Multiple sequence alignment - TraesCS2A01G183700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2A01G183700 chr2A 100.000 2823 0 0 1 2823 143722671 143725493 0.000000e+00 5214
1 TraesCS2A01G183700 chr2A 85.209 791 84 12 868 1642 143835459 143836232 0.000000e+00 782
2 TraesCS2A01G183700 chr2B 90.983 2462 121 43 3 2413 193389772 193392183 0.000000e+00 3223
3 TraesCS2A01G183700 chr2B 90.049 412 31 1 2412 2823 193392265 193392666 2.490000e-145 525
4 TraesCS2A01G183700 chr2D 91.306 2358 99 35 84 2413 135600403 135602682 0.000000e+00 3121
5 TraesCS2A01G183700 chr2D 88.107 412 39 1 2412 2823 135602748 135603149 5.470000e-132 481


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2A01G183700 chr2A 143722671 143725493 2822 False 5214 5214 100.0000 1 2823 1 chr2A.!!$F1 2822
1 TraesCS2A01G183700 chr2A 143835459 143836232 773 False 782 782 85.2090 868 1642 1 chr2A.!!$F2 774
2 TraesCS2A01G183700 chr2B 193389772 193392666 2894 False 1874 3223 90.5160 3 2823 2 chr2B.!!$F1 2820
3 TraesCS2A01G183700 chr2D 135600403 135603149 2746 False 1801 3121 89.7065 84 2823 2 chr2D.!!$F1 2739

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
79 80 0.178301 TTGACTGTTGCACGGTACCA 59.822 50.0 13.54 0.0 37.93 3.25 F
81 82 0.249741 GACTGTTGCACGGTACCACT 60.250 55.0 13.54 0.0 37.93 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1554 1632 0.937304 CTCGGTGAATAATGTGGCCG 59.063 55.000 0.00 0.0 40.43 6.13 R
2044 2122 1.474077 CCCTGCAGATTTTACCACAGC 59.526 52.381 17.39 0.0 0.00 4.40 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 4.017126 GCAGTATAAAGGGCTTTCCAACT 58.983 43.478 0.00 0.00 38.24 3.16
67 68 2.031870 GGGCTTTCCAACTTTGACTGT 58.968 47.619 0.00 0.00 35.00 3.55
75 76 1.132262 CAACTTTGACTGTTGCACGGT 59.868 47.619 0.00 0.00 41.12 4.83
76 77 2.319136 ACTTTGACTGTTGCACGGTA 57.681 45.000 0.00 0.00 37.93 4.02
78 79 1.263217 CTTTGACTGTTGCACGGTACC 59.737 52.381 0.16 0.16 37.93 3.34
79 80 0.178301 TTGACTGTTGCACGGTACCA 59.822 50.000 13.54 0.00 37.93 3.25
80 81 0.531090 TGACTGTTGCACGGTACCAC 60.531 55.000 13.54 2.26 37.93 4.16
81 82 0.249741 GACTGTTGCACGGTACCACT 60.250 55.000 13.54 0.00 37.93 4.00
82 83 1.000060 GACTGTTGCACGGTACCACTA 60.000 52.381 13.54 0.00 37.93 2.74
101 122 2.205307 ACTACGCCACTTCGCTAATC 57.795 50.000 0.00 0.00 0.00 1.75
106 127 1.491505 GCCACTTCGCTAATCCGCTC 61.492 60.000 0.00 0.00 0.00 5.03
