Multiple sequence alignment - TraesCS7D01G129300

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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 TraesCS7D01G129300 chr7D 100.000 3063 0 0 1 3063 81758691 81761753 0.000000e+00 5657.0
1 TraesCS7D01G129300 chr7D 91.176 170 14 1 2895 3063 81254815 81254984 2.380000e-56 230.0
2 TraesCS7D01G129300 chr7D 91.176 170 14 1 2895 3063 81363281 81363112 2.380000e-56 230.0
3 TraesCS7D01G129300 chr7D 91.176 170 14 1 2895 3063 81665263 81665432 2.380000e-56 230.0
4 TraesCS7D01G129300 chr7B 91.119 2511 184 25 1 2489 28685377 28687870 0.000000e+00 3365.0
5 TraesCS7D01G129300 chr7B 91.864 762 55 5 1792 2546 28689998 28690759 0.000000e+00 1057.0
6 TraesCS7D01G129300 chr7B 97.099 517 14 1 2547 3063 28690799 28691314 0.000000e+00 870.0
7 TraesCS7D01G129300 chr7B 91.304 69 4 1 222 290 28684786 28684852 3.250000e-15 93.5
8 TraesCS7D01G129300 chr7B 93.478 46 3 0 1 46 28684745 28684790 5.480000e-08 69.4
9 TraesCS7D01G129300 chr7B 94.737 38 1 1 384 420 131797890 131797927 1.190000e-04 58.4
10 TraesCS7D01G129300 chr3B 80.118 1187 181 35 943 2097 11736329 11737492 0.000000e+00 833.0
11 TraesCS7D01G129300 chr3B 82.278 790 121 12 1357 2141 11924770 11925545 0.000000e+00 665.0
12 TraesCS7D01G129300 chr3B 75.497 755 112 42 867 1569 11907269 11908002 4.960000e-78 302.0
13 TraesCS7D01G129300 chr3B 90.000 50 5 0 767 816 11660580 11660531 7.090000e-07 65.8
14 TraesCS7D01G129300 chrUn 78.565 1101 178 35 1045 2097 269094430 269095520 0.000000e+00 673.0
15 TraesCS7D01G129300 chrUn 83.356 727 108 7 1346 2070 36299790 36299075 0.000000e+00 660.0
16 TraesCS7D01G129300 chr5D 78.914 958 175 17 1124 2073 373112434 373111496 2.590000e-175 625.0
17 TraesCS7D01G129300 chr5D 94.318 88 3 2 2371 2457 128577668 128577582 1.920000e-27 134.0
18 TraesCS7D01G129300 chr5D 94.737 38 1 1 384 420 371386184 371386147 1.190000e-04 58.4
19 TraesCS7D01G129300 chr4D 78.579 957 179 14 1124 2070 316827483 316828423 2.610000e-170 608.0
20 TraesCS7D01G129300 chr4D 78.031 965 183 16 1114 2070 363105889 363106832 5.690000e-162 580.0
21 TraesCS7D01G129300 chr3D 78.373 971 180 17 1109 2070 398073623 398074572 1.220000e-168 603.0
22 TraesCS7D01G129300 chr3D 87.755 49 5 1 391 439 7749869 7749822 4.270000e-04 56.5
23 TraesCS7D01G129300 chr1D 78.216 964 184 16 1114 2070 160471977 160472921 7.310000e-166 593.0
24 TraesCS7D01G129300 chr1D 100.000 31 0 0 391 421 487172648 487172618 1.190000e-04 58.4
25 TraesCS7D01G129300 chr2D 80.694 720 137 1 1351 2070 5724348 5723631 2.670000e-155 558.0
