Multiple sequence alignment - TraesCS5B01G032000

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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 TraesCS5B01G032000 chr5B 100.000 2903 0 0 1 2903 35190313 35187411 0.000000e+00 5361.0
1 TraesCS5B01G032000 chr5B 81.972 355 36 13 1284 1634 35286408 35286738 2.850000e-70 276.0
2 TraesCS5B01G032000 chr5B 74.016 635 78 45 404 1005 35285832 35286412 8.270000e-41 178.0
3 TraesCS5B01G032000 chr5B 80.000 270 28 11 1838 2096 35286731 35286985 2.970000e-40 176.0
4 TraesCS5B01G032000 chr5A 91.687 2466 108 41 6 2424 29516131 29513716 0.000000e+00 3328.0
5 TraesCS5B01G032000 chr5A 89.206 315 25 3 2596 2903 29513418 29513106 4.540000e-103 385.0
6 TraesCS5B01G032000 chr5A 84.135 208 30 2 1646 1853 29624427 29624631 6.350000e-47 198.0
7 TraesCS5B01G032000 chr5A 94.059 101 6 0 2461 2561 29513720 29513620 1.390000e-33 154.0
8 TraesCS5B01G032000 chr5A 100.000 33 0 0 2106 2138 29514065 29514033 8.690000e-06 62.1
9 TraesCS5B01G032000 chr5D 92.036 2122 87 36 1 2101 41120630 41118570 0.000000e+00 2907.0
10 TraesCS5B01G032000 chr5D 95.824 455 16 3 2106 2560 41118602 41118151 0.000000e+00 732.0
11 TraesCS5B01G032000 chr5D 84.396 596 62 9 1284 1873 41294673 41295243 9.090000e-155 556.0
12 TraesCS5B01G032000 chr5D 91.613 310 21 2 2594 2900 41117919 41117612 9.620000e-115 424.0
13 TraesCS5B01G032000 chr5D 73.492 630 83 41 404 1004 41294102 41294676 8.330000e-36 161.0


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 TraesCS5B01G032000 chr5B 35187411 35190313 2902 True 5361.000000 5361 100.000000 1 2903 1 chr5B.!!$R1 2902
1 TraesCS5B01G032000 chr5B 35285832 35286985 1153 False 210.000000 276 78.662667 404 2096 3 chr5B.!!$F1 1692
2 TraesCS5B01G032000 chr5A 29513106 29516131 3025 True 982.275000 3328 93.738000 6 2903 4 chr5A.!!$R1 2897
3 TraesCS5B01G032000 chr5D 41117612 41120630 3018 True 1354.333333 2907 93.157667 1 2900 3 chr5D.!!$R1 2899
4 TraesCS5B01G032000 chr5D 41294102 41295243 1141 False 358.500000 556 78.944000 404 1873 2 chr5D.!!$F1 1469

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
345 371 0.613012 ATTTGGGGGCTGTCTTGCTC 60.613 55.000 0.0 0.0 0.00 4.26 F
1535 1610 1.077716 AGCATCAGCATCAGCAGCA 60.078 52.632 0.0 0.0 45.49 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1659 1749 0.179089 CGAAGGAGACAGAGGCATGG 60.179 60.0 0.0 0.0 0.0 3.66 R
