Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 24
Found at i:2146929 original size:21 final size:21
Alignment explanation
Indices: 2146898--2146956 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
2146888 ATTTTCCTGT
*
2146898 GTCAGTATCGATACTT-TATGG
1 GTCAATATCGATA-TTGTATGG
2146919 G-CTAATATCGATATTGTATGG
1 GTC-AATATCGATATTGTATGG
*
2146940 GTCAATATCAATATTGT
1 GTCAATATCGATATTGT
2146957 TCATATGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
GTCAATATCGATATTGTATGG
Found at i:2152647 original size:182 final size:182
Alignment explanation
Indices: 2152413--2153269 Score: 1214
Period size: 182 Copynumber: 4.7 Consensus size: 182
2152403 TGTCGGTTTA
*** * * *
2152413 TGTCGATACTTTATATTGATGTATCGATCTACATC-AGTATAACAGATAAAAATATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGA-TATAACAGGTAAAAATATGACAAAACC
* *
2152477 AGTCACGAAAAGAAAAAACCGGTAAAGCGCTACCGGATATATTTACAA-TGTCGATACTTTAATA
65 GGTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTTA-AAGTGTCGATACTTTAATA
2152541 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
129 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
2152595 TGTCGATACTGTATAAAAATGTATCGATCCACCATGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * *
2152660 GTCACAAAAAGAAAAAAACCGATAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATAT
66 GTCACGAAAAG-ATAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATAT
2152725 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
2152778 TATCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGACAAAACTG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * ** * * * *
2152843 ATCTCTAAAGGATAAAACTAGTAAAACGCTACCAGATATATTGAAAGTGTCGATACTTTAATATG
66 GTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATATA
* * * * *
2152908 AGTATCGACACTTTATGAATTTAAAATAGAATCAGTTTTAGCGCCCATCAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
2152960 TGTCGATACTTTATAACAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACTG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * *
2153025 ATCACTAAAGGATAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTATTATA
66 GTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATATA
* * *
2153090 AGTATCGACACTTTGTGAATTTAAAGGAGAATCAATTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
2153142 TGTCGATACTTTATAAAAATGTATCGATCTATAACGATATAACATGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
** * * * *
2153207 GTCTTGCAATGATAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGACACTTTAATA
66 GTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATA
2153270 AGTACGCGTA
Statistics
Matches: 604, Mismatches: 68, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
182 435 0.72
183 169 0.28
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTTAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:2155674 original size:18 final size:18
Alignment explanation
Indices: 2155653--2155699 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2155643 AAAAATATAT
*
2155653 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGAGAG
*
2155671 GAAGAAGAAAAGATAGAG
1 GAAGAAGAAAAGAGAGAG
2155689 GAAGAAGAAAA
1 GAAGAAGAAAA
2155700 AATATTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (18 bp):
GAAGAAGAAAAGAGAGAG
Found at i:2156046 original size:199 final size:196
Alignment explanation
Indices: 2155706--2156264 Score: 628
Period size: 199 Copynumber: 2.8 Consensus size: 196
2155696 AAAAAATATT
* * * *
2155706 AAGTGTCGATACATTTATAAAAAGT-TTTGATCCCAAAAACATCGAAACTCATAATTATAATGTA
1 AAGTGTCGATACATTTATTAAAAGTGTCT-AT-CCAAAAACATTGAAACCCATAATTATAATGTA
* ** * * * *
2155770 ATAGGTAATTTTTTAATATAACCGATATATATGTATCGGTTTTATATGAGAATAGGTCTACATAA
64 ATAGGTAAATTTACAATGTAACCG-TATA-ATATACCGGTTTTATAAGAGAATAGGTCTACATAA
* ** * * *
2155835 TGTATCGACACTTTTTTATTTTGTGTCGATACTTTTTGTCCAGAATGAA-GCCCAAAATG-TTGA
127 TGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAAGAATG-CC-AAAGGATTGA
2155898 ACGCATA
190 ACGCATA
* * *
2155905 AAGTGTCCATACATTTATTGAAAGTGTCTATACCAGAAACATTGAAACCCAT-ATATATAATGTA
1 AAGTGTCGATACATTTATTAAAAGTGTCTAT-CCAAAAACATTGAAACCCATAAT-TATAATGTA
*
2155969 ATGGGTAAATTTACAATGTAACCTGTATAACTATACCGGTTTTATAAGAGAATAGGTCTACA-AC
64 ATAGGTAAATTTACAATGTAACC-GTATAA-TATACCGGTTTTATAAGAGAATAGGTCTACATA-
* *
2156033 ATGTATTGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAAGAATGCCAAAGGATTGCA
126 ATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAAGAATGCCAAAGGATTGAA
2156098 CGCATA
191 CGCATA
* *
2156104 AAGTGTCGATACATTT-TTAAAAAGTGTCGATCCTAAAAACATTGAAACCGATAATTATAATGTA
1 AAGTGTCGATACATTTATT-AAAAGTGTCTATCC-AAAAACATTGAAACCCATAATTATAATGTA
* * *
2156168 ATAGGTAAATTTCCAATGTAACCGGTATAAATATACCGATTTTATAAGAAAATAGGTC-ATCATA
64 ATAGGTAAATTTACAATGTAACC-GTAT-AATATACCGGTTTTATAAGAGAATAGGTCTA-CATA
* * ** *
2156232 AAGTATCGACAATTGTTAAATTTGTGTTGATAC
126 ATGTATCGACACTTGTGGAATTTGTGTCGATAC
2156265 CATTTTAAAT
Statistics
Matches: 307, Mismatches: 40, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
198 13 0.04
199 285 0.93
200 9 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (196 bp):
AAGTGTCGATACATTTATTAAAAGTGTCTATCCAAAAACATTGAAACCCATAATTATAATGTAAT
AGGTAAATTTACAATGTAACCGTATAATATACCGGTTTTATAAGAGAATAGGTCTACATAATGTA
TCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAAGAATGCCAAAGGATTGAACGCAT
A
Found at i:2157733 original size:18 final size:18
Alignment explanation
Indices: 2157699--2157734 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2157689 ACTAAGAGGT
*
2157699 CAATGAAGATGAAGATGA
1 CAATGAAGAAGAAGATGA
*
2157717 CAATGAAGAAGATGATGA
1 CAATGAAGAAGAAGATGA
2157735 TGATGATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.28, T:0.17
Consensus pattern (18 bp):
CAATGAAGAAGAAGATGA
Found at i:2158753 original size:11 final size:11
Alignment explanation
Indices: 2158737--2158763 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2158727 CGTTGTGGGT
2158737 ACATTATTTGA
1 ACATTATTTGA
2158748 ACATTATTTGA
1 ACATTATTTGA
2158759 ACATT
1 ACATT
2158764 GTTATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (11 bp):
ACATTATTTGA
Found at i:2159565 original size:200 final size:199
Alignment explanation
Indices: 2159192--2160002 Score: 1029
Period size: 200 Copynumber: 4.1 Consensus size: 199
2159182 TAAAGTTTCC
* * * * *
2159192 CATAAAGTGTCGATA-AAGTTTTAAAAAGTATCAATCCCAGAAATATCGAAAACCATAAATATAA
1 CATAAAGTGTCGATACATG-TTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAATATAA
* * * * * *
2159256 TTTAATAGGTAAATTTACAATGTAACCGGTATAACTAAACCGGTTTTATGAGAGAATAGGTCTAT
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAC
* * * *
2159321 ATAATGTATCTACACTTCTGGAATTTTTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAGGG
130 ATAATGTATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGG
*
2159386 T-ACACC
194 TGA-ACG
*
2159392 CATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAATATAAT
* ** * *
2159457 GTAATAGGTAACTTTGTAATATAACCGGTAGAAATATACCGTTTTTATGTGAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACA
* * * * *
2159522 TAATGTGTCGACACTTTTGAATGTTGTGTTGATACTTTTTGTCCATAATGAATTCCCAAAATGGT
131 TAATGTATCGACACTTTTGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGT
2159587 GAACG
195 GAACG
* * * * *
2159592 CATAGAGTGTCGATACATTTTTAAAAAGTATCGATCCCTAGAACATCGAAACCCATAAATATAAA
1 CATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAATATAAT
* ** * *
2159657 GTAATAGGTAATTTTGTAATATAACCGATATAAATATACCAGTTTTATGTGAGAATAGGTCTACA
66 GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACA
* *
2159722 TTATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGT
131 TAATGTATCGACACTTTTGAAT-TTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGT
2159787 GAACG
195 GAACG
* * * * *
2159792 AATGAAGTGTCGATACAT-TTATAAAACGTATCGATCCCAAAAACATCGAAACCAATAATTATAA
1 CATAAAGTGTCGATACATGTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAATATAA
* * * * **
2159856 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGTTAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAC
* *
2159921 ATAATGTATCGACACGTTTT-AGATTTGTTTCGATACTTTTTGTCCAAAATGAATG-CCAAAAGG
130 ATAATGTATCGACAC-TTTTGA-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGG
*
2159984 GTTGCACG
193 G-TGAACG
2159992 CATAAAGTGTC
1 CATAAAGTGTC
2160003 AAAAGATTGG
Statistics
Matches: 534, Mismatches: 70, Indels: 14
0.86 0.11 0.02
Matches are distributed among these distances:
199 16 0.03
200 509 0.95
201 9 0.02
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (199 bp):
CATAAAGTGTCGATACATGTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAATATAAT
GTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACA
TAATGTATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTG
AACG
Found at i:2161462 original size:200 final size:197
Alignment explanation
Indices: 2161070--2161790 Score: 817
Period size: 200 Copynumber: 3.6 Consensus size: 197
2161060 ACCTAAATAT
* * *
2161070 GTGTCGATACATTT-TCTACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
* * * * * *
2161133 TAGGTAAATTAACAATGTAAACGTTATAAATATACCGGTTAATTAGAAAACAAGTCAACATAATG
64 TAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATGAGAAAACAGGTC-ACATAATG
** *
2161198 TATCGACACTTATGGAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCAC
128 TATCGACACTTATTAAATTTGTGTCGATACTT-TTGTCCAAAATGAATG-CCAAACGAGGTGCAC
2161263 ACATAAA
191 ACATAAA
* *
2161270 GTGTCGATACATTTATTAAAAGTATCAATCCCAAAAACATCGAAACTGATAATTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
2161335 GGTAAATTTACAATGTAACCGATATAAATATATCGGTTTTATGAGAAAACAGGTCAGCATAAAT-
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGG-TTTATGAGAAAACAGGTCA-CAT-AATG
* * * * *
2161399 TATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGTCAAACGGGGTGCACG
128 TATCGACACTTATTAAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCAAACGAGGTGCACA
*
2161464 CATAGA
192 CATAAA
* * * * *
2161470 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAATATTGAAA-CGAAAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
2161534 GGTAAATTTACAATTTACCCGGTATAAATATACCAGTTTTATGAGAAAATATGTCTAAATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACC-GGTTTATGAGAAAACAGGTC-ACATAATGT
* * * *
2161599 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTTCCCCAAAATGAATGCCCAACGAGGTGCA-
129 ATCGACACTTATTAAATTTGTGTCGATAC-TTTTGT--CCAAAATGAATGCCAAACGAGGTGCAC
2161663 AGCATAAA
191 A-CATAAA
* * * **
2161671 GCGTTGATACATTTA--AAATTGTATCGATCTAAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
2161734 ATGTAAATTTGCAATGTTACCGGTATAAATATACCGGTTTACTTAGAAAATAGGTCA
