6422937 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGTGGATTGCATCAAGTCTTATCTCTCTA
1 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
6423002 AGCAGTAGTGGAGCAGACG
66 AGCAGTAGTGGAGCAGACG
* ** *
6423021 AAAGAAACCA-ATCCTATCTCCCTAAAGTTGCAGTGGAGCAGAT
1 AAAGAAACCAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGAT
6423064 TAAAACCATA
Statistics
Matches: 279, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
83 94 0.34
84 185 0.66
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (84 bp):
AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
AGCAGTAGTGGAGCAGACG
Found at i:6422885 original size:167 final size:167
Alignment explanation
Indices: 6422686--6423063 Score: 639
Period size: 167 Copynumber: 2.3 Consensus size: 167
6422676 AGTAGAGTAC
6422686 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
1 AAAGAAACCAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
6422751 AGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAC
65 AGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAC
6422816 ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
130 ATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
*
6422854 AAAGAAACCAGTCTTATCTTCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
1 AAAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
** **
6422919 GCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGTGGATTGCA
66 GCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACA
*
6422984 TCAAGTCTTATCTCTCTAAGCAGTAGTGGAGCAGACG
131 TCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
* * ** *
6423021 AAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGAT
1 AAAGAAACCAGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGAT
6423064 TAAAACCATA
Statistics
Matches: 197, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 170 0.86
168 27 0.14
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (167 bp):
AAAGAAACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAA
GCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACA
TCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
Found at i:6429055 original size:41 final size:42
Alignment explanation
Indices: 6429033--6429112 Score: 137
Period size: 41 Copynumber: 1.9 Consensus size: 42
6429023 AAAGTCTAAA
6429033 TGTTTAAAAATATATATATGAAA-TTTAAAAAAATCCTAATAG
1 TGTTTAAAAA-ATATATATGAAATTTTAAAAAAATCCTAATAG
6429075 TGTTTAAAAAATATATATGAAA-TTTAAAAAAATCCTAA
1 TGTTTAAAAAATATATATGAAATTTTAAAAAAATCCTAA
6429113 CATTATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
41 28 0.74
42 10 0.26
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (42 bp):
TGTTTAAAAAATATATATGAAATTTTAAAAAAATCCTAATAG
Found at i:6430165 original size:17 final size:16
Alignment explanation
Indices: 6430126--6430170 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
6430116 ACTTTTTAAA
*
6430126 AAATTTTATAATAATT
1 AAATTTTATAAAAATT
*
6430142 AATATTTTTTAAAAATAT
1 AA-ATTTTATAAAAAT-T
6430160 AAATTTTATAA
1 AAATTTTATAA
6430171 GGTTGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 19 0.79
18 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTTTATAAAAATT
Found at i:6432353 original size:3 final size:3
Alignment explanation
Indices: 6432341--6432373 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6432331 CATGAATGTT
6432341 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6432374 ACAGTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6434478 original size:12 final size:14
Alignment explanation
Indices: 6434448--6434480 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6434438 CATGAATACA
6434448 CAATTCATATGTCT