2620 2971 0.037697 CGGATTCGAACACTGGTGGA 60.038 55.0 0.0 0.0 39.0 4.02 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
82 83 4.394078 CCGTCGACGCGTCCTTGA 62.394 66.667 31.73 20.96 38.18 3.02
133 134 3.171911 GGCGCGTGCATTTTTCCG 61.172 61.111 24.18 0.00 45.35 4.30
195 214 6.690530 TCTCTTGGATATGGTTTTGCTTTTG 58.309 36.000 0.00 0.00 0.00 2.44
197 216 3.936564 TGGATATGGTTTTGCTTTTGCC 58.063 40.909 0.00 0.00 46.87 4.52
198 217 3.582208 TGGATATGGTTTTGCTTTTGCCT 59.418 39.130 0.00 0.00 46.87 4.75
199 218 3.934579 GGATATGGTTTTGCTTTTGCCTG 59.065 43.478 0.00 0.00 46.87 4.85
203 222 3.006247 TGGTTTTGCTTTTGCCTGTTTC 58.994 40.909 0.00 0.00 46.87 2.78
205 224 4.081420 TGGTTTTGCTTTTGCCTGTTTCTA 60.081 37.500 0.00 0.00 46.87 2.10
222 242 2.706350 TCTATTCCCATTCCCCAGGAG 58.294 52.381 0.00 0.00 31.21 3.69
339 365 1.177401 GTTGAGATTTGGGGGCTGTC 58.823 55.000 0.00 0.00 0.00 3.51
345 371 0.613012 ATTTGGGGGCTGTCTTGCTC 60.613 55.000 0.00 0.00 0.00 4.26
397 423 7.533289 TCCTTTCTATTTTCCACGGATTTTT 57.467 32.000 0.00 0.00 0.00 1.94
468 498 2.099756 GCTGTGCATAATTGGGAGGTTC 59.900 50.000 0.00 0.00 0.00 3.62
469 499 3.624777 CTGTGCATAATTGGGAGGTTCT 58.375 45.455 0.00 0.00 0.00 3.01
580 618 8.785329 TTTATGCAACAACATCATCTACTACA 57.215 30.769 0.00 0.00 0.00 2.74
581 619 6.915544 ATGCAACAACATCATCTACTACAG 57.084 37.500 0.00 0.00 0.00 2.74
601 642 6.192234 ACAGTACTAATGTTCAGACGTAGG 57.808 41.667 0.00 0.00 0.00 3.18
602 643 5.942236 ACAGTACTAATGTTCAGACGTAGGA 59.058 40.000 0.00 0.00 0.00 2.94
603 644 6.093771 ACAGTACTAATGTTCAGACGTAGGAG 59.906 42.308 0.00 0.00 0.00 3.69
613 654 4.885413 TCAGACGTAGGAGTAGATAGAGC 58.115 47.826 0.00 0.00 0.00 4.09
728 797 1.271054 GGGCTATGGACTGGTAGCATG 60.271 57.143 0.00 0.00 43.91 4.06
754 823 5.125356 TGTTTCAGATTTTGACTCTGCAGA 58.875 37.500 17.19 17.19 39.98 4.26
798 867 6.583806 CCTCTGTATGATTTTGCTGTTGTTTC 59.416 38.462 0.00 0.00 0.00 2.78
806 875 7.322664 TGATTTTGCTGTTGTTTCTTCTTCTT 58.677 30.769 0.00 0.00 0.00 2.52
807 876 6.949578 TTTTGCTGTTGTTTCTTCTTCTTG 57.050 33.333 0.00 0.00 0.00 3.02
828 898 8.614469 TCTTGAAAAGGAATGTTTTGTTGTTT 57.386 26.923 0.00 0.00 46.24 2.83
829 899 9.712305 TCTTGAAAAGGAATGTTTTGTTGTTTA 57.288 25.926 0.00 0.00 46.24 2.01
867 937 5.215160 CAAGAACTTGAGTTATTGCCACAC 58.785 41.667 15.63 0.00 45.94 3.82
912 982 4.190772 AGAAAACCCAAATGTTTGTGCAG 58.809 39.130 4.92 0.00 38.41 4.41