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTA-TGAGAAAACAGGTCA
2161791 ATATAAGTGC
Statistics
Matches: 443, Mismatches: 63, Indels: 30
0.83 0.12 0.06
Matches are distributed among these distances:
198 3 0.01
199 99 0.22
200 175 0.40
201 161 0.36
202 5 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTATGAGAAAACAGGTCACATAATGTAT
CGACACTTATTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCAAACGAGGTGCACACATA
AA
Found at i:2161893 original size:87 final size:87
Alignment explanation
Indices: 2161791--2161953 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
2161781 AAATAGGTCA
* *
2161791 ATATAAGTGCTACCTATTACATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGTACTACCTAATATGTTATTGTACTTGATAATATTT
*
2161856 CTGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
2161878 ATATAAGCGCTACCTATTACATTATATAAGTACTACTTAATATGTTATTGTACTTGCTAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGTACTACCTAATATGTTATTGTACTTGATAATATTT
2161943 CCGGTTAAATG
66 CCGGTTAAATG
2161954 ATATAACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGTACTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:2162194 original size:24 final size:24
Alignment explanation
Indices: 2162167--2162234 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
2162157 CCGAAAGTTG
*
2162167 GTGACGG-TGATGCGGTGCTTTAAT
1 GTGACGGTTG-TGCAGTGCTTTAAT
*
2162191 GTGATGGTTGTGCAGTGCTTTAAT
1 GTGACGGTTGTGCAGTGCTTTAAT
*
2162215 GTGATGGTTGTGCAGTGCTT
1 GTGACGGTTGTGCAGTGCTT
2162235 CACTTTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 39 0.95
25 2 0.05
ACGTcount: A:0.15, C:0.10, G:0.37, T:0.38
Consensus pattern (24 bp):
GTGACGGTTGTGCAGTGCTTTAAT
Found at i:2162243 original size:24 final size:24
Alignment explanation
Indices: 2162181--2162236 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
2162171 CGGTGATGCG
*
2162181 GTGCTTTAATGTGATGGTTGTGCA
1 GTGCTTCAATGTGATGGTTGTGCA
*
2162205 GTGCTTTAATGTGATGGTTGTGCA
1 GTGCTTCAATGTGATGGTTGTGCA
2162229 GTGCTTCA
1 GTGCTTCA
2162237 CTTTGATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.41
Consensus pattern (24 bp):
GTGCTTCAATGTGATGGTTGTGCA
Found at i:2175026 original size:101 final size:101
Alignment explanation
Indices: 2174851--2175051 Score: 348
Period size: 101 Copynumber: 2.0 Consensus size: 101
2174841 CACTCAACTT
*
2174851 TCAGGCCATTAAATTAAATCAGGTTTGAAGAATGACCTTGGGTGGAGTTGGACCATGAACCTACG
1 TCAGGCCATTAAATCAAATCAGGTTTGAAGAATGACCTTGGGTGGAGTTGGACCATGAACCTACG
2174916 GTATTCTTCGTATATTCCTATAGAGTCTAAGGTCAC
66 GTATTCTTCGTATATTCCTATAGAGTCTAAGGTCAC
* * *
2174952 TCAGGCCATTAAATCAAATCATGTTTGAAGAATGGCCTTGGGTGGGGTTGGACCATGAACCTACG
1 TCAGGCCATTAAATCAAATCAGGTTTGAAGAATGACCTTGGGTGGAGTTGGACCATGAACCTACG
* *
2175017 GTATTCTTCGTATATTTCTCTAGAGTCTAAGGTCA
66 GTATTCTTCGTATATTCCTATAGAGTCTAAGGTCA
2175052 TTCTTCAAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (101 bp):
TCAGGCCATTAAATCAAATCAGGTTTGAAGAATGACCTTGGGTGGAGTTGGACCATGAACCTACG
GTATTCTTCGTATATTCCTATAGAGTCTAAGGTCAC
Found at i:2181311 original size:28 final size:28
Alignment explanation
Indices: 2181277--2181337 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
2181267 TTTAAAGTTA
* *
2181277 TATTTTTTGGTCAAAATAAGTACATAAAG
1 TATTTTAT-GTCAAAATAAGTACATAAAC
* *
2181306 TATTTTATGTCAAAATAATTACTTAAAC
1 TATTTTATGTCAAAATAAGTACATAAAC
2181334 TATT
1 TATT
2181338 CAAACTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (28 bp):
TATTTTATGTCAAAATAAGTACATAAAC
Found at i:2181490 original size:31 final size:29
Alignment explanation
Indices: 2181438--2181519 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 29
2181428 TAGATATCTA
2181438 TTTGACCAAAAAATATTTTAGGCACCTAT
1 TTTGACCAAAAAATATTTTAGGCACCTAT
* * *
2181467 TTTGACCGAAAAGATAATTTTAGGTACTTAT
1 TTTGACC-AAAAAAT-ATTTTAGGCACCTAT
* *
2181498 TTTGATCAAAAAATACTTTAGG
1 TTTGACCAAAAAATATTTTAGG
2181520 TACTTAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 14 0.31
30 12 0.27
31 19 0.42
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (29 bp):
TTTGACCAAAAAATATTTTAGGCACCTAT
Found at i:2181521 original size:29 final size:29
Alignment explanation
Indices: 2181421--2181525 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
2181411 AAAAAAATTG
*
2181421 AATACTTTAGATA-TCTA-TTTGACCAAAA
1 AATACTTTAGGTACT-TATTTTGACCAAAA
* * *
2181449 AATATTTTAGGCACCTATTTTGACCGAAAA
1 AATACTTTAGGTACTTATTTTGACC-AAAA
* * *
2181479 GATAATTTTAGGTACTTATTTTGATCAAAA
1 AAT-ACTTTAGGTACTTATTTTGACCAAAA
2181509 AATACTTTAGGTACTTA
1 AATACTTTAGGTACTTA
2181526 AATAAAAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.19
29 20 0.32
30 12 0.19
31 19 0.30
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
AATACTTTAGGTACTTATTTTGACCAAAA
Found at i:2189213 original size:20 final size:20
Alignment explanation
Indices: 2189173--2189219 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
2189163 AATAATTTAC
*
2189173 AAAT-TTTAAAAAAGGTTAA
1 AAATGTTTAAAAAAGGTAAA
2189192 AAATGTTTAAAAATA-GTAAA
1 AAATGTTTAAAAA-AGGTAAA
2189212 AACATGTT
1 AA-ATGTT
2189220 AATGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (20 bp):
AAATGTTTAAAAAAGGTAAA
Found at i:2190499 original size:15 final size:14
Alignment explanation
Indices: 2190445--2190497 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
2190435 AATTAAATGA
2190445 ATAAATAAATAAAT
1 ATAAATAAATAAAT
2190459 A-AAACCTAAATAAAT
1 ATAAA--TAAATAAAT
2190474 ATAAAATAATATAAAT
1 AT-AAATAA-ATAAAT
2190490 ATAAATAA
1 ATAAATAA
2190498 TAATAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 19 0.56
16 8 0.24
17 3 0.09
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAATAAATAAAT
Found at i:2190503 original size:16 final size:17
Alignment explanation
Indices: 2190467--2190503 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
2190457 ATAAAACCTA
2190467 AATAAATATAAAATAAT
1 AATAAATATAAAATAAT
2190484 -ATAAATAT-AAATAAT
1 AATAAATATAAAATAAT
2190499 AATAA
1 AATAA
2190504 TAAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAATATAAAATAAT
Found at i:2190580 original size:36 final size:35
Alignment explanation
Indices: 2190540--2190607 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
2190530 TATGTAATTG
*
2190540 ATTTTCAAAAAAATATTATATATATTTTAAAAAACC
1 ATTTTCAAAAAAATATTATATAT-TTTCAAAAAACC
**
2190576 ATTTTCAAAATCATATTATATATTTTCAAAAA
1 ATTTTCAAAAAAATATTATATATTTTCAAAAA
2190608 TGCTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (35 bp):
ATTTTCAAAAAAATATTATATATTTTCAAAAAACC
Found at i:2190632 original size:36 final size:36
Alignment explanation
Indices: 2190540--2190641 Score: 113
Period size: 34 Copynumber: 2.9 Consensus size: 36
2190530 TATGTAATTG
**
2190540 ATTTTCAAAAAAATATTATATATATTTT-AAAAAACC
1 ATTTTCAAAATCATATT-TATATATTTTCAAAAAACC
**
2190576 ATTTTCAAAATCATA-TTATATATTTTCAAAAATGC
1 ATTTTCAAAATCATATTTATATATTTTCAAAAAACC
*
2190611 -TTTTTAAAATCATATTCTATATA-TTTCAAAA
1 ATTTTCAAAATCATATT-TATATATTTTCAAAA
2190642 TTATTTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 23 0.40
35 16 0.28
36 19 0.33
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (36 bp):
ATTTTCAAAATCATATTTATATATTTTCAAAAAACC
Found at i:2190715 original size:35 final size:35
Alignment explanation
Indices: 2190612--2190922 Score: 369
Period size: 35 Copynumber: 8.9 Consensus size: 35
2190602 CAAAAATGCT
* * *
2190612 TTTTAAAATC-ATATTCTATAT-ATTTCAAAATTA
1 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
*
2190645 TTTTAAAAACTATAT--TATACGTTTTCAAAATTA
1 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
*
2190678 TTTTAAAAACTATATACTATATGTTCTCAAAATTA
1 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
* *
2190713 TTTTAGAAACTATATATTATATGTTTTCAAAATTA
1 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
2190748 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
1 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
***
2190783 TTTTAAAAACTATATACTATATGTTTTCAAAACCG
1 TTTTAAAAACTATATACTATATGTTTTCAAAATTA
* ***
2190818 TTTTAAAACACTATATACTATATGTCTTCAAAACCG
1 TTTTAAAA-ACTATATACTATATGTTTTCAAAATTA
* * * *
2190854 TTTTAAAAACTATATATTATACGTTTTTAAAAATAA
1 TTTTAAAAACTATATACTATATG-TTTTCAAAATTA
** * *
2190890 GTTTCCAAAACTATATATTATATATTTTCAAAA
1 -TTTTAAAAACTATATACTATATGTTTTCAAAA
2190923 ACCATATTAT
Statistics
Matches: 245, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
32 4 0.02
33 35 0.14
34 4 0.02
35 134 0.55
36 49 0.20
37 19 0.08
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (35 bp):
TTTTAAAAACTATATACTATATGTTTTCAAAATTA
Found at i:2190923 original size:24 final size:24
Alignment explanation
Indices: 2190891--2190937 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2190881 TAAAAATAAG
* *
2190891 TTTCCAAAACTATA-TATTATATAT
1 TTTCAAAAACCATATTA-TATATAT
2190915 TTTCAAAAACCATATTATATATA
1 TTTCAAAAACCATATTATATATA
2190938 CTATGCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTCAAAAACCATATTATATATAT
Found at i:2191530 original size:32 final size:32
Alignment explanation
Indices: 2191481--2191546 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
2191471 TATGAAATGG
* * *
2191481 ATTGAGACAGTATATATAAATAACATAGAAAA
1 ATTGAGACACTAAATATAAATAAAATAGAAAA
*
2191513 ATTGAGACACTAAATATATATAAAATAGAAAA
1 ATTGAGACACTAAATATAAATAAAATAGAAAA
2191545 AT
1 AT
2191547 ATTTAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.26
Consensus pattern (32 bp):
ATTGAGACACTAAATATAAATAAAATAGAAAA
Found at i:2192431 original size:13 final size:14
Alignment explanation
Indices: 2192413--2192454 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
2192403 AAATTTTGAG
2192413 AAAATATAAGTT-T
1 AAAATATAAGTTCT
2192426 AAAATATGAA-TTCT
1 AAAATAT-AAGTTCT
2192440 AAAATATATAGTTCT
1 AAAATATA-AGTTCT
2192455 TTTAGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.40
14 11 0.44
15 4 0.16
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (14 bp):
AAAATATAAGTTCT
Found at i:2194437 original size:14 final size:14
Alignment explanation
Indices: 2194403--2194441 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
2194393 AATTTAGGAT
2194403 TAAAATAAAAAAAC
1 TAAAATAAAAAAAC
*
2194417 TAAAAATATAAAAAC
1 T-AAAATAAAAAAAC
2194432 TAAAATAAAA
1 TAAAATAAAA
2194442 TTTCATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAAAAC
Found at i:2200546 original size:98 final size:100
Alignment explanation
Indices: 2200374--2200571 Score: 346
Period size: 98 Copynumber: 2.0 Consensus size: 100
2200364 TTGCTATCTT
*
2200374 CAGCAAGATCATGTTTTCATTGTAATTCCTTTACCTCTCAAAATATCTAAAAGAAATTCTCCAAT