1 CAATTCATATGTCT
6434462 CAATTCATAT-T-T
1 CAATTCATATGTCT
6434474 CAATTCA
1 CAATTCA
6434481 CTGCCCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 1 0.05
14 10 0.53
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.42
Consensus pattern (14 bp):
CAATTCATATGTCT
Found at i:6434945 original size:24 final size:24
Alignment explanation
Indices: 6434900--6434946 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6434890 TATATACACC
6434900 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
6434924 AATTC-ATCACATAGTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
6434947 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:6435699 original size:13 final size:13
Alignment explanation
Indices: 6435662--6435700 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6435652 GACTACTGTT
*
6435662 TTTTAATTTTAATA
1 TTTT-ATTTTATTA
*
6435676 TGTTATTTTATTA
1 TTTTATTTTATTA
6435689 TTTTATTTTATT
1 TTTTATTTTATT
6435701 TTATTTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:6436618 original size:16 final size:16
Alignment explanation
Indices: 6436599--6436647 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6436589 TTTTATCGTA
6436599 TTTCTTATTTATTTAT
1 TTTCTTATTTATTTAT
6436615 TTTCTT-TATTA-TTAT
1 TTTCTTAT-TTATTTAT
*
6436630 TTTACTTA-ATATTTAT
1 TTT-CTTATTTATTTAT
6436646 TT
1 TT
6436648 ATTTATGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTTATTTATTTAT
Found at i:6437091 original size:72 final size:72
Alignment explanation
Indices: 6436974--6437117 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
6436964 TCTTTTCAAA
* * *
6436974 CTCAAGTTTTAAACAATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCGTGATCCC
1 CTCAAGTTTTAAACAATCTCGGAAATTAAAAAGAGATCGAGTCCTAACTTACTGGGCATGATCCC
6437039 TTTTTTT
66 TTTTTTT
**
6437046 CTCAAGTTTTAAATGATCTCGGAAATTAAGAAA-AGATCGAGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGAAATTAA-AAAGAGATCGAGTCCTAACTTACTGGGCATGATCC
*
6437110 TTTTTTTT
65 CTTTTTTT
6437118 TTAATCCGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 62 0.95
73 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (72 bp):
CTCAAGTTTTAAACAATCTCGGAAATTAAAAAGAGATCGAGTCCTAACTTACTGGGCATGATCCC
TTTTTTT
Found at i:6437773 original size:18 final size:19
Alignment explanation
Indices: 6437747--6437782 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6437737 TAAACTAAAT
*
6437747 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
6437765 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
6437783 AAATTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:6438147 original size:5 final size:5
Alignment explanation
Indices: 6438137--6438190 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
6438127 ATTTTTTTAT
6438137 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
6438187 TATA
1 TATA
6438191 CTTAATTCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:6445895 original size:21 final size:20
Alignment explanation
Indices: 6445844--6445901 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
6445834 GTCAATAATT
*
6445844 AATTAATTTTTAAAAATTAAAA
1 AATT-ATTTTT-AATATTAAAA
6445866 AATTA-TTTTAATATGTAAAA
1 AATTATTTTTAATAT-TAAAA
*
6445886 AATTATTTTTTATATT
1 AATTATTTTTAATATT
6445902 TTAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 15 0.47
21 9 0.28
22 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTATTTTTAATATTAAAA
Found at i:6447536 original size:13 final size:13
Alignment explanation
Indices: 6447518--6447542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6447508 AATAAACTTT
6447518 TGAAAAATACAAC
1 TGAAAAATACAAC
6447531 TGAAAAATACAA
1 TGAAAAATACAA
6447543 ACCTTCTCCT
