Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 158 of 214
Found at i:46870861 original size:14 final size:14
Alignment explanation
Indices: 46870842--46870875 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46870832 TAGAGTAAAT
46870842 AATTTAACTACTTA
1 AATTTAACTACTTA
*
46870856 AATTTATCTACTTA
1 AATTTAACTACTTA
*
46870870 ATTTTA
1 AATTTA
46870876 GACTTTTGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTAACTACTTA
Found at i:46883000 original size:25 final size:25
Alignment explanation
Indices: 46882967--46883025 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
46882957 AAGATAATAG
46882967 AAAAAAAATTAAATTACTCAAAACA
1 AAAAAAAATTAAATTACTCAAAACA
46882992 AAAAAAAATTAAATTACTCAAAACA
1 AAAAAAAATTAAATTACTCAAAACA
46883017 AAAAAAAAT
1 AAAAAAAAT
46883026 ATGAGGACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (25 bp):
AAAAAAAATTAAATTACTCAAAACA
Found at i:46884234 original size:3 final size:3
Alignment explanation
Indices: 46884226--46884321 Score: 183
Period size: 3 Copynumber: 32.0 Consensus size: 3
46884216 ATTTTATTTA
46884226 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
46884274 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46884322 TCATTTTAAC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46884766 original size:16 final size:16
Alignment explanation
Indices: 46884745--46884777 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46884735 TAAGCCATTG
46884745 ATGTGAATAATGTGCC
1 ATGTGAATAATGTGCC
46884761 ATGTGAATAATGTGCC
1 ATGTGAATAATGTGCC
46884777 A
1 A
46884778 AAGTGTGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (16 bp):
ATGTGAATAATGTGCC
Found at i:46885892 original size:14 final size:14
Alignment explanation
Indices: 46885873--46885900 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46885863 AGTTTCAGTC
46885873 GGCCCAGAATACAA
1 GGCCCAGAATACAA
46885887 GGCCCAGAATACAA
1 GGCCCAGAATACAA
46885901 AATCAGTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.21, T:0.07
Consensus pattern (14 bp):
GGCCCAGAATACAA
Found at i:46887148 original size:22 final size:21
Alignment explanation
Indices: 46887106--46887152 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
46887096 TTATTAATTA
* *
46887106 ATTTTCATTTTGTATTTTTTT
1 ATTTTCATTTTGAATTATTTT
46887127 CATTTTCATATTT-AATTATTTT
1 -ATTTTCAT-TTTGAATTATTTT
46887149 ATTT
1 ATTT
46887153 AAATCTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
22 15 0.68
23 3 0.14
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTCATTTTGAATTATTTT
Found at i:46887236 original size:21 final size:21
Alignment explanation
Indices: 46887211--46887259 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
46887201 CATATTTATA
46887211 TTTTAATGTAATGTAATCATT
1 TTTTAATGTAATGTAATCATT
* * *
46887232 TTTT-ATTTTATGTAATTATT
1 TTTTAATGTAATGTAATCATT
46887252 TTTATAAT
1 TTT-TAAT
46887260 ATATATATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.70
21 5 0.22
22 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (21 bp):
TTTTAATGTAATGTAATCATT
Found at i:46887306 original size:18 final size:17
Alignment explanation
Indices: 46887254--46887313 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
46887244 TAATTATTTT
46887254 TATA-ATATATA-TATG
1 TATATATATATATTATG
* *
46887269 TATATATATTTATTCTTG
1 TATATATATATATT-ATG
46887287 TATATATATATATGTATG
1 TATATATATATAT-TATG
*
46887305 TATACATAT
1 TATATATAT
46887314 TAATATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.11
16 6 0.17
17 1 0.03
18 24 0.67
19 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (17 bp):
TATATATATATATTATG
Found at i:46890960 original size:46 final size:46
Alignment explanation
Indices: 46890861--46891150 Score: 390
Period size: 46 Copynumber: 6.6 Consensus size: 46
46890851 TACGTATGAT
*
46890861 CACTTATCAC-TTGTC-CTTAATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46890904 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
46890950 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
46890996 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
46891042 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A----A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
46891078 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
46891124 CACTTATCACTTTATCTCTTAATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46891151 AGTACTCAAA
Statistics
Matches: 223, Mismatches: 11, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
36 29 0.13
37 1 0.00
38 3 0.01
40 1 0.00
41 2 0.01
42 1 0.00
43 10 0.04
44 7 0.03
45 20 0.09
46 149 0.67
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:46891090 original size:82 final size:82
Alignment explanation
Indices: 46890996--46891150 Score: 265
Period size: 82 Copynumber: 1.9 Consensus size: 82
46890986 CTGAGGCTAC
*
46890996 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
*
46891061 TGATCAGATAAGTATAA
66 TAATCAGATAAGTATAA
* * *
46891078 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTGCCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
46891143 TAATCAGA
66 TAATCAGA
46891151 AGTACTCAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TAATCAGATAAGTATAA
Found at i:46903183 original size:84 final size:82
Alignment explanation
Indices: 46903073--46903483 Score: 251
Period size: 84 Copynumber: 4.8 Consensus size: 82
46903063 GAGCCGATAA
* ** *
46903073 TCTTATCCCCCT-AAGGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAACC-AAGATCTTATCTCTCTGAAGTTGC
46903137 AGAGAGTAAATCGTATCTAG
64 AGAGAGTAAATCG-ATCTAG
* * *
46903157 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAG-TCTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCAAGATCTTATCTCT-CTGAAGTTG
* * *
46903220 TAGTGAGGCAGATTAAAGCCGA--TAA
63 CA--GA-G-AG--TAAA-TCGATCTAG
* * * * * *
46903245 TCCTATCTCTCTGAGGTTGCAGTGAAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-AGATCTTATCTCTCTGAAGTTGCA
* *
46903310 GAAAGTAGATCGCATCTAG
65 GAGAGTAAATCG-ATCTAG
* * *
46903329 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATCAAG-TCTTATC-CTCCTGACGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCAAGATCTTATCTCT-CTGAAGTTG
* * * * * *
46903392 CAGTGAGGCAGACTGAAGATGGCAAA
63 CAGAGA-GTA-AAT--CGAT--CTAG
* * * * * *
46903418 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAA-GATCTTATCTCTCTGAAGTTGCA
46903483 G
65 G
46903484 TGGAGCGGAT
Statistics
Matches: 251, Mismatches: 47, Indels: 53
0.72 0.13 0.15
Matches are distributed among these distances:
81 2 0.01
82 4 0.02
83 4 0.02
84 96 0.38
85 8 0.03
86 17 0.07
87 9 0.04
88 50 0.20
89 53 0.21
90 6 0.02
91 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCAAGATCTTATCTCTCTGAAGTTGCAG
AGAGTAAATCGATCTAG
Found at i:46903264 original size:172 final size:172
Alignment explanation
Indices: 46903038--46903453 Score: 552
Period size: 172 Copynumber: 2.4 Consensus size: 172
46903028 ATCTTATATC
* * * **
46903038 CCTGAAGTTGCAGTG-GAGCAGATTAGAGCCGATAATCTTATCCCCCTAAGGTTGCAGTGGAGTG
1 CCTGAAGTTGCAGTGAG-GCAGATTAAAGCCGATAATCCTATCCCCCTAAGGTTGCAGTGAAGCA
** * * *
46903102 GATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGTAAATCGTATCTAGTCTTATCTCC
65 GATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAAAGTAAATCGCATCTAGTCTTATCTCC
46903167 CTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCT
130 CTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCT
* * * *
46903210 CCTGAAGTTGTAGTGAGGCAGATTAAAGCCGATAATCCTATCTCTCTGAGGTTGCAGTGAAGCAG
1 CCTGAAGTTGCAGTGAGGCAGATTAAAGCCGATAATCCTATCCCCCTAAGGTTGCAGTGAAGCAG
* *
46903275 ATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAAAGTAGATCGCATCTAGTCTTATCTCCC
66 ATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAAAGTAAATCGCATCTAGTCTTATCTCCC
* *
46903340 TGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCT
131 TGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCT
* * * * *
46903382 CCTGACGTTGCAGTGAGGCAGACTGAAGATGGC-A-AATCTTATCTCCCTGAA-GTTGCAGTGAA
1 CCTGAAGTTGCAGTGAGGCAGA-TTAA-A-GCCGATAATCCTATCCCCCT-AAGGTTGCAGTGAA
46903444 GCAGATTAAA
62 GCAGATTAAA
46903454 GCCAATAATC
Statistics
Matches: 214, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
172 172 0.80
173 37 0.17
174 3 0.01
175 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (172 bp):
CCTGAAGTTGCAGTGAGGCAGATTAAAGCCGATAATCCTATCCCCCTAAGGTTGCAGTGAAGCAG
ATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAAAGTAAATCGCATCTAGTCTTATCTCCC
TGAAGTTGCAGTGGAGCAAACTAAGTAAGCAAGTCTTATCCT
Found at i:46903481 original size:89 final size:87
Alignment explanation
Indices: 46902852--46903762 Score: 422
Period size: 89 Copynumber: 10.5 Consensus size: 87
46902842 TCGGTGGCCA
* * * * ** *
46902852 ATAATCCTATCACCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTAAATCTTATCTCTCTGAAGT
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGCAAATCTTATCTCCCTGAAGT
* * *
46902917 TGCAGAG-AGTAG-TT--CG-C
66 TGCAGTGAAGCAGATTAAAGCC
* * *
46902934 ATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAA--GCAAGTCTTATC-CTCCT
1 A--TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCGCAAATCTTATCTC-CCT
* * * *
46902996 GAAGTTGCAGTGAGGCAGGCTAAAGATGGC
61 GAAGTTGCAGTGAAGCA-GATTAA-A-GCC
* * * *
46903026 A-AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCG-ATAATCTTATCCCCCT-AAG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGCA-AATCTTATCTCCCTGAA-
* ** *
46903088 GTTGCAGTGGAGTGGATTAAAACC
64 GTTGCAGTGAAGCAGATTAAAGCC
* * * * *
46903112 TTAGATCTTATCTCTCTGAAGTTGCA---GAG-AG--T-AAATCGTATCTAGTCTTATCTCCCTG
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCG---CAAATCTTATCTCCCTG
* * *
46903170 AAGTTGCAGTGGAGCAAACTAAGTAAG-C
62 AAGTTGCAGTGAAGCAGA-TTA--AAGCC
* * * * *
46903198 A-AGTCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGATTAAAGCCG-ATAATCCTATCTCTCTGA
1 ATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAACCGCA-AATCTTATCTCCCTGA
* **
46903259 GGTTGCAGTGAAGCAGATTAAAATC
63 AGTTGCAGTGAAGCAGATTAAAGCC
* * * ** * ** ** * *
46903284 ACAGATCTTATCTCTCTGAAGTTACAG-AAAGTAGA-T--CGCATCTAGTCTTATCTCCCTGAAG
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGCAAATCTTATCTCCCTGAAG
* * **
46903345 TTGCAGTGGAGCAGACT-AAGTA
65 TTGCAGTGAAGCAGATTAAAGCC
* * * **
46903367 ATCAAGTCTTATC-CTCCTGACGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCT
1 AT-AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAACCGCAAATCTTATCTCCCT
46903430 GAAGTTGCAGTGAAGCAGATTAAAGCC
61 GAAGTTGCAGTGAAGCAGATTAAAGCC
* * * * * * *
46903457 AATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
1 -ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGCAAATCTTATCTCCCTGAAG
* * * *
46903522 TTGCAGT-AGAGTAGATCACA-TC
65 TTGCAGTGA-AGCAGATTAAAGCC
*** * * *
46903544 -GGGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAGTAA--GCAAGTCTTATC-CTCCTGA
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCGCAAATCTTATCTC-CCTGA
* * *
46903605 AGTTGCAGTGAGGCAGACTAAAGATGGC
63 AGTTGCAGTGAAGCAGA-TTAA-A-GCC
* * *
46903633 A-AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAACCG-ATAATCTTATCTCCTTGAAG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGCA-AATCTTATCTCCCTGAAG