126 147 3.488090 GTTTTCTCTCGGCCGCGG 61.488 66.667 24.05 24.05 0.00 6.46
187 224 0.319040 TCAGCTTCTCTCGTGCACAC 60.319 55.000 18.64 0.00 0.00 3.82
211 248 0.833834 ACACAGAGCAGCAGGGTACT 60.834 55.000 0.00 0.00 0.00 2.73
212 249 1.186200 CACAGAGCAGCAGGGTACTA 58.814 55.000 0.00 0.00 0.00 1.82
213 250 1.134965 CACAGAGCAGCAGGGTACTAC 60.135 57.143 0.00 0.00 0.00 2.73
214 251 1.186200 CAGAGCAGCAGGGTACTACA 58.814 55.000 0.00 0.00 0.00 2.74
215 252 1.135915 CAGAGCAGCAGGGTACTACAG 59.864 57.143 0.00 0.00 0.00 2.74
216 253 1.187087 GAGCAGCAGGGTACTACAGT 58.813 55.000 0.00 0.00 0.00 3.55
217 254 1.135333 GAGCAGCAGGGTACTACAGTC 59.865 57.143 0.00 0.00 0.00 3.51
218 255 1.187087 GCAGCAGGGTACTACAGTCT 58.813 55.000 0.00 0.00 0.00 3.24
226 263 2.622452 GGGTACTACAGTCTACAGCCCA 60.622 54.545 0.00 0.00 34.03 5.36
295 332 4.785453 CCGGCCAGCCAGAGGTTC 62.785 72.222 9.78 0.00 35.37 3.62
327 364 3.474570 CGCCTTCCTCCTCCTGGG 61.475 72.222 0.00 0.00 0.00 4.45
603 647 1.033746 CCATGCTTGGATCGTGGCTT 61.034 55.000 13.33 0.00 46.92 4.35
684 731 1.933247 TTTGCTTTTTGTTGGCTCCG 58.067 45.000 0.00 0.00 0.00 4.63
759 808 9.136323 ACATTTCACATTTTCCTTCTTCTTAGT 57.864 29.630 0.00 0.00 0.00 2.24
763 812 8.383318 TCACATTTTCCTTCTTCTTAGTTGAG 57.617 34.615 0.00 0.00 0.00 3.02
767 816 8.663911 CATTTTCCTTCTTCTTAGTTGAGCTAG 58.336 37.037 0.00 0.00 0.00 3.42
768 817 5.331876 TCCTTCTTCTTAGTTGAGCTAGC 57.668 43.478 6.62 6.62 0.00 3.42
769 818 5.020132 TCCTTCTTCTTAGTTGAGCTAGCT 58.980 41.667 19.45 19.45 0.00 3.32
770 819 5.105554 TCCTTCTTCTTAGTTGAGCTAGCTG 60.106 44.000 24.99 5.73 0.00 4.24
771 820 4.727507 TCTTCTTAGTTGAGCTAGCTGG 57.272 45.455 24.99 0.00 0.00 4.85
775 824 4.090090 TCTTAGTTGAGCTAGCTGGAGTT 58.910 43.478 24.99 6.28 0.00 3.01
789 838 4.777896 AGCTGGAGTTCAGTTTATAGTGGA 59.222 41.667 0.00 0.00 45.08 4.02
790 839 5.248477 AGCTGGAGTTCAGTTTATAGTGGAA 59.752 40.000 0.00 0.00 45.08 3.53
1161 1236 1.592110 CGCTCGGTTGTTATTCATGCG 60.592 52.381 0.00 0.00 35.22 4.73
1322 1397 1.264045 GCTCTTCCTGGTCTGCTCCT 61.264 60.000 0.00 0.00 0.00 3.69
1407 1482 1.959226 GACGACGGCTTGCTTTGGA 60.959 57.895 0.00 0.00 0.00 3.53
1554 1632 1.731750 GCCGTCTCTGTTACTTCGTCC 60.732 57.143 0.00 0.00 0.00 4.79
1574 1652 0.663153 GGCCACATTATTCACCGAGC 59.337 55.000 0.00 0.00 0.00 5.03
1589 1667 1.281899 CGAGCCTCGTGAAATTCTCC 58.718 55.000 5.82 0.00 34.72 3.71