26 TraesCS7D01G129300 chr7A 92.899 169 11 1 2895 3063 83730964 83731131 8.480000e-61 244.0
27 TraesCS7D01G129300 chr7A 86.441 118 10 5 2357 2473 520786179 520786291 1.150000e-24 124.0
28 TraesCS7D01G129300 chr5A 94.444 90 1 4 2371 2458 353601712 353601799 5.330000e-28 135.0
29 TraesCS7D01G129300 chr4B 90.385 104 5 5 2351 2452 586248550 586248450 6.890000e-27 132.0
30 TraesCS7D01G129300 chr4B 86.607 112 8 5 40 150 595714821 595714926 1.930000e-22 117.0
31 TraesCS7D01G129300 chr4B 97.143 35 0 1 391 424 403271692 403271726 1.190000e-04 58.4
32 TraesCS7D01G129300 chr4B 92.500 40 2 1 384 422 145807197 145807158 4.270000e-04 56.5
33 TraesCS7D01G129300 chr3A 90.291 103 6 4 2351 2450 378815141 378815040 6.890000e-27 132.0
34 TraesCS7D01G129300 chr3A 91.667 96 5 3 2359 2452 22230626 22230720 2.480000e-26 130.0
35 TraesCS7D01G129300 chr3A 75.479 261 30 18 1031 1268 15695270 15695021 2.510000e-16 97.1
36 TraesCS7D01G129300 chr6B 90.099 101 5 4 2363 2461 574026463 574026366 3.210000e-25 126.0
37 TraesCS7D01G129300 chr6B 89.362 47 2 2 374 419 527931242 527931286 4.270000e-04 56.5
38 TraesCS7D01G129300 chr2B 94.444 36 2 0 384 419 246118513 246118548 4.270000e-04 56.5


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 TraesCS7D01G129300 chr7D 81758691 81761753 3062 False 5657.00 5657 100.0000 1 3063 1 chr7D.!!$F3 3062
1 TraesCS7D01G129300 chr7B 28684745 28691314 6569 False 1090.98 3365 92.9728 1 3063 5 chr7B.!!$F2 3062
2 TraesCS7D01G129300 chr3B 11736329 11737492 1163 False 833.00 833 80.1180 943 2097 1 chr3B.!!$F1 1154
3 TraesCS7D01G129300 chr3B 11924770 11925545 775 False 665.00 665 82.2780 1357 2141 1 chr3B.!!$F3 784
4 TraesCS7D01G129300 chr3B 11907269 11908002 733 False 302.00 302 75.4970 867 1569 1 chr3B.!!$F2 702
5 TraesCS7D01G129300 chrUn 269094430 269095520 1090 False 673.00 673 78.5650 1045 2097 1 chrUn.!!$F1 1052
6 TraesCS7D01G129300 chrUn 36299075 36299790 715 True 660.00 660 83.3560 1346 2070 1 chrUn.!!$R1 724
7 TraesCS7D01G129300 chr5D 373111496 373112434 938 True 625.00 625 78.9140 1124 2073 1 chr5D.!!$R3 949
8 TraesCS7D01G129300 chr4D 316827483 316828423 940 False 608.00 608 78.5790 1124 2070 1 chr4D.!!$F1 946
9 TraesCS7D01G129300 chr4D 363105889 363106832 943 False 580.00 580 78.0310 1114 2070 1 chr4D.!!$F2 956
10 TraesCS7D01G129300 chr3D 398073623 398074572 949 False 603.00 603 78.3730 1109 2070 1 chr3D.!!$F1 961
11 TraesCS7D01G129300 chr1D 160471977 160472921 944 False 593.00 593 78.2160 1114 2070 1 chr1D.!!$F1 956
12 TraesCS7D01G129300 chr2D 5723631 5724348 717 True 558.00 558 80.6940 1351 2070 1 chr2D.!!$R1 719