929 999 2.557924 TGCAGGATTTGGTGCTAACTTG 59.442 45.455 0.00 0.00 40.54 3.16
988 1058 3.503363 GCTGCGGACTGGCATGAC 61.503 66.667 0.00 0.00 42.99 3.06
992 1062 1.227380 GCGGACTGGCATGACCTAG 60.227 63.158 0.00 0.00 40.22 3.02
1315 1385 2.217038 TTGGACTGCTCCTTCGCCT 61.217 57.895 0.00 0.00 37.48 5.52
1345 1420 1.834856 CTCCCCAGCAGCAGAAGACA 61.835 60.000 0.00 0.00 0.00 3.41
1535 1610 1.077716 AGCATCAGCATCAGCAGCA 60.078 52.632 0.00 0.00 45.49 4.41
1636 1711 3.644606 CCCAGGACCAGCAGCACT 61.645 66.667 0.00 0.00 0.00 4.40
1656 1746 2.518349 CACCACCACCACCACCAC 60.518 66.667 0.00 0.00 0.00 4.16
1657 1747 3.816090 ACCACCACCACCACCACC 61.816 66.667 0.00 0.00 0.00 4.61
1658 1748 3.814906 CCACCACCACCACCACCA 61.815 66.667 0.00 0.00 0.00 4.17
1659 1749 2.518349 CACCACCACCACCACCAC 60.518 66.667 0.00 0.00 0.00 4.16
1660 1750 3.816090 ACCACCACCACCACCACC 61.816 66.667 0.00 0.00 0.00 4.61
1661 1751 3.814906 CCACCACCACCACCACCA 61.815 66.667 0.00 0.00 0.00 4.17
1672 1762 1.681666 CACCACCATGCCTCTGTCT 59.318 57.895 0.00 0.00 0.00 3.41
1716 1806 3.231736 AACACCGTCTCCACGCCT 61.232 61.111 0.00 0.00 45.29 5.52
1814 1904 2.958355 CCTTCTTTCTTGGAGGCAACAA 59.042 45.455 0.00 0.00 41.41 2.83
1825 1918 2.728383 GCAACAACGCTGCTGCTG 60.728 61.111 14.03 8.52 40.75 4.41
1826 1919 2.728383 CAACAACGCTGCTGCTGC 60.728 61.111 19.94 19.94 36.97 5.25
1902 1995 5.683876 TCAAGGAGGAAAGGAAGACATAG 57.316 43.478 0.00 0.00 0.00 2.23
2070 2176 9.962759 GCTGCTAGTTTATTTGAATTTGAATTG 57.037 29.630 0.00 0.00 0.00 2.32
2071 2177 9.962759 CTGCTAGTTTATTTGAATTTGAATTGC 57.037 29.630 0.00 0.00 0.00 3.56
2072 2178 9.709495 TGCTAGTTTATTTGAATTTGAATTGCT 57.291 25.926 0.00 0.00 0.00 3.91
2076 2182 9.211485 AGTTTATTTGAATTTGAATTGCTCCAG 57.789 29.630 0.00 0.00 0.00 3.86
2077 2183 9.206870 GTTTATTTGAATTTGAATTGCTCCAGA 57.793 29.630 0.00 0.00 0.00 3.86
2078 2184 8.991243 TTATTTGAATTTGAATTGCTCCAGAG 57.009 30.769 0.00 0.00 0.00 3.35
2079 2185 6.409524 TTTGAATTTGAATTGCTCCAGAGT 57.590 33.333 0.00 0.00 0.00 3.24
2080 2186 5.633830 TGAATTTGAATTGCTCCAGAGTC 57.366 39.130 0.00 0.00 0.00 3.36
2081 2187 4.460382 TGAATTTGAATTGCTCCAGAGTCC 59.540 41.667 0.00 0.00 0.00 3.85
2082 2188 3.507162 TTTGAATTGCTCCAGAGTCCA 57.493 42.857 0.00 0.00 0.00 4.02
2083 2189 2.775911 TGAATTGCTCCAGAGTCCAG 57.224 50.000 0.00 0.00 0.00 3.86
2084 2190 2.259917 TGAATTGCTCCAGAGTCCAGA 58.740 47.619 0.00 0.00 0.00 3.86
