Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold321
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: 1029294
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.30
Warning! 84004 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:815246 original size:8 final size:8
Alignment explanation
Indices: 815210--815249 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
815200 TAGACTCAAA
815210 AAAAAAAT
1 AAAAAAAT
*
815218 CAAAAAAT
1 AAAAAAAT
*
815226 CAAAAAAT
1 AAAAAAAT
815234 CAAAAAAAT
1 -AAAAAAAT
815243 AAAAAAA
1 AAAAAAA
815250 AATCAAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:815246 original size:16 final size:15
Alignment explanation
Indices: 815207--815248 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
815197 GTTTAGACTC
815207 AAAA-AAAAAATCAA
1 AAAATAAAAAATCAA
815221 AAAATCAAAAAATCAAA
1 AAAAT-AAAAAATC-AA
815238 AAAATAAAAAA
1 AAAATAAAAAA
815249 AAATCAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.16
16 14 0.56
17 7 0.28
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAATAAAAAATCAA
Found at i:815278 original size:6 final size:6
Alignment explanation
Indices: 815269--815307 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
815259 CAAAAATAGG
815269 AGAAAA AGAAAAA AGAAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AG-AAAA AG-AAAA AGAAAA AGAAAA AGAAAA A
815308 AGGAGAGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 19 0.59
7 13 0.41
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:815283 original size:7 final size:7
Alignment explanation
Indices: 815271--815309 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
815261 AAAATAGGAG
815271 AAAAAGA
1 AAAAAGA
815278 AAAAAGA
1 AAAAAGA
815285 AAAAAG-
1 AAAAAGA
815291 AAAAAG-
1 AAAAAGA
815297 AAAAAGA
1 AAAAAGA
815304 AAAAAG
1 AAAAAG
815310 GAGAGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:815287 original size:13 final size:13
Alignment explanation
Indices: 815269--815309 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
815259 CAAAAATAGG
815269 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
815282 AGAAAAA-AGAAAA
1 AGAAAAAGA-AAAA
815295 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
815308 AG
1 AG
815310 GAGAGGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:815617 original size:36 final size:36
Alignment explanation
Indices: 815559--815628 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
815549 AGCACGATAG
* **
815559 CTGAGGTCTCAAATTAACTCAGAAGTGGACACCAAA
1 CTGAGGTCTCAAATCAACTCAGAAGCAGACACCAAA
* *
815595 CTGAGGTCTGAAATCAATTCAGAAGCAGACACCA
1 CTGAGGTCTCAAATCAACTCAGAAGCAGACACCA
815629 CGTTTTGTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (36 bp):
CTGAGGTCTCAAATCAACTCAGAAGCAGACACCAAA
Found at i:816140 original size:8 final size:9
Alignment explanation
Indices: 816127--816190 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
816117 AAACAAAAAC
816127 AAAAAT-AA
1 AAAAATGAA
816135 AAAAATG--
1 AAAAATGAA
816142 -AAAATGAAA
1 AAAAATG-AA
816151 AAATGAATGGAA
1 AAA--AAT-GAA
816163 AAAAATG--
1 AAAAATGAA
816170 AAAAATGAA
1 AAAAATGAA
816179 AAAAATGAA
1 AAAAATGAA
816188 AAA
1 AAA
816191 TGGAGAGGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 19
0.71 0.00 0.29
Matches are distributed among these distances:
6 6 0.13
7 7 0.15
8 6 0.13
9 13 0.28
10 5 0.11
12 8 0.17
13 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAAATGAA
Found at i:816179 original size:16 final size:16
Alignment explanation
Indices: 816127--816192 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 16
816117 AAACAAAAAC
816127 AAAAAT-AAAAAAATG
1 AAAAATGAAAAAAATG
816142 -AAAATG-AAAAAATG
1 AAAAATGAAAAAAATG
816156 ---AATGGAAAAAAATG
1 AAAAAT-GAAAAAAATG
816170 AAAAATGAAAAAAATG
1 AAAAATGAAAAAAATG
816186 AAAAATG
1 AAAAATG
816193 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.07
13 1 0.02
14 21 0.47
16 17 0.38
17 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAAATGAAAAAAATG
Found at i:817575 original size:88 final size:87
Alignment explanation
Indices: 817426--817692 Score: 306
Period size: 88 Copynumber: 3.0 Consensus size: 87
817416 AAGCAGATCA
* * * * * * *
817426 AAGACAACAGATCTTACCTTCCTGCCTTGACAGTGAAGCAGATCGAAGATACAAGCTTTGTCTCC
1 AAGACAGCAGATCTGACCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATA-AAGCCTTGTCTCC
*
817491 ATCGGTTG-AGGTGGAACTGGTTG
65 ATCGGTTGTA-GTGGAACTGATTG
**
817514 AAGACAGCAGATCTGACCTTCCTGCGTTAACAGCGAAGCAGATTAAAAAATAAAGCCTTGTCTCC
1 AAGACAGCAGATCTGACCTTCCTGCGTTAACAGCGAAGCAGA-TCGAAAATAAAGCCTTGTCTCC
*
817579 ATCGGTTGTAGTGGAGCTGATTG
65 ATCGGTTGTAGTGGAACTGATTG
* * * * *
817602 AAGATAGCAGATCTTG-TCTTCCTGCGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCC
1 AAGACAGCAGATC-TGACCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCCTTGTCTCC
* *
817666 ATCGATTGTAGT-GAAGCAGATTG
65 ATCGGTTGTAGTGGAA-CTGATTG
817689 AAGA
1 AAGA
817693 AAGGATCTTA
Statistics
Matches: 154, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
86 2 0.01
87 39 0.25
88 104 0.68
89 9 0.06
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
AAGACAGCAGATCTGACCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGCCTTGTCTCCA
TCGGTTGTAGTGGAACTGATTG
Found at i:817791 original size:46 final size:44
Alignment explanation
Indices: 817739--817854 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 44
817729 TCGTGTCAAG
*
817739 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAA-AATAGT-A-A
* * ** *
817785 TCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAATATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAATAGTAA
*
817829 TCCTATCTCCCTGAGATTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
817855 GCGGATTCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 25 0.41
45 3 0.05
46 33 0.54
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAATAGTAA
Found at i:817880 original size:44 final size:44
Alignment explanation
Indices: 817739--817904 Score: 138
Period size: 44 Copynumber: 3.7 Consensus size: 44
817729 TCGTGTCAAG
* *** * **
817739 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAATAAAGT--GA
* * * *
817785 TCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAATATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAATAAAGTGA
* *
817829 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTCAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAATAAAGTGA
* * *
817873 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
817905 CGTGTCAGAT
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.01
44 57 0.58
45 6 0.06
46 34 0.35
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAATAAAGTGA
Found at i:818362 original size:46 final size:46
Alignment explanation
Indices: 818290--818542 Score: 186
Period size: 46 Copynumber: 5.7 Consensus size: 46
818280 GTAGATCGCA
* *
818290 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATT
* ** * *
818336 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAG-CTGG
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAAT-T