1 CAGCAAGATCATGTTTTCATTGTAATTCCTTTACCTCTCAAAATATCTAAAAGAAATTCTCAAAT
* *
2200439 GATCAAATGTTTGGGATATTTGTATTTCTCAATCA
66 GATCAAATGTTTGGGATATTTGTATCTCCCAATCA
*
2200474 CAGCAAGATCATGTTTTCATTGTAATTCCTTTA-C-CTCAAAATATTTAAAAGAAATTCTCAAAT
1 CAGCAAGATCATGTTTTCATTGTAATTCCTTTACCTCTCAAAATATCTAAAAGAAATTCTCAAAT
2200537 GATCAAATGTTTGGGATATTTGTATCTCCCAATCA
66 GATCAAATGTTTGGGATATTTGTATCTCCCAATCA
2200572 TGACATAATC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 60 0.64
99 1 0.01
100 33 0.35
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (100 bp):
CAGCAAGATCATGTTTTCATTGTAATTCCTTTACCTCTCAAAATATCTAAAAGAAATTCTCAAAT
GATCAAATGTTTGGGATATTTGTATCTCCCAATCA
Found at i:2203509 original size:18 final size:18
Alignment explanation
Indices: 2203483--2203517 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2203473 GGGTAAATTG
2203483 TATCATTCATCACTAAAC
1 TATCATTCATCACTAAAC
*
2203501 TATCTTTCATCACTAAA
1 TATCATTCATCACTAAA
2203518 GTTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (18 bp):
TATCATTCATCACTAAAC
Found at i:2211475 original size:20 final size:21
Alignment explanation
Indices: 2211436--2211475 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2211426 GTAGAGTTTT
*
2211436 CATCCCCAAATGGCTAGAAAA
1 CATCCCCAAACGGCTAGAAAA
*
2211457 CATCCCC-AACGGTTAGAAA
1 CATCCCCAAACGGCTAGAAA
2211476 CGGTCACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.40, C:0.30, G:0.15, T:0.15
Consensus pattern (21 bp):
CATCCCCAAACGGCTAGAAAA
Found at i:2214476 original size:57 final size:57
Alignment explanation
Indices: 2214350--2214745 Score: 636
Period size: 57 Copynumber: 7.0 Consensus size: 57
2214340 CCCACTACCA
* * *
2214350 ATACGAAAATTCATATACTTATTATGAATTTCTT-AGTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* *
2214406 ATACGGAAATTCATAAACTCATTATGAATTTCTTAACATTTTT-CACGCAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCC
* *
2214463 ATACGGAAATTCATAAAGTTATTATGAATTTCTTAA-TTTTTGAACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* *
2214519 ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAATTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* * * * *
2214576 ATAAGGAAATTCATATAGTTATTATGAATTTCTTAACTCTTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
2214633 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
2214690 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
2214746 ATTTGGTAAT
Statistics
Matches: 311, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
55 5 0.02
56 77 0.25
57 224 0.72
58 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (57 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
Found at i:2214668 original size:114 final size:114
Alignment explanation
Indices: 2214350--2214745 Score: 636
Period size: 113 Copynumber: 3.5 Consensus size: 114
2214340 CCCACTACCA
* * *
2214350 ATACGAAAATTCATATACTTATTATGAATTTCTT-AGTTTTTGCACACAAAGTGCCCATACGGAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAA
* *
2214414 ATTCATAAACTCATTATGAATTTCTTAACATTTTT-CACGCAAAGTGCCC
66 ATTCATAAACTTATTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCC
* * *
2214463 ATACGGAAATTCATAAAGTTATTATGAATTTCTTAA-TTTTTGAACACAAAGTGCCCATACGAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAA
*
2214527 ATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAATTGCCC
66 ATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* * * * *
2214576 ATAAGGAAATTCATATAGTTATTATGAATTTCTTAACTCTTTGCACACAAAGTGTCCATACGGAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAA
2214641 ATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
66 ATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
2214690 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCC
2214746 ATTTGGTAAT
Statistics
Matches: 260, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
112 5 0.02
113 131 0.50
114 124 0.48
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (114 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAA
ATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
Found at i:2221419 original size:56 final size:57
Alignment explanation
Indices: 2221329--2221552 Score: 308
Period size: 57 Copynumber: 3.9 Consensus size: 57
2221319 CCCACTACCA
* * * *
2221329 ATAC-GAAAGTTCATATACTTATTATGGATCTCTT-AGTTTTTGCACACAAAGTGCCC
1 ATACGGAAA-TTCATAAACTTATTATGAATTTCTTAAATTTTTGCACACAAAGTGCCC
* * **
2221385 ATACGGAAATTCATACACTCATTATGAATTTCTTAACCTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAAATTTTTGCACACAAAGTGCCC
*
2221442 ATACGGAAATTCATAAACTTATTATGAATTTCTTAAATTTTTGCACACAAAATGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAAATTTTTGCACACAAAGTGCCC
* * * *
2221499 ATATGGAAATTCATAAACGTATTATAAAGTTCTTAAATTTTTGCACACAAAGTG
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAAATTTTTGCACACAAAGTG
2221553 TCATTCGGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
56 25 0.17
57 125 0.83
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (57 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAAATTTTTGCACACAAAGTGCCC
Found at i:2227939 original size:19 final size:19
Alignment explanation
Indices: 2227894--2227956 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
2227884 ACCCTCATGA
2227894 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC--T--AG
2227917 GGGAACCGATTCCCCCTAG
1 GGGAACCGATTCCCCCTAG
* *
2227936 GGGAATCGATACCCCCT-G
1 GGGAACCGATTCCCCCTAG
2227954 GGG
1 GGG
2227957 TTCTGGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 4 0.11
19 17 0.45
21 1 0.03
23 16 0.42
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (19 bp):
GGGAACCGATTCCCCCTAG
Found at i:2237908 original size:31 final size:31
Alignment explanation
Indices: 2237873--2237955 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
2237863 GAGTATTGTT
* **
2237873 GAGCTTGACTCGACTTGAAAACTCTGAAATA
1 GAGCTCGACTCGACTCAAAAACTCTGAAATA
2237904 GAGCTCGACTCGACTCAAAAACTCTGAAATA
1 GAGCTCGACTCGACTCAAAAACTCTGAAATA
2237935 GAGCTCGACTCGACTCAAAAA
1 GAGCTCGACTCGACTCAAAAA
2237956 GTCGCGAGCT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (31 bp):
GAGCTCGACTCGACTCAAAAACTCTGAAATA
Found at i:2243806 original size:13 final size:13
Alignment explanation
Indices: 2243788--2243812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2243778 ATAAAAACAC
2243788 TTTTATAAACATA
1 TTTTATAAACATA
2243801 TTTTATAAACAT
1 TTTTATAAACAT
2243813 GAGCTTTGTG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTATAAACATA
Found at i:2243986 original size:380 final size:367
Alignment explanation
Indices: 2243298--2244025 Score: 1206
Period size: 380 Copynumber: 1.9 Consensus size: 367
2243288 TCTAATTTCG
2243298 ATTGGGCCTAAAGTGCCACATTGGGCTACCGAGGCAACCCTTGATTTTCAAAACTTGTTAATTTT
1 ATTGGGCCTAAAGTGCCACATTGGGCTACCGAGGCAACCCTTGATTTTCAAAACTTGTTAATTTT
2243363 CATTTCAAAACATAATACATGGTATCAAAATAAATATATATGAAAGTTATAAAAACACTTTTATA
66 CATTTCAAAACATAATACATGGTATCAAAATAAATATATATGAAAGTTATAAAAACACTTTTATA
* *
2243428 AACATGAGCTTTGTGACACATTTATTAAAACCAAAATAATACAAACTCAAAGTTTGATAAACCAC
131 AACATGAGCTTTGTGACACATTGATTAAAACAAAAATAATACAAACTCAAAGTTTGATAAACCAC
*
2243493 ATCATGAGTAATGTTCTATGAATACGCATGTCCACTAAAGTTATAGTACAATACTTTGAGGGAGA
196 ATCATGAATAATGTTCTATGAATACGCATGTCCACTAAAGTTATAGTACAATACTTTGAGGGAGA
* * * **
2243558 TACTAGTAATCTTGTTGCGACAGTGTTCTACGAATGGCTTAAGCTAATAACCTGTGAACGAAAAA
261 TACTAGGAATCTTGTTACGACAGTGTTCCACGAATGGCCCAAGCTAATAACCTGTGAACGAAAAA
2243623 CATTCAAACATTGTGCTTACAAAGCCTAACACTCTAAACCCA
326 CATTCAAACATTGTGCTTACAAAGCCTAACACTCTAAACCCA
2243665 ATTGGGCCTAAAGTGCCACATTGGGCTACCGAGGCAACCCTTGATTTTCAAAACTTGTTAATTTT
1 ATTGGGCCTAAAGTGCCACATTGGGCTACCGAGGCAACCCTTGATTTTCAAAACTTGTTAATTTT
*
2243730 CATTTCAAAACATAATACATGGTATCAAAATAAATATATATGACAGTTATAAAAACACTTTTATA
66 CATTTCAAAACATAATACATGGTATCAAAATAAATATATATGAAAGTTAT-AAAA-AC-------
2243795 AACATATTTTATAAACATGAGCTTTGTGACACATTGATTAAAACAAAAATAATACAAACTCAAAG
122 -AC---TTTTATAAACATGAGCTTTGTGACACATTGATTAAAACAAAAATAATACAAACTCAAAG
2243860 TTTGATAAACCACATCATGAATAATGTTCTATGAATACGCATGTCCACTAAAGTTATAGTACAAT
183 TTTGATAAACCACATCATGAATAATGTTCTATGAATACGCATGTCCACTAAAGTTATAGTACAAT
* * *
2243925 ACTTTGAGGGAGATACT-GGAAGTTTTGTTACGACGGTGTTCCACGAATTGCCCAAGCTAATAAC
248 ACTTTGAGGGAGATACTAGGAA-TCTTGTTACGACAGTGTTCCACGAATGGCCCAAGCTAATAAC
*
2243989 CTGTGAACGAAAAACATTCAAACTTTGTGCTTACAAA
312 CTGTGAACGAAAAACATTCAAACATTGTGCTTACAAA
2244026 TCCCAACATT
Statistics
Matches: 334, Mismatches: 13, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
367 114 0.34
368 4 0.01
369 2 0.01
377 2 0.01
379 3 0.01
380 209 0.63
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (367 bp):
ATTGGGCCTAAAGTGCCACATTGGGCTACCGAGGCAACCCTTGATTTTCAAAACTTGTTAATTTT
CATTTCAAAACATAATACATGGTATCAAAATAAATATATATGAAAGTTATAAAAACACTTTTATA
AACATGAGCTTTGTGACACATTGATTAAAACAAAAATAATACAAACTCAAAGTTTGATAAACCAC
ATCATGAATAATGTTCTATGAATACGCATGTCCACTAAAGTTATAGTACAATACTTTGAGGGAGA
TACTAGGAATCTTGTTACGACAGTGTTCCACGAATGGCCCAAGCTAATAACCTGTGAACGAAAAA
CATTCAAACATTGTGCTTACAAAGCCTAACACTCTAAACCCA
Found at i:2276914 original size:60 final size:60
Alignment explanation
Indices: 2276792--2276914 Score: 138
Period size: 60 Copynumber: 2.0 Consensus size: 60
2276782 GTCCCTTGAT
* *
2276792 TATAGGGTATTACTTTATTAAGTACTCAGACTATCAAAAGTTACAAAACAGTCCCCCGAC
1 TATAGGGTATTACTTTATTAAGTACTCAGACTATCAAAAGTTACAAAACAGTCACCCAAC
* * * * * * * * **
2276852 TATAGGGTGTTGCTTTGTTGAGTCCTCCGACTATTAAACGTTACAAAATGGTCACCCAAC
1 TATAGGGTATTACTTTATTAAGTACTCAGACTATCAAAAGTTACAAAACAGTCACCCAAC
2276912 TAT
1 TAT
2276915 TCATTATATC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (60 bp):
TATAGGGTATTACTTTATTAAGTACTCAGACTATCAAAAGTTACAAAACAGTCACCCAAC
Found at i:2286636 original size:18 final size:18
Alignment explanation
Indices: 2286610--2286667 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
2286600 TAAGAACACT
2286610 TGAGAAAATGAATACAAA
1 TGAGAAAATGAATACAAA
* **
2286628 TGA-ACAAAT-AAGAACACT
1 TGAGA-AAATGAA-TACAAA
2286646 TGAGAAAATGAATACAAA
1 TGAGAAAATGAATACAAA
2286664 TGAG
1 TGAG
2286668 TACAAGAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 3 0.10
18 24 0.80
19 3 0.10
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (18 bp):
TGAGAAAATGAATACAAA
Found at i:2286640 original size:36 final size:36
Alignment explanation
Indices: 2286593--2286666 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
2286583 CACAATTCAA
2286593 GAACAAATAAGAACACTTGAGAAAATGAATACAAAT
1 GAACAAATAAGAACACTTGAGAAAATGAATACAAAT
2286629 GAACAAATAAGAACACTTGAGAAAATGAATACAAAT
1 GAACAAATAAGAACACTTGAGAAAATGAATACAAAT