46903696 TTGCAGTGAAGCAGATTAAAGCC
65 TTGCAGTGAAGCAGATTAAAGCC
* * * * *
46903719 GATAATCCTATCTCCCTGAAGTTGTAGTGAAGCGGGTTAAAACC
1 -ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
46903763 TTAGATCTTA
Statistics
Matches: 611, Mismatches: 146, Indels: 138
0.68 0.16 0.15
Matches are distributed among these distances:
81 3 0.00
82 2 0.00
83 8 0.01
84 149 0.24
85 71 0.12
86 15 0.02
87 23 0.04
88 148 0.24
89 172 0.28
90 11 0.02
91 7 0.01
92 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGCAAATCTTATCTCCCTGAAGT
TGCAGTGAAGCAGATTAAAGCC
Found at i:46903579 original size:174 final size:174
Alignment explanation
Indices: 46903372--46903702 Score: 392
Period size: 174 Copynumber: 1.9 Consensus size: 174
46903362 AAGTAATCAA
** *
46903372 GTCTTATCCTCCTGACGTTGCAGTGAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCCTGAAGT
1 GTCTTATCCTCCTGAAATTGCAGTGAGGCAGACT-AAGTA-AGCAAATCTTATCCT-CCTGAAGT
* * *
46903435 TGCAGTGAAGCAGA-TTAA-A-GCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAA
63 TGCAGTGAAGCAGACTAAAGATGCC-A-AATCCTATCTCCCTAAAGTTGCAGTGGAACAGATTAA
46903497 AACC-ACAGATCTTATCT-CTCTAAAGTTGCAGTAGAGTAGATCACATCGG
126 AACCGACA-ATCTTATCTCCT-TAAAGTTGCAGTAGAGTAGATCACATCGG
*
46903546 GTCTTAT-CTCCCTGAAATTGCAGTG-GAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
1 GTCTTATCCT-CCTGAAATTGCAGTGAG-GCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTT
* * * * *
46903609 GCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAAC
64 GCAGTGAAGCAGACTAAAGATGCCAAATCCTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAAC
* *
46903674 CGATAATCTTATCTCCTTGAAGTTGCAGT
129 CGACAATCTTATCTCCTTAAAGTTGCAGT
46903703 GAAGCAGATT
Statistics
Matches: 134, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
173 37 0.28
174 89 0.66
175 6 0.04
176 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (174 bp):
GTCTTATCCTCCTGAAATTGCAGTGAGGCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTTGC
AGTGAAGCAGACTAAAGATGCCAAATCCTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCG
ACAATCTTATCTCCTTAAAGTTGCAGTAGAGTAGATCACATCGG
Found at i:46903618 original size:218 final size:216
Alignment explanation
Indices: 46903155--46903715 Score: 790
Period size: 218 Copynumber: 2.6 Consensus size: 216
46903145 AATCGTATCT
* * *
46903155 AGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAAACTAAG-TAAGCAAGTCTTATC-CTCCTGAA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTAAGAT-GGCAAATCTTATCTC-CCTGAA
* * * *
46903216 GTTGTAGTGAGGCAGATTAAAGCCGATAATCCTATCTCTCTGAGGTTGCAGTGAAGCAGATTAAA
62 GTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
* * * * *
46903281 ATCACAGATCTTATCTCTCTGAAGTTACAGAAAGTAGATCGCATCTAGTCTTATCTCCCTGAAGT
127 ACCACAGATCTTATCTCTCTAAAGTTACAGAAAGTAGATCACATCGAGTCTTATCTCCCTGAAAT
*
46903346 TGCAGTGGAGCAGACTAAGTAATCA
192 TGCAGTGGAGCAGACTAAGTAAGCA
*
46903371 AGTCTTATCCTCCTGACGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT-AAGATGGCAAATCTTATCTCCCTGAAGTT
* * * *
46903436 GCAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACC
65 GCAGTGAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACC
* * *
46903501 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCACATCGGGTCTTATCTCCCTGAAATTG
130 ACAGATCTTATCTCTCTAAAGTTACAG-AAAGTAGATCACATCGAGTCTTATCTCCCTGAAATTG
46903566 CAGTGGAGCAGACTAAGTAAGCA
194 CAGTGGAGCAGACTAAGTAAGCA
*
46903589 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCTTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT-AAGATGGCAAATCTTATCTCCCTGAAGTT
* * *
46903654 GCAGTGGAA-CAGATTAAAACCGATAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAA
65 GCAGT-GAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
46903716 GCCGATAATC
Statistics
Matches: 307, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
216 28 0.09
217 107 0.35
218 169 0.55
219 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (216 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAGATGGCAAATCTTATCTCCCTGAAGTTG
CAGTGAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCA
CAGATCTTATCTCTCTAAAGTTACAGAAAGTAGATCACATCGAGTCTTATCTCCCTGAAATTGCA
GTGGAGCAGACTAAGTAAGCA
Found at i:46903711 original size:44 final size:43
Alignment explanation
Indices: 46902854--46903762 Score: 408
Period size: 44 Copynumber: 21.0 Consensus size: 43
46902844 GGTGGCCAAT
* * * * * *
46902854 AATCCTATCACCCTGAGGTTGCAGTGGAGCGGATTAAAACCTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACC-GA
* * * *** * *
46902898 AATCTTATCTCTCTGAAGTTGCAGAG-AGTAG-TTCGCATC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * * *
46902938 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAA--AACCGA
* * ** **
46902982 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGGCTAAAGATGGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGAAGCAGATTAAA-ACCG-A
* * * *
46903027 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * ** *
46903070 TAATCTTATCCCCCT-AAGGTTGCAGTGGAGTGGATTAAAACCTTA
1 -AATCTTATCTCCCTGAA-GTTGCAGTGAAGCAGATTAAAACC-GA
* * * * * *** * *
46903115 GATCTTATCTCTCTGAAGTTGCAGAG-AGTA-AATCGTATC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * * * *
46903155 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAA--AACCGA
* * * *
46903199 AGTCTTATC-CTCCTGAAGTTGTAGTGAGGCAGATTAAAGCCGA
1 AATCTTATCTC-CCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * *
46903242 TAATCCTATCTCTCTGAGGTTGCAGTGAAGCAGATTAAAATCAC-A
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAA-C-CGA
* * * * * *** * *
46903287 GATCTTATCTCTCTGAAGTTACAG-AAAGTAGA-TCGCATC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * * *
46903327 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAATC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAA--AACCGA
* * * * * **
46903371 AGTCTTATC-CTCCTGACGTTGCAGTGAGGCAGACTGAAGATGGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGAAGCAGA-TTAAAACCG-A
* *
46903416 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * * *
46903459 TAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACC-A
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * * * * *
46903502 CAGATCTTATCTCTCTAAAGTTGCAGT-AGAGTAGA-TCACATCG-
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAACCGA
** * * * *
46903545 GGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAGTAAGC-A
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAA--AACCGA
* * * **
46903589 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGAAGCAGATTAAA-ACCG-A
*
46903634 AATCTTATCTCCTTGAAGTTGCAGTGGAA-CAGATTAAAACCGA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAACCGA
* *
46903677 TAATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCCGA
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
* * * *
46903721 TAATCCTATCTCCCTGAAGTTGTAGTGAAGCGGGTTAAAACC
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACC
46903763 TTAGATCTTA
Statistics
Matches: 655, Mismatches: 161, Indels: 98
0.72 0.18 0.11
Matches are distributed among these distances:
40 66 0.10
41 37 0.06
42 20 0.03
43 35 0.05
44 394 0.60
45 97 0.15
46 6 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGA
Found at i:46903812 original size:24 final size:24
Alignment explanation
Indices: 46903785--46903830 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
46903775 TCTCTAGAGT
46903785 TGCAGAGAGCAGATCGCATCTAAA
1 TGCAGAGAGCAGATCGCATCTAAA
*
46903809 TGCAGAGAGCAGATTGCATCTA
1 TGCAGAGAGCAGATCGCATCTA
46903831 GTCTTATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
TGCAGAGAGCAGATCGCATCTAAA
Found at i:46905399 original size:4 final size:4
Alignment explanation
Indices: 46905390--46905420 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
46905380 AAATTAGTCT
46905390 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
46905421 TCATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:46905446 original size:8 final size:8
Alignment explanation
Indices: 46905389--46905449 Score: 52
Period size: 8 Copynumber: 7.2 Consensus size: 8
46905379 CAAATTAGTC
46905389 TTTTATTT
1 TTTTATTT
*
46905397 ATTTATTT
1 TTTTATTT
*
46905405 ATTTATTT
1 TTTTATTT
*
46905413 ATTTATTT
1 TTTTATTT
46905421 TCATTT-TTAT
1 T--TTTATT-T
46905431 TTTGTATTT
1 TTT-TATTT
46905440 TTTTATTT
1 TTTTATTT
46905448 TT
1 TT
46905450 CATATTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
8 32 0.70
9 7 0.15
10 7 0.15
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:46905465 original size:22 final size:21
Alignment explanation
Indices: 46905390--46905469 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
46905380 AAATTAGTCT
*
46905390 TTTATTTA-TTTATTTATT-TA
1 TTTAATTATTTTATTT-TTATA
*
46905410 TTTATTTATTTTCATTTTTAT-
1 TTTAATTATTTT-ATTTTTATA
* *
46905431 TTTGTATTTTTTTATTTTTCATA
1 TTT-AATTATTTTATTTTT-ATA
46905454 TTTAATTATTTTATTT
1 TTTAATTATTTTATTT
46905470 AAATTTATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 8 0.16
21 14 0.29
22 24 0.49
23 3 0.06
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (21 bp):
TTTAATTATTTTATTTTTATA
Found at i:46905491 original size:44 final size:44
Alignment explanation
Indices: 46905408--46905493 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
46905398 TTTATTTATT
* ** * * *
46905408 TATTTATTTATTTTCATTTTTATTTTGTATTTTTTTATTTTTCA
1 TATTTAATTATTTTCATTTAAATTTTGTATATATGTATTTTTCA
46905452 TATTTAATTATTTT-ATTTAAATTTATGTATATATGTATTTTT
1 TATTTAATTATTTTCATTTAAATTT-TGTATATATGTATTTTT
46905494 TTGTACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 8 0.23
44 27 0.77
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.70
Consensus pattern (44 bp):
TATTTAATTATTTTCATTTAAATTTTGTATATATGTATTTTTCA
Found at i:46906640 original size:19 final size:18
Alignment explanation
Indices: 46906612--46906647 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46906602 CGGAAAATAA
46906612 TTTCTCGAAAATGATTTAC
1 TTTCTCG-AAATGATTTAC
*
46906631 TTTCTGGAAATGATTTA
1 TTTCTCGAAATGATTTA
46906648 TTTTTCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (18 bp):
TTTCTCGAAATGATTTAC
Found at i:46907437 original size:40 final size:38
Alignment explanation
Indices: 46907301--46907437 Score: 112
Period size: 40 Copynumber: 3.5 Consensus size: 38
46907291 GCGTTTGGAC
* * * *
46907301 AAAAAACGCCGGTAAAAATTAAGCATTAGCGGCGCTTTCT
1 AAAAAACGCC-GCAAAAAATGAGCATTAGCGGCG-TTTTT
** * * * * *
46907341 GGAAATCGCCACTAAAGATTGAGCATTAGTGGCGTTTTT
1 AAAAAACGCCGC-AAAAAATGAGCATTAGCGGCGTTTTT
* *
46907380 AAAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTTT
1 AAAAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTT
46907418 CAAAAAAACGCCGCAAAAAA
1 --AAAAAACGCCGCAAAAAA
46907438 CCTTAGCCCA
Statistics
Matches: 74, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
38 22 0.30
39 11 0.15
40 41 0.55
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (38 bp):
AAAAAACGCCGCAAAAAATGAGCATTAGCGGCGTTTTT
Found at i:46907538 original size:41 final size:41
Alignment explanation
Indices: 46907473--46907588 Score: 171
Period size: 41 Copynumber: 2.8 Consensus size: 41
46907463 AACATTTCGT
* **