* * * * ** **
818382 T-A-ATCCTATCTCCCTGAGATTATAGTGGAGCGGA-TTAA-AA-T
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATT
** * * * * *
818423 GAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC---GCA--
1 TCA-GATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATT
* * *
818465 TCAGGTTTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATT
818511 TCAGATCTTATCTCCCTGAGGTTACAGCGGAG
1 TCAGATCTTATCTCCCTGAGGTTACAGCGGAG
818543 CAGATTGAAG
Statistics
Matches: 155, Mismatches: 40, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
41 28 0.18
42 2 0.01
43 4 0.03
44 52 0.34
45 2 0.01
46 67 0.43
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATT
Found at i:818363 original size:87 final size:87
Alignment explanation
Indices: 818252--818547 Score: 337
Period size: 87 Copynumber: 3.4 Consensus size: 87
818242 TAAAATGAAG
* *
818252 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
818317 TGGAGTAGACCGAAGAATTTCA
66 TGGAGTAGACCGAAGAATTTCA
* * * * * * * *
818339 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGG---TCTTATCTCCCTGAGGTTA
* ** ** **
818404 TAGTGGAGCGGA-TTAA-AA-TGAA
63 CAGTGGAGTAGACCGAAGAATTTCA
* * *
818426 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTTTTATCTCCCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
818491 GTGGAGTAGACCGAAGAATTTCA
65 GTGGAGTAGACCGAAGAATTTCA
* *
818514 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGAT
1 GATCTTATCTCCCTGAAGTTACAGCAGAGCAGAT
818548 TGAAGCTGGT
Statistics
Matches: 163, Mismatches: 39, Indels: 14
0.75 0.18 0.06
Matches are distributed among these distances:
85 25 0.15
86 2 0.01
87 69 0.42
88 39 0.24
89 2 0.01
90 26 0.16
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGTAGACCGAAGAATTTCA
Found at i:818450 original size:175 final size:175
Alignment explanation
Indices: 818159--818643 Score: 943
Period size: 175 Copynumber: 2.8 Consensus size: 175
818149 NNNNNNNNNN
818159 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
1 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
818224 GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
66 GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
818289 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
131 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
818334 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
1 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
818399 GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
66 GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
*
818464 ATCAGGTTTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
131 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
818509 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
1 TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
* *
818574 GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGT
66 GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
818639 ATCAG
131 ATCAG
818644 ATTTTACCTC
Statistics
Matches: 307, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 307 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (175 bp):
TTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCCTGA
GATTATAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA
Found at i:818611 original size:44 final size:44
Alignment explanation
Indices: 818164--818635 Score: 222
Period size: 44 Copynumber: 10.8 Consensus size: 44
818154 NNNNNTTTCA
* * * *
818164 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATT-GAA-GCTG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
* * * *
818206 GTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATGAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
* ** * ***
818252 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCAT-CAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATGCAG
* * ** *
818294 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-TGCAG
* * * *
818339 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATT-GAA-GCTG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
* * * *
818381 GTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATGAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
* ** * ***
818427 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCAT-CAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATGCAG
* * * ** *
818469 G-TTTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-TGCAG
* * * *
818514 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATT-GAA-GCTG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
* * * *
818556 GTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATGAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
* * *
818602 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
818636 CGTATCAGAT
Statistics
Matches: 315, Mismatches: 84, Indels: 60
0.69 0.18 0.13
Matches are distributed among these distances:
41 53 0.17
42 9 0.03
43 13 0.04
44 160 0.51
45 10 0.03
46 70 0.22
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATGCAG
Found at i:820302 original size:3 final size:3
Alignment explanation
Indices: 820294--820338 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
820284 ACAAATTTCA
* *
820294 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
820339 GTTTTATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:820400 original size:17 final size:16
Alignment explanation
Indices: 820369--820402 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
820359 TATTCGTTAG
*
820369 TTTTGTTTTTTTTTAT
1 TTTTATTTTTTTTTAT
820385 TTTTATTTTTTATTTAT
1 TTTTATTTTTT-TTTAT
820402 T
1 T
820403 CTATATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTATTTTTTTTTAT
Found at i:822054 original size:27 final size:27
Alignment explanation
Indices: 822024--822076 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
822014 ATTAATTCAA
822024 ATAATATTAAAT-TTAAACAAATTTATG
1 ATAA-ATTAAATATTAAACAAATTTATG
* * *
822051 ATAAATTCAATATTAAATATATTTAT
1 ATAAATTAAATATTAAACAAATTTAT
822077 TAAAATGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
ATAAATTAAATATTAAACAAATTTATG
Found at i:822276 original size:86 final size:85
Alignment explanation
Indices: 822124--822301 Score: 250
Period size: 86 Copynumber: 2.1 Consensus size: 85
822114 CTTAAGGGTG
* * *
822124 TAAAAAACTCTCAAATTTTTTCTAAAAAAGCAATTAGCCCCCCTTTTTTTTGCACTCAATTAGGT
1 TAAAAAACTCTCAAACTTTTTCAAAAAAAGCAATTAACCCCCCTTTTTTTTGCACTCAATTAGGT
* *
822189 ACTTGAACTTTCAAAATGCA
66 ACTTGAACTGTCAAAATACA
* * * *
822209 TCAAAAAATTCTCAAACTTTTTCAAAAAAAGCAGTTAAACCCCCC-TTTTTTTGCACTTAATTGG
1 T-AAAAAACTCTCAAACTTTTTCAAAAAAAGCAATT-AACCCCCCTTTTTTTTGCACTCAATTAG
822273 GTACTTGAACTGTCAAAATACA
64 GTACTTGAACTGTCAAAATACA
822295 TAAAAAA
1 TAAAAAA
822302 GACCATTAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
85 7 0.09
86 68 0.83
87 7 0.09
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.33
Consensus pattern (85 bp):
TAAAAAACTCTCAAACTTTTTCAAAAAAAGCAATTAACCCCCCTTTTTTTTGCACTCAATTAGGT
ACTTGAACTGTCAAAATACA