1837 1915 7.495934 GCTAACCTCTGACTGCTTGAATATTTA 59.504 37.037 0.00 0.00 0.00 1.40
1891 1969 0.476771 TTTGGGGGTTGTCTCACCTC 59.523 55.000 0.00 0.00 36.42 3.85
1916 1994 7.442969 TCTGCCGTTCTAAAAGACTGAATTTAA 59.557 33.333 0.00 0.00 0.00 1.52
1940 2018 8.853077 AACTTAATGAAGTGTTCTGATCATCA 57.147 30.769 0.00 0.00 45.50 3.07
1953 2031 6.566079 TCTGATCATCATGGTAAGGTCTTT 57.434 37.500 0.00 0.00 0.00 2.52
1975 2053 3.259374 TCTGAGTGCTATATAGGCTTGGC 59.741 47.826 11.72 0.00 0.00 4.52
2005 2083 2.736081 CGCTGCAATGTTATGCCACATT 60.736 45.455 0.00 1.21 46.34 2.71
2044 2122 3.229697 AGGAAAAGGGTGTCCAAGAAG 57.770 47.619 0.00 0.00 36.28 2.85
2052 2130 1.071699 GGTGTCCAAGAAGCTGTGGTA 59.928 52.381 10.31 0.85 36.23 3.25
2083 2161 8.270137 TGCAGGGTTAGAATATTATCACCTTA 57.730 34.615 12.06 0.00 0.00 2.69
2103 2183 7.229506 CACCTTATCTCTTTTCAAGAAACCAGT 59.770 37.037 0.00 0.00 37.02 4.00
2128 2208 9.994432 GTATCACCTTCTTTTTCATTGTATCAG 57.006 33.333 0.00 0.00 0.00 2.90
2129 2209 8.641498 ATCACCTTCTTTTTCATTGTATCAGT 57.359 30.769 0.00 0.00 0.00 3.41
2130 2210 8.099364 TCACCTTCTTTTTCATTGTATCAGTC 57.901 34.615 0.00 0.00 0.00 3.51
2131 2211 7.939039 TCACCTTCTTTTTCATTGTATCAGTCT 59.061 33.333 0.00 0.00 0.00 3.24
2132 2212 9.219603 CACCTTCTTTTTCATTGTATCAGTCTA 57.780 33.333 0.00 0.00 0.00 2.59
2133 2213 9.965902 ACCTTCTTTTTCATTGTATCAGTCTAT 57.034 29.630 0.00 0.00 0.00 1.98
2151 2231 8.637099 TCAGTCTATCAGATTACAAGAATGAGG 58.363 37.037 6.88 0.00 36.65 3.86
2152 2232 8.637099 CAGTCTATCAGATTACAAGAATGAGGA 58.363 37.037 3.25 0.00 35.00 3.71
2153 2233 8.859090 AGTCTATCAGATTACAAGAATGAGGAG 58.141 37.037 0.00 0.00 0.00 3.69
2154 2234 8.855110 GTCTATCAGATTACAAGAATGAGGAGA 58.145 37.037 0.00 0.00 0.00 3.71
2155 2235 8.855110 TCTATCAGATTACAAGAATGAGGAGAC 58.145 37.037 0.00 0.00 0.00 3.36
2156 2236 6.857437 TCAGATTACAAGAATGAGGAGACA 57.143 37.500 0.00 0.00 0.00 3.41
2157 2237 7.429374 TCAGATTACAAGAATGAGGAGACAT 57.571 36.000 0.00 0.00 0.00 3.06
2158 2238 7.270779 TCAGATTACAAGAATGAGGAGACATG 58.729 38.462 0.00 0.00 0.00 3.21
2159 2239 7.046652 CAGATTACAAGAATGAGGAGACATGT 58.953 38.462 0.00 0.00 0.00 3.21
2192 2272 7.361201 CCGTGAAATCATTGAGTTATGTGAACT 60.361 37.037 0.00 0.00 0.00 3.01
2305 2386 7.175104 ACCTCTTTTCCTATGATGCTTTTGTA 58.825 34.615 0.00 0.00 0.00 2.41
2317 2398 6.788243 TGATGCTTTTGTATAGTGATGCTTG 58.212 36.000 0.00 0.00 0.00 4.01