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:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (13 bp):
TGAAAAATACAAC
Found at i:6455313 original size:12 final size:11
Alignment explanation
Indices: 6455298--6455333 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
6455288 AAGTAGATAT
6455298 AAACTTATTAAA
1 AAACTTA-TAAA
6455310 AAACTTAT-AA
1 AAACTTATAAA
6455320 AAACTTATAAA
1 AAACTTATAAA
6455331 AAA
1 AAA
6455334 ATCTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.43
11 6 0.26
12 7 0.30
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
AAACTTATAAA
Found at i:6455326 original size:22 final size:23
Alignment explanation
Indices: 6455298--6455344 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6455288 AAGTAGATAT
* *
6455298 AAACTTATTAAAAAA-CTTATAA
1 AAACTTATAAAAAAATCTAATAA
6455320 AAACTTATAAAAAAATCTAATAA
1 AAACTTATAAAAAAATCTAATAA
6455343 AA
1 AA
6455345 TATAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
AAACTTATAAAAAAATCTAATAA
Found at i:6455334 original size:12 final size:12
Alignment explanation
Indices: 6455298--6455344 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
6455288 AAGTAGATAT
*
6455298 AAACTTATTAAA
1 AAACTTATAAAA
6455310 AAACTTAT--AA
1 AAACTTATAAAA
6455320 AAACTTATAAAA
1 AAACTTATAAAA
*
6455332 AAATCTAATAAAA
1 AAA-CTTATAAAA
6455345 TATAAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 10 0.32
12 13 0.42
13 8 0.26
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (12 bp):
AAACTTATAAAA
Found at i:6455459 original size:30 final size:29
Alignment explanation
Indices: 6455416--6455486 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
6455406 CAGAATTCTT
6455416 AAAAATA-AAAATTG-TCAATAAA-TTATAA
1 AAAAATATAAAATTGAT--ATAAACTTATAA
6455444 AAAAATATTAAAATTGATATAAACTTATAA
1 AAAAATA-TAAAATTGATATAAACTTATAA
6455474 AAAAATCATAAAA
1 AAAAAT-ATAAAA
6455487 ATTTGAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
28 7 0.18
29 5 0.13
30 24 0.63
31 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAATATAAAATTGATATAAACTTATAA
Found at i:6455968 original size:9 final size:9
Alignment explanation
Indices: 6455956--6456176 Score: 96
Period size: 10 Copynumber: 23.8 Consensus size: 9
6455946 CTTTTAACAT
6455956 TTTTTATAA
1 TTTTTATAA
6455965 TTTTTATTAA
1 TTTTTA-TAA
*
6455975 TTTTATAGAA
1 TTTT-TATAA
* *
6455985 TTTTAATACG
1 TTTTTATA-A
**
6455995 TACTTATAAA
1 TTTTTAT-AA
*
6456005 ATTTTA-AA
1 TTTTTATAA
*
6456013 TATTTTAAATA
1 T-TTTTATA-A
*
6456024 TGTTTTTTTAA
1 T-T-TTTATAA
*
6456035 T-TTTATAT
1 TTTTTATAA
6456043 TTTTTATAA
1 TTTTTATAA
*
6456052 TTTATTAGAA
1 TTT-TTATAA
6456062 TTTTTAT-A
1 TTTTTATAA
6456070 TTTTTATAA
1 TTTTTATAA
* *
6456079 TATTTATAG
1 TTTTTATAA
*
6456088 TAGTTTATAA
1 T-TTTTATAA
*
6456098 TATTTATAAA
1 TTTTTAT-AA
*
6456108 TTTATATCAA
1 TTTTTAT-AA
*
6456118 TTTTCAT-A
1 TTTTTATAA
6456126 -TTTT-TAA
1 TTTTTATAA
* *
6456133 TATATAATAA
1 T-TTTTATAA
6456143 TTTTTATAA
1 TTTTTATAA
6456152 -TTTTATAA
1 TTTTTATAA
*
6456160 TTTTTAATCA
1 TTTTT-ATAA
6456170 TTTTTAT
1 TTTTTAT
6456177 GGAAAAATAT
Statistics
Matches: 157, Mismatches: 36, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
6 1 0.01
7 4 0.03
8 25 0.16
9 53 0.34
10 62 0.39
11 8 0.05
12 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6455978 original size:19 final size:18
Alignment explanation
Indices: 6455956--6456176 Score: 96
Period size: 19 Copynumber: 11.9 Consensus size: 18
6455946 CTTTTAACAT
6455956 TTTTTATAATTTTTATTAA
1 TTTTTATAATTTTTA-TAA
* * *
6455975 TTTTATAGAATTTTAATACG
1 TTTT-TATAATTTTTATA-A
** *
6455995 TACTTATAAAATTTTA-AA
1 TTTTTAT-AATTTTTATAA
* *