46907473 GGCTTTAACGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG-CTAGG
* *
46907514 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTAGG
46907555 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
46907589 AAACATTTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTAGG
Found at i:46907830 original size:22 final size:22
Alignment explanation
Indices: 46907805--46907879 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
46907795 GAGTTACTGT
46907805 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * * *
46907827 TTTAAAGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
46907849 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
46907869 TTTAAGGTTTA
1 TTTAAGGTTTA
46907880 GGGGTTAGTG
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 18 0.45
22 18 0.45
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:46907900 original size:22 final size:22
Alignment explanation
Indices: 46907874--46907936 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
46907864 TGAGATTTAA
*
46907874 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
46907896 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
46907918 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
46907937 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:46907988 original size:12 final size:12
Alignment explanation
Indices: 46907967--46908009 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
46907957 TGGGTTTAGA
46907967 TTAA-TTATTTT
1 TTAATTTATTTT
46907978 TTAATTTATTTT
1 TTAATTTATTTT
* *
46907990 TAAATAT-TTTT
1 TTAATTTATTTT
46908001 TTAATTTAT
1 TTAATTTAT
46908010 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:46908004 original size:23 final size:24
Alignment explanation
Indices: 46907966--46908019 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
46907956 TTGGGTTTAG
*
46907966 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
46907988 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
46908012 ATTAAATA
1 ATTAAATA
46908020 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:46908241 original size:21 final size:21
Alignment explanation
Indices: 46908217--46908257 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46908207 GATTTAAGGT
46908217 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
46908238 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
46908258 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:46908266 original size:21 final size:20
Alignment explanation
Indices: 46908214--46908267 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
46908204 TAGGATTTAA
46908214 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
46908235 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
46908256 GGATTTAGGGTT
1 GG-TTTAGGGTT
46908268 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:46912860 original size:43 final size:43
Alignment explanation
Indices: 46912813--46913051 Score: 273
Period size: 43 Copynumber: 5.6 Consensus size: 43
46912803 ATGGCACTTT
* * * *
46912813 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
46912856 TAGCGGCGTTTATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * *
46912899 TAGCGGCATTTGT-ATAAAAGTGCCGCTAAAGGTCCTGATTTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
** * * *
46912941 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTGCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
** * *
46912984 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
**
46913027 TAGCGGCGTTTGTGGGAAAAGCGCC
1 TAGCGGCGTTTGTGAAAAAAGCGCC
46913052 TGTTTTGGTG
Statistics
Matches: 172, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 37 0.22
43 135 0.78
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:46912928 original size:85 final size:86
Alignment explanation
Indices: 46912813--46913037 Score: 256
Period size: 85 Copynumber: 2.6 Consensus size: 86
46912803 ATGGCACTTT
* * * * * *
46912813 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
1 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATAAAAAAAGC
46912878 GCCGCTAAAGGT-CTTGATCTA
66 GCCGCTAAAGGTGC-TGATCTA
* * * * *** *
46912899 TAGCGGCATTTGT-ATAAAAGTGCCGCTAAAGGTCCTGATTTATAGCGGCGTTTGTGGGAAAAGT
1 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATAAAAAAAGC
*
46912963 GTCGCTAAAGGTGCTGATCTA
66 GCCGCTAAAGGTGCTGATCTA
* * * *
46912984 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTT
1 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTT
46913038 GTGGGAAAAG
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
85 69 0.59
86 47 0.41
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (86 bp):
TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATAAAAAAAGC
GCCGCTAAAGGTGCTGATCTA
Found at i:46914895 original size:23 final size:22
Alignment explanation
Indices: 46914863--46914924 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
46914853 ACCCGGCCCG
*
46914863 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
46914887 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
46914909 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
46914925 TTGTTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:46914919 original size:16 final size:16
Alignment explanation
Indices: 46914898--46914935 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
46914888 TTTTATTAAA
46914898 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
*
46914914 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
46914930 A-TAAAA
1 ATTAAAA
46914936 ATTGTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:46915074 original size:86 final size:86
Alignment explanation
Indices: 46914984--46915155 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
46914974 TTTGTAAAAT
*
46914984 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAATAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAATAATTGTTAATAAAATTATCAAATT
46915049 ATATCAAATTATTAATTGTTA
66 ATATCAAATTATTAATTGTTA
*
46915070 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAATAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAATAATTGTTAATAAAATTATCAAATT
46915135 ATATCAAATTATTAATTGTTA
66 ATATCAAATTATTAATTGTTA
46915156 ATTGTATTAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (86 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTAATAATTGTTAATAAAATTATCAAATT
ATATCAAATTATTAATTGTTA
Found at i:46916127 original size:6 final size:6
Alignment explanation
Indices: 46916116--46916152 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
46916106 GTTAAGGATG
*
46916116 GGGGAA GGGGAA GGGGAA AGGGAA GGGGAA GGGGAA G
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA G
46916153 AGAAAGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:46916159 original size:18 final size:18
Alignment explanation
Indices: 46916120--46916160 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46916110 AGGATGGGGG
*
46916120 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGA
46916138 AAGGGGAAGGGG-AAGAGA
1 AAGGGGAAGGGGAAAG-GA
46916156 AAGGG
1 AAGGG
46916161 AAGATCGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGA
Found at i:46921682 original size:17 final size:17
Alignment explanation
Indices: 46921656--46921690 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
46921646 CATTATGTGG
46921656 TCTTCCATTT-CACCGT
1 TCTTCCATTTCCACCGT
46921672 TCTTACCATTTCCACCGT
1 TCTT-CCATTTCCACCGT
46921690 T
1 T
46921691 GCCATCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.14, C:0.37, G:0.06, T:0.43
Consensus pattern (17 bp):
TCTTCCATTTCCACCGT
Found at i:46924260 original size:77 final size:77
Alignment explanation
Indices: 46924100--46924245 Score: 206
Period size: 77 Copynumber: 1.9 Consensus size: 77
46924090 ACACTCGCTA
** *
46924100 GATTTAAAATCGCAACTGTCATTTTTACAGTTCAATTGATTTAAGATCGCGATGTTTGATATTCT
1 GATTTAAAATCGCAACTGTCATTTTTACAGTTCAATTGATTTAAGATCGCGACCTTCGATATTCT
46924165 AACAGTTCGATT
66 AACAGTTCGATT
* * *
46924177 GATTTAACATCGCAACTGTCATTTTTTA-GGTT-AACTTGATTTAAGATCGTGACCTTCGATATT
1 GATTTAAAATCGCAACTGTCA-TTTTTACAGTTCAA-TTGATTTAAGATCGCGACCTTCGATATT
46924240 CTAACA
64 CTAACA
46924246 TTTTTCTTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
76 2 0.03
77 53 0.87
78 6 0.10
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (77 bp):
GATTTAAAATCGCAACTGTCATTTTTACAGTTCAATTGATTTAAGATCGCGACCTTCGATATTCT
AACAGTTCGATT
Found at i:46925003 original size:7 final size:7
Alignment explanation
Indices: 46924988--46925026 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
46924978 TAAATTTAAA
*
46924988 TTCAAAT
1 TTCATAT
46924995 TTCATAT
1 TTCATAT
46925002 TTCATAT
1 TTCATAT
46925009 TTCATAT
1 TTCATAT
46925016 TTCATAT
1 TTCATAT
46925023 TTCA
1 TTCA
46925027 ACAATAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (7 bp):
TTCATAT
Found at i:46928430 original size:42 final size:42
Alignment explanation
Indices: 46928371--46928461 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
46928361 ATCGCACAAC
*
46928371 TAGTGCCCGTTATTCAACATTGTCATTTTAATTTCACACACT
1 TAGTGCCCGTTATTCAACATCGTCATTTTAATTTCACACACT
* *
46928413 TAGTGCCCGTTATTCAACATCGTCATTTTAGTTTCGCACACT
1 TAGTGCCCGTTATTCAACATCGTCATTTTAATTTCACACACT
46928455 TAGTGCC
1 TAGTGCC
46928462 ATTCGTATAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (42 bp):
TAGTGCCCGTTATTCAACATCGTCATTTTAATTTCACACACT
Found at i:46940759 original size:21 final size:21
Alignment explanation
Indices: 46940733--46940772 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46940723 CAAAAAATAT
46940733 AAGATA-AAAAACGAAAGTTGC
1 AAGATATAAAAA-GAAAGTTGC
*
46940754 AAGATATCAAAAGAAAGTT
1 AAGATATAAAAAGAAAGTT
46940773 AAATTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
AAGATATAAAAAGAAAGTTGC
Found at i:46940849 original size:30 final size:28
Alignment explanation
Indices: 46940797--46940881 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 28
46940787 GAAATAAGTA
* *
46940797 TAAATATGGAAAAGTTTTGTGGCATAAATTG
1 TAAACATGCAAAAG-TTTGTGGCATAAA--G
46940828 TAAACATGCGAAAAG-TTGTGGCAT-AAG
1 TAAACATGC-AAAAGTTTGTGGCATAAAG
*
46940855 TAAATATGCAAAAGTTTTGTGGCATAA
1 TAAACATGCAAAAG-TTTGTGGCATAA
46940882 GTATAAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 5 0.11
27 9 0.19
28 9 0.19
29 3 0.06
30 9 0.19
31 7 0.15
32 5 0.11
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (28 bp):
TAAACATGCAAAAGTTTGTGGCATAAAG
Found at i:46940891 original size:30 final size:30
Alignment explanation
Indices: 46940790--46940900 Score: 131
Period size: 30 Copynumber: 3.8 Consensus size: 30
46940780 GAAGCAAGAA
*
46940790 ATAAGTATAAATATGGAAAAGTTTTGTGGC
1 ATAAGTATAAATATGCAAAAGTTTTGTGGC
* * *
46940820 ATAAATTGTAAACATGCGAAAAG--TTGTGGC
1 AT-AAGTATAAATATGC-AAAAGTTTTGTGGC
46940850 ATAAG--TAAATATGCAAAAGTTTTGTGGC
1 ATAAGTATAAATATGCAAAAGTTTTGTGGC
*
46940878 ATAAGTATAAATATGGAAAAGTT
1 ATAAGTATAAATATGCAAAAGTT
46940901 GAAGTGAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 5 0.07
27 8 0.12
28 12 0.18
29 2 0.03
30 26 0.38
31 10 0.15
32 5 0.07
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (30 bp):
ATAAGTATAAATATGCAAAAGTTTTGTGGC