Found at i:822446 original size:9 final size:9
Alignment explanation
Indices: 822432--822566 Score: 72
Period size: 10 Copynumber: 13.7 Consensus size: 9
822422 ATAAAACTAA
*
822432 ATAAAAGTT
1 ATAAAAATT
822441 ATAAAAATT
1 ATAAAAATT
**
822450 ATTAAATTTT
1 A-TAAAAATT
822460 AATTAAAAATAT
1 -A-TAAAAAT-T
**
822472 ATAAAAACAG
1 ATAAAAA-TT
*
822482 AAAAAAAATT
1 ATAA-AAATT
822492 ATAAAAATT
1 ATAAAAATT
822501 ATAAAAATCGT
1 ATAAAAAT--T
*
822512 AAAAAAATAT
1 ATAAAAAT-T
822522 ATAAAAAATT
1 AT-AAAAATT
* *
822532 GTAAAATTTT
1 ATAAAA-ATT
*
822542 ATAAAAATC
1 ATAAAAATT
822551 ATAAAAAATT
1 AT-AAAAATT
822561 ATAAAA
1 ATAAAA
822567 TGTATCAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
9 33 0.34
10 37 0.39
11 25 0.26
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:822497 original size:8 final size:9
Alignment explanation
Indices: 822408--822566 Score: 79
Period size: 9 Copynumber: 16.4 Consensus size: 9
822398 CATGTGGCAA
822408 AAAAATTAT
1 AAAAATTAT
822417 AAAAA--AT
1 AAAAATTAT
* *
822424 AAAACTAAAT
1 AAAAAT-TAT
*
822434 AAAAGTTAT
1 AAAAATTAT
822443 AAAAATTATT
1 AAAAATTA-T
**
822453 AAATTTTAATT
1 AAAAATT-A-T
822464 AAAAATATAT
1 AAAAAT-TAT
** *
822474 AAAAACAGAAA
1 -AAAA-ATTAT
822485 AAAAATTAT
1 AAAAATTAT
822494 AAAAATTAT
1 AAAAATTAT
*
822503 AAAAATCGTAA
1 AAAAAT--TAT
822514 AAAAATATAT
1 AAAAAT-TAT
*
822524 AAAAAATTGT
1 -AAAAATTAT
*
822534 AAAATTTTAT
1 AAAA-ATTAT
*
822544 AAAAATCAT
1 AAAAATTAT
822553 AAAAAATTAT
1 -AAAAATTAT
822563 AAAA
1 AAAA
822567 TGTATCAAAA
Statistics
Matches: 114, Mismatches: 23, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
7 6 0.05
9 42 0.37
10 37 0.32
11 27 0.24
12 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:822499 original size:30 final size:30
Alignment explanation
Indices: 822463--822537 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
822453 AAATTTTAAT
822463 TAAAAATATATAAAAA-CAGAAAAAAAAT-TA
1 TAAAAAT-TATAAAAATC-GAAAAAAAATATA
*
822493 TAAAAATTATAAAAATCGTAAAAAAATATA
1 TAAAAATTATAAAAATCGAAAAAAAATATA
*
822523 TAAAAAATTGTAAAA
1 T-AAAAATTATAAAA
822538 TTTTATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 17 0.43
30 11 0.28
31 12 0.30
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (30 bp):
TAAAAATTATAAAAATCGAAAAAAAATATA
Found at i:822528 original size:22 final size:20
Alignment explanation
Indices: 822494--822566 Score: 78
Period size: 19 Copynumber: 3.6 Consensus size: 20
822484 AAAAAATTAT
822494 AAAAATTATAAAAATCGTAA
1 AAAAATTATAAAAATCGTAA
*
822514 AAAAATATATAAAAAATTGT-A
1 AAAAAT-TAT-AAAAATCGTAA
** *
822535 AAATTTTATAAAAATCAT-A
1 AAAAATTATAAAAATCGTAA
822554 AAAAATTATAAAA
1 AAAAATTATAAAA
822567 TGTATCAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 19 0.43
20 9 0.20
21 8 0.18
22 8 0.18
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATTATAAAAATCGTAA
Found at i:825521 original size:20 final size:19
Alignment explanation
Indices: 825451--825517 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
825441 TACTTAATAA
825451 AATTTTATAATTTTTTTCT
1 AATTTTATAATTTTTTTCT
*
825470 ATATTTCTAT-ATTATTTTTCC
1 A-ATTT-TATAATT-TTTTTCT
825491 AATTTTTATAATTTTTTTCT
1 AA-TTTTATAATTTTTTTCT
825511 AATTTTA
1 AATTTTA
825518 ATAAAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 6 0.15
20 19 0.46
21 16 0.39
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTTTATAATTTTTTTCT
Found at i:825527 original size:29 final size:30
Alignment explanation
Indices: 825495--825571 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
825485 TTTTCCAATT
*
825495 TTTATAATTTTTTTCTAATTTTAATAAA-A
1 TTTATAATTTTTTTATAATTTTAATAAATA
* * *
825524 TTTA-AATATTTTTTATTATTTTATTAAATT
1 TTTATAAT-TTTTTTATAATTTTAATAAATA
825554 TTTATAACTTTTATTTAT
1 TTTATAA-TTTT-TTTAT
825572 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 3 0.08
29 21 0.54
30 4 0.10
31 5 0.13
32 6 0.15
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTATAATTTTTTTATAATTTTAATAAATA
Found at i:825555 original size:19 final size:19
Alignment explanation
Indices: 825533--825578 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
825523 ATTTAAATAT
825533 TTTTTATTA-TTTTATTAAA
1 TTTTTATTACTTTTATT-AA
* *
825552 TTTTTATAACTTTTATTTA
1 TTTTTATTACTTTTATTAA
825571 TTTTTATT
1 TTTTTATT
825579 TTTAACCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTATTACTTTTATTAA
Found at i:825565 original size:20 final size:18
Alignment explanation
Indices: 825491--825577 Score: 57
Period size: 20 Copynumber: 4.5 Consensus size: 18
825481 TTATTTTTCC
*
825491 AATTTTTATAATTTTTTTCT
1 AATTTTTATAA-TTTTAT-T
* * *
825511 AATTTTAATAAAATTTAAAT
1 AATTTT--TATAATTTTATT
* *
825531 ATTTTTTATTATTTTATT
1 AATTTTTATAATTTTATT
825549 AAATTTTTATAACTTTTATT
1 -AATTTTTATAA-TTTTATT
*
825569 TATTTTTAT
1 AATTTTTAT
825578 TTTTAACCAT
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
18 8 0.16
19 17 0.33
20 19 0.37
21 3 0.06
22 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTATAATTTTATT
Found at i:854763 original size:17 final size:18
Alignment explanation
Indices: 854730--854765 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
854720 ATAAATGGCT
854730 TATATTATATTAATTTTAA
1 TATATTATATT-ATTTTAA
854749 TATATTATATT-TTTTAA
1 TATATTATATTATTTTAA
854766 GACATAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTATATTATTTTAA
Found at i:872279 original size:457 final size:457
Alignment explanation
Indices: 871425--872336 Score: 1806
Period size: 457 Copynumber: 2.0 Consensus size: 457
871415 CAAATTCACG
871425 CATACATATGAATGAGTAGAGCCAGGGTCAATCAAAGCAATAACATCAATATCATGAAGAGAAAA
1 CATACATATGAATGAGTAGAGCCAGGGTCAATCAAAGCAATAACATCAATATCATGAAGAGAAAA
*
871490 TGTACCAGTAATCACGTCGGGAGATGAGGCATCCTCTCGAGTGCGTATGACATAAGTCCTGGCAG
66 TGTACCAATAATCACGTCGGGAGATGAGGCATCCTCTCGAGTGCGTATGACATAAGTCCTGGCAG
871555 GCGCTCTAGTTTCTGATCTTCCAGCTGCATCTTTTACCACACTTTTACCATTGGCTTTGCTCCCC
131 GCGCTCTAGTTTCTGATCTTCCAGCTGCATCTTTTACCACACTTTTACCATTGGCTTTGCTCCCC
871620 ACATTTCTCGGTGGTCTGCCTCTACTAACAATATCACCCGATCCAGTTCTTTGTAATTTTTCTTC
196 ACATTTCTCGGTGGTCTGCCTCTACTAACAATATCACCCGATCCAGTTCTTTGTAATTTTTCTTC
871685 CTCTATTCTTTCAGGGAAATCTTTTACATAATGCTCTTGAGGACCACACCTGAAACAAGCTCATT
261 CTCTATTCTTTCAGGGAAATCTTTTACATAATGCTCTTGAGGACCACACCTGAAACAAGCTCATT
871750 TAAATCCCCAACACTCACCAGTATGTCGTCTGCCACACAGTTGACATTCAGGTCTGGTGTTTCCT
326 TAAATCCCCAACACTCACCAGTATGTCGTCTGCCACACAGTTGACATTCAGGTCTGGTGTTTCCT
871815 ACATTGCCCACACTTGCCACTGAGGTAGCTCGAGTTTTAACTCCGGAATATGACCTCCCTCGGTC
391 ACATTGCCCACACTTGCCACTGAGGTAGCTCGAGTTTTAACTCCGGAATATGACCTCCCTCGGTC
871880 AA
456 AA
*
871882 CATACATATGAATGAGTAGAGCCAGGGTCAATCAAAGCAATAACATTAATATCATGAAGAGAAAA
1 CATACATATGAATGAGTAGAGCCAGGGTCAATCAAAGCAATAACATCAATATCATGAAGAGAAAA
871947 TGTACCAATAATCACGTCGGGAGATGAGGCATCCTCTCGAGTGCGTATGACATAAGTCCTGGCAG
66 TGTACCAATAATCACGTCGGGAGATGAGGCATCCTCTCGAGTGCGTATGACATAAGTCCTGGCAG
872012 GCGCTCTAGTTTCTGATCTTCCAGCTGCATCTTTTACCACACTTTTACCATTGGCTTTGCTCCCC
131 GCGCTCTAGTTTCTGATCTTCCAGCTGCATCTTTTACCACACTTTTACCATTGGCTTTGCTCCCC
872077 ACATTTCTCGGTGGTCTGCCTCTACTAACAATATCACCCGATCCAGTTCTTTGTAATTTTTCTTC