6456013 TATTTTAAATATGTTTTTTTAA
1 T-TTTTATA-AT-T-TTTATAA
*
6456035 T-TTTATATTTTTTATAA
1 TTTTTATAATTTTTATAA
*
6456052 TTTATTAGAATTTTTAT-A
1 TTT-TTATAATTTTTATAA
* *
6456070 TTTTTATAATATTTATAG
1 TTTTTATAATTTTTATAA
* *
6456088 TAGTTTATAATATTTATAAA
1 T-TTTTATAATTTTTAT-AA
* *
6456108 TTTATATCAATTTTCAT-A
1 TTTTTAT-AATTTTTATAA
* *
6456126 -TTTT-TAATATATAATAA
1 TTTTTATAAT-TTTTATAA
6456143 TTTTTATAA-TTTTATAA
1 TTTTTATAATTTTTATAA
*
6456160 TTTTTAATCATTTTTAT
1 TTTTT-ATAATTTTTAT
6456177 GGAAAAATAT
Statistics
Matches: 148, Mismatches: 34, Indels: 40
0.67 0.15 0.18
Matches are distributed among these distances:
15 3 0.02
16 5 0.03
17 33 0.22
18 17 0.11
19 52 0.35
20 32 0.22
21 3 0.02
22 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:6456096 original size:10 final size:9
Alignment explanation
Indices: 6456032--6456165 Score: 73
Period size: 9 Copynumber: 15.0 Consensus size: 9
6456022 TATGTTTTTT
6456032 TAAT-TTTA
1 TAATATTTA
* *
6456040 TATTTTTTA
1 TAATATTTA
*
6456049 TAATTTATTA
1 TAATAT-TTA
* *
6456059 GAATTTTTA
1 TAATATTTA
*
6456068 T-ATTTTTA
1 TAATATTTA
6456076 TAATATTTA
1 TAATATTTA
*
6456085 TAGTAGTTTA
1 TAATA-TTTA
6456095 TAATATTTA
1 TAATATTTA
6456104 TAA-ATTTA
1 TAATATTTA
6456112 T-ATCAATTT-
1 TAAT--ATTTA
* *
6456121 TCATATTTT
1 TAATATTTA
*
6456130 TAATATATAA
1 TAATAT-TTA
*
6456140 TAATTTTTA
1 TAATATTTA
6456149 TAAT-TTTA
1 TAATATTTA
*
6456157 TAATTTTTA
1 TAATATTTA
6456166 ATCATTTTTA
Statistics
Matches: 103, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
7 1 0.01
8 29 0.28
9 45 0.44
10 28 0.27
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (9 bp):
TAATATTTA
Found at i:6456172 original size:27 final size:26
Alignment explanation
Indices: 6456035--6456176 Score: 87
Period size: 27 Copynumber: 5.2 Consensus size: 26
6456025 GTTTTTTTAA
* *
6456035 TTTTATATTTTTTATAATTTATTAGA-AT
1 TTTTATA-ATTTTATAATAT-TTA-ATAT
*
6456063 TTTTATATTTTTATAATATTT-ATAGT
1 TTTTATAATTTTATAATATTTAATA-T
*
6456089 AGTTTATAATATTTATAA-ATTTATATCAAT
1 -TTTTATAAT-TTTATAATATTTA-AT--AT
* *
6456119 TTTCAT-ATTTT-TAATATATAATAAT
1 TTTTATAATTTTATAATATTTAAT-AT
*
6456144 TTTTATAATTTTATAATTTTTAATCAT
1 TTTTATAATTTTATAATATTTAAT-AT
6456171 TTTTAT
1 TTTTAT
6456177 GGAAAAATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
24 1 0.01
25 9 0.10
26 13 0.14
27 46 0.49
28 16 0.17
29 6 0.06
30 1 0.01
31 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTATAATTTTATAATATTTAATAT
Found at i:6465012 original size:37 final size:37
Alignment explanation
Indices: 6464962--6465036 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6464952 GGCGTGCCTT
6464962 GGTCACAAGCCTTTTTGTGCTTTTCTCAACACTTGCA
1 GGTCACAAGCCTTTTTGTGCTTTTCTCAACACTTGCA
6464999 GGTCACAAGCCTTTTTGTGCTTTTCTCAACACTTGCA
1 GGTCACAAGCCTTTTTGTGCTTTTCTCAACACTTGCA
6465036 G
1 G
6465037 ATCTATTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (37 bp):
GGTCACAAGCCTTTTTGTGCTTTTCTCAACACTTGCA
Found at i:6466010 original size:17 final size:16
Alignment explanation
Indices: 6465981--6466019 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6465971 TAAATAAAAA
6465981 AATAATAATTTTTTTT
1 AATAATAATTTTTTTT
6465997 GAATAA-AATATTTTTTT
1 -AATAATAAT-TTTTTTT
6466014 AATAAT
1 AATAAT
6466020 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
AATAATAATTTTTTTT
Found at i:6466012 original size:16 final size:17
Alignment explanation
Indices: 6465981--6466019 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
6465971 TAAATAAAAA
*
6465981 AATAATAATTTTTTTTG
1 AATAATAATATTTTTTG
*
6465998 AATAA-AATATTTTTTT
1 AATAATAATATTTTTTG
6466014 AATAAT
1 AATAAT
6466020 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AATAATAATATTTTTTG