Found at i:46941186 original size:11 final size:11
Alignment explanation
Indices: 46941172--46941213 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
46941162 TAAATATTAC
46941172 TTTATTAATAT
1 TTTATTAATAT
*
46941183 TTTAATGAGATAT
1 TTT-ATTA-ATAT
46941196 TTTATTAATAT
1 TTTATTAATAT
46941207 TTTATTA
1 TTTATTA
46941214 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:46951941 original size:16 final size:16
Alignment explanation
Indices: 46951920--46951971 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
46951910 TTTGGTTCGC
46951920 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
46951936 TGTATTGGATTAGAGC
1 TGTATTGGATTAGAGG
46951952 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
46951968 TGTA
1 TGTA
46951972 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:46952234 original size:18 final size:17
Alignment explanation
Indices: 46952207--46952241 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46952197 TTATTTTTAA
*
46952207 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46952225 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46952242 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46952307 original size:157 final size:157
Alignment explanation
Indices: 46952094--46952378 Score: 498
Period size: 157 Copynumber: 1.8 Consensus size: 157
46952084 TAGAATACCC
*
46952094 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
46952159 TTATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
46952224 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
46952251 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
46952316 ATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAA
46952379 TATTCTTATA
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 120 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:46955381 original size:11 final size:11
Alignment explanation
Indices: 46955365--46955390 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46955355 TCGGGAGGCA
46955365 AAGGTAGAACG
1 AAGGTAGAACG
46955376 AAGGTAGAACG
1 AAGGTAGAACG
46955387 AAGG
1 AAGG
46955391 AAGATGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (11 bp):
AAGGTAGAACG
Found at i:46955664 original size:16 final size:16
Alignment explanation
Indices: 46955643--46955694 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
46955633 TTTGGTTCGC
46955643 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
46955659 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
* * *
46955675 TGTAATAGAATAGATG
1 TGTATTAGATTAGAGG
46955691 TGTA
1 TGTA
46955695 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.37
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:46955741 original size:45 final size:44
Alignment explanation
Indices: 46955675--46955772 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 44
46955665 AGATTAGAGG
* * * *
46955675 TGTAATAGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGCAAAAC-ACTGTTTAGTTGAA
* * **
46955720 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTAGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGCAAAACACTGTTTAGTTGAA
46955764 TGTAATAGA
1 TGTAATAGA
46955773 GGTGTAATAG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 19 0.43
45 25 0.57
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGCAAAACACTGTTTAGTTGAA
Found at i:46955952 original size:18 final size:17
Alignment explanation
Indices: 46955931--46955965 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46955921 TTATTATTTA
*
46955931 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46955949 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46955966 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46955959 original size:28 final size:27
Alignment explanation
Indices: 46955889--46955961 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
46955879 TTTATTATCA
*
46955889 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
46955917 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
46955944 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
46955962 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:46956099 original size:18 final size:17
Alignment explanation
Indices: 46956078--46956112 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46956068 TTATTATTAA
*
46956078 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46956096 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46956113 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46956124 original size:147 final size:149
Alignment explanation
Indices: 46955850--46956124 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
46955840 ATGATTATTG
*
46955850 TTATTATTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTATTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
46955915 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
46955980 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
46955999 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTATTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
46956062 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
46956125 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTATTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:46956158 original size:61 final size:61
Alignment explanation
Indices: 46956093--46956280 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
46956083 TTTTAATTAA
46956093 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
46956154 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
46956211 AA
60 AT
*
46956213 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
46956274 AATATAT
1 AATATAT
46956281 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:46956200 original size:120 final size:120
Alignment explanation
Indices: 46956056--46956353 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
46956046 ATTTAATCAT
*
46956056 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
46956121 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
46956178 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
46956242 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
46956297 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
46956354 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:46956217 original size:16 final size:16
Alignment explanation
Indices: 46956177--46956222 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
46956167 GTAAAATATA
46956177 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
46956192 TATT-AAATATATTAT
1 AATTAAAATATATAAT
46956207 AATTAAAATATATAAT
1 AATTAAAATATATAAT
46956223 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:46956364 original size:54 final size:54
Alignment explanation
Indices: 46956171--46956364 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
46956161 GATACTGTAA
* *
46956171 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
46956225 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
46956288 T
54 T
* *
46956289 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
46956345 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
46956365 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:46957091 original size:16 final size:16
Alignment explanation
Indices: 46957070--46957105 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
46957060 TAAGAAATCA
46957070 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
46957086 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
46957102 CAGC
1 CAGC
46957106 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:46962991 original size:21 final size:21
Alignment explanation
Indices: 46962944--46962996 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
46962934 GGTTATATAT
*
46962944 AAAATTATAAATAAATAATTA
1 AAAAATATAAATAAATAATTA
** * *
46962965 TTAAATATAAATATATATTTA
1 AAAAATATAAATAAATAATTA
*
46962986 AAAAATTTAAA
1 AAAAATATAAA
46962997 ATTAATATCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATATAAATAAATAATTA
Found at i:46964958 original size:18 final size:17
Alignment explanation
Indices: 46964915--46964958 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
46964905 ATGTAGAATT
*
46964915 ATATTTTGAAAAATAAA
1 ATATTTTTAAAAATAAA
* *
46964932 ACATGTTTAAAAATTAAA
1 ATATTTTTAAAAA-TAAA
46964950 ATATTTTTA
1 ATATTTTTA
46964959 TTATACAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (17 bp):
ATATTTTTAAAAATAAA
Found at i:46970296 original size:261 final size:261
Alignment explanation
Indices: 46969832--46970309 Score: 660
Period size: 261 Copynumber: 1.8 Consensus size: 261
46969822 ACCAACTCAG
* ** *
46969832 TTAAAATGTATAAAAATATAAAATAAAACTTTAATTAAGTGGTAAATTAAATGTTTTACTAATGT
1 TTAAAATATATAAAAATATAAAATAAAACTTTAATTAAGTGGTAAATTAAAAATTTTACTAATGC
* * * * * * * * *
46969897 AGTTGACGTGGGTTCAAACCCCACTATATGTATATTTTTATTGGATTTGTTTTAAAGTGAAAAGA
66 AATTGACGTAGGTTCAAACACCAATATATGCATAGTTTTAATCGATTTGTTTTAAAGTGAAAAAA
* * *
46969962 CTAAAATACTCTTGAATAACATTACTTATTTTAATTACGAAAGGGCATTCTCGTAACTTCCTAAC
131 CTAAAATACTCTTAAATAACATTACTTATTTTAATTACGAAAGGACATTCTCATAACTTCCTAAC
*
46970027 TGAGTTGGTGACCCGGTTGAGGGTTACATAAACTCGATTAGAGATAATAAGGCGTGCATAATAAA
196 TGAGTTGGTGACCCAGTTGAGGGTTACATAAACTCGATTAGAGATAATAAGGCGTGCATAATAAA
46970092 A
261 A
* *
46970093 TTAAAATATATAAAAATATCAAAATAAAACTTTAGTTGAA-TGGTAAATTAAAAATTTTATTAAT
1 TTAAAATATATAAAAATAT-AAAATAAAACTTTAATT-AAGTGGTAAATTAAAAATTTTACTAAT
* * *
46970157 GCAATTGATGTAGGTTTAAATACCAATATATGCAT-GTTTTAATCGACTTT-TTTTAAAGTGAAA
64 GCAATTGACGTAGGTTCAAACACCAATATATGCATAGTTTTAATCGA-TTTGTTTTAAAGTGAAA
* *
46970220 AAACTAAAATA-TCTTCAAATAATATTACTTATTTTAATTAC-AGAAGGACATTCTCATAAGTTC
128 AAACTAAAATACTCTT-AAATAACATTACTTATTTTAATTACGA-AAGGACATTCTCATAACTTC
46970283 CTAACTGAGTTGGTGACCCAGTTGAGG
191 CTAACTGAGTTGGTGACCCAGTTGAGG
46970310 ATGACACCAA
Statistics
Matches: 188, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
260 5 0.03
261 115 0.61
262 66 0.35
263 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (261 bp):
TTAAAATATATAAAAATATAAAATAAAACTTTAATTAAGTGGTAAATTAAAAATTTTACTAATGC
AATTGACGTAGGTTCAAACACCAATATATGCATAGTTTTAATCGATTTGTTTTAAAGTGAAAAAA
CTAAAATACTCTTAAATAACATTACTTATTTTAATTACGAAAGGACATTCTCATAACTTCCTAAC
TGAGTTGGTGACCCAGTTGAGGGTTACATAAACTCGATTAGAGATAATAAGGCGTGCATAATAAA
A
Found at i:46970645 original size:308 final size:295
Alignment explanation
Indices: 46970070--46970850 Score: 838
Period size: 308 Copynumber: 2.6 Consensus size: 295
46970060 TCGATTAGAG
* * * * *
46970070 ATAATAAGGCGTGCATAATAAAATTAAAATATATAAAAATATCAAAATAAAACTTTAGTTGAATG
1 ATAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATTAAAATAAAACTTTAGTTGAGTG
* * * *
46970135 GTAAATTAAAAATTTTATTAATGCAATTGATGTAGGTTTAAATACCAATATATGCATGTTTTAAT
66 GTAAATTAAAAGTTTTATTAATGCAATTGGTGTGGGTTTAAATACCAATATATGCATATTTTAAT
* * * *
46970200 CGACTTTTTTTAAAGTGAAAAAACTAAAATATCTTCAAATAATATTACTTATTTTAATTACAGAA
131 CGAC-TTTTTTAAAGTGAAAAAACTAAAATACCCTCAAATAATATTACTTATTTCAATTACAAAA
* * *
46970265 GGACATTCTCATAAGTTCCTAACTGAGTTGGTGACCCAGTTGAGGATGACACCAACTCAATTAGG
195 GGACATTCTCATAACTTCCTAACTAAGTTGGTGACCCAGTTGAGGATGACACCAACTCAATAAGG