196 ACATTTCTCGGTGGTCTGCCTCTACTAACAATATCACCCGATCCAGTTCTTTGTAATTTTTCTTC
872142 CTCTATTCTTTCAGGGAAATCTTTTACATAATGCTCTTGAGGACCACACCTGAAACAAGCTCATT
261 CTCTATTCTTTCAGGGAAATCTTTTACATAATGCTCTTGAGGACCACACCTGAAACAAGCTCATT
872207 TAAATCCCCAACACTCACCAGTATGTCGTCTGCCACACAGTTGACATTCAGGTCTGGTGTTTCCT
326 TAAATCCCCAACACTCACCAGTATGTCGTCTGCCACACAGTTGACATTCAGGTCTGGTGTTTCCT
872272 ACATTGCCCACACTTGCCACTGAGGTAGCTCGAGTTTTAACTCCGGAATATGACCTCCCTCGGTC
391 ACATTGCCCACACTTGCCACTGAGGTAGCTCGAGTTTTAACTCCGGAATATGACCTCCCTCGGTC
872337 TCTGCGTGAA
Statistics
Matches: 453, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
457 453 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (457 bp):
CATACATATGAATGAGTAGAGCCAGGGTCAATCAAAGCAATAACATCAATATCATGAAGAGAAAA
TGTACCAATAATCACGTCGGGAGATGAGGCATCCTCTCGAGTGCGTATGACATAAGTCCTGGCAG
GCGCTCTAGTTTCTGATCTTCCAGCTGCATCTTTTACCACACTTTTACCATTGGCTTTGCTCCCC
ACATTTCTCGGTGGTCTGCCTCTACTAACAATATCACCCGATCCAGTTCTTTGTAATTTTTCTTC
CTCTATTCTTTCAGGGAAATCTTTTACATAATGCTCTTGAGGACCACACCTGAAACAAGCTCATT
TAAATCCCCAACACTCACCAGTATGTCGTCTGCCACACAGTTGACATTCAGGTCTGGTGTTTCCT
ACATTGCCCACACTTGCCACTGAGGTAGCTCGAGTTTTAACTCCGGAATATGACCTCCCTCGGTC
AA
Found at i:874553 original size:33 final size:33
Alignment explanation
Indices: 874516--874842 Score: 169
Period size: 33 Copynumber: 9.4 Consensus size: 33
874506 GGTGGATTTC
874516 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
* * *
874549 GCACTTAGCAACCCCCTTCACATTTCAGATGTGGTGGAATCA
1 GCACTTAGCAA-CCAC--CA-A--TGA-AT-CGG-GGAATCA
*
874591 GCACTTAGCAACCACCAATGAATAGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
874624 GCACTTAGCAACC-CC------TCGGGGGAATCA
1 GCACTTAGCAACCACCAATGAATC-GGGGAATCA
* *
874651 GCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCA
1 GCACTTAGCAACCACC---A-A--T-GA-AT-CGG-GGAATCA
*
874694 GCACTTAGCAACCACCAATGAATAGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
874727 GCACTTAGCAACC-CC------TCGGGGAAATCA
1 GCACTTAGCAACCACCAATGAATCGGGG-AATCA
* * *
874754 GCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCA
1 GCACTTAGCAA-CCAC---CA-A--T-GAAT-CGG-GGAATCA
* *
874797 GCACTTAGCAACCACCGATGAATAGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
874830 GCACTTAGCAACC
1 GCACTTAGCAACC
874843 CCTCTATATT
Statistics
Matches: 232, Mismatches: 17, Indels: 90
0.68 0.05 0.27
Matches are distributed among these distances:
26 6 0.03
27 38 0.16
28 4 0.02
29 1 0.00
32 5 0.02
33 70 0.30
34 9 0.04
35 7 0.03
36 6 0.03
37 2 0.01
38 2 0.01
39 6 0.03
40 3 0.01
41 5 0.02
42 25 0.11
43 41 0.18
44 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (33 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCA
Found at i:874710 original size:103 final size:103
Alignment explanation
Indices: 874540--874846 Score: 519
Period size: 103 Copynumber: 3.0 Consensus size: 103
874530 CCAATGAATC
* * **
874540 GGGGAATCAGCACTTAGCAACCCCCTTCACATTT-CAGATGTGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
874604 ACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
66 ACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
*
874642 GGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
874707 ACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
66 ACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
* *
874745 GGGAAATCAGCACTTAGCAACCCCCTTTCACATTTAAA-ATACGGTGGGATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCTTT-ACATTTAAAGATACGGTGGAATCAGCACTTAGCAAC
*
874809 CACCGATGAATAGGGGAATCAGCACTTAGCAACCCCTC
65 CACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTC
874847 TATATTCAAT
Statistics
Matches: 194, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
102 32 0.16
103 154 0.79
104 8 0.04
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:874747 original size:26 final size:27
Alignment explanation
Indices: 874718--874768 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
874708 CCAATGAATA
874718 GGGG-AATCAGCACTTAGCAACCCCTC
1 GGGGAAATCAGCACTTAGCAACCCCTC
874744 GGGGAAATCAGCACTTAGCAACCCC
1 GGGGAAATCAGCACTTAGCAACCCC
874769 CTTTCACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (27 bp):
GGGGAAATCAGCACTTAGCAACCCCTC
Found at i:876517 original size:23 final size:23
Alignment explanation
Indices: 876472--876518 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
876462 TCTAAAATCG
* *
876472 AATAATAATTATGAGAAAATAAT
1 AATAATAATAATAAGAAAATAAT
* *
876495 AATAATAATAATAATAAACTAAT
1 AATAATAATAATAAGAAAATAAT
876518 A
1 A
876519 TGACGAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAGAAAATAAT
Found at i:876865 original size:17 final size:15
Alignment explanation
Indices: 876843--876876 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
876833 TCCAATATTG
876843 TATTTATTAAGTTTTAT
1 TATTTATT-A-TTTTAT
876860 TATTTATTATTTTAT
1 TATTTATTATTTTAT
876875 TA
1 TA
876877 AGTCTGGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTATTATTTTAT
Found at i:878870 original size:33 final size:33
Alignment explanation
Indices: 878842--878932 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
878832 TTGTCCTGAT
878842 AGACTATCTTTGTTCTATGTTTACTGTCCTAGC
1 AGACTATCTTTGTTCTATGTTTACTGTCCTAGC
* * *
878875 GGACTATCTTTGTTCTGTGTTTACCGT-CTCAGC
1 AGACTATCTTTGTTCTATGTTTACTGTCCT-AGC
* * * *
878908 GGACTATCTCTATTTTATGTTTACT
1 AGACTATCTTTGTTCTATGTTTACT
878933 ATCCCACCAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 2 0.04
33 47 0.96
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.46
Consensus pattern (33 bp):
AGACTATCTTTGTTCTATGTTTACTGTCCTAGC
Found at i:888547 original size:50 final size:50
Alignment explanation
Indices: 888469--888592 Score: 230
Period size: 50 Copynumber: 2.5 Consensus size: 50
888459 GAGATCATAT
*
888469 GTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCTC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCTC
888519 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCTC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCTC
*
888569 ATAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
888593 ATGGGCACTG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCTC
Found at i:888644 original size:52 final size:49
Alignment explanation
Indices: 888570--888690 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 49
888560 AGGTCCCTCA
* * *
888570 TAAGACCATGTCTGGGACATGGCATGGGCACTGATATAAGAAACATCCCATG
1 TAAGACAATGTCTGGGACATGGCATGGG-A-AG-TACAAGAAACATCCCATG
* * * *
888622 TAAGACAATATCTGGGATATGGCATTGGAAGTCCAAGAAACATCCCATG
1 TAAGACAATGTCTGGGACATGGCATGGGAAGTACAAGAAACATCCCATG
*
888671 TAAGACTATGTCTGGGACAT
1 TAAGACAATGTCTGGGACAT
888691 AGCTTTGGCA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 33 0.56
50 1 0.02
51 1 0.02
52 24 0.41
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (49 bp):
TAAGACAATGTCTGGGACATGGCATGGGAAGTACAAGAAACATCCCATG
Found at i:892689 original size:18 final size:18
Alignment explanation
Indices: 892666--892704 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
892656 TAGATTTCTC
892666 TTTCTTCTAATTGACCAT