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
905 1553 0.099968 CAGCTGGGCATTGATTCACG 59.9 55.0 5.57 0.0 0.0 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2444 6014 1.747355 TGCGTTGTAGCTAGTACTCCC 59.253 52.381 0.0 0.0 38.13 4.3 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
34 35 4.207635 CGAGTACGAGTTTTGCACAACTAA 59.792 41.667 17.85 4.75 42.66 2.24
59 698 3.028094 ACCATCCGAGACTAGCCTTTA 57.972 47.619 0.00 0.00 0.00 1.85
63 702 2.933573 TCCGAGACTAGCCTTTAGAGG 58.066 52.381 0.00 0.00 46.50 3.69
97 736 5.036117 AGAAGAAACTCTAAGCACCACAA 57.964 39.130 0.00 0.00 0.00 3.33
102 741 4.357918 AACTCTAAGCACCACAAGTCAT 57.642 40.909 0.00 0.00 0.00 3.06
108 747 0.238289 GCACCACAAGTCATTCCGTG 59.762 55.000 0.00 0.00 0.00 4.94
109 748 1.877637 CACCACAAGTCATTCCGTGA 58.122 50.000 0.00 0.00 0.00 4.35
120 759 0.682852 ATTCCGTGACTCAAACCCGA 59.317 50.000 0.00 0.00 0.00 5.14
121 760 0.464870 TTCCGTGACTCAAACCCGAA 59.535 50.000 0.00 0.00 0.00 4.30
174 813 1.136828 TAGCAAACAGGGTGACACCT 58.863 50.000 23.72 7.61 43.08 4.00
175 814 0.258774 AGCAAACAGGGTGACACCTT 59.741 50.000 23.72 14.44 39.34 3.50
181 820 1.884235 CAGGGTGACACCTTGTTCTC 58.116 55.000 24.83 7.52 40.15 2.87
183 822 2.057922 AGGGTGACACCTTGTTCTCAT 58.942 47.619 23.72 0.00 37.69 2.90
184 823 2.443255 AGGGTGACACCTTGTTCTCATT 59.557 45.455 23.72 0.00 37.69 2.57
211 851 1.282157 ACATACAAAGGCTGAGGACCC 59.718 52.381 0.00 0.00 0.00 4.46
212 852 0.541863 ATACAAAGGCTGAGGACCCG 59.458 55.000 0.00 0.00 0.00 5.28
219 859 1.068250 GCTGAGGACCCGAGTATGC 59.932 63.158 0.00 0.00 0.00 3.14
294 934 7.352079 AGGGAATGTGAATATTTGGAATGAC 57.648 36.000 0.00 0.00 0.00 3.06
306 946 4.734398 TTGGAATGACAAAGTTGTTGCT 57.266 36.364 0.00 0.00 42.43 3.91
309 949 5.129634 TGGAATGACAAAGTTGTTGCTAGA 58.870 37.500 0.00 0.00 42.43 2.43
318 958 6.919662 ACAAAGTTGTTGCTAGATTCATGTTG 59.080 34.615 0.00 0.00 38.47 3.33
319 959 6.639632 AAGTTGTTGCTAGATTCATGTTGT 57.360 33.333 0.00 0.00 0.00 3.32
320 960 6.246420 AGTTGTTGCTAGATTCATGTTGTC 57.754 37.500 0.00 0.00 0.00 3.18
321 961 5.764686 AGTTGTTGCTAGATTCATGTTGTCA 59.235 36.000 0.00 0.00 0.00 3.58
323 963 5.550290 TGTTGCTAGATTCATGTTGTCAGA 58.450 37.500 0.00 0.00 0.00 3.27
324 964 6.175471 TGTTGCTAGATTCATGTTGTCAGAT 58.825 36.000 0.00 0.00 0.00 2.90
325 965 7.330262 TGTTGCTAGATTCATGTTGTCAGATA 58.670 34.615 0.00 0.00 0.00 1.98
341 981 8.596380 GTTGTCAGATAAAAACTATTCTCTCCG 58.404 37.037 0.00 0.00 0.00 4.63
361 1001 5.533482 TCCGTTCCAAAATAATTGTTGTGG 58.467 37.500 16.16 16.16 0.00 4.17