2286665 GA
1 GA
2286667 GTACAAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.58, C:0.11, G:0.15, T:0.16
Consensus pattern (36 bp):
GAACAAATAAGAACACTTGAGAAAATGAATACAAAT
Found at i:2287270 original size:21 final size:19
Alignment explanation
Indices: 2287223--2287270 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
2287213 AGAGCGTTAT
**
2287223 CTAAAATATTATTTTTCTA
1 CTAAAATATTATTTCGCTA
2287242 CTAGAAATATTAATTTCGCTA
1 CTA-AAATATT-ATTTCGCTA
2287263 CTTAAAAT
1 C-TAAAAT
2287271 GAATATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 7 0.29
21 12 0.50
22 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (19 bp):
CTAAAATATTATTTCGCTA
Found at i:2294358 original size:28 final size:28
Alignment explanation
Indices: 2294309--2294364 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
2294299 CTATGTGATT
* *
2294309 ATGAACTATGTGAGTACATGAATATGTG
1 ATGAACTATGTGACTACATGAACATGTG
* **
2294337 ATGAGCTATGTGACTATGTGAACATGTG
1 ATGAACTATGTGACTACATGAACATGTG
2294365 GATAAATGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (28 bp):
ATGAACTATGTGACTACATGAACATGTG
Found at i:2294531 original size:23 final size:23
Alignment explanation
Indices: 2294469--2294531 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
2294459 GAGTCGAGGG
* * *
2294469 TTCTACCCAGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTTGGGACAA
* ** *
2294492 TTCTACGTGGTTATTTGGGACAT
1 TTCTACGCGGTCCTTTGGGACAA
*
2294515 TTCTATGCGGTCCTTTG
1 TTCTACGCGGTCCTTTG
2294532 TGACGTTATA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (23 bp):
TTCTACGCGGTCCTTTGGGACAA
Found at i:2295672 original size:16 final size:16
Alignment explanation
Indices: 2295651--2295684 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2295641 ACAGATAGCT
*
2295651 CAAAACAGTTATGTAA
1 CAAAACAGTAATGTAA
2295667 CAAAACAGTAATGTAA
1 CAAAACAGTAATGTAA
2295683 CA
1 CA
2295685 CTATCAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (16 bp):
CAAAACAGTAATGTAA
Found at i:2296857 original size:30 final size:31
Alignment explanation
Indices: 2296821--2296890 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
2296811 ATTTAGATCT
*
2296821 GAATTTAATTAAAAATTTAATTTAGTCCCTA
1 GAATTTAATTAAAAATTTAATTTAATCCCTA
** *
2296852 -AATTTAACCAAAATTTTAATTTAATCCCTA
1 GAATTTAATTAAAAATTTAATTTAATCCCTA
2296882 GAA-TTAATT
1 GAATTTAATT
2296891 CAATAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (31 bp):
GAATTTAATTAAAAATTTAATTTAATCCCTA
Found at i:2297111 original size:27 final size:27
Alignment explanation
Indices: 2297081--2297134 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2297071 CTATTCCGAA
2297081 GAACTCACTCGTCCTGTTCTAAAATAT
1 GAACTCACTCGTCCTGTTCTAAAATAT
2297108 GAACTCACTCGTCCTGTTCTAAAATAT
1 GAACTCACTCGTCCTGTTCTAAAATAT
2297135 AAACATGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (27 bp):
GAACTCACTCGTCCTGTTCTAAAATAT
Found at i:2303345 original size:4 final size:4
Alignment explanation
Indices: 2303338--2303362 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2303328 ATATATATAT
2303338 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
2303363 CGCATACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:2308815 original size:23 final size:23
Alignment explanation
Indices: 2308767--2308816 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2308757 ATCATGACAA
*
2308767 TTCATGAAAAATAATTAAGTCTT
1 TTCATGAAAAATAATTAAGTCAT
* **
2308790 TTCATGAAAAATAGTTATTTCAT
1 TTCATGAAAAATAATTAAGTCAT
2308813 TTCA
1 TTCA
2308817 CACCAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (23 bp):
TTCATGAAAAATAATTAAGTCAT
Found at i:2311679 original size:29 final size:30
Alignment explanation
Indices: 2311645--2311708 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2311635 TGATTTAAAT
**
2311645 TCAAATTTAATTAAAATTT-AATTTAATCC
1 TCAAATTTAACCAAAATTTCAATTTAATCC
2311674 TCAAATTTAACCAAAATTTCAATTTAATCC
1 TCAAATTTAACCAAAATTTCAATTTAATCC
*
2311704 CCAAA
1 TCAAA
2311709 ATAAATTCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (30 bp):
TCAAATTTAACCAAAATTTCAATTTAATCC
Found at i:2312722 original size:20 final size:20
Alignment explanation
Indices: 2312699--2312745 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2312689 GCTGGTAGAG
2312699 TATCGATGTTACCCCTACAA
1 TATCGATGTTACCCCTACAA
* *
2312719 TATCGATGTTGCCCCTACAG
1 TATCGATGTTACCCCTACAA
2312739 TATCGAT
1 TATCGAT
2312746 TCTTAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (20 bp):
TATCGATGTTACCCCTACAA
Found at i:2313912 original size:32 final size:31
Alignment explanation
Indices: 2313871--2314086 Score: 182
Period size: 32 Copynumber: 6.8 Consensus size: 31
2313861 TAATAGTATT
*
2313871 AGTGTTGCATTCAGATAATGCACAACAGTGTC
1 AGTGTTGCATTCAGATAATGCACAA-AGAGTC
* * *
2313903 AGTGTTGCATTCAGGTAATGCATAACAGAGTT
1 AGTGTTGCATTCAGATAATGCACAA-AGAGTC
* * * * *
2313935 AGTGTTGCATTTAGATACTACATAGAAGAGTT
1 AGTGTTGCATTCAGATAATGCACA-AAGAGTC
* * * *
2313967 AGTTTTACATTCAGATAATGCGCAGAAGAATC
1 AGTGTTGCATTCAGATAATGCACA-AAGAGTC
* * *
2313999 AATGTTACTTTCAGATAATGCACAAAAGAGTC
1 AGTGTTGCATTCAGATAATGCAC-AAAGAGTC
* * *
2314031 AATGTTGCA-TCTAGATAATGCACAATAGAATT
1 AGTGTTGCATTC-AGATAATGCACAA-AGAGTC
*
2314063 AGTGTTGCATCCAGATAATGCACA
1 AGTGTTGCATTCAGATAATGCACA
2314087 TGAGTGTCAA
Statistics
Matches: 151, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
31 4 0.03
32 144 0.95
33 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (31 bp):
AGTGTTGCATTCAGATAATGCACAAAGAGTC
Found at i:2314096 original size:64 final size:64
Alignment explanation
Indices: 2313862--2314097 Score: 201
Period size: 64 Copynumber: 3.7 Consensus size: 64
2313852 TGTGTCATAT
* * * * * *
2313862 AATAGTATTAGTGTTGCATTCAGATAATGCACAACAGTGTCAGTGTTGCATTCAGGTAATGCAT
1 AATAGAATTAGTGTTGCATTCAGATAATGCACAAGAGAGTCAATGTTGCATTCAGATAATGCAC
* * * * * * * * *
2313926 AACAGAGTTAGTGTTGCATTTAGATACT--ACATAGAAGAGTTAGTTTTACATTCAGATAATGCG
1 AATAGAATTAGTGTTGCATTCAGATAATGCACA-AG-AGAGTCAATGTTGCATTCAGATAATGCA
2313989 C
64 C
* * * * *
2313990 AGA-AGAATCAATGTTACTTTCAGATAATGCACAAAAGAGTCAATGTTGCA-TCTAGATAATGCA
1 A-ATAGAATTAGTGTTGCATTCAGATAATGCACAAGAGAGTCAATGTTGCATTC-AGATAATGCA
2314053 C
64 C
* * *
2314054 AATAGAATTAGTGTTGCATCCAGATAATGCACATGAGTGTCAAT
1 AATAGAATTAGTGTTGCATTCAGATAATGCACAAGAGAGTCAAT
2314098 ATCACATTTA
Statistics
Matches: 131, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 119 0.91
65 2 0.02
66 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (64 bp):
AATAGAATTAGTGTTGCATTCAGATAATGCACAAGAGAGTCAATGTTGCATTCAGATAATGCAC
Found at i:2314097 original size:96 final size:95
Alignment explanation
Indices: 2313862--2314097 Score: 240
Period size: 96 Copynumber: 2.5 Consensus size: 95
2313852 TGTGTCATAT
* * * * * *
2313862 AATAGTATTAGTGTTGCATTCAGATAATGCACAACAGTGTCAGTGTTGCATTCAGGTAATGCATA
1 AATAGAATTAGTGTTGCATTCAGATAATGCAC-AGAGTGTCAATGTTACATTCAGATAATGCACA
* * * * * *
2313927 ACAGAGTTAGTGTTGCATTTAGATACTACAT
65 AAAGAGTCAATGTTGCATCTAGATAATACAC
* * * * ** *
2313958 AGA-AGAGTTAGTTTTACATTCAGATAATGCGCAGAAGAATCAATGTTACTTTCAGATAATGCAC
1 A-ATAGAATTAGTGTTGCATTCAGATAATGCACAG-AGTGTCAATGTTACATTCAGATAATGCAC
*
2314022 AAAAGAGTCAATGTTGCATCTAGATAATGCAC
64 AAAAGAGTCAATGTTGCATCTAGATAATACAC
*
2314054 AATAGAATTAGTGTTGCATCCAGATAATGCACATGAGTGTCAAT
1 AATAGAATTAGTGTTGCATTCAGATAATGCACA-GAGTGTCAAT
2314098 ATCACATTTA
Statistics
Matches: 109, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
95 2 0.02
96 105 0.96
97 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (95 bp):
AATAGAATTAGTGTTGCATTCAGATAATGCACAGAGTGTCAATGTTACATTCAGATAATGCACAA
AAGAGTCAATGTTGCATCTAGATAATACAC
Found at i:2315273 original size:20 final size:21
Alignment explanation
Indices: 2315248--2315320 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 21
2315238 AGTAAGTTTT
2315248 GGATCGATCCCTTCA-CAAAA
1 GGATCGATCCCTTCACCAAAA
* **
2315268 GGATCGATCCCTTGAGGAAAA
1 GGATCGATCCCTTCACCAAAA
*
2315289 TGATC-ATCCCTTCACCAAAA
1 GGATCGATCCCTTCACCAAAA
*
2315309 GGATCGACCCCT
1 GGATCGATCCCT
2315321 CAATGAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
20 30 0.70
21 13 0.30
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (21 bp):
GGATCGATCCCTTCACCAAAA
Found at i:2315329 original size:41 final size:41
Alignment explanation
Indices: 2315249--2315329 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
2315239 GTAAGTTTTG
* **
2315249 GATCGATCCCTTCACAAAAGGATCGATCCCTTGAGGAAAAT
1 GATCGATCCCTTCACAAAAGGATCGACCCCTCAAGGAAAAT
*
2315290 GATC-ATCCCTTCACCAAAAGGATCGACCCCTCAATGAAAA
1 GATCGATCCCTTCA-CAAAAGGATCGACCCCTCAAGGAAAA
2315330 GAATTTATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 9 0.26
41 26 0.74
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (41 bp):
GATCGATCCCTTCACAAAAGGATCGACCCCTCAAGGAAAAT
Found at i:2318387 original size:22 final size:23
Alignment explanation
Indices: 2318349--2318398 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
2318339 AGAATGCTTG
*
2318349 GAAA-CCCCTTTGGCTGGTTT-T
1 GAAACCCCCATTGGCTGGTTTCT
*
2318370 GAAACCCCCATTGTCTGGTTTCT
1 GAAACCCCCATTGGCTGGTTTCT
2318393 -AAACCC
1 GAAACCC
2318399 TTGTTCCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 20 0.80
23 1 0.04
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (23 bp):
GAAACCCCCATTGGCTGGTTTCT
Found at i:2319333 original size:21 final size:20
Alignment explanation
Indices: 2319309--2319347 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2319299 AAATATTTGA
*
2319309 AAAATAATTGATCCCTTTGGT
1 AAAAGAATTGAT-CCTTTGGT
*
2319330 AAAAGGATTGATCCTTTG
1 AAAAGAATTGATCCTTTG
2319348 TGTCTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
AAAAGAATTGATCCTTTGGT
Found at i:2321965 original size:18 final size:19
Alignment explanation
Indices: 2321942--2321980 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2321932 TGACCAACAA
*
2321942 TTATGAAT-CTCTCCTTGT
1 TTATGAATGCTCTCCTAGT
*
2321960 TTATGATTGCTCTCCTAGT
1 TTATGAATGCTCTCCTAGT
2321979 TT
1 TT
2321981 TAGGATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.15, C:0.21, G:0.13, T:0.51
Consensus pattern (19 bp):
TTATGAATGCTCTCCTAGT
Found at i:2329755 original size:34 final size:34
Alignment explanation
Indices: 2329712--2329780 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
2329702 ATTTGGTAAA
2329712 TGGTTCAGCATTAGACATCCAAGTATCTAATCCT
1 TGGTTCAGCATTAGACATCCAAGTATCTAATCCT
2329746 TGGTTCAGCATTAGACATCCAAGTATCTAATCCT
1 TGGTTCAGCATTAGACATCCAAGTATCTAATCCT
2329780 T
1 T
2329781 CCAAACAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (34 bp):