1 TTTCTTCTAATTGACCAT
*
892684 TTTCTTCTAATTGACTAT
1 TTTCTTCTAATTGACCAT
892702 TTT
1 TTT
892705 ACCCTTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTCTTCTAATTGACCAT
Found at i:896095 original size:32 final size:32
Alignment explanation
Indices: 896054--896117 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
896044 CCAAATTGCA
896054 ATCCCTTAGGTACGATCCTCAGAGTACTTACT
1 ATCCCTTAGGTACGATCCTCAGAGTACTTACT
*
896086 ATCCCTTAGGTACGATCCTCGGAGTACTTACT
1 ATCCCTTAGGTACGATCCTCAGAGTACTTACT
896118 TTGTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (32 bp):
ATCCCTTAGGTACGATCCTCAGAGTACTTACT
Found at i:898149 original size:47 final size:48
Alignment explanation
Indices: 898067--898214 Score: 181
Period size: 47 Copynumber: 3.0 Consensus size: 48
898057 GTGGAAGTAT
* *
898067 GTGGCAGTTTATCTATAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCA
1 GTGGCAGTATATCTACAAAT-AGTGGTGGCTTGTCCACAAAGTGTTTCA
*
898116 GTGGCAGTATATCTACATAT-GTGGTGGCTTGTCCACAAAGTGTTATCA
1 GTGGCAGTATATCTACAAATAGTGGTGGCTTGTCCACAAAGTGTT-TCA
* * * *
898164 GTTGCAGTTTATCTGCAAATCAGTGGTGGTTTGTCCACAAATTGTGTTTCA
1 GTGGCAGTATATCTACAAAT-AGTGGTGGCTTGTCCACAAA--GTGTTTCA
898215 AATGGACGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
47 24 0.28
48 19 0.22
49 17 0.20
50 18 0.21
51 3 0.03
52 5 0.06
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (48 bp):
GTGGCAGTATATCTACAAATAGTGGTGGCTTGTCCACAAAGTGTTTCA
Found at i:898373 original size:14 final size:14
Alignment explanation
Indices: 898354--898381 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
898344 TTAATATGAT
898354 GATTGATATTTTGA
1 GATTGATATTTTGA
898368 GATTGATATTTTGA
1 GATTGATATTTTGA
898382 TATGTATGCG
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
GATTGATATTTTGA
Found at i:900839 original size:27 final size:27
Alignment explanation
Indices: 900723--900840 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
900713 CACTGTTAAT
* * *
900723 GCATTCCTTTCAGAGT-CTGCCACGAAG
1 GCATTCCTTTCATA-TATTGCCACAAAG
*
900750 GCATT-CATTCATATATTGCCACAAAG
1 GCATTCCTTTCATATATTGCCACAAAG
* * *
900776 ACATTCCTTCCATATATTGTCACAAAG
1 GCATTCCTTTCATATATTGCCACAAAG
*
900803 TCATTCCTTTCATATATTGCCACAAAG
1 GCATTCCTTTCATATATTGCCACAAAG
900830 GCATTCCTTTC
1 GCATTCCTTTC
900841 CTAGCGTGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 19 0.25
27 57 0.74
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (27 bp):
GCATTCCTTTCATATATTGCCACAAAG
Found at i:917900 original size:41 final size:44
Alignment explanation
Indices: 917794--917887 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 44
917784 CAGCCAACGT
*
917794 TTTAGTTGTCATCTATGTAATAGTACCTCCTTACAACAATGCTA
1 TTTAGTTGTCATCTATGTAATAGTACCTCCTAACAACAATGCTA
917838 TTTAGTTGTCATCTATGTAATAGTACCTCCTAACAACAATGCTA
1 TTTAGTTGTCATCTATGTAATAGTACCTCCTAACAACAATGCTA
917882 TTTAGT
1 TTTAGT
917888 GCATCATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (44 bp):
TTTAGTTGTCATCTATGTAATAGTACCTCCTAACAACAATGCTA
Found at i:918893 original size:27 final size:28
Alignment explanation
Indices: 918863--918919 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
918853 GTTTAATTTA
* *
918863 GTTTTTTTCTTATTTCA-TACTT-AACTT
1 GTTTTTATCTAATTT-AGTACTTAAACTT
918890 GTTTTTATCTAATTTAGTACTTAAACTT
1 GTTTTTATCTAATTTAGTACTTAAACTT
918918 GT
1 GT
918920 CAAATGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.04
27 18 0.69
28 7 0.27
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.58
Consensus pattern (28 bp):
GTTTTTATCTAATTTAGTACTTAAACTT
Found at i:920439 original size:2 final size:2
Alignment explanation
Indices: 920432--920458 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
920422 ATATCTCATC
920432 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
920459 CATTTCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:920607 original size:2 final size:2
Alignment explanation
Indices: 920600--920626 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
920590 ATATCTCATC
920600 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
920627 CATTTCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:920613 original size:168 final size:168
Alignment explanation
Indices: 920335--920670 Score: 663
Period size: 168 Copynumber: 2.0 Consensus size: 168
920325 CTCCAATTTG
920335 GTACCTATTTAACTGATCAATACAATTCAATATTCTCAAAACCAATCTTCAAAACCATTAATACC
1 GTACCTATTTAACTGATCAATACAATTCAATATTCTCAAAACCAATCTTCAAAACCATTAATACC
920400 ATTTCCAGCATACATTCTCAACATATCTCATCATATATATATATATATATATATATATACATTTC
66 ATTTCCAGCATACATTCTCAACATATCTCATCATATATATATATATATATATATATATACATTTC
920465 TTAAACCTATTTGCTAACATAGACACTTGTGCCATTCA
131 TTAAACCTATTTGCTAACATAGACACTTGTGCCATTCA
920503 GTACCTATTTAACTGATCAATACAATTCAATATTCTCAAAACCAATCTTCAAAACCATTAATACC
1 GTACCTATTTAACTGATCAATACAATTCAATATTCTCAAAACCAATCTTCAAAACCATTAATACC
920568 ATTTCCAGCATACATTCTCAACATATCTCATCATATATATATATATATATATATATATACATTTC
66 ATTTCCAGCATACATTCTCAACATATCTCATCATATATATATATATATATATATATATACATTTC
*
920633 TTAAACCTATTTGCTAACATCGACACTTGTGCCATTCA
131 TTAAACCTATTTGCTAACATAGACACTTGTGCCATTCA
920671 ACATTCGTTT
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (168 bp):
GTACCTATTTAACTGATCAATACAATTCAATATTCTCAAAACCAATCTTCAAAACCATTAATACC
ATTTCCAGCATACATTCTCAACATATCTCATCATATATATATATATATATATATATATACATTTC
TTAAACCTATTTGCTAACATAGACACTTGTGCCATTCA
Found at i:929848 original size:5 final size:5
Alignment explanation
Indices: 929838--930056 Score: 395
Period size: 5 Copynumber: 44.0 Consensus size: 5
929828 TCTGCTTCTA
929838 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
929888 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT- ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
* * *
929937 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ACATG ACATG ACATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
929987 ACATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
930037 ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG
930057 TGATGAAGGA
Statistics
Matches: 211, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
4 4 0.02
5 207 0.98
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (5 bp):
ATATG
Found at i:933388 original size:24 final size:22
Alignment explanation
Indices: 933345--933388 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
933335 TATGGCAAGA
*
933345 AATTAATTATAAAATAAGTATG
1 AATTAATTAGAAAATAAGTATG
933367 AATTAAGTTAGAAAAGTAAGTA
1 AATTAA-TTAGAAAA-TAAGTA
933389 AGCTTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 7 0.37
24 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.32
Consensus pattern (22 bp):
AATTAATTAGAAAATAAGTATG
Found at i:933977 original size:27 final size:28
Alignment explanation
Indices: 933919--933977 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
933909 ATCTAATGCC
**
933919 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
*
933947 -TATTGGTGTGTTAAGGAGGAT-TTATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
933973 TTATT
1 TTATT
933978 CCGGGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (28 bp):