2085 2191 2.027745 TGAATTGCTCCAGAGTCCAGAC 60.028 50.000 0.00 0.00 0.00 3.51
2086 2192 1.649321 ATTGCTCCAGAGTCCAGACA 58.351 50.000 0.00 0.00 0.00 3.41
2087 2193 1.423584 TTGCTCCAGAGTCCAGACAA 58.576 50.000 0.00 0.00 0.00 3.18
2088 2194 1.649321 TGCTCCAGAGTCCAGACAAT 58.351 50.000 0.00 0.00 0.00 2.71
2089 2195 1.277273 TGCTCCAGAGTCCAGACAATG 59.723 52.381 0.00 0.00 0.00 2.82
2090 2196 1.277557 GCTCCAGAGTCCAGACAATGT 59.722 52.381 0.00 0.00 0.00 2.71
2091 2197 2.676463 GCTCCAGAGTCCAGACAATGTC 60.676 54.545 5.02 5.02 0.00 3.06
2092 2198 2.564504 CTCCAGAGTCCAGACAATGTCA 59.435 50.000 16.38 0.00 34.60 3.58
2093 2199 3.176411 TCCAGAGTCCAGACAATGTCAT 58.824 45.455 16.38 0.00 34.60 3.06
2094 2200 3.584406 TCCAGAGTCCAGACAATGTCATT 59.416 43.478 16.38 0.00 34.60 2.57
2095 2201 4.042062 TCCAGAGTCCAGACAATGTCATTT 59.958 41.667 16.38 0.00 34.60 2.32
2096 2202 5.248248 TCCAGAGTCCAGACAATGTCATTTA 59.752 40.000 16.38 0.00 34.60 1.40
2097 2203 5.352569 CCAGAGTCCAGACAATGTCATTTAC 59.647 44.000 16.38 7.92 34.60 2.01
2098 2204 5.934043 CAGAGTCCAGACAATGTCATTTACA 59.066 40.000 16.38 0.00 43.86 2.41
2099 2205 6.427853 CAGAGTCCAGACAATGTCATTTACAA 59.572 38.462 16.38 0.00 42.70 2.41
2100 2206 6.998074 AGAGTCCAGACAATGTCATTTACAAA 59.002 34.615 16.38 0.00 42.70 2.83
2101 2207 7.667219 AGAGTCCAGACAATGTCATTTACAAAT 59.333 33.333 16.38 0.00 42.70 2.32
2102 2208 7.596494 AGTCCAGACAATGTCATTTACAAATG 58.404 34.615 16.38 8.14 45.49 2.32
2103 2209 7.231317 AGTCCAGACAATGTCATTTACAAATGT 59.769 33.333 16.38 1.75 44.66 2.71
2104 2210 7.326789 GTCCAGACAATGTCATTTACAAATGTG 59.673 37.037 16.38 7.67 44.66 3.21
2166 2306 7.822822 TGGAGTAGTTAATTTCAGAACTTAGCC 59.177 37.037 4.19 0.00 37.16 3.93
2278 2418 6.385467 ACTTCCAAGTTCCTAGAGAATAGCAT 59.615 38.462 0.00 0.00 35.21 3.79
2289 2429 6.368516 CCTAGAGAATAGCATTGCTAGAAAGC 59.631 42.308 21.93 11.05 44.66 3.51
2331 2471 3.560636 TTAGCCAACCTTAGGAGATGC 57.439 47.619 4.77 1.93 0.00 3.91
2344 2484 2.433970 AGGAGATGCTTCTTACAGAGGC 59.566 50.000 3.29 1.05 46.21 4.70
2456 2596 6.662414 TGCTGAAATACCTATTCTTGAACG 57.338 37.500 0.00 0.00 0.00 3.95
2517 2657 7.375053 GGAGTATTTTATTTGGCAACTGTGAA 58.625 34.615 0.00 0.00 37.61 3.18
2561 2701 3.922910 AGTTGTAGTTAAGAACGGCTCC 58.077 45.455 0.00 0.00 36.23 4.70
2562 2702 3.577415 AGTTGTAGTTAAGAACGGCTCCT 59.423 43.478 0.00 0.00 36.23 3.69