2352 2433 6.843069 TGTTGATATGATACACAATGACCG 57.157 37.500 0.00 0.00 0.00 4.79
2371 2453 3.187700 CCGTATGTTACAGAGTTCCTGC 58.812 50.000 0.00 0.00 46.81 4.85
2381 2463 4.327680 ACAGAGTTCCTGCTATTTGAACC 58.672 43.478 0.00 0.00 46.81 3.62
2408 2490 5.070580 AGGGTTCTGGCATACTACAGTAATC 59.929 44.000 0.00 0.00 36.17 1.75
2427 2592 9.995957 CAGTAATCGATATATTCCAGTCTACTG 57.004 37.037 0.00 4.81 43.40 2.74
2504 2669 9.271921 AGATATGGATGCTAATACACCTGATTA 57.728 33.333 0.00 0.00 25.89 1.75
2528 2693 3.312736 AGTTCCTGGACCACATGTTTT 57.687 42.857 0.00 0.00 0.00 2.43
2549 2714 8.644216 TGTTTTACTGTATCTGAGTACCTTTGA 58.356 33.333 0.00 0.00 0.00 2.69
2576 2741 1.487976 TGGTGAGAAGATGATGCCCTC 59.512 52.381 0.00 0.00 0.00 4.30
2597 2762 6.592607 CCCTCAGCTTAATACGTTGAAGTTTA 59.407 38.462 0.00 0.00 0.00 2.01
2598 2763 7.280205 CCCTCAGCTTAATACGTTGAAGTTTAT 59.720 37.037 0.00 0.00 0.00 1.40
2599 2764 8.665685 CCTCAGCTTAATACGTTGAAGTTTATT 58.334 33.333 0.00 0.00 0.00 1.40
2642 2807 5.167845 CACGCCTTTAAAAACCAGCATAAT 58.832 37.500 0.00 0.00 0.00 1.28
2718 2883 9.639601 TGATATATGGCTACTGAATTCTAAACG 57.360 33.333 7.05 0.00 0.00 3.60
2737 2902 2.803956 ACGTTGAAGACAATAACACCGG 59.196 45.455 0.00 0.00 38.32 5.28
2738 2903 3.061322 CGTTGAAGACAATAACACCGGA 58.939 45.455 9.46 0.00 38.32 5.14
2753 2918 3.008049 ACACCGGAATCTTCTAGCTTTGT 59.992 43.478 9.46 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.535984 GCTACGAGGACACAATCATTCG 59.464 50.000 0.00 0.00 40.11 3.34
1 2 3.786635 AGCTACGAGGACACAATCATTC 58.213 45.455 0.00 0.00 0.00 2.67
59 60 1.301423 GGTACCGTGCAACAGTCAAA 58.699 50.000 0.00 0.00 35.74 2.69
67 68 1.199789 CGTAGTAGTGGTACCGTGCAA 59.800 52.381 7.57 0.00 0.00 4.08
75 76 1.739466 CGAAGTGGCGTAGTAGTGGTA 59.261 52.381 0.00 0.00 0.00 3.25
76 77 0.524862 CGAAGTGGCGTAGTAGTGGT 59.475 55.000 0.00 0.00 0.00 4.16
78 79 0.170561 AGCGAAGTGGCGTAGTAGTG 59.829 55.000 0.00 0.00 38.18 2.74
79 80 1.742761 TAGCGAAGTGGCGTAGTAGT 58.257 50.000 0.00 0.00 38.18 2.73
80 81 2.838386 TTAGCGAAGTGGCGTAGTAG 57.162 50.000 0.00 0.00 38.18 2.57
81 82 2.033801 GGATTAGCGAAGTGGCGTAGTA 59.966 50.000 0.00 0.00 38.18 1.82
82 83 1.202382 GGATTAGCGAAGTGGCGTAGT 60.202 52.381 0.00 0.00 38.18 2.73
101 122 1.071605 CCGAGAGAAAACTTGAGCGG 58.928 55.000 0.00 0.00 0.00 5.52
106 127 1.497722 GCGGCCGAGAGAAAACTTG 59.502 57.895 33.48 0.00 0.00 3.16