TTATTGGTGTGTTAAGGAGGATATGATA
Found at i:949595 original size:21 final size:20
Alignment explanation
Indices: 949567--949606 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
949557 TTTTTCATTC
949567 AGGCGAAAAAATAGGGTGAA
1 AGGCGAAAAAATAGGGTGAA
*
949587 AGGCAGAAAATATAGGGTGA
1 AGGC-GAAAAAATAGGGTGA
949607 TTTTAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.35, T:0.12
Consensus pattern (20 bp):
AGGCGAAAAAATAGGGTGAA
Found at i:950066 original size:88 final size:88
Alignment explanation
Indices: 949884--950068 Score: 243
Period size: 88 Copynumber: 2.1 Consensus size: 88
949874 TCTTACTTCT
*
949884 TCTTTTTTTGCACTCAATTAGATACTTAAACTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTT
1 TCTTTTTTTCCACTCAATTAGATACTTAAACTTTCAAAATGCATCAAAAAAGCCCTCAAAC-TTT
**
949949 TAAAAATAAAAAATAAAACCCTTG
65 TAAAAATAAAAAATAAAACCCTAC
* *
949973 T-TTTTTTTCCACTCAATTGGGTACTTAAACTTTCAAAATGCATC-AAAAAGACCCTCAAAC-TT
1 TCTTTTTTTCCACTCAATTAGATACTTAAACTTTCAAAATGCATCAAAAAAG-CCCTCAAACTTT
**
950035 TAAAAA-AAAACAATTAAGCCCCTAC
65 TAAAAATAAAA-AA-TAAAACCCTAC
950060 TCTTTTTTT
1 TCTTTTTTT
950069 TGTGTGTGTG
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
85 4 0.05
86 10 0.12
87 14 0.16
88 56 0.66
89 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (88 bp):
TCTTTTTTTCCACTCAATTAGATACTTAAACTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTT
AAAAATAAAAAATAAAACCCTAC
Found at i:950268 original size:19 final size:19
Alignment explanation
Indices: 950216--950335 Score: 91
Period size: 19 Copynumber: 6.3 Consensus size: 19
950206 CATGTAGCAA
*
950216 AAAAATTAT-AAAAATTAT
1 AAAATTTATAAAAAATTAT
* * *
950234 TAAATTT-TAATGAAATAAT
1 AAAATTTATAA-AAAATTAT
*
950253 AAAATTTATGAAAAATTAT
1 AAAATTTATAAAAAATTAT
*
950272 AAAGTTTATAAAAAATTAT
1 AAAATTTATAAAAAATTAT
* **
950291 AAAAAATTATAAAATTTTAT
1 -AAAATTTATAAAAAATTAT
* * *
950311 AAAAAATCATAAATAATTAT
1 -AAAATTTATAAAAAATTAT
950331 AAAAT
1 AAAAT
950336 GCATCAAAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.01
18 6 0.08
19 39 0.49
20 33 0.42
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATTTATAAAAAATTAT
Found at i:950287 original size:30 final size:28
Alignment explanation
Indices: 950248--950333 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 28
950238 TTTTAATGAA
950248 ATAATAAAATTTATGAAAAATTATAAAGTTT
1 ATAA-AAAA-TTAT-AAAAATTATAAAGTTT
*
950279 ATAAAAAATTATAAAAAATTATAAAATTTT
1 ATAAAAAATTAT-AAAAATTAT-AAAGTTT
*
950309 ATAAAAAATCATAAATAATTATAAA
1 ATAAAAAATTATAAA-AATTATAAA
950334 ATGCATCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 19 0.38
30 27 0.54
31 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAAAAAATTATAAAAATTATAAAGTTT
Found at i:950334 original size:30 final size:30
Alignment explanation
Indices: 950263--950335 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
950253 AAAATTTATG
* *
950263 AAAAATTAT-AAAGTTTATAAAAAATTATA
1 AAAAATTATAAAATTTTATAAAAAATCATA
950292 AAAAATTATAAAATTTTATAAAAAATCATA
1 AAAAATTATAAAATTTTATAAAAAATCATA
*
950322 AATAATTATAAAAT
1 AAAAATTATAAAAT
950336 GCATCAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 9 0.22
30 31 0.77
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAAATTATAAAATTTTATAAAAAATCATA
Found at i:950345 original size:30 final size:30
Alignment explanation
Indices: 950263--950345 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
950253 AAAATTTATG
* * *
950263 AAAAATTATAAAGTT-TATAAAAAATTATA
1 AAAAATTATAAAATTGCATAAAAAATCATA
**
950292 AAAAATTATAAAATTTTATAAAAAATCATA
1 AAAAATTATAAAATTGCATAAAAAATCATA
* *
950322 AATAATTATAAAA-TGCATCAAAAA
1 AAAAATTATAAAATTGCATAAAAAA
950346 GGCATTTAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 22 0.47
30 25 0.53
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATTATAAAATTGCATAAAAAATCATA
Found at i:950612 original size:28 final size:29
Alignment explanation
Indices: 950540--950613 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
950530 TTCTTTATAT
* *
950540 TTTTTATAATTTTCTTTATAAAATTTTAGAA
1 TTTTTAT-AGTTT-TTTATAAAATTTTACAA
** *
950571 TTTTT-TAGAATTTTATAAAATTTTACCA
1 TTTTTATAGTTTTTTATAAAATTTTACAA
*
950599 TTTTTATATTTTTTT
1 TTTTTATAGTTTTTT
950614 TATTTTTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 20 0.59
29 8 0.24
30 1 0.03
31 5 0.15
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTATAGTTTTTTATAAAATTTTACAA
Found at i:950930 original size:21 final size:20
Alignment explanation
Indices: 950873--950930 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
950863 TATCTTCGCC
950873 TATTTCTTTTCATTACTT--T
1 TATTT-TTTTCATTACTTAAT
* *
950892 TATTTTTATAATTA-TTAAT
1 TATTTTTTTCATTACTTAAT
950911 TCATTTTTTTCATTACTTAA
1 T-ATTTTTTTCATTACTTAA
950931 AACCATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 2 0.06
18 7 0.23
19 7 0.23
20 11 0.35
21 4 0.13
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTTTCATTACTTAAT
Found at i:955035 original size:3 final size:3
Alignment explanation
Indices: 955027--955058 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
955017 AAACGATTTA
955027 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
955059 ACATTGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:962003 original size:21 final size:21
Alignment explanation
Indices: 961979--962022 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
961969 ACGACCTAAT
*
961979 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
962000 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
962021 TA
1 TA
962023 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:972674 original size:40 final size:42
Alignment explanation
Indices: 972584--972690 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 42
972574 CATTTGCCCC
*
972584 AAAATCGCGTCCACGTCAGCGCGATGTCAGGGGACGTGTCAG
1 AAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGTCAG
* ** * *
972626 CAAATCGCGTCCACGTCAGCGCG-T-TTTGCTGATGTGTCAG
1 AAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGTCAG
*
972666 AAAATCGCGTCCTCGT-AGGCGCGAT
1 AAAATCGCGTCCACGTCA-GCGCGAT
972691 TTGTGTCCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 30 0.55
41 2 0.04
42 22 0.40
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.21
Consensus pattern (42 bp):
AAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGTCAG
Found at i:976161 original size:21 final size:22
Alignment explanation
Indices: 976131--976174 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
976121 TCAGAATGTC
* *
976131 AGTCCTATGAATAGTGGGGTCA
1 AGTCCTATGAAAAGTGGAGTCA
976153 AGTCC-ATGAAAAGTGGAGTCA
1 AGTCCTATGAAAAGTGGAGTCA
976174 A
1 A
976175 ATCACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAAAAGTGGAGTCA
Found at i:979232 original size:20 final size:20
Alignment explanation
Indices: 979189--979232 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
979179 ATGGTCTTGA
*
979189 ACTTTTTTTTTAGCTTTTTC
1 ACTTTTTTTTTAGCTTTTGC
**
979209 -CTTTTTTTTTTTCTTTTGC
1 ACTTTTTTTTTAGCTTTTGC
979228 ACTTT
1 ACTTT