2563 2703 3.863142 TGTAGTTAAGAACGGCTCCTC 57.137 47.619 0.00 0.00 36.23 3.71
2564 2704 3.428532 TGTAGTTAAGAACGGCTCCTCT 58.571 45.455 0.00 0.00 36.23 3.69
2565 2705 3.830755 TGTAGTTAAGAACGGCTCCTCTT 59.169 43.478 0.00 0.00 35.99 2.85
2566 2706 4.282703 TGTAGTTAAGAACGGCTCCTCTTT 59.717 41.667 0.00 0.00 33.89 2.52
2567 2707 4.353383 AGTTAAGAACGGCTCCTCTTTT 57.647 40.909 0.00 0.00 33.89 2.27
2568 2708 4.316645 AGTTAAGAACGGCTCCTCTTTTC 58.683 43.478 0.00 0.00 33.89 2.29
2569 2709 4.040584 AGTTAAGAACGGCTCCTCTTTTCT 59.959 41.667 0.00 0.00 33.89 2.52
2570 2710 3.493767 AAGAACGGCTCCTCTTTTCTT 57.506 42.857 0.00 0.00 32.81 2.52
2571 2711 3.493767 AGAACGGCTCCTCTTTTCTTT 57.506 42.857 0.00 0.00 0.00 2.52
2572 2712 3.403968 AGAACGGCTCCTCTTTTCTTTC 58.596 45.455 0.00 0.00 0.00 2.62
2606 2957 5.220491 GCGAACAAGAATGGCTAGAGTTTAG 60.220 44.000 0.00 0.00 0.00 1.85
2608 2959 4.518249 ACAAGAATGGCTAGAGTTTAGGC 58.482 43.478 7.27 7.27 40.12 3.93
2676 3027 5.153950 GTGTAATCCACAGAAAGGTCTCT 57.846 43.478 0.00 0.00 43.92 3.10
2677 3028 5.172205 GTGTAATCCACAGAAAGGTCTCTC 58.828 45.833 0.00 0.00 43.92 3.20
2695 3053 7.013464 AGGTCTCTCATATTCTACCTAACAACG 59.987 40.741 0.00 0.00 35.61 4.10
2754 3112 9.535878 TTAGTCACATTTATTTTTGTTGGGAAC 57.464 29.630 0.00 0.00 0.00 3.62
2763 3121 4.829064 TTTTGTTGGGAACTTCAGATCG 57.171 40.909 0.00 0.00 0.00 3.69
2781 3139 8.226819 TCAGATCGTAATACTTGAGAGTCAAT 57.773 34.615 0.00 0.00 35.59 2.57
2808 3166 0.744281 CATCAATCATGCTGCAGCCA 59.256 50.000 34.64 22.77 41.18 4.75
2862 3220 6.906157 ATTTTCTTCACCACACAAGATCAT 57.094 33.333 0.00 0.00 0.00 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
133 134 1.200020 CCAAAGAACCCAATCTCGCAC 59.800 52.381 0.00 0.00 0.00 5.34
195 214 2.959030 GGGAATGGGAATAGAAACAGGC 59.041 50.000 0.00 0.00 0.00 4.85
196 215 3.052944 TGGGGAATGGGAATAGAAACAGG 60.053 47.826 0.00 0.00 0.00 4.00
197 216 4.210331 CTGGGGAATGGGAATAGAAACAG 58.790 47.826 0.00 0.00 0.00 3.16
198 217 3.052944 CCTGGGGAATGGGAATAGAAACA 60.053 47.826 0.00 0.00 0.00 2.83
199 218 3.204382 TCCTGGGGAATGGGAATAGAAAC 59.796 47.826 0.00 0.00 0.00 2.78
203 222 2.422746 ACTCCTGGGGAATGGGAATAG 58.577 52.381 0.00 0.00 0.00 1.73
205 224 2.605825 TACTCCTGGGGAATGGGAAT 57.394 50.000 0.00 0.00 0.00 3.01
291 317 1.374343 TACTGTAGCTCTCGCCACCG 61.374 60.000 0.00 0.00 36.60 4.94
306 332 6.918569 CCAAATCTCAACCGAGTATACTACTG 59.081 42.308 5.09 1.40 39.59 2.74