46970330 AGTTTTATTAATAGTGTGTATATATATATACAAATACA-CAACCA
260 AGTTTTATTAATA----G--TATATATATACAAAT-CATCAA--A
* *
46970374 ATAAAGTTCATGGAGTGTGCATAATAAAATTAAAATGTATAAAAATATTAAAGTAAAACTTTAGA
1 AT-AA--T-A--AAGTGTGCATAATAAAATTAAAATGTATAAAAATATTAAAATAAAACTTTAG-
* ** * * * *
46970439 TT-AGTGGTAAATTAAATGTTTTAAAAATGCAATTGGTGTGGGTTCAAATATC-ATAATGTGTAT
59 TTGAGTGGTAAATTAAAAGTTTTATTAATGCAATTGGTGTGGGTTTAAATACCAAT-ATATGCAT
* * *** *
46970502 ATTTTTATTGA-TTTTTTAAAGTGAAAATGTTAAAATACCCTCGAATAATATTACTTATTTCAAT
123 ATTTTAATCGACTTTTTTAAAGTGAAAAAACTAAAATACCCTCAAATAATATTACTTATTTCAAT
* * * * *
46970566 TACAAAAGGACATTCTCGTAACTTCCTAACTAAGTTGGTGACCCGGTTGAGGGTGACGCCAACTT
188 TACAAAAGGACATTCTCATAACTTCCTAACTAAGTTGGTGACCCAGTTGAGGATGACACCAACTC
* * ** *
46970631 AGTCAAGG-GTTTTATTAATAGTATATATATACAACTCATGGAG
253 AAT-AAGGAGTTTTATTAATAGTATATATATACAAATCATCAAA
* *
46970674 ATAATAAAGTGTGCATAATAAAGTTAAAATGTATAAAAATATTAAAATAAAATTTTAGTTGAGTG
1 ATAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATTAAAATAAAACTTTAGTTGAGTG
** *
46970739 AAAAATTAAAAGTTTTATTAATGCAATTGGTGTGGGTTTAAAT-CTTAATATATGCATATTATT-
66 GTAAATTAAAAGTTTTATTAATGCAATTGGTGTGGGTTTAAATAC-CAATATATGCATATT-TTA
* * ** * * *
46970802 GTTGTTTTTGTTTAAAGTGAAAAAACTAAAATATCTTCGAATAATATTA
129 ATCGACTTT-TTTAAAGTGAAAAAACTAAAATACCCTCAAATAATATTA
46970851 ATTACGAAAG
Statistics
Matches: 399, Mismatches: 62, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
293 2 0.01
294 101 0.25
295 7 0.02
296 35 0.09
297 1 0.00
299 2 0.01
300 2 0.01
301 2 0.01
302 15 0.04
304 3 0.01
305 2 0.01
307 1 0.00
308 118 0.30
309 5 0.01
310 101 0.25
311 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (295 bp):
ATAATAAAGTGTGCATAATAAAATTAAAATGTATAAAAATATTAAAATAAAACTTTAGTTGAGTG
GTAAATTAAAAGTTTTATTAATGCAATTGGTGTGGGTTTAAATACCAATATATGCATATTTTAAT
CGACTTTTTTAAAGTGAAAAAACTAAAATACCCTCAAATAATATTACTTATTTCAATTACAAAAG
GACATTCTCATAACTTCCTAACTAAGTTGGTGACCCAGTTGAGGATGACACCAACTCAATAAGGA
GTTTTATTAATAGTATATATATACAAATCATCAAA
Found at i:46971466 original size:16 final size:17
Alignment explanation
Indices: 46971435--46971467 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46971425 CATTTCATAA
*
46971435 ATTTTTATAATATTAAT
1 ATTTTAATAATATTAAT
46971452 ATTTTAATAAT-TTAAT
1 ATTTTAATAATATTAAT
46971468 TCCCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTAATAATATTAAT
Found at i:46972822 original size:18 final size:18
Alignment explanation
Indices: 46972795--46972832 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46972785 ACTCCAAGGC
46972795 GACGACGAAGATGAAGAT
1 GACGACGAAGATGAAGAT
* *
46972813 GACGATGAAGATGGAGAT
1 GACGACGAAGATGAAGAT
46972831 GA
1 GA
46972833 TGAAGATGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.37, T:0.13
Consensus pattern (18 bp):
GACGACGAAGATGAAGAT
Found at i:46993000 original size:2 final size:2
Alignment explanation
Indices: 46992995--46993056 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
46992985 TTAATATATA
*
46992995 TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
46993037 TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG
46993057 GTACTTAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.02, G:0.50, T:0.48
Consensus pattern (2 bp):
TG
Found at i:46995889 original size:16 final size:16
Alignment explanation
Indices: 46995868--46995900 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46995858 TCATTTAATT
46995868 TCATGTTAAATAAATA
1 TCATGTTAAATAAATA
46995884 TCATGTTAAATAAATA
1 TCATGTTAAATAAATA
46995900 T
1 T
46995901 AAGTGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TCATGTTAAATAAATA
Found at i:46996228 original size:22 final size:22
Alignment explanation
Indices: 46996203--46996245 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46996193 TATGTATGTC
* *
46996203 ATATTTAAATTTATTTTGATTT
1 ATATCTAAATATATTTTGATTT
*
46996225 ATATCTAGATATATTTTGATT
1 ATATCTAAATATATTTTGATT
46996246 ACCACTCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (22 bp):
ATATCTAAATATATTTTGATTT
Found at i:46998182 original size:15 final size:15
Alignment explanation
Indices: 46998154--46998203 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
46998144 AACCCAACCA
*
46998154 AAACCAAACCAGCCC
1 AAACCAAACAAGCCC
*
46998169 AAACCCAACAAGCCC
1 AAACCAAACAAGCCC
* *
46998184 AAACTAACCCAAGCCC
1 AAACCAA-ACAAGCCC
46998200 AAAC
1 AAAC
46998204 ACTTAAGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.48, C:0.44, G:0.06, T:0.02
Consensus pattern (15 bp):
AAACCAAACAAGCCC
Found at i:46998194 original size:25 final size:26
Alignment explanation
Indices: 46998139--46998201 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
46998129 ACCTAAATCT
46998139 ACCCAAACCCAACCAAAACCAAACCA
1 ACCCAAACCCAACCAAAACCAAACCA
* ** *
46998165 GCCCAAACCCAA-CAAGCCCAAACTA
1 ACCCAAACCCAACCAAAACCAAACCA
*
46998190 ACCCAAGCCCAA
1 ACCCAAACCCAA
46998202 ACACTTAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.48, C:0.46, G:0.05, T:0.02
Consensus pattern (26 bp):
ACCCAAACCCAACCAAAACCAAACCA
Found at i:47001702 original size:19 final size:19
Alignment explanation
Indices: 47001678--47001724 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
47001668 AATGTCTCTT
*
47001678 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
47001697 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
47001716 TATGCATTA
1 TTTGCATTA
47001725 GATTTTCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:47002984 original size:17 final size:18
Alignment explanation
Indices: 47002962--47002998 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47002952 TTATTCTTTT
47002962 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
47002979 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
47002997 AT
1 AT
47002999 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:47003775 original size:16 final size:17
Alignment explanation
Indices: 47003749--47003792 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
47003739 AATCAAAGTC
47003749 AAAATAGAAAAAAAG-AG
1 AAAA-AGAAAAAAAGAAG
47003766 AAAAAG-AAAAAAGAAG
1 AAAAAGAAAAAAAGAAG
47003782 AAAAAGAAAAA
1 AAAAAGAAAAA
47003793 GGAGAGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAGAAG
Found at i:47003777 original size:15 final size:15
Alignment explanation
Indices: 47003757--47003797 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
47003747 TCAAAATAGA
47003757 AAAAAAGAGAAAAAG
1 AAAAAAGAGAAAAAG
47003772 AAAAAAGAAGAAAAAG
1 AAAAAAG-AGAAAAAG
*
47003788 AAAAAGGAGA
1 AAAAAAGAGA
47003798 GGTCAAGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAAAAAG
Found at i:47006394 original size:50 final size:49
Alignment explanation
Indices: 47006270--47007055 Score: 691
Period size: 50 Copynumber: 16.0 Consensus size: 49
47006260 GCAGCAGAAC
* * * * *
47006270 AGATTGAAGCTACAACGGCGGATCTCACTTCCCTGACATTGCAAT-CAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAAA
* * * * * * * *
47006319 AGATTGAGGCCATAACGGTGAATCTTACTTTCCTAGCATTGCGGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GCATTGCAGTGGAAA
* * * *
47006369 AGATTGAAGCTACAATAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAA-A
* **
47006419 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GCATTGCAGTGGAAA
* ** * * *
47006469 AGATTGAAGCTATAACAGCAAATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAA-A
* *
47006519 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GCATTGCAGTGGAAA
* * * **
47006569 AGATTGAAGCTACAATAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAAA
* * * *
47006619 AGATTGAAGCTACAACAGCAGATCTTACTTTCCCAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTT-CCTGCATTGCAGTGGAAA
* * *
47006669 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAA-A
* * *
47006719 AGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GCATTGCAGTGGAAA
* * *
47006769 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAAA
* * * * ** **
47006818 AGATTGAAGCTACAACAACGAATATT-GTTTCC--C-CGGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGCATTGCAGTGGAAA
** *
47006863 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GCATTGCAGTGGAAA
* * ** **
47006913 AGATTGAAGCTACAACAGCGAATCTT-GTTTCC--C-CGGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGCATTGCAGTGGAAA
* * **
47006958 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAAA
* **
47007008 AGATTGAAGCTACAACAGCAGATCTTAC-CCCCTGACATTGCAGTGGAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTG-CATTGCAGTGGAA
47007056 CAAAATAAAA
Statistics
Matches: 589, Mismatches: 120, Indels: 56
0.77 0.16 0.07
Matches are distributed among these distances:
44 4 0.01
45 59 0.10
46 9 0.02
48 4 0.01
49 93 0.16
50 409 0.69
51 11 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (49 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGCATTGCAGTGGAAA
Found at i:47006494 original size:100 final size:99
Alignment explanation
Indices: 47006207--47007035 Score: 1041
Period size: 100 Copynumber: 8.4 Consensus size: 99
47006197 TAACCATAGT
* * ** * * * **
47006207 TTGCAATTTAAAAGATTGAGGCCACAATGGCGAATCTTACTTTCTCAAGCGGTGCAGCAGAACAG
1 TTGCAA-TTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC-CTAGCGTTGCAGTGGAACAG
* *
47006272 ATTGAAGCTACAACGGCGGATCTCACTTCCCTGACA
64 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * * * * *
47006308 TTGCAATCAAAAGATTGAGGCCATAACGGTGAATCTTACTTTCCTAGCATTGCGGTGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
*
47006373 TGAAGCTACAATAGCGGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
47006407 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAGCAGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* **
47006472 TTGAAGCTATAACAGCAAATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
47006507 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAATAGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
47006572 TTGAAGCTACAATAGCGGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* *
47006607 TTGCAATTAAAAAGATTGAAGCTACAACAGCAGATCTTACTTTCCCAGCGTTGCAGTGGAACAGA
1 TTGCAATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
47006672 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
47006707 TTGCAATTAAGAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
47006772 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * * ** *
47006807 TTGCAATTAAAAGATTGAAGCTACAACAACGAATATT-GTTTCC--CCG--GCAGTTAAAAAGAT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
* **
47006867 TGAAGCTACAACAGCGGATCTTACTTTCCT-AGTG
66 TGAAGCTACAACAGCGGATCTTACTTCCCTGA-CA
* * * * * * ** *
47006901 TTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTT-GTTTCC--CCG--GCAGTTAAAAAGA
1 TTGCAAT-TAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
47006961 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
47006996 TTGCAATTAAAAAGATTGAAGCTACAACAGCAGATCTTAC
1 TTGCAATT-AAAAGATTGAAGCTACAACAGCGGATCTTAC
47007036 CCCCTGACAT
Statistics
Matches: 656, Mismatches: 64, Indels: 21
0.89 0.09 0.03
Matches are distributed among these distances:
93 1 0.00
94 46 0.07
95 110 0.17
96 3 0.00
98 5 0.01
99 83 0.13
100 400 0.61