392 1032 7.743520 TTGAAATTTGAACTTAAACCACGAC 57.256 32.000 0.00 0.00 0.00 4.34
403 1043 6.270064 ACTTAAACCACGACAAGAATTTTGG 58.730 36.000 0.00 0.00 0.00 3.28
420 1060 1.263356 TGGAACGGAGGGAGTACTTG 58.737 55.000 0.00 0.00 0.00 3.16
422 1062 1.897802 GGAACGGAGGGAGTACTTGAA 59.102 52.381 0.00 0.00 0.00 2.69
428 1068 4.286291 ACGGAGGGAGTACTTGAAATTCTT 59.714 41.667 0.00 0.00 0.00 2.52
456 1097 9.771915 TGAAAACTTGAAAGAAAAATTTCATGC 57.228 25.926 8.47 0.00 45.83 4.06
560 1206 7.841282 TTATTTGTGGACTAAATTGTTCCCA 57.159 32.000 0.00 0.00 0.00 4.37
577 1223 1.323412 CCAAACCACAAATCCCACGA 58.677 50.000 0.00 0.00 0.00 4.35
586 1232 1.730064 CAAATCCCACGACTAACCACG 59.270 52.381 0.00 0.00 0.00 4.94
589 1235 1.736645 CCCACGACTAACCACGCAG 60.737 63.158 0.00 0.00 0.00 5.18
593 1239 1.070843 CACGACTAACCACGCAGTTTG 60.071 52.381 0.00 0.00 41.61 2.93
594 1240 0.110823 CGACTAACCACGCAGTTTGC 60.111 55.000 0.00 0.00 41.61 3.68
609 1255 4.850842 GCAGTTTGCAAGGGTGTATTACAC 60.851 45.833 16.97 16.97 44.85 2.90
610 1256 7.003538 GCAGTTTGCAAGGGTGTATTACACT 62.004 44.000 22.65 5.11 44.90 3.55
611 1257 4.518970 AGTTTGCAAGGGTGTATTACACTG 59.481 41.667 22.65 15.64 44.02 3.66
612 1258 3.780804 TGCAAGGGTGTATTACACTGT 57.219 42.857 22.65 10.35 44.02 3.55
614 1260 5.230323 TGCAAGGGTGTATTACACTGTTA 57.770 39.130 22.65 7.81 44.02 2.41
617 1263 6.717540 TGCAAGGGTGTATTACACTGTTAAAT 59.282 34.615 22.65 4.27 44.02 1.40
619 1265 8.085909 GCAAGGGTGTATTACACTGTTAAATTT 58.914 33.333 22.65 0.00 44.02 1.82
620 1266 9.620660 CAAGGGTGTATTACACTGTTAAATTTC 57.379 33.333 22.65 5.69 44.02 2.17
661 1308 6.035542 CACATTTTCGGTTTTGTAAAGCAACT 59.964 34.615 0.00 0.00 36.72 3.16
663 1310 7.923878 ACATTTTCGGTTTTGTAAAGCAACTAT 59.076 29.630 0.00 0.00 36.72 2.12
680 1327 7.257722 AGCAACTATAAAATGGAAAATCACCG 58.742 34.615 0.00 0.00 0.00 4.94
688 1335 5.398603 AATGGAAAATCACCGCAAATACA 57.601 34.783 0.00 0.00 0.00 2.29
700 1347 7.143340 TCACCGCAAATACATACAGTCTATAC 58.857 38.462 0.00 0.00 0.00 1.47
705 1352 8.076781 CGCAAATACATACAGTCTATACAGTCT 58.923 37.037 0.00 0.00 0.00 3.24
711 1358 7.797062 ACATACAGTCTATACAGTCTCTCTGA 58.203 38.462 1.79 0.00 46.27 3.27
715 1362 8.902540 ACAGTCTATACAGTCTCTCTGATAAG 57.097 38.462 1.79 0.00 46.27 1.73
720 1367 8.495260 TCTATACAGTCTCTCTGATAAGGTTCA 58.505 37.037 1.79 0.00 46.27 3.18
721 1368 5.913137 ACAGTCTCTCTGATAAGGTTCAG 57.087 43.478 1.79 0.00 46.27 3.02
797 1445 4.364415 TGTCCTGTTTCTTTCCGTTTTG 57.636 40.909 0.00 0.00 0.00 2.44
839 1487 2.868504 TGGCCTCTCCAGTTTTCCT 58.131 52.632 3.32 0.00 40.72 3.36
878 1526 2.093306 TGACGTCAAATCAATCGGCT 57.907 45.000 17.62 0.00 32.17 5.52