307 333 6.040616 CCCAAATCTCAACCGAGTATACTACT 59.959 42.308 5.09 0.00 42.86 2.57
309 335 5.303589 CCCCAAATCTCAACCGAGTATACTA 59.696 44.000 5.09 0.00 40.44 1.82
310 336 4.101119 CCCCAAATCTCAACCGAGTATACT 59.899 45.833 4.68 4.68 40.44 2.12
311 337 4.377897 CCCCAAATCTCAACCGAGTATAC 58.622 47.826 0.00 0.00 40.44 1.47
312 338 3.389983 CCCCCAAATCTCAACCGAGTATA 59.610 47.826 0.00 0.00 40.44 1.47
313 339 2.172717 CCCCCAAATCTCAACCGAGTAT 59.827 50.000 0.00 0.00 40.44 2.12
339 365 0.099436 GGGCGCATTACAAGAGCAAG 59.901 55.000 10.83 0.00 33.20 4.01
345 371 1.531058 GCTTTACGGGCGCATTACAAG 60.531 52.381 10.83 6.62 0.00 3.16
410 436 0.682852 TGGGGATAATCGTAAGCGGG 59.317 55.000 0.00 0.00 38.89 6.13
412 438 1.269413 ACGTGGGGATAATCGTAAGCG 60.269 52.381 0.00 0.00 34.78 4.68
447 473 1.767759 ACCTCCCAATTATGCACAGC 58.232 50.000 0.00 0.00 0.00 4.40
580 618 6.179040 ACTCCTACGTCTGAACATTAGTACT 58.821 40.000 0.00 0.00 0.00 2.73
581 619 6.434018 ACTCCTACGTCTGAACATTAGTAC 57.566 41.667 0.00 0.00 0.00 2.73
601 642 4.766891 AGGAATCTGCTGCTCTATCTACTC 59.233 45.833 0.00 0.00 0.00 2.59
602 643 4.739793 AGGAATCTGCTGCTCTATCTACT 58.260 43.478 0.00 0.00 0.00 2.57
603 644 4.766891 AGAGGAATCTGCTGCTCTATCTAC 59.233 45.833 0.00 0.00 41.81 2.59
613 654 2.419324 GCTTTGTCAGAGGAATCTGCTG 59.581 50.000 0.29 0.00 37.63 4.41
728 797 6.035843 TGCAGAGTCAAAATCTGAAACAAAC 58.964 36.000 8.46 0.00 45.80 2.93
798 867 8.707938 ACAAAACATTCCTTTTCAAGAAGAAG 57.292 30.769 0.00 0.00 37.57 2.85
828 898 8.908903 TCAAGTTCTTGAAGCAAGGTTTTATTA 58.091 29.630 12.08 0.00 41.33 0.98
829 899 7.781056 TCAAGTTCTTGAAGCAAGGTTTTATT 58.219 30.769 12.08 0.00 41.33 1.40
830 900 7.068716 ACTCAAGTTCTTGAAGCAAGGTTTTAT 59.931 33.333 14.76 0.00 41.33 1.40
896 966 3.405823 AATCCTGCACAAACATTTGGG 57.594 42.857 9.09 5.79 44.29 4.12
907 977 2.162681 AGTTAGCACCAAATCCTGCAC 58.837 47.619 0.00 0.00 35.73 4.57
1224 1294 3.535629 CTTGCTGGGCTGGTCGACA 62.536 63.158 18.91 2.63 0.00 4.35
1297 1367 1.768684 AAGGCGAAGGAGCAGTCCAA 61.769 55.000 0.00 0.00 46.80 3.53
1315 1385 4.649705 TGGGGAGGCGACAGGGAA 62.650 66.667 0.00 0.00 0.00 3.97
1439 1514 2.360600 TGCCCCCGTTGTATGCAC 60.361 61.111 0.00 0.00 0.00 4.57
1478 1553 3.557903 TTGGAGCAGTGCAGGAGCC 62.558 63.158 19.20 10.56 41.13 4.70
1581 1656 0.465705 TCATCTCGAAGGACATGGGC 59.534 55.000 0.00 0.00 0.00 5.36