101 8 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
TGAAGCTACAACAGCGGATCTTACTTCCCTGACA
Found at i:47007398 original size:15 final size:15
Alignment explanation
Indices: 47007370--47007419 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
47007360 AACCCAACCA
*
47007370 AAACCAAACCAGCCC
1 AAACCAAACAAGCCC
*
47007385 AAACCCAACAAGCCC
1 AAACCAAACAAGCCC
* *
47007400 AAACTAACCCAAGCCC
1 AAACCAA-ACAAGCCC
47007416 AAAC
1 AAAC
47007420 ACTTAAGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.48, C:0.44, G:0.06, T:0.02
Consensus pattern (15 bp):
AAACCAAACAAGCCC
Found at i:47007410 original size:25 final size:26
Alignment explanation
Indices: 47007355--47007417 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
47007345 ACCTAAATCT
47007355 ACCCAAACCCAACCAAAACCAAACCA
1 ACCCAAACCCAACCAAAACCAAACCA
* ** *
47007381 GCCCAAACCCAA-CAAGCCCAAACTA
1 ACCCAAACCCAACCAAAACCAAACCA
*
47007406 ACCCAAGCCCAA
1 ACCCAAACCCAA
47007418 ACACTTAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.48, C:0.46, G:0.05, T:0.02
Consensus pattern (26 bp):
ACCCAAACCCAACCAAAACCAAACCA
Found at i:47010498 original size:20 final size:20
Alignment explanation
Indices: 47010475--47010542 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
47010465 CCTTGATCCT
47010475 TGTCTCAATACAACGAATCG
1 TGTCTCAATACAACGAATCG
* *** *
47010495 TGTCTCAAGACCTTG-ATCCT
1 TGTCTCAATACAACGAAT-CG
47010515 TGTCTCAATACAACGAATCG
1 TGTCTCAATACAACGAATCG
47010535 TGTCTCAA
1 TGTCTCAA
47010543 GACCTTGGAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTCTCAATACAACGAATCG
Found at i:47010510 original size:40 final size:40
Alignment explanation
Indices: 47010462--47010549 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
47010452 CTATGTCTGG
47010462 AGACCTTGATCCTTGTCTCAATACAACGAATCGTGTCTCA
1 AGACCTTGATCCTTGTCTCAATACAACGAATCGTGTCTCA
47010502 AGACCTTGATCCTTGTCTCAATACAACGAATCGTGTCTCA
1 AGACCTTGATCCTTGTCTCAATACAACGAATCGTGTCTCA
47010542 AGACCTTG
1 AGACCTTG
47010550 GATCGAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (40 bp):
AGACCTTGATCCTTGTCTCAATACAACGAATCGTGTCTCA
Found at i:47010554 original size:20 final size:20
Alignment explanation
Indices: 47010491--47010554 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
47010481 AATACAACGA
47010491 ATCGTGTCTCAAGACCTT-G
1 ATCGTGTCTCAAGACCTTGG
* * *** *
47010510 ATCCTTGTCTCAATACAACGA
1 AT-CGTGTCTCAAGACCTTGG
47010531 ATCGTGTCTCAAGACCTTGG
1 ATCGTGTCTCAAGACCTTGG
47010551 ATCG
1 ATCG
47010555 AATTTGATTG
Statistics
Matches: 31, Mismatches: 12, Indels: 3
0.67 0.26 0.07
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (20 bp):
ATCGTGTCTCAAGACCTTGG
Found at i:47013990 original size:181 final size:174
Alignment explanation
Indices: 47013683--47014033 Score: 461
Period size: 181 Copynumber: 2.0 Consensus size: 174
47013673 TATATATATA
* *
47013683 TTTATCTATTTAACCAGCTTTCTGCGACTAATATTTTTTTCAGCTTGCACATGTGTCTTGTGAGC
1 TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTTTTCAGCTTGCACACGTGTCTTGTGAGC
** * * * *
47013748 AGTTGAATTCATCAAAAGACATTACAGAAGAAATTCTTTTATCATATTCTTGGTTGCATCACCTA
66 ACATGAATTCATCAAAAGACATTACAAAAAAAATTCTTTTATCATATTCTCGGTAGCATCACCTA
* * * *
47013813 TTAAGGAAACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCT
131 TTAA-G-AA-A-ACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
* *
47013861 TTTATCTATTTAACCAGCTTTCTGCAAGTAA-ATTTTTCCTTCATCTTGCAGGCACGTGTCTTGT
1 TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTT--TTCAGCTTGCA--CACGTGTCTTGT
* * * *
47013925 GAGTACATGAATTCATCTAAAGACATTACAAAAAAAATTCTTTTGTCATGTTCTCGGTAGCATCA
62 GAGCACATGAATTCATCAAAAGACATTACAAAAAAAATTCTTTTATCATATTCTCGGTAGCATCA
47013990 CCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
127 CCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
47014034 CTTTTTTTGG
Statistics
Matches: 151, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
177 34 0.23
178 30 0.20
179 12 0.08
180 1 0.01
181 74 0.49
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (174 bp):
TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTTTTCAGCTTGCACACGTGTCTTGTGAGC
ACATGAATTCATCAAAAGACATTACAAAAAAAATTCTTTTATCATATTCTCGGTAGCATCACCTA
TTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
Found at i:47016093 original size:21 final size:20
Alignment explanation
Indices: 47016064--47016102 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47016054 GTCAAATATA
47016064 AATGCCACAAGCGCCAATAG
1 AATGCCACAAGCGCCAATAG
*
47016084 AATGCACACAAGTGCCAAT
1 AATGC-CACAAGCGCCAAT
47016103 CTTCCTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.28, G:0.18, T:0.13
Consensus pattern (20 bp):
AATGCCACAAGCGCCAATAG
Found at i:47033217 original size:920 final size:926
Alignment explanation
Indices: 47030966--47033359 Score: 4269
Period size: 920 Copynumber: 2.6 Consensus size: 926
47030956 AACATAAACT
* * * *
47030966 ATTTGTTGGGGATGAGGAGGAGCAAATGAAGAAAATAAAGAGCACAGAACAATGAAACAAGATGC
1 ATTTGTTGGGGATGAGGAGGAGCAAAGGAAGAAAACAGAGAGCACAGAACAATGAAGCAAGATGC
*
47031031 AAGAAATATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTTATGGCTAATAGCTCATTTTGC
66 AAGAAATATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTTATGGCTGATAGCTCATTTTGC
*
47031096 TCATTCATTCAAGTAGAAAAAATAATACATTTATAGCCAAATACATCACCAAATACTACCTACTA
131 TCATTCATTCAACTAGAAAAAATAATACATTTATAGCCAAATACATCACCAAATACTACCTACTA
*
47031161 CCACTAATCATACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAGCA
196 CCACTAATCATACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAACA
*
47031226 CCTAAAAATATCAAAACAATACCAACCTAGTTCATTTTCAACTAAGTAGCTTAACAAAGTAACTA
261 CCTAAAAATATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTTAACAAAGTAACTA
47031291 AACAACCTTGCTGTTACAGCAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAACC
326 AACAACCTTGCTGTTACAGCAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAACC
*
47031356 AAAAATATAACAGTAGCATGGTTGGCCAATTTTCAACACTCCTCCTTGGACTCCATGCCGCAAAT
391 AAAAATATAACAGCAGCATGGTTGGCCAATTTTCAACACTCCTCCTTGGACTCCATGCCGCAAAT
47031421 ACCAATCATTCATCAAGTTTTTTTGAACTTGGCAGTCCTTAGATGCTTTGTTTCAAGCTGACTCT
456 ACCAATCATTCATCAAG-TTTTTTGAACTTGGCAGTCCTTAGATGCTTTGTTTCAAGCTGACTCT
* * *
47031486 GCTCAAGAAATTCATTTTCAACCTTGGCTTTATTCTCAACCAAATCTGACTTGCACGCTTGACTA
520 GCTCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATCTGACTTACACGCTTGACTA
*
47031551 TCCCAGTCTTTTGATCCAAAGATTTGTTCATCAAATGGAGTCTTCTCCTCCTTCACGGCCTTGGT
585 TCCCAGTCTTTTGATCCAAAGATTTGTCCATCAAATGGAGTCTTCTCCTCCTT-----CCTTGGT
* *
47031616 TGACAACTTGCCTTCAAAAACATCTTGCCTTGTTTCTTTGTTCATTACAGTCATGTTTCTTCTTG
645 TGACAACTTACCTTCAAAAACATATTGCCTTGTTTCTTTGTTCATTACAGTCATGTTTCTTCTTG
* *
47031681 CACATACTCCCTCCTGCTGTAGAGTGTCTTCATGCACACACTCCATCAACTCCTCCTTTAGCTTA
710 CACATACTCCCTCCTGCTGTAGAGTGACTTCATGCACACACTCCATCAACTCCTCCTTCAGCTTA
*
47031746 TCCCAAGCTTGTTTAGGAGTCTCACATGGGTGAGCTGTTGCTATCTTTTTTACAAGTAGTCCTCA
775 TCCCAAGCTTGTTTAGGAGTCTCACAAGGGTGAGCTGTTGCTATCTTTTTTACAAGTAGTCCTCA
47031811 AAGATGACAGGCTTTAACAGCTTCTTATCTTTCTTAACAAGCAGCAGAAGCAAAAACAAGCCCTC
840 AAGATGACAGGCTTTAACAGCTTCTTATCTTTCTTAACAAGCAGCAGAAGCAAAAACAAGCCCTC
*
47031876 AAAGAGTTGGGCTCATGATACC
905 AAAGACTTGGGCTCATGATACC
* *
47031898 ATTTGTTGGGGATGAGGAGGAGTAAAGGAAGAAAACAGAGAGTACAGAACAATGAAGCAAGATGC
1 ATTTGTTGGGGATGAGGAGGAGCAAAGGAAGAAAACAGAGAGCACAGAACAATGAAGCAAGATGC
* *
47031963 AAGAAATATTTTTACTTACTCACAAATATGCAGCAAGGGAGCTTATGGCTGATAGCTCATTTTGC
66 AAGAAATATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTTATGGCTGATAGCTCATTTTGC
47032028 TCATTCATTCAACTAGAAAAAAATAATACATTTATAGCCAAATACATCACCAAATACTACCTACT
131 TCATTCATTCAACTAG-AAAAAATAATACATTTATAGCCAAATACATCACCAAATACTACCTACT
47032093 ACCACTAATCATACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAAC
195 ACCACTAATCATACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAAC
*
47032158 ACCTAAAAATATTAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTTAACAAAGTAACT
260 ACCTAAAAATATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTTAACAAAGTAACT
47032223 AAACAACCTTGCTGTTACAGCAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAAC
325 AAACAACCTTGCTGTTACAGCAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAAC
47032288 CAAAAATATAACAGCAGCATGGTTGGCCAATTTTCAACACTCCTCCTTGGACTCCATGCCGCAAA
390 CAAAAATATAACAGCAGCATGGTTGGCCAATTTTCAACACTCCTCCTTGGACTCCATGCCGCAAA
*
47032353 TACCAATCATTCATCAAGTTTTTTGAACTTGGCAGTCATTAGATGCTTTGTTTCAAGCTGACTCT
455 TACCAATCATTCATCAAGTTTTTTGAACTTGGCAGTCCTTAGATGCTTTGTTTCAAGCTGACTCT
* *
47032418 GCTTAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATCTGGCTTACACGCTTGACTA
520 GCTCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATCTGACTTACACGCTTGACTA
47032483 TCCCAGTCTTTTGATCCAAAGATTTGTCCATCAAATGGAGTC-T-T-CTCCTT-CTT-GTTGACA
585 TCCCAGTCTTTTGATCCAAAGATTTGTCCATCAAATGGAGTCTTCTCCTCCTTCCTTGGTTGACA
* *
47032543 ACTTACCTTCAAACACATATTGCCTTGTTTCTTTGTTCATTACAGTCCTGTTTCTTCTTGCACAT
650 ACTTACCTTCAAAAACATATTGCCTTGTTTCTTTGTTCATTACAGTCATGTTTCTTCTTGCACAT
47032608 ACTCCCTCCTGCTGTAGAGTGACTTCATGCACACACTCCATCAACTCCTCCTTCAGCTTATCCCA
715 ACTCCCTCCTGCTGTAGAGTGACTTCATGCACACACTCCATCAACTCCTCCTTCAGCTTATCCCA
*
47032673 AGCTTGTTTGGGAGTCTCACAAGGGTGAGCTGTTGCTATCTTTTTTACAAGTAGTCCTCAAAGAT
780 AGCTTGTTTAGGAGTCTCACAAGGGTGAGCTGTTGCTATCTTTTTTACAAGTAGTCCTCAAAGAT
* * *
47032738 GACAGGCTTTAATAGCTTCTTGTCTTTCTTAACAAGCAGCAGAAGC-AAAACAAGCCTTCAAAGA
845 GACAGGCTTTAACAGCTTCTTATCTTTCTTAACAAGCAGCAGAAGCAAAAACAAGCCCTCAAAGA
47032802 CTTGGGCTCATGATACC
910 CTTGGGCTCATGATACC
* *
47032819 ATTTGTTGGGGATGAGGAGGAGCAAAGGAAAAAAACAGAGAGCATAGAACAATGAAGCAAGATGC
1 ATTTGTTGGGGATGAGGAGGAGCAAAGGAAGAAAACAGAGAGCACAGAACAATGAAGCAAGATGC
47032884 AAGAAATATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTTATGGCTGATAGCTCATTTTGC
66 AAGAAATATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTTATGGCTGATAGCTCATTTTGC
*
47032949 TCATTCATTCAACTAGAAAAAATAATACATTTATAGCCAAATACATCACCAAATACTATCTACTA
131 TCATTCATTCAACTAGAAAAAATAATACATTTATAGCCAAATACATCACCAAATACTACCTACTA
* *
47033014 CCACTAGTCATACTTTGAAACAAGTAAAACTTAACTTGCGCACAAGCTGATTATGTCAATCAACA
196 CCACTAATCATACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAACA
* * *
47033079 CCTAAAAATGTCAAAACAATACCAACTTTGTTCATTTTCAACTAAGTAGCTTAACAATGTAACTA
261 CCTAAAAATATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTTAACAAAGTAACTA
* *
47033144 AACAACCTTGCTATTACAACAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAACC
326 AACAACCTTGCTGTTACAGCAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAACC
* *
47033209 AAAAATATAACAGCAACATGGTTGGCCAATTTTCAACACTCTTCCTTGGACTCCATGCCGCAAAT
391 AAAAATATAACAGCAGCATGGTTGGCCAATTTTCAACACTCCTCCTTGGACTCCATGCCGCAAAT
*
47033274 ACCAATCATTCATCAAGTTTTTTGAACTTGGCAGTCCTTAGATGCTTTGTTTCAAGCTGACTCAG
456 ACCAATCATTCATCAAGTTTTTTGAACTTGGCAGTCCTTAGATGCTTTGTTTCAAGCTGACTCTG
47033339 CTCAAGCAATTCATTTTCAAC
521 CTCAAGCAATTCATTTTCAAC
47033360 ACTATTATCA
Statistics
Matches: 1408, Mismatches: 53, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
920 381 0.27
921 173 0.12
922 238 0.17
923 3 0.00
929 6 0.00
930 1 0.00
931 1 0.00
932 283 0.20
933 322 0.23
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (926 bp):