Found at i:6466123 original size:19 final size:19
Alignment explanation
Indices: 6466099--6466229 Score: 72
Period size: 19 Copynumber: 6.6 Consensus size: 19
6466089 GGCGCCAATG
6466099 AATATTGTAATTTTGTATT
1 AATATTGTAATTTTGTATT
*
6466118 AATATTGTAATTAT-T-TT
1 AATATTGTAATTTTGTATT
* *
6466135 -ATAAT-TAAATTTGTATTT
1 AATATTGTAATTTTGTA-TT
* *
6466153 ATAGTTTTGGATTAGTATTTTGTATG
1 A-A-TATT-G--TA--ATTTTGTATT
*
6466179 AATATTGTAATTTTTTATAT
1 AATATTGTAATTTTGTAT-T
* *
6466199 GAATATTATAATTTTGTATG
1 -AATATTGTAATTTTGTATT
6466219 AATATTGTAAT
1 AATATTGTAAT
6466230 ATTATAATTT
Statistics
Matches: 83, Mismatches: 15, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
15 5 0.06
16 5 0.06
17 2 0.02
18 3 0.04
19 31 0.37
20 1 0.01
21 20 0.24
23 1 0.01
24 3 0.04
25 3 0.04
26 2 0.02
27 7 0.08
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
AATATTGTAATTTTGTATT
Found at i:6466231 original size:27 final size:27
Alignment explanation
Indices: 6466200--6466283 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
6466190 TTTTTATATG
6466200 AATATTATAATTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGT
6466227 AATATTATAATTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGT
* *
6466254 AATTTTGTAATTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGT
6466281 AAT
1 AAT
6466284 GTCGGGATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (27 bp):
AATATTATAATTTTGTATGAATATTGT
Found at i:6466251 original size:19 final size:19
Alignment explanation
Indices: 6466169--6466283 Score: 89
Period size: 19 Copynumber: 6.1 Consensus size: 19
6466159 TTGGATTAGT
6466169 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
* *
6466188 ATTTTTTATATGAATATTATA
1 A--TTTTGTATGAATATTGTA
6466209 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
* *
6466228 A-TAT-TAT-AATTTTGTATGA
1 ATTTTGTATGAATATTG--T-A
* *
6466247 ATATTG--T-AATTTTGTA
1 ATTTTGTATGAATATTGTA
6466263 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
6466282 AT
1 AT
6466284 GTCGGGATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
16 12 0.16
17 4 0.05
18 4 0.05
19 38 0.50
20 1 0.01
21 17 0.22
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:6466344 original size:21 final size:21
Alignment explanation
Indices: 6466299--6466344 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6466289 GATATATTGT
*
6466299 AATATTGTAATTTTTTGTATG
1 AATATTGTAATTTTTTGTATA
6466320 AATATTGTAATTATTTT-TATA
1 AATATTGTAATT-TTTTGTATA
6466341 AATA
1 AATA
6466345 ATTTGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (21 bp):
AATATTGTAATTTTTTGTATA
Found at i:6466350 original size:23 final size:23
Alignment explanation
Indices: 6466298--6466350 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
6466288 GGATATATTG
*
6466298 TAATATTGTAATTTTTTGTATGAA
1 TAAT-TTGTAATTTTTTGTATAAA
6466322 T-A-TTGTAATTATTTT-TATAAA
1 TAATTTGTAATT-TTTTGTATAAA
6466343 TAATTTGT
1 TAATTTGT
6466351 TAGTAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.56
22 5 0.20
23 5 0.20
24 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (23 bp):
TAATTTGTAATTTTTTGTATAAA
Found at i:6466524 original size:38 final size:38
Alignment explanation
Indices: 6466479--6466560 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
6466469 CATATAAAGT
6466479 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
* *
6466517 TTATAAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
6466555 TTATAA
1 TTATAA
6466561 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
Found at i:6466638 original size:15 final size:15
Alignment explanation