1636 1711 4.514585 GTGGTGGTGGTGGTGGCA 62.515 66.667 0.00 0.00 0.00 4.92
1656 1746 1.222936 GGAGACAGAGGCATGGTGG 59.777 63.158 0.00 0.00 0.00 4.61
1657 1747 0.617413 AAGGAGACAGAGGCATGGTG 59.383 55.000 0.00 0.00 0.00 4.17
1658 1748 0.908198 GAAGGAGACAGAGGCATGGT 59.092 55.000 0.00 0.00 0.00 3.55
1659 1749 0.179089 CGAAGGAGACAGAGGCATGG 60.179 60.000 0.00 0.00 0.00 3.66
1660 1750 0.820226 TCGAAGGAGACAGAGGCATG 59.180 55.000 0.00 0.00 0.00 4.06
1661 1751 0.820871 GTCGAAGGAGACAGAGGCAT 59.179 55.000 0.00 0.00 40.65 4.40
1902 1995 3.493767 ACTCACCTCCCAAGAAGAAAC 57.506 47.619 0.00 0.00 0.00 2.78
2070 2176 1.277557 ACATTGTCTGGACTCTGGAGC 59.722 52.381 2.38 0.00 0.00 4.70
2071 2177 2.564504 TGACATTGTCTGGACTCTGGAG 59.435 50.000 17.26 0.00 33.15 3.86
2072 2178 2.608623 TGACATTGTCTGGACTCTGGA 58.391 47.619 17.26 0.00 33.15 3.86
2073 2179 3.623906 ATGACATTGTCTGGACTCTGG 57.376 47.619 17.26 0.00 33.15 3.86
2074 2180 5.934043 TGTAAATGACATTGTCTGGACTCTG 59.066 40.000 17.26 2.78 31.20 3.35
2075 2181 6.114187 TGTAAATGACATTGTCTGGACTCT 57.886 37.500 17.26 0.00 31.20 3.24
2076 2182 6.801539 TTGTAAATGACATTGTCTGGACTC 57.198 37.500 17.26 5.30 38.07 3.36
2077 2183 7.231317 ACATTTGTAAATGACATTGTCTGGACT 59.769 33.333 20.68 1.54 46.72 3.85
2078 2184 7.326789 CACATTTGTAAATGACATTGTCTGGAC 59.673 37.037 20.68 10.42 46.72 4.02
2079 2185 7.369607 CACATTTGTAAATGACATTGTCTGGA 58.630 34.615 20.68 0.00 46.72 3.86
2080 2186 6.587226 CCACATTTGTAAATGACATTGTCTGG 59.413 38.462 20.68 12.42 46.72 3.86
2081 2187 7.147312 ACCACATTTGTAAATGACATTGTCTG 58.853 34.615 20.68 6.82 46.72 3.51
2082 2188 7.288810 ACCACATTTGTAAATGACATTGTCT 57.711 32.000 20.68 0.63 46.72 3.41
2083 2189 8.296713 AGTACCACATTTGTAAATGACATTGTC 58.703 33.333 20.68 9.93 46.72 3.18
2084 2190 8.177119 AGTACCACATTTGTAAATGACATTGT 57.823 30.769 20.68 12.59 46.72 2.71
2085 2191 7.754924 GGAGTACCACATTTGTAAATGACATTG 59.245 37.037 20.68 10.27 46.51 2.82
2086 2192 7.450014 TGGAGTACCACATTTGTAAATGACATT 59.550 33.333 20.68 0.00 46.51 2.71
2087 2193 6.945435 TGGAGTACCACATTTGTAAATGACAT 59.055 34.615 20.68 9.58 46.51 3.06
2088 2194 6.299922 TGGAGTACCACATTTGTAAATGACA 58.700 36.000 20.68 0.00 46.51 3.58
2089 2195 6.653320 TCTGGAGTACCACATTTGTAAATGAC 59.347 38.462 20.68 10.34 46.51 3.06
2090 2196 6.774673 TCTGGAGTACCACATTTGTAAATGA 58.225 36.000 20.68 0.00 46.51 2.57
2091 2197 6.655003 ACTCTGGAGTACCACATTTGTAAATG 59.345 38.462 14.09 14.09 44.22 2.32