126 147 1.137404 CTGCCAATGTAACAGCGCC 59.863 57.895 2.29 0.00 0.00 6.53
146 167 3.459965 CCTGAGGCGCTCTGCTCT 61.460 66.667 7.64 0.00 45.43 4.09
187 224 2.951315 CTGCTGCTCTGTGTGTGCG 61.951 63.158 0.00 0.00 37.94 5.34
188 225 2.614446 CCTGCTGCTCTGTGTGTGC 61.614 63.158 0.00 0.00 35.88 4.57
189 226 1.964891 CCCTGCTGCTCTGTGTGTG 60.965 63.158 0.00 0.00 0.00 3.82
190 227 1.121407 TACCCTGCTGCTCTGTGTGT 61.121 55.000 0.00 0.00 0.00 3.72
191 228 0.671781 GTACCCTGCTGCTCTGTGTG 60.672 60.000 0.00 0.00 0.00 3.82
192 229 0.833834 AGTACCCTGCTGCTCTGTGT 60.834 55.000 0.00 0.00 0.00 3.72
211 248 2.597578 TCAGTGGGCTGTAGACTGTA 57.402 50.000 0.00 0.00 43.05 2.74
212 249 1.827969 GATCAGTGGGCTGTAGACTGT 59.172 52.381 0.00 0.00 43.05 3.55
213 250 1.137872 GGATCAGTGGGCTGTAGACTG 59.862 57.143 0.00 0.00 43.05 3.51
214 251 1.273267 TGGATCAGTGGGCTGTAGACT 60.273 52.381 0.00 0.00 43.05 3.24
215 252 1.195115 TGGATCAGTGGGCTGTAGAC 58.805 55.000 0.00 0.00 43.05 2.59
216 253 2.042464 GATGGATCAGTGGGCTGTAGA 58.958 52.381 0.00 0.00 43.05 2.59
217 254 1.071385 GGATGGATCAGTGGGCTGTAG 59.929 57.143 0.00 0.00 43.05 2.74
218 255 1.131638 GGATGGATCAGTGGGCTGTA 58.868 55.000 0.00 0.00 43.05 2.74
226 263 2.765135 CAGACAGAGTGGATGGATCAGT 59.235 50.000 0.00 0.00 0.00 3.41
295 332 0.037232 AGGCGACGAGGAAGAAAAGG 60.037 55.000 0.00 0.00 0.00 3.11
684 731 7.273381 CCGATCAATTTCTCATTACAAAACACC 59.727 37.037 0.00 0.00 0.00 4.16
759 808 2.251818 ACTGAACTCCAGCTAGCTCAA 58.748 47.619 16.15 4.72 46.81 3.02
763 812 5.751028 CACTATAAACTGAACTCCAGCTAGC 59.249 44.000 6.62 6.62 46.81 3.42
767 816 5.086104 TCCACTATAAACTGAACTCCAGC 57.914 43.478 0.00 0.00 46.81 4.85
769 818 8.934023 AATTTTCCACTATAAACTGAACTCCA 57.066 30.769 0.00 0.00 0.00 3.86
770 819 8.175716 CGAATTTTCCACTATAAACTGAACTCC 58.824 37.037 0.00 0.00 0.00 3.85
771 820 8.932791 TCGAATTTTCCACTATAAACTGAACTC 58.067 33.333 0.00 0.00 0.00 3.01
800 849 8.376942 GCAGAAACAGAAACGAAAACAAAATAA 58.623 29.630 0.00 0.00 0.00 1.40
847 899 2.669569 CTGACAAGTGGCCGTGGG 60.670 66.667 0.00 0.00 0.00 4.61
949 1016 0.693049 GATCACTGGACTGGTGGGTT 59.307 55.000 0.00 0.00 35.61 4.11
994 1064 4.814294 AGCGACGGACATTCGGGC 62.814 66.667 0.00 0.00 36.96 6.13
1178 1253 3.717294 CCAGAACCGGTCAGGGGG 61.717 72.222 8.04 1.43 46.96 5.40
1407 1482 2.044650 ATCACCTGCAGCGCCAAT 60.045 55.556 8.66 0.00 0.00 3.16