ATTTGTTGGGGATGAGGAGGAGCAAAGGAAGAAAACAGAGAGCACAGAACAATGAAGCAAGATGC
AAGAAATATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTTATGGCTGATAGCTCATTTTGC
TCATTCATTCAACTAGAAAAAATAATACATTTATAGCCAAATACATCACCAAATACTACCTACTA
CCACTAATCATACTTTGAAACAAGTAAAACTTAACTTGCACACAAGCTGATTATGTCAATCAACA
CCTAAAAATATCAAAACAATACCAACTTAGTTCATTTTCAACTAAGTAGCTTAACAAAGTAACTA
AACAACCTTGCTGTTACAGCAAGCATACGTGCTGCAGCATGTTTACAAGCTGCATGCACTTAACC
AAAAATATAACAGCAGCATGGTTGGCCAATTTTCAACACTCCTCCTTGGACTCCATGCCGCAAAT
ACCAATCATTCATCAAGTTTTTTGAACTTGGCAGTCCTTAGATGCTTTGTTTCAAGCTGACTCTG
CTCAAGCAATTCATTTTCAACCTTGGCTTCATTCTCAACCAAATCTGACTTACACGCTTGACTAT
CCCAGTCTTTTGATCCAAAGATTTGTCCATCAAATGGAGTCTTCTCCTCCTTCCTTGGTTGACAA
CTTACCTTCAAAAACATATTGCCTTGTTTCTTTGTTCATTACAGTCATGTTTCTTCTTGCACATA
CTCCCTCCTGCTGTAGAGTGACTTCATGCACACACTCCATCAACTCCTCCTTCAGCTTATCCCAA
GCTTGTTTAGGAGTCTCACAAGGGTGAGCTGTTGCTATCTTTTTTACAAGTAGTCCTCAAAGATG
ACAGGCTTTAACAGCTTCTTATCTTTCTTAACAAGCAGCAGAAGCAAAAACAAGCCCTCAAAGAC
TTGGGCTCATGATACC
Found at i:47039436 original size:17 final size:17
Alignment explanation
Indices: 47039406--47039439 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
47039396 TAAAAATAAA
47039406 ACTTTACAACTTGGGCC
1 ACTTTACAACTTGGGCC
47039423 ACTTTGACAA-TTGGGCC
1 ACTTT-ACAACTTGGGCC
47039440 TGATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (17 bp):
ACTTTACAACTTGGGCC
Found at i:47048100 original size:144 final size:143
Alignment explanation
Indices: 47047836--47048126 Score: 510
Period size: 144 Copynumber: 2.0 Consensus size: 143
47047826 TTATTTAGAC
* *
47047836 CTTTAGTCCATTTCTTTGCTTGTAATGACTTTTCAACCTTTTAATTTAATGTATTTTAGTTTCTT
1 CTTTAGTCCATTTCTTTGCTTGTAATGAATTTTCAACCTTTTAATTTAATGTATTTTAATTTCTT
* * *
47047901 TTAATTTAATCTGTTAAAGGCTTCAACTTTTATGTTTCTTGTTCTTTATTTTGTTGTTGGATACC
66 TTAACTTAATCTGTTAAAGACTTCAAATTTTATGTTTCTTGTTCTTTATTTTGTTGTTGGATACC
*
47047966 TCTCATTACTTTT
131 TCCCATTACTTTT
*
47047979 CTTTGAGTCCATTTCTTTGCTTGTAATGAATTTTCAACCTTTTAGTTTAATGTATTTTAATTTCT
1 CTTT-AGTCCATTTCTTTGCTTGTAATGAATTTTCAACCTTTTAATTTAATGTATTTTAATTTCT
47048044 TTTAACTTAATCTGTTAAAGACTTCAAATTTTATGTTTCTTGTTCTTTATTTTGTTGTTGGATAC
65 TTTAACTTAATCTGTTAAAGACTTCAAATTTTATGTTTCTTGTTCTTTATTTTGTTGTTGGATAC
47048109 CTCCCATTACTTTT
130 CTCCCATTACTTTT
47048123 CTTT
1 CTTT
47048127 TATGTTTTCT
Statistics
Matches: 140, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
143 4 0.03
144 136 0.97
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (143 bp):
CTTTAGTCCATTTCTTTGCTTGTAATGAATTTTCAACCTTTTAATTTAATGTATTTTAATTTCTT
TTAACTTAATCTGTTAAAGACTTCAAATTTTATGTTTCTTGTTCTTTATTTTGTTGTTGGATACC
TCCCATTACTTTT
Found at i:47050327 original size:187 final size:188
Alignment explanation
Indices: 47050011--47050386 Score: 691
Period size: 187 Copynumber: 2.0 Consensus size: 188
47050001 TGGAAGAAAA
47050011 TCATCAAGATATGCATCTAGTAAAGGGGAGTACTAGAAATAGGAATTGCTTGTGAATTTATTGAA
1 TCATCAAGATATGCATCTAGTAAAGGGGAGTACTAGAAATAGGAATTGCTTGTGAATTTATTGAA
*
47050076 TTATCCTTAGCATGCAATTCTTTAAATATTAATCCATGTATTGTTTACAGTTCTTGTTAACAATT
66 TTATCCTTAGCATGCAATTCTTTAAATATTAATCCATGCATTGTTTACAGTTCTTGTTAACAATT
47050141 GGTATCTTAGTTAAAGTATCAATTAGTATCTTAATTAGTCATGAATTTGGTTGAATTT
131 GGTATCTTAGTTAAAGTATCAATTAGTATCTTAATTAGTCATGAATTTGGTTGAATTT
* *
47050199 TCATCAAGATATGCATCTAGTAAAGGGGAGTACTAGAAATATGAATTGCTTGTGAATTTATTGCA
1 TCATCAAGATATGCATCTAGTAAAGGGGAGTACTAGAAATAGGAATTGCTTGTGAATTTATTGAA
*
47050264 -TATCCTTAGCATGTAATTCTTTAAATATTAATCCATGCATTGTTTACAGTTCTTGTTAACAATT
66 TTATCCTTAGCATGCAATTCTTTAAATATTAATCCATGCATTGTTTACAGTTCTTGTTAACAATT
* *
47050328 GGTATCTTAGTTTAAGTATCAATTAGTATCTTCATTAGTCATGAATTTGGTTGAATTT
131 GGTATCTTAGTTAAAGTATCAATTAGTATCTTAATTAGTCATGAATTTGGTTGAATTT
47050386 T
1 T
47050387 TATGCAATTA
Statistics
Matches: 182, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
187 119 0.65
188 63 0.35
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (188 bp):
TCATCAAGATATGCATCTAGTAAAGGGGAGTACTAGAAATAGGAATTGCTTGTGAATTTATTGAA
TTATCCTTAGCATGCAATTCTTTAAATATTAATCCATGCATTGTTTACAGTTCTTGTTAACAATT
GGTATCTTAGTTAAAGTATCAATTAGTATCTTAATTAGTCATGAATTTGGTTGAATTT
Found at i:47051343 original size:22 final size:22
Alignment explanation
Indices: 47051287--47051344 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
47051277 TGGTAGTTAA
*
47051287 GTCTCAAGACATAAGACCATAT
1 GTCTCAAGACATGAGACCATAT
*
47051309 GTCTCAAGACATGGGACCATAT
1 GTCTCAAGACATGAGACCATAT
47051331 GTCTCAAGACATGA
1 GTCTCAAGACATGA
47051345 AAGTTCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (22 bp):
GTCTCAAGACATGAGACCATAT
Found at i:47051750 original size:14 final size:15
Alignment explanation
Indices: 47051731--47051759 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47051721 TGAGTCCAAA
47051731 AATAACCC-AATTAC
1 AATAACCCAAATTAC
47051745 AATAACCCAAATTAC
1 AATAACCCAAATTAC
47051760 TAGCCCAAAA
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:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAACCCAAATTAC
Found at i:47051967 original size:23 final size:23
Alignment explanation
Indices: 47051912--47051957 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
47051902 GCACCGCACA
* *
47051912 CCTCCGTACGTGCCACGTCCGCG
1 CCTCTGTACGTGCCACGTCCCCG
47051935 CCTCTGTACGTGCCACGTCCCCG
1 CCTCTGTACGTGCCACGTCCCCG
47051958 ATCTTGTACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.48, G:0.24, T:0.20
Consensus pattern (23 bp):
CCTCTGTACGTGCCACGTCCCCG
Found at i:47055289 original size:19 final size:20
Alignment explanation
Indices: 47055265--47055318 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
47055255 GCAATTAAGC
*
47055265 CTAGAAATTTTGGTAT-AGG
1 CTAGAAATTTTGGTATCAGA
*
47055284 CTAGAAATTTTAGTATCAGA
1 CTAGAAATTTTGGTATCAGA
*
47055304 TTA-AAATTTTGGTAT
1 CTAGAAATTTTGGTAT
47055319 TGCTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (20 bp):
CTAGAAATTTTGGTATCAGA
Found at i:47059652 original size:18 final size:18
Alignment explanation
Indices: 47059629--47059664 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47059619 ATGACGAACT
47059629 TGCGGAGGCATGTTGTTA
1 TGCGGAGGCATGTTGTTA
47059647 TGCGGAGGCATGTTGTTA
1 TGCGGAGGCATGTTGTTA
47059665 GGGAAGACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.39, T:0.33
Consensus pattern (18 bp):
TGCGGAGGCATGTTGTTA
Found at i:47061268 original size:21 final size:21
Alignment explanation
Indices: 47061225--47061338 Score: 95
Period size: 21 Copynumber: 5.5 Consensus size: 21
47061215 TCGAAAACTG
* * *
47061225 AACAGAAGCTCATGATAGCTA
1 AACAGAAGCTCATAAGAGTTA
47061246 AACAGAAGCTCATAAGAGTTA
1 AACAGAAGCTCATAAGAGTTA
* * * * * *
47061267 AATAAAAACACATAAGGGTTG
1 AACAGAAGCTCATAAGAGTTA
* *
47061288 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGTTA
* * *
47061309 AACAAAAACTCATAA-AGTTG
1 AACAGAAGCTCATAAGAGTTA
47061329 AACAGAAGCT
1 AACAGAAGCT
47061339 TGTGAGAGCT
Statistics
Matches: 69, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
20 11 0.16
21 58 0.84
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTA
Found at i:47061358 original size:42 final size:42
Alignment explanation
Indices: 47061246--47061395 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 42
47061236 ATGATAGCTA
* * * *
47061246 AACAGAAGCTCATAAGAGTTAAATAAAAACACATAAGGGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAAAAACACATAAGAGTTG
*
47061288 AACAGAAGCTCGTAAGAGCTAAACAAAAACTCATAA-AGTTG
1 AACAGAAGCTCGTAAGAGCTAAACAAAAACACATAAGAGTTG
* * * ** * *
47061329 AACAGAAGCTTGTGAGAGCTGAACAAAAA-ATTGTATGAGTTA
1 AACAGAAGCTCGTAAGAGCTAAACAAAAACA-CATAAGAGTTG
* *
47061371 AACGGAAGCTCGTAAGAGCTTAACA
1 AACAGAAGCTCGTAAGAGCTAAACA
47061396 GAAAGTAAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 32 0.36
42 57 0.64
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACAAAAACACATAAGAGTTG
Found at i:47064561 original size:18 final size:18
Alignment explanation
Indices: 47064540--47064587 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
47064530 AAAAAGCCTA
47064540 ACACAATATTTTTTTCTG
1 ACACAATATTTTTTTCTG
*
47064558 ACACAAT-TTTTTATCTG
1 ACACAATATTTTTTTCTG
47064575 ACA-AATATTTTTT
1 ACACAATATTTTTT
47064588 AAAATTTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 3 0.11
17 17 0.63
18 7 0.26
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (18 bp):
ACACAATATTTTTTTCTG
Found at i:47064574 original size:17 final size:17
Alignment explanation
Indices: 47064540--47064588 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
47064530 AAAAAGCCTA
*
47064540 ACACAATATTTTTTTCTG
1 ACACAAT-TTTTTATCTG
47064558 ACACAATTTTTTATCTG
1 ACACAATTTTTTATCTG
*
47064575 ACAAATATTTTTTA
1 ACACA-ATTTTTTA
47064589 AAATTTCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (17 bp):
ACACAATTTTTTATCTG
Found at i:47074301 original size:27 final size:28
Alignment explanation
Indices: 47074249--47074303 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
47074239 TAAATATTGA
47074249 AATTTATGATTTAAAATAAATTAATAATAT
1 AATTTAT-ATTTAAAATAAA-TAATAATAT
47074279 AATTTAT-TTTAAATATAAA-AATAAT
1 AATTTATATTTAAA-ATAAATAATAAT
47074304 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 6 0.25
28 6 0.25
29 5 0.21
30 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTTATATTTAAAATAAATAATAATAT
Found at i:47075616 original size:14 final size:15
Alignment explanation
Indices: 47075599--47075636 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
47075589 TTTATTTTTT
47075599 ATTAATTATAAAA-A
1 ATTAATTATAAAATA
* *
47075613 ATTAATTTTAAAATT
1 ATTAATTATAAAATA
47075628 ATTAATTAT
1 ATTAATTAT
47075637 TATCATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATTATAAAATA
Found at i:47077942 original size:12 final size:12
Alignment explanation
Indices: 47077925--47077949 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47077915 TTATGAAATT
47077925 AATTAATTATTG
1 AATTAATTATTG
47077937 AATTAATTATTG
1 AATTAATTATTG
47077949 A
1 A
47077950 TGTTACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTAATTATTG
Found at i:47082047 original size:3 final size:3
Alignment explanation
Indices: 47082039--47082064 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47082029 TCAAAAAGGA
47082039 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
47082065 ACATGAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47092357 original size:20 final size:21
Alignment explanation
Indices: 47092311--47092389 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
47092301 TACTAATTAC
47092311 AAATATTTAATAATTATATTT
1 AAATATTTAATAATTATATTT
47092332 AAATATTTAA-AA-TATAGTTT
1 AAATATTTAATAATTATA-TTT
* *
47092352 ATATATTCTAATTAATT-T-TAT
1 AAATATT-TAA-TAATTATATTT
* *
47092373 AAATAATTAATATTTAT
1 AAATATTTAATAATTAT
47092390 TGCTTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
19 8 0.17
20 15 0.32
21 20 0.43
23 3 0.06
24 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
AAATATTTAATAATTATATTT
Found at i:47092605 original size:28 final size:26
Alignment explanation
Indices: 47092559--47092630 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
47092549 ATTTTATTTC
47092559 TCAAAAACACTGCTAAACACCAAACTTT