TGGTTCAGCATTAGACATCCAAGTATCTAATCCT
Found at i:2339956 original size:19 final size:19
Alignment explanation
Indices: 2339932--2339991 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
2339922 GAGTCAACCC
2339932 GACTCGAACCGTTGACTTT
1 GACTCGAACCGTTGACTTT
* *
2339951 GACTCGACCCGTTAACTTT
1 GACTCGAACCGTTGACTTT
* *
2339970 GAC-CCAACTCGTTGACATT
1 GACTCGAAC-CGTTGACTTT
2339989 GAC
1 GAC
2339992 CAGTCTGACC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 3 0.09
19 31 0.91
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (19 bp):
GACTCGAACCGTTGACTTT
Found at i:2342370 original size:19 final size:19
Alignment explanation
Indices: 2342346--2342391 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
2342336 AGTCAACCCA
* *
2342346 ACCCGAACTGTTGACTTTG
1 ACCCGAACCGTTAACTTTG
*
2342365 ACCCGACCCGTTAACTTTG
1 ACCCGAACCGTTAACTTTG
2342384 ACCC-AACC
1 ACCCGAACC
2342392 CATTGACCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (19 bp):
ACCCGAACCGTTAACTTTG
Found at i:2352460 original size:14 final size:15
Alignment explanation
Indices: 2352434--2352462 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2352424 TTTAATCAAA
2352434 CTAATTCAATTCGAT
1 CTAATTCAATTCGAT
2352449 CTAATT-AATTCGAT
1 CTAATTCAATTCGAT
2352463 TAAAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
CTAATTCAATTCGAT
Found at i:2361018 original size:15 final size:15
Alignment explanation
Indices: 2360998--2361031 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2360988 GAAATACTTA
2360998 AGACTGCAATGTGTC
1 AGACTGCAATGTGTC
2361013 AGACTGCAATGTGTC
1 AGACTGCAATGTGTC
2361028 AGAC
1 AGAC
2361032 ACCTATTTTA
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:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (15 bp):
AGACTGCAATGTGTC
Found at i:2369807 original size:24 final size:19
Alignment explanation
Indices: 2369759--2369799 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2369749 CCGAAACCGA
2369759 TTTTTTCGGTTCGGTTCGG
1 TTTTTTCGGTTCGGTTCGG
2369778 TTTTTTCGGTTCGGTTCGG
1 TTTTTTCGGTTCGGTTCGG
2369797 TTT
1 TTT
2369800 ATCGTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.15, G:0.29, T:0.56
Consensus pattern (19 bp):
TTTTTTCGGTTCGGTTCGG
Found at i:2373447 original size:17 final size:17
Alignment explanation
Indices: 2373425--2373459 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2373415 CCATAAGGGG
2373425 AAGTAACATATACATAT
1 AAGTAACATATACATAT
*
2373442 AAGTAACATATATATAT
1 AAGTAACATATACATAT
2373459 A
1 A
2373460 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (17 bp):
AAGTAACATATACATAT
Found at i:2376445 original size:23 final size:23
Alignment explanation
Indices: 2376419--2376485 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
2376409 TATTAGATAC
*
2376419 CGCTTATATAATGTAATAGGTAG
1 CGCTTATATAATGTAATAGGTAA
*
2376442 CGCTTATATAATGTAATATGTAA
1 CGCTTATATAATGTAATAGGTAA
*
2376465 CACTTATATAATGTAATAGGT
1 CGCTTATATAATGTAATAGGT
2376486 TAATTACTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (23 bp):
CGCTTATATAATGTAATAGGTAA
Found at i:2376458 original size:110 final size:111
Alignment explanation
Indices: 2376316--2376564 Score: 340
Period size: 110 Copynumber: 2.3 Consensus size: 111
2376306 ATCAAGCGCA
* * * * **
2376316 ATAACATATTAGGTACCGCTTATATAATGTAATATGTAGCGTTTATATAATAAAATAGGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATGTAATATGTAACACTTATATAATAAAATAGGTTAATT
* * *
2376381 ACTGGAAACGTTATCAAGCACAATAATATA-TTA-GATACCGCTTAT
66 ACTGGAAACATTATCAAGCACAACAACATATTTATG-TACCGCTTAT
* **
2376426 ATAATGTAATAGGTAGCGCTTATATAATGTAATATGTAACACTTATATAATGTAATAGGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATGTAATATGTAACACTTATATAATAAAATAGGTTAATT
* * *
2376491 ACTGGAAACATTATTAAGCACAACAACATATTTATGTAGCGTTTAT
66 ACTGGAAACATTATCAAGCACAACAACATATTTATGTACCGCTTAT
2376537 ATAACGTAATAGGTAGCGCTTATATAAT
1 ATAACGTAATAGGTAGCGCTTATATAAT
2376565 AAAATAGGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
110 82 0.68
111 38 0.31
112 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (111 bp):
ATAACGTAATAGGTAGCGCTTATATAATGTAATATGTAACACTTATATAATAAAATAGGTTAATT
ACTGGAAACATTATCAAGCACAACAACATATTTATGTACCGCTTAT
Found at i:2376570 original size:23 final size:23
Alignment explanation
Indices: 2376526--2376573 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2376516 ACATATTTAT
* **
2376526 GTAGCGTTTATATAACGTAATAG
1 GTAGCGCTTATATAACAAAATAG
*
2376549 GTAGCGCTTATATAATAAAATAG
1 GTAGCGCTTATATAACAAAATAG
2376572 GT
1 GT
2376574 TAATTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
GTAGCGCTTATATAACAAAATAG
Found at i:2377058 original size:111 final size:109
Alignment explanation
Indices: 2376938--2377338 Score: 545
Period size: 111 Copynumber: 3.6 Consensus size: 109
2376928 TAGCGCCTAT
* *
2376938 AAAGTATCGATACTTTATAAAAATGTATCGATATTTTACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGGATCGATACTTTACAATATAA-AGGTAAAAATATGACAAA
* *
2377003 ACCAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGTTG
65 ACCAGTTTCATTATGACAAAA-CGGTAAAATTTACCTAATATGTTA
* * *
2377049 AAAGTATCGATCATTTTTATAAAAAT-GACCGATAGTTTACAATATAAAGGTAAAAATATGACAA
1 AAAGTATCGAT-A-CTTTATAAAAATGGATCGATACTTTACAATATAAAGGTAAAAATATGACAA
* *
2377113 AACCAATTTCATTATGACACAAACGATAAAATTTACCTAATATGTTA
64 AACCAGTTTCATTATGACA-AAACGGTAAAATTTACCTAATATGTTA
* * *
2377160 AAAGTATCGATCCTTTTTATAAAATGGATCGATACTTTACAATATAAAGGTAAAAATATGAGAAA
1 AAAGTATCGATACTTTATA-AAAATGGATCGATACTTTACAATATAAAGGTAAAAATATGACAAA
* * * *
2377225 ATCAGTTTCGTTATGACAAAAATGGTAAAATTTACCTAATATGTTT
65 ACCAGTTTCATTATGAC-AAAACGGTAAAATTTACCTAATATGTTA
* *
2377271 AAAGTATCGATCCTTTTATAAAAA-GGATCGATACTTTACAATATAACAGGTAAAAATATGATAA
1 AAAGTATCGATAC-TTTATAAAAATGGATCGATACTTTACAATATAA-AGGTAAAAATATGACAA
2377335 AACC
64 AACC
2377339 GGTAAAATTT
Statistics
Matches: 259, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
109 5 0.02
110 27 0.10
111 188 0.73
112 28 0.11
113 11 0.04
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (109 bp):
AAAGTATCGATACTTTATAAAAATGGATCGATACTTTACAATATAAAGGTAAAAATATGACAAAA
CCAGTTTCATTATGACAAAACGGTAAAATTTACCTAATATGTTA
Found at i:2377370 original size:90 final size:91
Alignment explanation
Indices: 2377248--2377428 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 91
2377238 TGACAAAAAT
* *
2377248 GGTAAAATTTACCTAATATGTTTAAAGTATCGATCCTTTTATAAAAAGGATCGATACTTTACAAT
1 GGTAAAATTTACCTAATATGTTGAAAGTATCGATCATTTTATAAAAAGGATCGATACTTTACAAT
2377313 ATAACAGGTAAAAATATGATAAAACC
66 ATAACAGGTAAAAATATGATAAAACC
* * *
2377339 GGTAAAATTTTATCT-A-ATGTTGAAAGTATCGATTATTTTATAAAAAGGATCGATATTTTACAA
1 GGTAAAA-TTTACCTAATATGTTGAAAGTATCGATCATTTTATAAAAAGGATCGATACTTTACAA
*
2377402 TATAATAGGTAAAAATATGATAAAACC
65 TATAACAGGTAAAAATATGATAAAACC
2377429 AGTTTCATTA
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
90 69 0.83
91 8 0.10
92 6 0.07
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (91 bp):
GGTAAAATTTACCTAATATGTTGAAAGTATCGATCATTTTATAAAAAGGATCGATACTTTACAAT
ATAACAGGTAAAAATATGATAAAACC
Found at i:2377524 original size:110 final size:111
Alignment explanation
Indices: 2377327--2377698 Score: 554
Period size: 110 Copynumber: 3.4 Consensus size: 111
2377317 CAGGTAAAAA
* * * **
2377327 TATGATAAAACCGGTAAAATTTTATCT-A-ATGTTGAAAGTATCGATTATTTTATAAAAAGGATC
1 TATGACAAAAACGGTAAAA-TTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATC
* *
2377390 GATATTTTACAATATAATAGGTAAAAATATGATAAAACCAGTTTCAT
65 GATACTTTACAATATAATAGGTAAAAATATGACAAAACCAGTTTCAT
2377437 TATGACAAAAACGGTAAAATTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAA-GATCG
1 TATGACAAAAACGGTAAAATTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATCG
* * *
2377501 ATACTTTACAATATAATAAGTAAAAATATGACAAAATCATTTTCAT
66 ATACTTTACAATATAATAGGTAAAAATATGACAAAACCAGTTTCAT
* * *
2377547 TATGAC-AAAACGGTAAAATTTACATGATATGTTGAAAGTATCGATCCTTTTATAAAAATGATCG
1 TATGACAAAAACGGTAAAATTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATCG
* * *
2377611 ATACTTTACAATATAACAGGTAAAAAAATGACCAAACCAGTTTCAT
66 ATACTTTACAATATAATAGGTAAAAATATGACAAAACCAGTTTCAT
*
2377657 TATGACAAAACCGGTAAAATTTACCTAATATGTTGAAAGTAT
1 TATGACAAAAACGGTAAAATTTACCTAATATGTTGAAAGTAT
2377699 ATATATTTTT
Statistics
Matches: 237, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
109 56 0.24
110 121 0.51
111 60 0.25
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (111 bp):
TATGACAAAAACGGTAAAATTTACCTAATATGTTGAAAGTATCGATCCTTTTATAAAAAGGATCG
ATACTTTACAATATAATAGGTAAAAATATGACAAAACCAGTTTCAT
Found at i:2381592 original size:21 final size:21
Alignment explanation
Indices: 2381550--2381592 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2381540 CAGTAAAAAA
* *
2381550 TTACCTAAAATATTATTATTT
1 TTACCTAAAACATAATTATTT
2381571 TTACCTAAAACATCAATT-TTT
1 TTACCTAAAACAT-AATTATTT
2381592 T
1 T
2381593 AATATTTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (21 bp):
TTACCTAAAACATAATTATTT
Found at i:2382795 original size:158 final size:156
Alignment explanation
Indices: 2382582--2382954 Score: 473
Period size: 155 Copynumber: 2.4 Consensus size: 156
2382572 TTCCTCTGTC
* * *
2382582 ATTTAAAGTCAATTTTTTT-CCAAATTTGAATCACATGCTCCTAAA-TCATAGTAGAATACATGT
1 ATTTTAAGTC-ATTTTTTTACCAAATTTGAACCACATGCTCCTAAACT-ATAATAGAATACATGT
* * * *
2382645 GTACTTTCAATTCCTCTTTTTGATAACAAATTCTTTTATTTTTCAATTTAGTCATTTAATTTTCC
64 GCACTTTCAATTCATCTTTTT-ATAAC-AATT-TTTTATTTTACAATTTAGTCATTCAATTTTCC
* * * * *
2382710 ATATTCTTCTTATTTCTTGAATTCGTCATTT
126 ATAATCTCCTTATTCCTTCAATTCGTAATTT
* *
2382741 ATTTTAAGT-ATTTTTTTACTAAATTTGAGCCACATGCTCCTAAACTATAATAGAATACATGTGC
1 ATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCTCCTAAACTATAATAGAATACATGTGC
* *
2382805 ACTTTCAATTCATCTTTTTATAACAATTTTTTATTTTACAATTTAGTCCTTCAATTTTTCATAAT
66 ACTTTCAATTCATCTTTTTATAACAATTTTTTATTTTACAATTTAGTCATTCAATTTTCCATAAT
*
2382870 CTCCTTATTCCTTCAATTTGTAATTT
131 CTCCTTATTCCTTCAATTCGTAATTT
* * * * * *
2382896 ATTTTAAGTCATTTTTTTACCAAATTTAAACTACATGCTCATATACCACAATAGAATAC
1 ATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCTCCTAAACTATAATAGAATAC
2382955 CTATTTAACT
Statistics
Matches: 186, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
155 62 0.33
156 45 0.24
157 13 0.07
158 57 0.31
159 9 0.05
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (156 bp):
ATTTTAAGTCATTTTTTTACCAAATTTGAACCACATGCTCCTAAACTATAATAGAATACATGTGC
ACTTTCAATTCATCTTTTTATAACAATTTTTTATTTTACAATTTAGTCATTCAATTTTCCATAAT
CTCCTTATTCCTTCAATTCGTAATTT
Found at i:2384659 original size:15 final size:15