1554 1632 0.937304 CTCGGTGAATAATGTGGCCG 59.063 55.000 0.00 0.00 40.43 6.13
1574 1652 5.053145 CCTCTAATGGAGAATTTCACGAGG 58.947 45.833 0.00 0.68 44.45 4.63
1589 1667 8.696043 TTCCAAATACATCCATTCCTCTAATG 57.304 34.615 0.00 0.00 43.99 1.90
1710 1788 4.576463 ACTGGTGCTTACACTGAAAAGAAG 59.424 41.667 0.00 0.00 46.57 2.85
1717 1795 1.813862 GCCAACTGGTGCTTACACTGA 60.814 52.381 0.00 0.00 46.57 3.41
1891 1969 5.613358 AATTCAGTCTTTTAGAACGGCAG 57.387 39.130 0.00 0.00 0.00 4.85
1940 2018 3.584848 AGCACTCAGAAAGACCTTACCAT 59.415 43.478 0.00 0.00 0.00 3.55
1953 2031 3.259374 GCCAAGCCTATATAGCACTCAGA 59.741 47.826 4.04 0.00 0.00 3.27
1975 2053 2.642139 ACATTGCAGCGAAAGGATTG 57.358 45.000 0.00 0.00 0.00 2.67
2014 2092 6.553852 TGGACACCCTTTTCCTATCTCTATAC 59.446 42.308 0.00 0.00 32.55 1.47
2044 2122 1.474077 CCCTGCAGATTTTACCACAGC 59.526 52.381 17.39 0.00 0.00 4.40
2052 2130 9.866655 TGATAATATTCTAACCCTGCAGATTTT 57.133 29.630 17.39 7.46 0.00 1.82
2093 2173 7.559897 TGAAAAAGAAGGTGATACTGGTTTCTT 59.440 33.333 0.00 0.00 36.69 2.52
2103 2183 9.739276 ACTGATACAATGAAAAAGAAGGTGATA 57.261 29.630 0.00 0.00 0.00 2.15
2128 2208 8.855110 TCTCCTCATTCTTGTAATCTGATAGAC 58.145 37.037 0.00 0.00 0.00 2.59
2129 2209 8.855110 GTCTCCTCATTCTTGTAATCTGATAGA 58.145 37.037 0.00 0.00 0.00 1.98
2130 2210 8.637099 TGTCTCCTCATTCTTGTAATCTGATAG 58.363 37.037 0.00 0.00 0.00 2.08
2131 2211 8.539117 TGTCTCCTCATTCTTGTAATCTGATA 57.461 34.615 0.00 0.00 0.00 2.15
2132 2212 7.429374 TGTCTCCTCATTCTTGTAATCTGAT 57.571 36.000 0.00 0.00 0.00 2.90
2133 2213 6.857437 TGTCTCCTCATTCTTGTAATCTGA 57.143 37.500 0.00 0.00 0.00 3.27
2134 2214 7.046652 ACATGTCTCCTCATTCTTGTAATCTG 58.953 38.462 0.00 0.00 0.00 2.90
2135 2215 7.192852 ACATGTCTCCTCATTCTTGTAATCT 57.807 36.000 0.00 0.00 0.00 2.40
2136 2216 8.986847 CATACATGTCTCCTCATTCTTGTAATC 58.013 37.037 0.00 0.00 0.00 1.75
2146 2226 3.571828 CGGTCTCATACATGTCTCCTCAT 59.428 47.826 0.00 0.00 0.00 2.90
2147 2227 2.952310 CGGTCTCATACATGTCTCCTCA 59.048 50.000 0.00 0.00 0.00 3.86
2148 2228 2.952978 ACGGTCTCATACATGTCTCCTC 59.047 50.000 0.00 0.00 0.00 3.71
2149 2229 2.690497 CACGGTCTCATACATGTCTCCT 59.310 50.000 0.00 0.00 0.00 3.69
2150 2230 2.688446 TCACGGTCTCATACATGTCTCC 59.312 50.000 0.00 0.00 0.00 3.71
2151 2231 4.371855 TTCACGGTCTCATACATGTCTC 57.628 45.455 0.00 0.00 0.00 3.36