Indices: 6466597--6466638 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6466587 GTTAACTAAT
*
6466597 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
6466612 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
6466628 TTAAATTTTAT
1 TTAAATTTTAT
6466639 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:6466750 original size:21 final size:21
Alignment explanation
Indices: 6466707--6466769 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
6466697 TATTTTTTTT
* * *
6466707 ATTACAAAATTACAAACACAAA
1 ATTACAATATT-CATACAAAAA
* *
6466729 ATTATAATATTCATATAAAAA
1 ATTACAATATTCATACAAAAA
6466750 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
6466770 TACTAATCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 25 0.74
22 9 0.26
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.29
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:6466950 original size:11 final size:11
Alignment explanation
Indices: 6466934--6466968 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6466924 TCGTATTTTT
6466934 TTAAAAAATTA
1 TTAAAAAATTA
6466945 TTAAAAAA-TA
1 TTAAAAAATTA
*
6466955 TAAAAAAATTA
1 TTAAAAAATTA
6466966 TTA
1 TTA
6466969 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:6470473 original size:30 final size:30
Alignment explanation
Indices: 6470437--6470496 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6470427 AAGTTTACAA
6470437 GTCCAAAATCAAACTCATACCACATTTTAT
1 GTCCAAAATCAAACTCATACCACATTTTAT
* *
6470467 GTCCAAAATCGAACTCATGCCACATTTTAT
1 GTCCAAAATCAAACTCATACCACATTTTAT
6470497 ATAATCTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (30 bp):
GTCCAAAATCAAACTCATACCACATTTTAT
Found at i:6471511 original size:21 final size:21
Alignment explanation
Indices: 6471487--6471539 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
6471477 GGTTTAGACT
6471487 GTGTGACAG-GGGTACATGGCC
1 GTGTGACAGAGGG-ACATGGCC
* * *
6471508 GTGTGGCTGAGGGACATGTCC
1 GTGTGACAGAGGGACATGGCC
6471529 GTGTGAGCAGA
1 GTGTGA-CAGA
6471540 CTATATAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (21 bp):
GTGTGACAGAGGGACATGGCC
Found at i:6480732 original size:63 final size:63
Alignment explanation
Indices: 6480655--6480788 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 63
6480645 TGCAAGGGTG
* * *
6480655 ACACGAGTGAGACACACAGGCGTATGTCCAGGAC-GTGTAACTAACTAAGTTCATATTAGAGTC
1 ACACGGGTAAGACACACAGGCGTATGTCCAGG-CTGTGTAACTAACTAAGTTCATATTAGAGAC
* * * * * *
6480718 ACACGGGTAAGACACACGGGCGTGTGTCCAGGCTGTGTAACTCACTGAGTTTATATTTGAGAC
1 ACACGGGTAAGACACACAGGCGTATGTCCAGGCTGTGTAACTAACTAAGTTCATATTAGAGAC
*
6480781 ACATGGGT
1 ACACGGGT
6480789 GTGCACCAGG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (63 bp):
ACACGGGTAAGACACACAGGCGTATGTCCAGGCTGTGTAACTAACTAAGTTCATATTAGAGAC
Found at i:6483789 original size:17 final size:17
Alignment explanation
Indices: 6483764--6483814 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
6483754 ATTTATATTA
* *
6483764 ATATTTTAATGATAAAT
1 ATATATTAATAATAAAT
6483781 ATATATTAATAATATAA-
1 ATATATTAATAATA-AAT
6483798 ATATATTAATAATAAAT
1 ATATATTAATAATAAAT
6483815 TTTTTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 26 0.87
18 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATATATTAATAATAAAT
Found at i:6483959 original size:21 final size:21
Alignment explanation
Indices: 6483935--6483974 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6483925 TTAGGTCCAA
*
6483935 TTGTTAATATTGTTAATTTTT
1 TTGTCAATATTGTTAATTTTT
* *
6483956 TTGTCAATTTTGTTTATTT
1 TTGTCAATATTGTTAATTT
6483975 GACATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.10, T:0.68
Consensus pattern (21 bp):
TTGTCAATATTGTTAATTTTT
Done.