Alignment explanation
Indices: 2384637--2384680 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
2384627 AAATAATTAA
2384637 AATAATATATTATAT
1 AATAATATATTATAT
*
2384652 AGTAATATATT-TAT
1 AATAATATATTATAT
* *
2384666 AATTATTTATTATAT
1 AATAATATATTATAT
2384681 TTTAAATGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AATAATATATTATAT
Found at i:2384715 original size:42 final size:40
Alignment explanation
Indices: 2384645--2384754 Score: 130
Period size: 41 Copynumber: 2.6 Consensus size: 40
2384635 AAAATAATAT
*
2384645 ATTATATAGTAATATATTTATAATTATTTATTATATTTTAAATG
1 ATTAAATAGT-ATAT-TTTATAA-TATTTATTATATTTT-AATG
* *
2384689 GTTAAATTAGTATATTTTATAATATTTTTTATATTTTAATG
1 ATTAAA-TAGTATATTTTATAATATTTATTATATTTTAATG
*
2384730 ATTAAATAATATATTTTAATAATAT
1 ATTAAATAGTATATTTT-ATAATAT
2384755 AAAAATAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.17
41 16 0.27
42 14 0.24
43 7 0.12
44 8 0.14
45 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (40 bp):
ATTAAATAGTATATTTTATAATATTTATTATATTTTAATG
Found at i:2384752 original size:41 final size:42
Alignment explanation
Indices: 2384654--2384754 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 42
2384644 TATTATATAG
*
2384654 TAATATA-TTTATAATTATTTATTATATTTTAAATGGTTAAAT
1 TAATATATTTTATAA-TATTTATTATATTTTAAATGATTAAAT
* *
2384696 TAGTATATTTTATAATATTTTTTATATTTT-AATGATTAAA-
1 TAATATATTTTATAATATTTATTATATTTTAAATGATTAAAT
2384736 TAATATATTTTAATAATAT
1 TAATATATTTT-ATAATAT
2384755 AAAAATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
40 10 0.19
41 16 0.30
42 20 0.38
43 7 0.13
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (42 bp):
TAATATATTTTATAATATTTATTATATTTTAAATGATTAAAT
Found at i:2384760 original size:24 final size:24
Alignment explanation
Indices: 2384718--2384791 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
2384708 TAATATTTTT
*
2384718 TATATTTTAATGAT-T--AAATAA
1 TATATTTTAATAATATAAAAATAA
2384739 TATATTTTAATAATATAAAAATAA
1 TATATTTTAATAATATAAAAATAA
* *
2384763 -AAATTCTTAA-AATATTAAATATAA
1 TATATT-TTAATAATA-TAAAAATAA
2384787 TATAT
1 TATAT
2384792 ATATATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 13 0.30
22 1 0.02
23 8 0.19
24 18 0.42
25 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (24 bp):
TATATTTTAATAATATAAAAATAA
Found at i:2384761 original size:21 final size:21
Alignment explanation
Indices: 2384718--2384761 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2384708 TAATATTTTT
*
2384718 TATATTTTAATGATTAAATAA
1 TATATTTTAATAATTAAATAA
2384739 TATATTTTAATAATATAAA-AA
1 TATATTTTAATAAT-TAAATAA
2384760 TA
1 TA
2384762 AAAATTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATATTTTAATAATTAAATAA
Found at i:2387810 original size:60 final size:60
Alignment explanation
Indices: 2387689--2387814 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
2387679 TTCCAATCCT
*
2387689 AAACTATGATCATCATCCTAAATTGGTCCAAAAACTTCTAAACATTTTAATTTCACCCAC
1 AAACTATGATCATCATCCTAAATTGGTCCAAAAACTTCTAAACATTCTAATTTCACCCAC
* ** * * * *
2387749 AAACTATGA-CATGCATTCTAAATTGGTCCCCAAACTTTTTGAACATTCTAGTTTCA-TCAC
1 AAACTATGATCAT-CATCCTAAATTGGTCCAAAAAC-TTCTAAACATTCTAATTTCACCCAC
2387809 AAACTA
1 AAACTA
2387815 CACGCATGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 3 0.05
60 37 0.66
61 16 0.29
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (60 bp):
AAACTATGATCATCATCCTAAATTGGTCCAAAAACTTCTAAACATTCTAATTTCACCCAC
Found at i:2391114 original size:13 final size:13
Alignment explanation
Indices: 2391096--2391135 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
2391086 ATGAACGAAC
2391096 ATAAACGAACACA
1 ATAAACGAACACA
2391109 ATAAACG-A-AC-
1 ATAAACGAACACA
*
2391119 GTAAACGAACACA
1 ATAAACGAACACA
2391132 ATAA
1 ATAA
2391136 TTGAACATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 6 0.27
11 3 0.14
12 3 0.14
13 10 0.45
ACGTcount: A:0.60, C:0.20, G:0.10, T:0.10
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:2391141 original size:23 final size:23
Alignment explanation
Indices: 2391072--2391147 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
2391062 CATTTAAACG
* *
2391072 ATAAACGAACATAGATGAACGAAC
1 ATAAACGAACACA-ATAAACGAAC
2391096 ATAAACGAACACAATAAACGAAC
1 ATAAACGAACACAATAAACGAAC
* **
2391119 GTAAACGAACACAATAATTGAAC
1 ATAAACGAACACAATAAACGAAC
2391142 ATAAAC
1 ATAAAC
2391148 AAACGTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 34 0.74
24 12 0.26
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (23 bp):
ATAAACGAACACAATAAACGAAC
Found at i:2391376 original size:14 final size:14
Alignment explanation
Indices: 2391357--2391391 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2391347 CATATAAAAA
2391357 GAACATAAACGAAC
1 GAACATAAACGAAC
*
2391371 GAACATAAATGAAC
1 GAACATAAACGAAC
2391385 GAACATA
1 GAACATA
2391392 TTACCGAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.17, G:0.14, T:0.11
Consensus pattern (14 bp):
GAACATAAACGAAC
Found at i:2393469 original size:16 final size:17
Alignment explanation
Indices: 2393443--2393477 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2393433 CAGATCAGTT
2393443 TTTTGTCTTAAAAATGA
1 TTTTGTCTTAAAAATGA
*
2393460 TTTT-TCTTAAAATTGA
1 TTTTGTCTTAAAAATGA
2393476 TT
1 TT
2393478 AAAATACGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (17 bp):
TTTTGTCTTAAAAATGA
Found at i:2396937 original size:41 final size:42
Alignment explanation
Indices: 2396836--2396937 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 42
2396826 CAAAGTTAGA
* * * * *
2396836 CCTTCGGGCCATCAATAAGTCTTTCGAGGATGATGCTTAAAT
1 CCTTCGGGCTATCAATAAGTCTTCCGAGCAAGATGCATAAAT
* * *
2396878 CCTTC-GGATCATCTATAAGTCTTCCGAGCAAGATG-ATAAGT
1 CCTTCGGGCT-ATCAATAAGTCTTCCGAGCAAGATGCATAAAT
*
2396919 CCTTCGGGCTATCCATAAG
1 CCTTCGGGCTATCAATAAG
2396938 ACCTTTGGGA
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
41 19 0.40
42 29 0.60
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (42 bp):
CCTTCGGGCTATCAATAAGTCTTCCGAGCAAGATGCATAAAT
Found at i:2397143 original size:42 final size:41
Alignment explanation
Indices: 2397091--2397177 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
2397081 GGGCCATCAG
* * * *
2397091 TAAGTTTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTA
1 TAAGTATTTCGAGCAAGATG-ATAAATCCTTCGAGTCATCCA
* *
2397133 TAAGTATTTCGAGCAAGATGATAAGTCCTTCGGGTCATCCA
1 TAAGTATTTCGAGCAAGATGATAAATCCTTCGAGTCATCCA
2397174 TAAG
1 TAAG
2397178 ACCTTTGGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 21 0.54
42 18 0.46
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (41 bp):
TAAGTATTTCGAGCAAGATGATAAATCCTTCGAGTCATCCA
Found at i:2397273 original size:240 final size:238
Alignment explanation
Indices: 2396837--2397793 Score: 1451
Period size: 240 Copynumber: 4.0 Consensus size: 238
2396827 AAAGTTAGAC
* * *
2396837 CTTCGGGCCATCAATAAGTCTTTCGAGGATGATGCTTAAATCCTTCG-GATCATCTATAAGTCTT
1 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAG-TCATCTATAAGTATT
*
2396901 CCGAGCAAGATGATAAGTCCTTCGGGCTATCCATAAGACCTTTGGGATA-ATGTTTTCACATGAT
65 TCGAGCAAGATGATAAGTCCTTCGGGC-ATCCATAAGACCTTTGGGA-AGATGTTTTCACATGAT
** *
2396965 TTTAAAAAAAAAATAAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTAAACAATT-AT
128 TTT-CGAAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTAAA-AATTGAT
2397029 TTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTA
191 TTTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTA
*
2397077 CTTCGGGCCATCAGTAAGTTTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTATAAGTATTT
1 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTATAAGTATTT
*
2397142 CGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAGACCTTTGGGCAAGATGTTTTCACATGGTT
66 CGAGCAAGATGATAAGTCCTTCGGG-CATCCATAAGACCTTTGGG-AAGATGTTTTCACATGATT
* * *
2397207 TTCGAAAAAAATGAGAAATCGATTTCCAAATTTTCTCATTTAAATATTTTTTAAAAATTGATTTT
129 TTCGAAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTAAAAATTGATTTT
*
2397272 TGAAAAGTAAGAAAATGATTTCTAAAGTTTCTTACTTAGTAAGTA
194 TGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTA
* * * * * *
2397317 GTTTGGGTCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTTGGGTCATCTATAAGTATTT
1 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTATAAGTATTT
* * *
2397382 CGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACTTTTGGGCAGGATGTTTTCACATGGTT
66 CGAGCAAGATGATAAGTCCTTCGGG-CATCCATAAGACCTTTGGG-AAGATGTTTTCACATGATT
* * * *
2397447 TTCGGAAAAAATGAGAAAACGATTTCCAAAGTTTCTCATTTAAATCTTTTCTGAAAATTGATTTT
129 TTCGAAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTAAAAATTGATTTT
2397512 TGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTA
194 TGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTA
* * *
2397557 CTTCAGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTC-AGGTTATCTATAAGTATT
1 CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGA-GTCATCTATAAGTATT
*
2397621 TCGAGCAAGATGATAAGTCTTTCGGGACATCCATAAGACCTTTTGGGAAGGATGTTTTCACAT-A
65 TCGAGCAAGATGATAAGTCCTTCGGG-CATCCATAAGACC-TTTGGGAA-GATGTTTTCACATGA
* * *
2397685 TTTTCG--AAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAATTGATT
127 TTTTCGAAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTAAAAATTGATT
2397748 TTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGT
192 TTTGAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGT
2397794 TGTCATAACC
Statistics
Matches: 663, Mismatches: 46, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
238 101 0.15
239 4 0.01
240 519 0.78
241 39 0.06
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (238 bp):
CTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTATAAGTATTT
CGAGCAAGATGATAAGTCCTTCGGGCATCCATAAGACCTTTGGGAAGATGTTTTCACATGATTTT
CGAAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATATTTTCTAAAAATTGATTTTTG
AAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAGTAAGTA
Found at i:2398533 original size:24 final size:24
Alignment explanation
Indices: 2398490--2398551 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
2398480 TGTATAAAAT
* * *
2398490 ACATTACTATATACAAACTAGAAG
1 ACATTAATATATATATACTAGAAG
*
2398514 ACATTAATATATATATACTATAAG
1 ACATTAATATATATATACTAGAAG
*
2398538 TCA-T-ATATATATAT
1 ACATTAATATATATAT
2398552 TCGAATATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 10 0.30
23 1 0.03
24 22 0.67
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.35
Consensus pattern (24 bp):
ACATTAATATATATATACTAGAAG
Found at i:2400643 original size:3 final size:3
Alignment explanation
Indices: 2400635--2400729 Score: 174