2152 2232 4.801330 TTTCACGGTCTCATACATGTCT 57.199 40.909 0.00 0.00 0.00 3.41
2153 2233 5.109210 TGATTTCACGGTCTCATACATGTC 58.891 41.667 0.00 0.00 0.00 3.06
2154 2234 5.084818 TGATTTCACGGTCTCATACATGT 57.915 39.130 2.69 2.69 0.00 3.21
2155 2235 6.258507 TCAATGATTTCACGGTCTCATACATG 59.741 38.462 0.00 0.00 0.00 3.21
2156 2236 6.348498 TCAATGATTTCACGGTCTCATACAT 58.652 36.000 0.00 0.00 0.00 2.29
2157 2237 5.729510 TCAATGATTTCACGGTCTCATACA 58.270 37.500 0.00 0.00 0.00 2.29
2158 2238 5.812642 ACTCAATGATTTCACGGTCTCATAC 59.187 40.000 0.00 0.00 0.00 2.39
2159 2239 5.977635 ACTCAATGATTTCACGGTCTCATA 58.022 37.500 0.00 0.00 0.00 2.15
2215 2295 8.608844 AGACTAACTCGACATGAAAGAAAAAT 57.391 30.769 0.00 0.00 0.00 1.82
2228 2308 5.123805 AGGACTGAAAAGACTAACTCGAC 57.876 43.478 0.00 0.00 0.00 4.20
2238 2318 6.826231 TGTAATGTGTTGAAGGACTGAAAAGA 59.174 34.615 0.00 0.00 0.00 2.52
2280 2361 6.012745 ACAAAAGCATCATAGGAAAAGAGGT 58.987 36.000 0.00 0.00 0.00 3.85
2317 2398 4.973168 TCATATCAACATTCCTGCTACCC 58.027 43.478 0.00 0.00 0.00 3.69
2330 2411 6.844696 ACGGTCATTGTGTATCATATCAAC 57.155 37.500 0.00 0.00 0.00 3.18
2331 2412 8.147704 ACATACGGTCATTGTGTATCATATCAA 58.852 33.333 0.00 0.00 0.00 2.57
2352 2433 7.764443 TCAAATAGCAGGAACTCTGTAACATAC 59.236 37.037 0.00 0.00 45.08 2.39
2381 2463 2.766263 TGTAGTATGCCAGAACCCTCAG 59.234 50.000 0.00 0.00 0.00 3.35
2392 2474 9.680315 GGAATATATCGATTACTGTAGTATGCC 57.320 37.037 1.71 0.00 0.00 4.40
2408 2490 6.260870 ACTGCAGTAGACTGGAATATATCG 57.739 41.667 20.16 0.00 43.69 2.92
2435 2600 9.304731 GATGCTCATTTGCAAAATTAACTATGA 57.695 29.630 17.19 11.36 46.61 2.15
2495 2660 3.706594 TCCAGGAACTAGCTAATCAGGTG 59.293 47.826 0.00 0.00 36.02 4.00
2504 2669 1.556911 CATGTGGTCCAGGAACTAGCT 59.443 52.381 5.94 0.00 36.02 3.32
2549 2714 6.041296 GGGCATCATCTTCTCACCAAATAAAT 59.959 38.462 0.00 0.00 0.00 1.40
2619 2784 2.500509 TGCTGGTTTTTAAAGGCGTG 57.499 45.000 0.00 0.00 0.00 5.34
2693 2858 9.640963 ACGTTTAGAATTCAGTAGCCATATATC 57.359 33.333 8.44 0.00 0.00 1.63
2696 2861 7.985184 TCAACGTTTAGAATTCAGTAGCCATAT 59.015 33.333 8.44 0.00 0.00 1.78
2701 2866 7.095774 TGTCTTCAACGTTTAGAATTCAGTAGC 60.096 37.037 8.44 0.00 0.00 3.58
2718 2883 5.411669 AGATTCCGGTGTTATTGTCTTCAAC 59.588 40.000 0.00 0.00 36.33 3.18
2794 2959 5.818857 GCCACCTCCGTAAACTATTTTGATA 59.181 40.000 0.00 0.00 0.00 2.15


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.