1 TCAAAAACACTGCTAAACA--AAACTTT
* * *
47092587 TCAAAAACACTTCTCAACAATACTTT
1 TCAAAAACACTGCTAAACAAAACTTT
* * *
47092613 TCAAGAACATTGTTAAAC
1 TCAAAAACACTGCTAAAC
47092631 GTTAGCGGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
26 19 0.53
28 17 0.47
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.26
Consensus pattern (26 bp):
TCAAAAACACTGCTAAACAAAACTTT
Found at i:47103675 original size:12 final size:12
Alignment explanation
Indices: 47103658--47103684 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47103648 ACATTCATTC
47103658 AAAATAAAAATG
1 AAAATAAAAATG
47103670 AAAATAAAAATG
1 AAAATAAAAATG
47103682 AAA
1 AAA
47103685 CAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:47103777 original size:46 final size:44
Alignment explanation
Indices: 47103706--47103804 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 44
47103696 TAAATACGAT
* *
47103706 TAAATATAAAGATATGTATAGACAAAAATTAAAATGTATGTATATA
1 TAAATATATAGATATGTATAGACAAAAATTAAAA--TATGTACATA
* ** **
47103752 TAAATATATATATATGTATTTACAAAGGTTAAAATATGTACATA
1 TAAATATATAGATATGTATAGACAAAAATTAAAATATGTACATA
*
47103796 TATATATAT
1 TAAATATAT
47103805 TAAGAAAGGC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
44 17 0.38
46 28 0.62
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (44 bp):
TAAATATATAGATATGTATAGACAAAAATTAAAATATGTACATA
Found at i:47104064 original size:3 final size:3
Alignment explanation
Indices: 47104056--47104098 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
47104046 AAAAACAATT
* *
47104056 ATA ATA ATA ATA ATA ACA ATA ATA ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47104099 AATTGCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:47115833 original size:81 final size:84
Alignment explanation
Indices: 47115729--47115888 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 84
47115719 AGACTTGATG
*
47115729 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-C-TTTAATCCGCTCCACTGTAACTTC-G
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAG
47115791 GGAGATAGGATAGTGTCTT
66 GGAGATAGGATAGTGTCTT
* * *
47115810 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC---TTTTAATCCGCTCCACTGTAACTT
47115875 CAGGGAGATAGGAT
63 CAGGGAGATAGGAT
47115889 GTGATCTGTC
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
81 32 0.46
82 1 0.01
86 24 0.35
87 12 0.17
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (84 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAG
GGAGATAGGATAGTGTCTT
Found at i:47115993 original size:46 final size:45
Alignment explanation
Indices: 47115926--47116163 Score: 180
Period size: 46 Copynumber: 5.5 Consensus size: 45
47115916 TGCTCATCTG
* *
47115926 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTGTTCCA
* * *
47115972 CTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCT-TCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTGT-TCCA
* * * *
47116013 CTGTAA-CTTCAGAGAGATAAGATC------CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCTGTTCCA
* * * * * * *
47116052 TTGTAATCTCAAGGAGATAGGAT-T-ACTATCCTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCTGTTCCA
*
47116096 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTGTTCCA
47116142 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
47116164 CCTGTATAAT
Statistics
Matches: 150, Mismatches: 28, Indels: 28
0.73 0.14 0.14
Matches are distributed among these distances:
39 25 0.17
40 3 0.02
41 29 0.19
44 32 0.21
45 1 0.01
46 58 0.39
47 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (45 bp):
CTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTGTTCCA
Found at i:47128265 original size:12 final size:12
Alignment explanation
Indices: 47128248--47128274 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47128238 ACATTCATTC
47128248 AAAATAAAAATG
1 AAAATAAAAATG
47128260 AAAATAAAAATG
1 AAAATAAAAATG
47128272 AAA
1 AAA
47128275 CAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:47128403 original size:32 final size:32
Alignment explanation
Indices: 47128343--47128403 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
47128333 ATGTATATAT
* * *
47128343 AAATATATATATATATGTATTTACAAAGGTTA
1 AAATATATACATATATATATTAACAAAGGTTA
* *
47128375 AAATATGTACATATATATATTAAGAAAGG
1 AAATATATACATATATATATTAACAAAGG
47128404 CATAAATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.36
Consensus pattern (32 bp):
AAATATATACATATATATATTAACAAAGGTTA
Found at i:47128653 original size:3 final size:3
Alignment explanation
Indices: 47128645--47128687 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
47128635 AAAAACAATT
* *
47128645 ATA ATA ATA ATA ATA ACA ATA ATA ATA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47128688 AATTGCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:47133918 original size:19 final size:19
Alignment explanation
Indices: 47133894--47133937 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
47133884 TAGCAAAAAC
*
47133894 ATAAAATGTTAAAATATAA
1 ATAAAATATTAAAATATAA
*
47133913 ATAAAATATTATAATATAA
1 ATAAAATATTAAAATATAA
*
47133932 TTAAAA
1 ATAAAA
47133938 GTTGTCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAAATATTAAAATATAA
Found at i:47150328 original size:17 final size:17
Alignment explanation
Indices: 47150306--47150340 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47150296 ATTAAAAAAT
* *
47150306 ATTTTTATACTTTTAAA
1 ATTTTTAAAATTTTAAA
47150323 ATTTTTAAAATTTTAAA
1 ATTTTTAAAATTTTAAA
47150340 A
1 A
47150341 AATTAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTTAAAATTTTAAA
Found at i:47152075 original size:22 final size:22
Alignment explanation
Indices: 47152043--47152090 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
47152033 AATTATGATC
*
47152043 ATTACTTTAATTGCACT-ATTTA
1 ATTACTATAATT-CACTGATTTA
*
47152065 ATTACTATAATTCATTGATTTA
1 ATTACTATAATTCACTGATTTA
47152087 ATTA
1 ATTA
47152091 TTAATTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTACTATAATTCACTGATTTA
Found at i:47154216 original size:20 final size:21
Alignment explanation
Indices: 47154177--47154217 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
47154167 GTAATTATAT
*
47154177 TAATTAAATGAAATAAAAATA
1 TAATTAAATGAAACAAAAATA
*
47154198 TAATTAACT-AAACAAAAATA
1 TAATTAAATGAAACAAAAATA
47154218 ATTACACATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
TAATTAAATGAAACAAAAATA
Found at i:47155967 original size:66 final size:66
Alignment explanation
Indices: 47155844--47155976 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
47155834 GCTTAGGTAC
* * *
47155844 AAACTTGGCTCTAAAAACATGTTCCTCTCGATGAACAAAATAAGTGCTTTCTCTAATTTGTACAC
1 AAACTTGGCTCTAAAAACATATTCCTCTCGATAAACAAAATAAGTGCTTCCTCTAATTTGTACAC
47155909 A
66 A
* * * * *
47155910 AAACTTTGG-TCTAAATACATATTTCTTTCGATAAACAAAATAAGTGC-TCCATTTAATTTTTAC
1 AAAC-TTGGCTCTAAAAACATATTCCTCTCGATAAACAAAATAAGTGCTTCC-TCTAATTTGTAC
47155973 ACA
64 ACA
47155976 A
1 A
47155977 TTAAATAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
65 2 0.04
66 51 0.89
67 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (66 bp):
AAACTTGGCTCTAAAAACATATTCCTCTCGATAAACAAAATAAGTGCTTCCTCTAATTTGTACAC
A
Found at i:47167007 original size:30 final size:31
Alignment explanation
Indices: 47166952--47167016 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 31
47166942 TTTCAAAACT
47166952 AAATGATTAACACATAGTTTTTTTTTACTTAA
1 AAATGATTAACACATAG-TTTTTTTTACTTAA
47166984 AAATGATTAACACATAG-TTTTTTTACTTAA
1 AAATGATTAACACATAGTTTTTTTTACTTAA
47167014 AAA
1 AAA
47167017 CCCATACTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 16 0.48
32 17 0.52
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (31 bp):
AAATGATTAACACATAGTTTTTTTTACTTAA
Found at i:47170405 original size:33 final size:32
Alignment explanation
Indices: 47170353--47170496 Score: 93
Period size: 34 Copynumber: 4.5 Consensus size: 32
47170343 GGTTTGAGAA
47170353 TTTTTTAAA--AA-TAAATTAGGGTTTATAATT
1 TTTTTTAAATTAATTAAATTAGGGTTT-TAATT
47170383 TTTTTTAAATTAATTAAATTA-GGTTTTAAGGGTT
1 TTTTTTAAATTAATTAAATTAGGGTTTTAA---TT
*** * *
47170417 TTAAATAAATAAATTAAATTAAGG-TTTAGAGTT
1 TTTTTTAAATTAATTAAATTAGGGTTTTA-A-TT
***
47170450 TTTAAGAAAATTAATTAAATTAGGG-TTTAATT
1 TTT-TTTAAATTAATTAAATTAGGGTTTTAATT
* *
47170482 TTTTTAAAAATAATT
1 TTTTTTAAATTAATT
47170497 TTGTGTTTAG
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
30 9 0.10
31 12 0.13
32 12 0.13
33 13 0.14
34 44 0.47
35 3 0.03
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (32 bp):
TTTTTTAAATTAATTAAATTAGGGTTTTAATT
Found at i:47170486 original size:34 final size:33
Alignment explanation
Indices: 47170364--47170491 Score: 118
Period size: 34 Copynumber: 3.8 Consensus size: 33
47170354 TTTTTAAAAA
**
47170364 TAAATTAGGGTTTATAAT-TTTTT-TTAAATTAAT
1 TAAATTAGGG-TT-TAATGTTTTTAAAAAATTAAT
* * * *
47170397 TAAATTAGGTTTTAAGGGTTTTAAATAAATAAAT
1 TAAATTAGGGTTTAATGTTTTTAAA-AAATTAAT
*
47170431 TAAATTAAGGTTTAGA-GTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTA-ATGTTTTTAA-AAAATTAAT
*
47170465 TAAATTAGGGTTTAATTTTTTTAAAAA
1 TAAATTAGGGTTTAATGTTTTTAAAAA
47170492 TAATTTTGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
31 3 0.04
32 6 0.08
33 13 0.17
34 53 0.69
35 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (33 bp):
TAAATTAGGGTTTAATGTTTTTAAAAAATTAAT
Found at i:47170820 original size:125 final size:126
Alignment explanation
Indices: 47170582--47171229 Score: 852
Period size: 126 Copynumber: 5.2 Consensus size: 126
47170572 TTTTGTTTTT
** * * * * *
47170582 TTTTTCTTTAGTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * *
47170647 ACGCTTCAAGTAAGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTAGACGCTC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
*
47170708 TTTTTCTACAGTTGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * **
47170773 A-GCTTCAAGCAAGATGCATTGTCAGCAAAATTACTGAAAAATGCTCCCATGTAGACGCTC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
* * * * * * *
47170833 TTTTTCTATAGTAGTTCTTGAAAAAATGATTTTGAAAAGACAATTCTAAAAAAATAGTATCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * *
47170898 ACGCTTCAAGCAAGATGCACTGTCAGCAAAGTTACTGAAAAATGCTCCCACATGGACGGTT
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
* *
47170959 TTTTTCTACAGTAGTTCTTGAAAAAATTATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * * *
47171024 ACGCTTCAAACAGGATGCACTGTTAGCAAAATTATTG-AAAAAGCTCCTACATAGACGCCC
66 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
* * * *
47171084 TTTTTGTACAATAGTTCCTGAAAAAATAATATTT-AGAAGACGGTTCTGAAAAAATAGTGTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAAT-TTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
** * * * * *
47171148 AATACTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACACTC
65 AACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
47171210 TTTTTCTACAGTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
47171230 CTTGGCCTTA
Statistics
Matches: 455, Mismatches: 64, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
125 214 0.47
126 241 0.53
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
Done.