Period size: 3 Copynumber: 32.0 Consensus size: 3
2400625 ATTCTACCTA
*
2400635 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2400683 T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2400730 ATAAACAAAC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 87 0.98
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2400853 original size:23 final size:23
Alignment explanation
Indices: 2400821--2400872 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
2400811 GAAATACACA
* * *
2400821 AAACATGCCCCAACCTAAAGCCC
1 AAACAGGCCCAAACCTAAAACCC
*
2400844 AAACAGGCCCAAACCTAAAACCT
1 AAACAGGCCCAAACCTAAAACCC
2400867 AAACAG
1 AAACAG
2400873 AACTCGACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.37, G:0.10, T:0.08
Consensus pattern (23 bp):
AAACAGGCCCAAACCTAAAACCC
Found at i:2401861 original size:34 final size:30
Alignment explanation
Indices: 2401833--2401891 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
2401823 AATTTAAGGT
*
2401833 AAAATGGTTTTTGGACTTGAATTGAATTT-AC
1 AAAAT-GTATTTGGACTT-AATTGAATTTAAC
2401864 AAAATGTATTTGGACTTAATTGAATTTA
1 AAAATGTATTTGGACTTAATTGAATTTA
2401892 TTCAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.38
30 11 0.42
31 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (30 bp):
AAAATGTATTTGGACTTAATTGAATTTAAC
Found at i:2401899 original size:31 final size:31
Alignment explanation
Indices: 2401833--2401891 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
2401823 AATTTAAGGT
*
2401833 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAATGGTATTTGGACTTGAATTGAATTTAC
2401864 AAAAT-GTATTTGGACTT-AATTGAATTTA
1 AAAATGGTATTTGGACTTGAATTGAATTTA
2401892 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 11 0.41
31 5 0.19
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (31 bp):
AAAATGGTATTTGGACTTGAATTGAATTTAC
Found at i:2405917 original size:17 final size:17
Alignment explanation
Indices: 2405895--2405927 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2405885 AAAGGAAGGA
*
2405895 AAAATAATAAAAATAAG
1 AAAATAAAAAAAATAAG
2405912 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
2405928 AAAGCATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAAATAAG
Found at i:2405982 original size:21 final size:21
Alignment explanation
Indices: 2405956--2405996 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2405946 AAAGGGAAAA
2405956 AATAAAATAACAT-AAAAAAGT
1 AATAAAATAA-ATGAAAAAAGT
2405977 AATAAAATAAATGAAAAAAG
1 AATAAAATAAATGAAAAAAG
2405997 GAACCTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AATAAAATAAATGAAAAAAGT
Found at i:2407655 original size:106 final size:106
Alignment explanation
Indices: 2407470--2408804 Score: 2256
Period size: 106 Copynumber: 12.6 Consensus size: 106
2407460 CTCATTTGTT
* *
2407470 GTGAAGTTGAGCTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
*
2407535 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2407576 GTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
2407641 AATTAGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
2407682 GTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
2407747 AATTGGGAAGTTATTTTTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2407788 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
*
2407853 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
2407894 GTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
2407959 AATTGGGAAGTTATTTTTTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTT-GTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2408001 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
*
2408066 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
2408107 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
2408172 AATTGGGAAGTTATTTTTTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2408213 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* ** *
2408278 AATTGGGAAATTGTTAATTGACAACCAACGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
2408319 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* * *
2408384 AATTGGGAAATTGTTTGTTGACAACCAGCGATCCCTTCTTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2408425 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAACCTTCGCTGTGAAGTTGAAATTGGCTCTAA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
2408490 AATTGGGAAGTTGTTTTTTGACAACCAACGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2408531 GTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* **
2408596 AATTGGGAAATTGTTAATTGACAACCAGCGGTCCCTTCGTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
2408637 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
* *
2408702 AATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCTTC
66 AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
2408743 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTC
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
2408805 CCGAGCAAAA
Statistics
Matches: 1156, Mismatches: 72, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
106 1055 0.91
107 101 0.09
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
AATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
Found at i:2412584 original size:22 final size:21
Alignment explanation
Indices: 2412556--2412597 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
2412546 AAGGGAACAA
2412556 AATAAAATAACATAAAAAAAGT
1 AATAAAATAA-ATAAAAAAAGT
*
2412578 AATAAAATAAATGAAAAAAG
1 AATAAAATAAATAAAAAAAG
2412598 GAACCTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AATAAAATAAATAAAAAAAGT
Found at i:2420751 original size:13 final size:13
Alignment explanation
Indices: 2420733--2420763 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2420723 TTTTAAAAAA
2420733 TAAAAATATTTTT
1 TAAAAATATTTTT
2420746 TAAAAATATTTTT
1 TAAAAATATTTTT
2420759 TAAAA
1 TAAAA
2420764 TATGAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAAATATTTTT
Found at i:2420757 original size:12 final size:12
Alignment explanation
Indices: 2420733--2420766 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2420723 TTTTAAAAAA
2420733 TAAAAATATTTTT
1 TAAAAATA-TTTT
2420746 TAAAAATATTTT
1 TAAAAATATTTT
*
2420758 TTAAAATAT
1 TAAAAATAT
2420767 GAACATTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAAAATATTTT
Found at i:2424438 original size:87 final size:87
Alignment explanation
Indices: 2424341--2424518 Score: 356
Period size: 87 Copynumber: 2.0 Consensus size: 87
2424331 TATATTTTTA
2424341 AAATTTTATAGCGTTTGTCGAATACCATAATATATCATTAAAATGATATACTATAATGTAACACG
1 AAATTTTATAGCGTTTGTCGAATACCATAATATATCATTAAAATGATATACTATAATGTAACACG
2424406 AGTAAATTTATCTTTATTATGC
66 AGTAAATTTATCTTTATTATGC
2424428 AAATTTTATAGCGTTTGTCGAATACCATAATATATCATTAAAATGATATACTATAATGTAACACG
1 AAATTTTATAGCGTTTGTCGAATACCATAATATATCATTAAAATGATATACTATAATGTAACACG
2424493 AGTAAATTTATCTTTATTATGC
66 AGTAAATTTATCTTTATTATGC
2424515 AAAT
1 AAAT
2424519 ATTAAAAAAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (87 bp):
AAATTTTATAGCGTTTGTCGAATACCATAATATATCATTAAAATGATATACTATAATGTAACACG
AGTAAATTTATCTTTATTATGC
Found at i:2426536 original size:14 final size:14
Alignment explanation
Indices: 2426517--2426543 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2426507 AAAAATTAAA
2426517 ATAAATATGAAAAT
1 ATAAATATGAAAAT
2426531 ATAAATATGAAAA
1 ATAAATATGAAAA
2426544 AAATTATTTA
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:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATATGAAAAT
Found at i:2427128 original size:17 final size:16
Alignment explanation
Indices: 2427097--2427160 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
2427087 GTAGATGTGT
2427097 TATTTTTTTAT-TTTTC
1 TATTTTTTT-TGTTTTC
*
2427113 TGATTTTTTTTGTTTTG
1 T-ATTTTTTTTGTTTTC
*
2427130 TATTTTCTTTTGTTATTT
1 TATTTT-TTTTGTT-TTC
*
2427148 TCTTTTTTTTGTT
1 TATTTTTTTTGTT
2427161 AATTTGTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 7 0.17
17 27 0.66
18 7 0.17
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.80
Consensus pattern (16 bp):
TATTTTTTTTGTTTTC
Found at i:2427135 original size:12 final size:13
Alignment explanation
Indices: 2427120--2427153 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2427110 TTCTGATTTT
*
2427120 TTTTGTTTTG-TA
1 TTTTCTTTTGTTA
2427132 TTTTCTTTTGTTA
1 TTTTCTTTTGTTA
2427145 TTTTCTTTT
1 TTTTCTTTT
2427154 TTTTGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (13 bp):
TTTTCTTTTGTTA
Found at i:2427161 original size:17 final size:17
Alignment explanation
Indices: 2427115--2427161 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2427105 TATTTTTCTG
2427115 ATTTTTTTTGTT-TTGT
1 ATTTTTTTTGTTATTGT
*
2427131 ATTTTCTTTTGTTATTTT
1 ATTTT-TTTTGTTATTGT
*
2427149 CTTTTTTTTGTTA
1 ATTTTTTTTGTTA
2427162 ATTTGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 5 0.19
17 15 0.56
18 7 0.26
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.79
Consensus pattern (17 bp):
ATTTTTTTTGTTATTGT
Found at i:2428763 original size:32 final size:32
Alignment explanation
Indices: 2428727--2428839 Score: 156
Period size: 32 Copynumber: 3.6 Consensus size: 32
2428717 GTTCATATAT
2428727 CCCGAAGGACATAGGTAATCCTGTCCATATGC
1 CCCGAAGGACATAGGTAATCCTGTCCATATGC
* *
2428759 CCCGAAGGACATAGGTAATCATGTCCATATTC
1 CCCGAAGGACATAGGTAATCCTGTCCATATGC
* * *
2428791 CCCGAAGGACATAGGTAA-ACTATCCATATGT
1 CCCGAAGGACATAGGTAATCCTGTCCATATGC
* *
2428822 CTCGAAAGACATAGGTAA
1 CCCGAAGGACATAGGTAA
2428840 CCCTCGACTC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 24 0.33
32 48 0.67
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (32 bp):
CCCGAAGGACATAGGTAATCCTGTCCATATGC
Found at i:2428803 original size:64 final size:61
Alignment explanation
Indices: 2428685--2428839 Score: 179
Period size: 63 Copynumber: 2.5 Consensus size: 61
2428675 CCCGAAGGAC
** * *
2428685 CTATCCATATGTTCC-AAAGAACATAGGTAAATGTTCATATATCCCGAAGGACATAGGTAATC
1 CTATCCATATGCCCCGAAAG-ACATAGGTAAATGTCCATATATCCCGAAGGACATAGGTAA-A
* *
2428747 CTGTCCATATGCCCCGAAGGACATAGGTAATCATGTCCATAT-TCCCCGAAGGACATAGGTAAA
1 CTATCCATATGCCCCGAAAGACATAGGTAA--ATGTCCATATAT-CCCGAAGGACATAGGTAAA
* *
2428810 CTATCCATATGTCTCGAAAGACATAGGTAA
1 CTATCCATATGCCCCGAAAGACATAGGTAA
2428840 CCCTCGACTC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
62 22 0.28
63 30 0.38
64 27 0.34
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (61 bp):
CTATCCATATGCCCCGAAAGACATAGGTAAATGTCCATATATCCCGAAGGACATAGGTAAA
Found at i:2429394 original size:18 final size:18
Alignment explanation