2092 2198 6.779860 ACTCTGGAGTACCACATTTGTAAAT 58.220 36.000 0.95 0.00 41.77 1.40
2093 2199 6.182507 ACTCTGGAGTACCACATTTGTAAA 57.817 37.500 0.95 0.00 41.77 2.01
2094 2200 5.279809 GGACTCTGGAGTACCACATTTGTAA 60.280 44.000 3.03 0.00 42.66 2.41
2095 2201 4.222145 GGACTCTGGAGTACCACATTTGTA 59.778 45.833 3.03 0.00 42.66 2.41
2096 2202 3.008049 GGACTCTGGAGTACCACATTTGT 59.992 47.826 3.03 0.00 42.66 2.83
2097 2203 3.007940 TGGACTCTGGAGTACCACATTTG 59.992 47.826 10.11 0.00 41.64 2.32
2098 2204 3.248024 TGGACTCTGGAGTACCACATTT 58.752 45.455 10.11 0.00 41.64 2.32
2099 2205 2.834549 CTGGACTCTGGAGTACCACATT 59.165 50.000 10.11 0.00 41.64 2.71
2100 2206 2.043115 TCTGGACTCTGGAGTACCACAT 59.957 50.000 10.11 0.00 41.64 3.21
2101 2207 1.427753 TCTGGACTCTGGAGTACCACA 59.572 52.381 10.11 4.31 41.64 4.17
2102 2208 1.819903 GTCTGGACTCTGGAGTACCAC 59.180 57.143 10.11 4.00 41.64 4.16
2103 2209 1.613520 CGTCTGGACTCTGGAGTACCA 60.614 57.143 10.11 13.41 41.64 3.25
2104 2210 1.096416 CGTCTGGACTCTGGAGTACC 58.904 60.000 10.11 10.20 41.64 3.34
2166 2306 0.883833 CCTTTGGTTGGCTACTGCTG 59.116 55.000 0.00 0.00 39.59 4.41
2209 2349 3.184541 CAATTTGGCAGCTACAATCAGC 58.815 45.455 4.11 0.00 42.12 4.26
2331 2471 1.293924 CGCATGGCCTCTGTAAGAAG 58.706 55.000 3.32 0.00 46.34 2.85
2344 2484 2.545526 CAGTAAATCTGCTACCGCATGG 59.454 50.000 0.00 0.00 46.74 3.66
2456 2596 6.393171 CCTCAAAAGGAATCCAAAATCAGTC 58.607 40.000 0.61 0.00 46.67 3.51
2499 2639 9.474920 CTTAGAAATTCACAGTTGCCAAATAAA 57.525 29.630 0.00 0.00 0.00 1.40
2606 2957 1.244816 GGTGGACAAGTTTACCAGCC 58.755 55.000 13.26 7.85 43.57 4.85
2620 2971 0.037697 CGGATTCGAACACTGGTGGA 60.038 55.000 0.00 0.00 39.00 4.02
2628 2979 1.004320 CACCCCACGGATTCGAACA 60.004 57.895 0.00 0.00 40.11 3.18
2676 3027 8.199449 CCCTTTACGTTGTTAGGTAGAATATGA 58.801 37.037 0.00 0.00 0.00 2.15
2677 3028 8.199449 TCCCTTTACGTTGTTAGGTAGAATATG 58.801 37.037 0.00 0.00 0.00 1.78
2731 3089 8.432110 AAGTTCCCAACAAAAATAAATGTGAC 57.568 30.769 0.00 0.00 0.00 3.67
2754 3112 7.698628 TGACTCTCAAGTATTACGATCTGAAG 58.301 38.462 0.00 0.00 35.28 3.02
2781 3139 6.148315 GCTGCAGCATGATTGATGTACTAATA 59.852 38.462 33.36 0.00 41.36 0.98
2835 3193 5.890334 TCTTGTGTGGTGAAGAAAATTGTC 58.110 37.500 0.00 0.00 0.00 3.18
2846 3204 5.714806 TGTAGTAGATGATCTTGTGTGGTGA 59.285 40.000 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.