904 1552 0.458669 CCAGCTGGGCATTGATTCAC 59.541 55.000 26.14 0.00 0.00 3.18
905 1553 0.099968 CAGCTGGGCATTGATTCACG 59.900 55.000 5.57 0.00 0.00 4.35
906 1554 1.033746 AGCTGGGCATTGATTCACGG 61.034 55.000 0.00 0.00 0.00 4.94
934 1585 3.681594 CGCTTGCTTTTACCATCCCTCTA 60.682 47.826 0.00 0.00 0.00 2.43
940 1591 5.119694 GCTTTTACCATCCCTCTACTTCTG 58.880 45.833 0.00 0.00 0.00 3.02
981 1638 2.804572 GCAGAGCAGTTCACACTTGAGA 60.805 50.000 0.00 0.00 31.71 3.27
982 1639 3.058450 CAGAGCAGTTCACACTTGAGAG 58.942 50.000 0.00 0.00 31.71 3.20
992 1649 1.892474 ACACTTGAGAGAGGCAGAGAC 59.108 52.381 0.00 0.00 0.00 3.36
1012 1669 1.378119 TTGAGGATGCAGGCTGCTG 60.378 57.895 36.50 4.23 45.31 4.41
1269 1943 1.271054 CCACCAGTCTTCCAGGTTCAG 60.271 57.143 0.00 0.00 32.15 3.02
1272 1946 1.974236 CCAGTCTTCCAGGTTCAGACT 59.026 52.381 11.11 11.11 46.73 3.24
1273 1947 3.165875 CCAGTCTTCCAGGTTCAGACTA 58.834 50.000 14.75 0.00 44.49 2.59
1274 1948 3.056465 CCAGTCTTCCAGGTTCAGACTAC 60.056 52.174 14.75 0.00 44.49 2.73
1275 1949 3.574396 CAGTCTTCCAGGTTCAGACTACA 59.426 47.826 14.75 0.00 44.49 2.74
1301 1990 3.870723 TCGATCTTTGTTTGTTCCGTG 57.129 42.857 0.00 0.00 0.00 4.94
1362 2071 2.029739 TGGATCAATTTGTGCAGTGCAG 60.030 45.455 20.42 5.67 40.08 4.41
1456 2172 3.804329 GGCGGCCCCTTCCACATA 61.804 66.667 8.12 0.00 0.00 2.29
1549 2265 0.888619 TCACCTACCACAAGCTCGAG 59.111 55.000 8.45 8.45 0.00 4.04
1742 2458 2.738521 GCTTGCTGTTCGCGGAGA 60.739 61.111 6.13 0.00 43.27 3.71
1823 2539 2.213513 TCGGTGGTGTGCATCAGGA 61.214 57.895 0.00 0.00 0.00 3.86
2083 5646 8.713971 TCCTAAATGATTCCATGAAGCTTAGTA 58.286 33.333 0.00 0.00 32.36 1.82
2151 5714 5.066505 AGTTTGGTTTACTTCAGCTTGTGAG 59.933 40.000 0.00 0.00 36.21 3.51
2165 5728 1.908344 TGTGAGCCTTGCAGCAATTA 58.092 45.000 8.67 0.00 34.23 1.40
2176 5739 5.346822 CCTTGCAGCAATTACTTCAACATTC 59.653 40.000 8.67 0.00 0.00 2.67
2222 5785 3.674997 TCCAACAGTGCAAGAGGTATTC 58.325 45.455 0.00 0.00 0.00 1.75
2248 5812 6.663093 TGTGGCTGTTGGATGTAAGATATTTT 59.337 34.615 0.00 0.00 0.00 1.82
2255 5819 7.777910 TGTTGGATGTAAGATATTTTGGGGTAG 59.222 37.037 0.00 0.00 0.00 3.18
2275 5839 6.038271 GGGTAGCAAGTGAACTAAATGTATGG 59.962 42.308 0.00 0.00 0.00 2.74
2282 5846 7.916914 AGTGAACTAAATGTATGGTGGTTAC 57.083 36.000 0.00 0.00 0.00 2.50
2323 5887 8.603242 AATTGCCGTATACTTATTCCACTAAG 57.397 34.615 0.56 0.00 35.31 2.18
2340 5904 8.382030 TCCACTAAGTTATGCATTATGTGATG 57.618 34.615 3.54 0.00 0.00 3.07
2344 5908 8.840321 ACTAAGTTATGCATTATGTGATGGTTC 58.160 33.333 3.54 0.00 0.00 3.62
2354 5918 6.561737 TTATGTGATGGTTCGTTGCTTTAA 57.438 33.333 0.00 0.00 0.00 1.52