979233 ATTAAGCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.07, C:0.16, G:0.05, T:0.73
Consensus pattern (20 bp):
ACTTTTTTTTTAGCTTTTGC
Found at i:981090 original size:93 final size:93
Alignment explanation
Indices: 980931--981116 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 93
980921 AACATCACAT
* *
980931 AATATCTAATATTCTATGTATTGAATCTTGAATACTAGCTTTTCAAATGACCATTTGATTGTATT
1 AATATCTAATATTCTATGTATTGAATATTGAATACTAGCTTTTCAAATGACCATTTGAATGTATT
980996 TGCTAAGCATATATACCTTCTTTTGAAA
66 TGCTAAGCATATATACCTTCTTTTGAAA
* * *
981024 AATATCTAATATTCTATGTATTGAATATTGAATACTAGCTTTTCAAATTATCATTTTAATGTATT
1 AATATCTAATATTCTATGTATTGAATATTGAATACTAGCTTTTCAAATGACCATTTGAATGTATT
981089 TGCTAAGCATATATACCTTCTTTTGAAA
66 TGCTAAGCATATATACCTTCTTTTGAAA
981117 GTCATGAGTG
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (93 bp):
AATATCTAATATTCTATGTATTGAATATTGAATACTAGCTTTTCAAATGACCATTTGAATGTATT
TGCTAAGCATATATACCTTCTTTTGAAA
Found at i:985417 original size:11 final size:12
Alignment explanation
Indices: 985393--985421 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
985383 TAACTTAATT
985393 ATTCAACATTTC
1 ATTCAACATTTC
985405 ATTCAAC-TTTC
1 ATTCAACATTTC
985416 ATTCAA
1 ATTCAA
985422 GAACATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTCAACATTTC
Found at i:987570 original size:64 final size:64
Alignment explanation
Indices: 987486--987613 Score: 168
Period size: 64 Copynumber: 2.0 Consensus size: 64
987476 GAGCATTCCA
* * * * *
987486 ATCGGTAGTGATCATGCATGTGTTA-CGGACATATCGCAGCTCTTTGTGAGCATCCTGTTATATG
1 ATCGATAGTGATCATACATGTG-TAGCGGACATACCACAGCTCTTTGTGAGCATCCTATTATATG
* * *
987550 ATCGATAGTGATCCTACATGTGTAGTGGACATACCACAGCTCTTTGTGAGCGTCCTATTATATG
1 ATCGATAGTGATCATACATGTGTAGCGGACATACCACAGCTCTTTGTGAGCATCCTATTATATG
987614 GCTCTCCGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 2 0.04
64 53 0.96
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (64 bp):
ATCGATAGTGATCATACATGTGTAGCGGACATACCACAGCTCTTTGTGAGCATCCTATTATATG
Found at i:988108 original size:23 final size:23
Alignment explanation
Indices: 988074--988124 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
988064 AATATGTTCA
*
988074 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
988097 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
988120 AGTAA
1 TGTAA
988125 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:994525 original size:17 final size:16
Alignment explanation
Indices: 994493--994529 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
994483 ATAAAAGACG
994493 GAGAATAAAGAACAAA
1 GAGAATAAAGAACAAA
*
994509 GAGAATAGAAGAGCAAA
1 GAGAATA-AAGAACAAA
994526 GAGA
1 GAGA
994530 GAGCGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.62, C:0.05, G:0.27, T:0.05
Consensus pattern (16 bp):
GAGAATAAAGAACAAA
Found at i:996072 original size:6 final size:6
Alignment explanation
Indices: 996061--996105 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
996051 AAGAAGCTTT
996061 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
996106 TGCTGTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:999611 original size:23 final size:23
Alignment explanation
Indices: 999579--999626 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
999569 CAAATCGTGC
*
999579 ATATACAAAAGATAGATATTAGG
1 ATATACAAAAGAGAGATATTAGG
* *
999602 ATATATAAAAGAGATATATTAGG
1 ATATACAAAAGAGAGATATTAGG
999625 AT
1 AT
999627 TATGGGGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.29
Consensus pattern (23 bp):
ATATACAAAAGAGAGATATTAGG
Found at i:1000910 original size:3 final size:3
Alignment explanation
Indices: 1000902--1000940 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
1000892 CACAATTTTC
*
1000902 TAT TAT TAT TAT TA- TAT TATT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
1000941 ATTTTTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1002628 original size:15 final size:15
Alignment explanation
Indices: 1002608--1002642 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1002598 TTCTTGATAA
1002608 GGTGGAAGATAATAC
1 GGTGGAAGATAATAC
1002623 GGTGGAAGATAATAC
1 GGTGGAAGATAATAC
1002638 GGTGG
1 GGTGG
1002643 TCCGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.40, T:0.20
Consensus pattern (15 bp):
GGTGGAAGATAATAC
Found at i:1021707 original size:7 final size:7
Alignment explanation
Indices: 1021682--1021729 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
1021672 AGTGATGTGA
1021682 AAAAATG
1 AAAAATG
1021689 AAAAGATG
1 AAAA-ATG
1021697 -AAAATG
1 AAAAATG
1021703 AAAAATG
1 AAAAATG
1021710 AAAAATG
1 AAAAATG
*
1021717 AAAAGT-
1 AAAAATG
1021723 AAAAATG
1 AAAAATG
1021730 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 8 0.22
7 25 0.69
8 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:1021717 original size:20 final size:21
Alignment explanation
Indices: 1021682--1021729 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
1021672 AGTGATGTGA
1021682 AAAAATGAAAAGATGAAAA-T
1 AAAAATGAAAAGATGAAAAGT
1021702 GAAAAATGAAAA-ATGAAAAGT
1 -AAAAATGAAAAGATGAAAAGT
1021723 AAAAATG
1 AAAAATG
1021730 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAGATGAAAAGT
Found at i:1023229 original size:89 final size:89
Alignment explanation
Indices: 1023003--1024227 Score: 1711
Period size: 89 Copynumber: 13.7 Consensus size: 89
1022993 AATGGGTTAA
* *
1023003 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA-AAGCAGATCTTGTCT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA-CAGATCTTGTCT
*** * * * *
1023067 TCATGTATTGG-CGTGAAGTAGATC
65 TCCCATACTGGTGGCGAAGCAGATC
* * *
1023091 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* * *
1023156 CCCATACTGGTGGCAAAACAGGTC
66 CCCATACTGGTGGCGAAGCAGATC
* *
1023180 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGGTAAAAGATAACAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
*
1023245 CCCATACTGGTGGCGAAACAGATC
66 CCCATACTGGTGGCGAAGCAGATC
* * * *
1023269 GAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGGTCAAAGATAACAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
*
1023334 CCCATACTGGTAGCGAAGCAGATC
66 CCCATACTGGTGGCGAAGCAGATC
* * * * *
1023358 GAAGAAAACAGATCTTGTCTTCATGTACTTGCGTGAAGTAGATCAAAGATAACCGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* *
1023423 CCCATACTGGTGGCAAAGCAGGTC
66 CCCATACTGGTGGCGAAGCAGATC
* * * * **
1023447 AAAGAAAGCAGATCTTGTTTTCATGTACTGGTGTGAAGTAGATCAGAGATACCAGATCTTACCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
** *
1023512 CCCATGTTGGTGGCGAAGCAGCTC
66 CCCATACTGGTGGCGAAGCAGATC
* *
1023536 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* *
1023601 CCCATACTGGTTGCGAAACAGATC
66 CCCATACTGGTGGCGAAGCAGATC
*
1023625 GAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
*
1023690 CCCATACTGGTGGCGAAGCAGATT
66 CCCATACTGGTGGCGAAGCAGATC
* * * *
1023714 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAAATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
1023779 CCCATACTGGTGGCGAAGCAGATC
66 CCCATACTGGTGGCGAAGCAGATC
*
1023803 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* *
1023868 CTCATACTGGTGGCGAAACAGATC