Indices: 2429329--2429398 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
2429319 ATAACATATC
*
2429329 ATCATATCATTACATACAA
1 ATCATATCATT-CACACAA
* * *
2429348 GAACATATCA-ACACATATA
1 -ATCATATCATTCACACA-A
*
2429367 ATCAT-GCATTCACACAA
1 ATCATATCATTCACACAA
2429384 ATCATATCATTCACA
1 ATCATATCATTCACA
2429399 TACTTATAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
17 8 0.21
18 21 0.55
19 1 0.03
20 8 0.21
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (18 bp):
ATCATATCATTCACACAA
Found at i:2431459 original size:13 final size:14
Alignment explanation
Indices: 2431441--2431469 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2431431 ACTATACTAC
2431441 AATATATA-CATAT
1 AATATATAGCATAT
2431454 AATATATAGCATAT
1 AATATATAGCATAT
2431468 AA
1 AA
2431470 AATTTATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (14 bp):
AATATATAGCATAT
Found at i:2433301 original size:48 final size:48
Alignment explanation
Indices: 2433233--2433713 Score: 535
Period size: 48 Copynumber: 10.3 Consensus size: 48
2433223 CCGCTGTCAC
* * * * ** *
2433233 AGGGAATACCAAACCTTGGAAAAAAGAGATATGTTCCGCTT-CTTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTAC-TCTGA
* *
2433281 AGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * *
2433328 AGGGAATGTCAGATC-T---G--G-TAGACTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
*
2433369 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * **
2433417 AGGAAATATCAGATCTTGGAGAAGATAGATTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* *
2433465 AGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * **
2433513 AGGAAATATCAGATCTTGGAGAAGATAGATTTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* *
2433561 AGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
* * * * *
2433609 AGGGAATATCAGATC-T---G--G-CAGACTTATTCCACTTACTCTAA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
2433650 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
1 AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
*
2433698 AGGGAATATCAGATCT
1 AGGGAATATCAAATCT
2433714 GGGGGAGTTG
Statistics
Matches: 362, Mismatches: 55, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
41 66 0.18
42 3 0.01
44 1 0.00
45 2 0.01
46 1 0.00
47 38 0.10
48 251 0.69
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (48 bp):
AGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGA
Found at i:2433480 original size:96 final size:90
Alignment explanation
Indices: 2433259--2433713 Score: 621
Period size: 96 Copynumber: 5.0 Consensus size: 90
2433249 TGGAAAAAAG
* * * * *
2433259 AGATATGTTCCGCTT-CTTCTGAAGGGAATATCAAATCATGGA-AAAAGAGACCTGTTCCACTTA
1 AGATTTGTTCCACTTAC-TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTA
*
2433322 CTCTGAAGGGAATGTCAGATC-TGGT
65 CTCTGAAGGGAATATCAGATCTTGGT
*
2433347 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
*
2433412 TCTGAAGGAAATATCAGATCTTGGAGAAGAT
66 TCTGAAGGGAATATCAGATCTT---G--G-T
*
2433443 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
*
2433508 TCTGAAGGAAATATCAGATCTTGGAGAAGAT
66 TCTGAAGGGAATATCAGATCTT---G--G-T
*
2433539 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTGTTCCGCTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
*
2433604 TCTGAAGGGAATATCAGATC-TGGC
66 TCTGAAGGGAATATCAGATCTTGGT
* * * *
2433628 AGACTTATTCCACTTACTCTAAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCACTTAC
1 AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
2433693 TCTGAAGGGAATATCAGATCT
66 TCTGAAGGGAATATCAGATCT
2433714 GGGGGAGTTG
Statistics
Matches: 340, Mismatches: 17, Indels: 18
0.91 0.05 0.05
Matches are distributed among these distances:
88 36 0.11
89 119 0.35
90 2 0.01
92 1 0.00
93 1 0.00
95 2 0.01
96 179 0.53
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (90 bp):
AGATTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
TCTGAAGGGAATATCAGATCTTGGT
Found at i:2434878 original size:17 final size:17
Alignment explanation
Indices: 2434844--2434877 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2434834 TTGAACCCTC
*
2434844 CTTTTATTTTTTCTTTT
1 CTTTTTTTTTTTCTTTT
2434861 CTTTTTTTTCTTTCTTT
1 CTTTTTTTT-TTTCTTT
2434878 CATTTTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTTTTTTTTCTTTT
Found at i:2434891 original size:23 final size:23
Alignment explanation
Indices: 2434864--2434907 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2434854 TTCTTTTCTT
2434864 TTTTTTCT-TTCTTTCATTTTTCA
1 TTTTTTCTCTT-TTTCATTTTTCA
*
2434887 TTTTTTGTCTTTTTCATTTTT
1 TTTTTTCTCTTTTTCATTTTT
2434908 TTTTCAAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTTTCTCTTTTTCATTTTTCA
Found at i:2450871 original size:2 final size:2
Alignment explanation
Indices: 2450864--2450894 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2450854 ATTAGCTTAA
2450864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2450895 ATGACTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2452007 original size:16 final size:17
Alignment explanation
Indices: 2451986--2452020 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2451976 GCCTTCGGGC
2451986 TTTATAA-ATAATAATA
1 TTTATAATATAATAATA
*
2452002 TTTATAATATAATATTA
1 TTTATAATATAATAATA
2452019 TT
1 TT
2452021 ATTTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTATAATATAATAATA
Found at i:2452674 original size:20 final size:20
Alignment explanation
Indices: 2452637--2452735 Score: 117
Period size: 20 Copynumber: 5.0 Consensus size: 20
2452627 CTAATAGATA
* * *
2452637 ACCCAAAGGATTTACAAATT
1 ACCCGAAGGCTTTACAAATG
* *
2452657 ACTCGAAGGCTTTTCAAATG
1 ACCCGAAGGCTTTACAAATG
*
2452677 ACTCGAAGGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATG
*
2452697 ACCCGAATGCTTTACAAATG
1 ACCCGAAGGCTTTACAAATG
* *
2452717 ACCCAAAGGCTTTAAAAAT
1 ACCCGAAGGCTTTACAAAT
2452736 TCATGATAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (20 bp):
ACCCGAAGGCTTTACAAATG
Found at i:2454542 original size:42 final size:42
Alignment explanation
Indices: 2454464--2454545 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
2454454 AATACTCGGT
* * *
2454464 TGGATCATTTTTGTTTGAAATGGACCTTTAAAATGCCCCACA
1 TGGATCATTTCTGTCTGAAATGGACCTTCAAAATGCCCCACA
* * **
2454506 TGGATTATTTCTGTCTGAAATGGGCCTTCAGCATGCCCCA
1 TGGATCATTTCTGTCTGAAATGGACCTTCAAAATGCCCCA
2454546 ACATTCCAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (42 bp):
TGGATCATTTCTGTCTGAAATGGACCTTCAAAATGCCCCACA
Found at i:2459984 original size:15 final size:15
Alignment explanation
Indices: 2459951--2459988 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2459941 TTATATTAAT
2459951 TTAAAAAATACTATAA
1 TTAAAAAATAC-ATAA
2459967 TTAATAAAATAC-TAA
1 TTAA-AAAATACATAA
2459982 TTAAAAA
1 TTAAAAA
2459989 TATTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 7 0.33
16 4 0.19
17 7 0.33
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TTAAAAAATACATAA
Found at i:2471735 original size:8 final size:8
Alignment explanation
Indices: 2471724--2471772 Score: 89
Period size: 8 Copynumber: 6.1 Consensus size: 8
2471714 TCAAAATTTC
*
2471724 AGAATTGA
1 AGAAATGA
2471732 AGAAATGA
1 AGAAATGA
2471740 AGAAATGA
1 AGAAATGA
2471748 AGAAATGA
1 AGAAATGA
2471756 AGAAATGA
1 AGAAATGA
2471764 AGAAATGA
1 AGAAATGA
2471772 A
1 A
2471773 AAGGCAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.14
Consensus pattern (8 bp):
AGAAATGA
Found at i:2475270 original size:16 final size:17
Alignment explanation
Indices: 2475231--2475271 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2475221 GTTTTTTTTA
2475231 ATTTTA-ATTTTAAATT
1 ATTTTATATTTTAAATT
*
2475247 ATTATATATTTT-AATT
1 ATTTTATATTTTAAATT
*
2475263 TTTTTATAT
1 ATTTTATAT
2475272 ATGTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTATATTTTAAATT
Found at i:2475578 original size:17 final size:17
Alignment explanation
Indices: 2475548--2475591 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
2475538 TTCTAAATTC
2475548 TTATTATTTTAGA-TTTA
1 TTATT-TTTTAGATTTTA
2475565 TTATTTTTTAAGATTTTA
1 TTATTTTTT-AGATTTTA
*
2475583 ATATTTTTT
1 TTATTTTTT
2475592 TCAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 8 0.33
18 12 0.50
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
TTATTTTTTAGATTTTA
Found at i:2477072 original size:36 final size:35
Alignment explanation
Indices: 2477027--2477097 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
2477017 AACATCTACC
2477027 AAACTTTACCAAACTTTAAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTAAAAAACATTTTTCAAAG
*
2477062 AAACATTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAAC-TTTACCAAACTTTAAAAAACATTTTTCAAAG
2477098 TTGGTTGCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.31
Consensus pattern (35 bp):
AAACTTTACCAAACTTTAAAAAACATTTTTCAAAG
Found at i:2477096 original size:21 final size:21
Alignment explanation
Indices: 2477036--2477096 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
2477026 CAAACTTTAC
*
2477036 CAAACTTTAAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
**
2477057 CAAA----G--AAACATTTAC
1 CAAACTTTGAAAAACATTTTT
2477072 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
2477093 CAAA
1 CAAA
2477097 GTTGGTTGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 12
0.63 0.11 0.26
Matches are distributed among these distances:
15 12 0.41
19 1 0.03
21 16 0.55
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (21 bp):
CAAACTTTGAAAAACATTTTT
Found at i:2481698 original size:34 final size:34
Alignment explanation
Indices: 2481619--2481734 Score: 160
Period size: 34 Copynumber: 3.4 Consensus size: 34
2481609 TCAAACTTTA
* ** ** *
2481619 CCAAACTTTGAAAAATATTTTTCAAAAAAATATTTA
1 CCAAACTTTGAAAAACATTTTTC--AAAGTTGGTTG
2481655 CCAAACTTTGAAAAACATTTTTCAAAGTTGGTTG
1 CCAAACTTTGAAAAACATTTTTCAAAGTTGGTTG
2481689 CCAAACTTTGAAAAACATTTTTCAAAGTTGGTTG
1 CCAAACTTTGAAAAACATTTTTCAAAGTTGGTTG
2481723 CCAAACTTTGAA
1 CCAAACTTTGAA
2481735 CTAACTTTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
34 52 0.70
36 22 0.30
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (34 bp):
CCAAACTTTGAAAAACATTTTTCAAAGTTGGTTG
Found at i:2485051 original size:26 final size:26
Alignment explanation
Indices: 2485015--2485067 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2485005 CCACCATCCA
2485015 TCATGGTTTTCAGAGAGTCCTCTGGT
1 TCATGGTTTTCAGAGAGTCCTCTGGT
2485041 TCATGGTTTTCAGAGAGTCCTCTGGT
1 TCATGGTTTTCAGAGAGTCCTCTGGT
2485067 T
1 T
2485068 TACAACCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.40
Consensus pattern (26 bp):
TCATGGTTTTCAGAGAGTCCTCTGGT
Done.