66 CCCATACTGGTGGCGAAGCAGATC
1023892 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* *
1023957 CCCATACTGGTGGCGAAGTATATC
66 CCCATACTGGTGGCGAAGCAGATC
* * * *
1023981 GAAGGAAAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGACAACAGATCTTGT
1 -AA--AGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGT
* * * *
1024046 CTCCCCATACTGGTGGTGGAGTAGATC
63 CTTCCCATACTGGTGGCGAAGCAGATC
* ** * *
1024073 GAAGAAAATAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATAACAGATCTTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
* *
1024138 CCCATGCTGGTGGCGAAGTAGATC
66 CCCATACTGGTGGCGAAGCAGATC
* * * *
1024162 GAGAA-AAA-CAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCGAAGATTACAGATCTTATC
1 -A-AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTC
1024225 TTC
64 TTC
1024228 TTAAGCAGTA
Statistics
Matches: 1026, Mismatches: 104, Indels: 13
0.90 0.09 0.01
Matches are distributed among these distances:
88 67 0.07
89 872 0.85
90 5 0.00
91 3 0.00
92 79 0.08
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (89 bp):
AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTT
CCCATACTGGTGGCGAAGCAGATC
Found at i:1024091 original size:45 final size:44
Alignment explanation
Indices: 1023004--1024227 Score: 903
Period size: 44 Copynumber: 27.5 Consensus size: 44
1022994 ATGGGTTAAA
* ** *
1023004 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* ** *
1023048 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* ** *
1023092 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * ** * *
1023136 AAGATAACAGATCTTGTCTTCCCATACTGGTG-GCAAAACAGGTCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTG--AAGTAGATCG
* ** * **
1023181 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGGTAA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * **
1023225 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
* ** * * *
1023270 AAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGGTCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * * *
1023314 AAGATAACAGATCTTGCCTTCCCATACTGGTAGCGAAGCAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
** * *
1023359 AAGAAAACAGATCTTGTCTTCATGTACTTGCGTGAAGTAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * * * * *
1023403 AAGATAACCGATCTTGCCTTCCCATACTGGTG-GCAAAGCAGGTCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTG--AAGTAGATCG
* * ** *
1023448 AAGAAAGCAGATCTTGTTTTCATGTACTGGTGTGAAGTAGATC-
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * ** * ** * * * *
1023491 AGAGATACCAGATCTTACCTTCCCATGTTGGTGGCGAAGCAGCTCG
1 A-AGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
** *
1023537 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * **
1023581 AAGATAACAGATCTTGTCTTCCCATACTGGTTGCGAAACAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
* ** *
1023626 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * * **
1023670 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATTA
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
* **
1023715 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGAT--
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * * * *
1023757 AAAAAATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCA
1 AAGAAA-A-CAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
* ** *
1023804 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * * ** *
1023848 AAGATAACAGATCTTGCCTTCTCATACTGGTGGCGAAACAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
* ** *
1023893 AAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * *
1023937 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTATATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
** * *
1023982 AAGGAAAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AA-G--AAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * *
1024029 AAGACAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
* * ** *
1024074 AAGAAAATAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
* * * * * *
1024118 AATATAACAGATCTTGTCTTCCCATGCTGGTGGCGAAGTAGATCG
1 AAGAAAACAGATCTTGTCTTCACATACTGG-CGTGAAGTAGATCG
*
1024163 -AGAAAAACAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCG
1 AAG-AAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
** *
1024207 AAGATTACAGATCTTATCTTC
1 AAGAAAACAGATCTTGTCTTC
1024228 TTAAGCAGTA
Statistics
Matches: 907, Mismatches: 246, Indels: 54
0.75 0.20 0.04
Matches are distributed among these distances:
42 5 0.01
43 3 0.00
44 485 0.53
45 370 0.41
46 5 0.01
47 17 0.02
48 22 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
AAGAAAACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCG
Found at i:1024437 original size:132 final size:132
Alignment explanation
Indices: 1024200--1024562 Score: 604
Period size: 132 Copynumber: 2.8 Consensus size: 132
1024190 TGGCGTGAAG
* * * * *
1024200 TAGATCGAAGATTACAGATCTTATCTTCTTAAGCAGTAGTGGAGCAGATCGAAGATGGAGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
*
1024265 TACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTGG
1024330 AA
131 AA
* *
1024332 TAGATTGAAGATTATA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGTGGATT
1 TAGATTGAAGATTACAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATT
*
1024396 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTG
1024461 GAA
130 GAA
*
1024464 TAGATTGAAGATTACAGATC-TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
*
1024528 TACCTCCCTGAGGTTACAGTGGAGTATATTGAAGC
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
1024563 ACTAGTTCCT
Statistics
Matches: 216, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
131 77 0.36
132 138 0.64
133 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACACTGG
AA
Found at i:1024461 original size:43 final size:43
Alignment explanation
Indices: 1024280--1024473 Score: 129
Period size: 44 Copynumber: 4.4 Consensus size: 43
1024270 CCCTAAGGTT
*
1024280 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
1 ACAGTGGAGTAGATTGAAGCCAGTAATTCTATCTCCCTGGGCA
* * ** * **
1024323 ACACTGGAATAGATTGAAGATTA-TAAGTCTTATCTCCCTAAGCA
1 ACAGTGGAGTAGATTGAAG-CCAGTAATTC-TATCTCCCTGGGCA
** * ** **** * * * **
1024367 GTAGTGGAGCAGATCAAATATGGTGGATTTTACCTCCCTGAGGTT
1 ACAGTGGAGTAGATTGAAGCCAGT-AATTCTATCTCCCTG-GGCA
*
1024412 ACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
1 ACAGTGGAGTAGATTGAAGCCAGTAATTCTATCTCCCTGGGCA
*
1024455 ACAGTGGAATAGATTGAAG
1 ACAGTGGAGTAGATTGAAG
1024474 ATTACAGATC
Statistics
Matches: 103, Mismatches: 43, Indels: 10
0.66 0.28 0.06
Matches are distributed among these distances:
43 41 0.40
44 45 0.44
45 17 0.17
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGTAGATTGAAGCCAGTAATTCTATCTCCCTGGGCA
Found at i:1025796 original size:3 final size:3
Alignment explanation
Indices: 1025788--1025826 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
1025778 CACGATTTTC
*
1025788 TAT TAT TAT TAT TA- TAT TATT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
1025827 ATTTTTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Done.