2356 5920 5.446143 TGTGATGGTTCGTTGCTTTAATT 57.554 34.783 0.00 0.00 0.00 1.40
2358 5922 6.276847 TGTGATGGTTCGTTGCTTTAATTTT 58.723 32.000 0.00 0.00 0.00 1.82
2467 6037 4.430908 GGAGTACTAGCTACAACGCATTT 58.569 43.478 0.00 0.00 0.00 2.32
2480 6050 5.591643 CAACGCATTTCAGTTGTACTAGT 57.408 39.130 0.00 0.00 41.82 2.57
2491 6061 6.988522 TCAGTTGTACTAGTATTTGTGAGCA 58.011 36.000 5.75 0.00 0.00 4.26
2493 6063 7.039993 TCAGTTGTACTAGTATTTGTGAGCAGA 60.040 37.037 5.75 0.00 0.00 4.26
2534 6104 8.246871 TGAAGATAGCTTTATATGACGATCAGG 58.753 37.037 0.00 0.00 33.61 3.86
2557 6166 7.911727 CAGGTAATGTGTTATGACATGACATTG 59.088 37.037 15.66 0.60 38.89 2.82
2629 6238 6.027025 ACAGAGGATAGGTATAACCACTGA 57.973 41.667 14.16 0.00 41.83 3.41
2728 6337 1.662360 CACGCACGTTGACATTCAAG 58.338 50.000 0.00 0.00 37.00 3.02
2874 6483 8.739039 CACACTTTTGAATTAGTAATCCCATGA 58.261 33.333 0.00 0.00 0.00 3.07
2993 6602 8.773645 TCATGCTGGTCTAATTAATATGAAACG 58.226 33.333 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 1.867363 AAGGCTAGTCTCGGATGGTT 58.133 50.000 0.00 0.00 0.00 3.67
54 693 9.784531 TCTTCTATGAAAATATGCCTCTAAAGG 57.215 33.333 0.00 0.00 46.44 3.11
59 698 9.336171 GAGTTTCTTCTATGAAAATATGCCTCT 57.664 33.333 0.00 0.00 37.63 3.69
72 711 6.166279 TGTGGTGCTTAGAGTTTCTTCTATG 58.834 40.000 0.00 0.00 30.20 2.23
76 715 4.816925 ACTTGTGGTGCTTAGAGTTTCTTC 59.183 41.667 0.00 0.00 0.00 2.87
89 728 0.238289 CACGGAATGACTTGTGGTGC 59.762 55.000 0.00 0.00 0.00 5.01
102 741 0.464870 TTCGGGTTTGAGTCACGGAA 59.535 50.000 0.00 0.00 32.20 4.30
151 790 2.949644 GTGTCACCCTGTTTGCTACTTT 59.050 45.455 0.00 0.00 0.00 2.66
152 791 2.572290 GTGTCACCCTGTTTGCTACTT 58.428 47.619 0.00 0.00 0.00 2.24
153 792 1.202770 GGTGTCACCCTGTTTGCTACT 60.203 52.381 11.30 0.00 30.04 2.57
154 793 1.202770 AGGTGTCACCCTGTTTGCTAC 60.203 52.381 18.80 0.00 39.75 3.58
155 794 1.136828 AGGTGTCACCCTGTTTGCTA 58.863 50.000 18.80 0.00 39.75 3.49
156 795 0.258774 AAGGTGTCACCCTGTTTGCT 59.741 50.000 18.80 0.00 39.75 3.91
157 796 0.385390 CAAGGTGTCACCCTGTTTGC 59.615 55.000 18.80 0.00 39.75 3.68
158 797 1.762708 ACAAGGTGTCACCCTGTTTG 58.237 50.000 18.89 17.50 39.82 2.93
184 823 4.501229 CCTCAGCCTTTGTATGTGCAAAAA 60.501 41.667 0.00 0.00 37.82 1.94
194 833 0.543410 TCGGGTCCTCAGCCTTTGTA 60.543 55.000 0.00 0.00 38.13 2.41
195 834 1.831652 CTCGGGTCCTCAGCCTTTGT 61.832 60.000 0.00 0.00 38.13 2.83
196 835 1.078848 CTCGGGTCCTCAGCCTTTG 60.079 63.158 0.00 0.00 38.13 2.77
201 841 1.068250 GCATACTCGGGTCCTCAGC 59.932 63.158 0.00 0.00 0.00 4.26
202 842 1.043816 ATGCATACTCGGGTCCTCAG 58.956 55.000 0.00 0.00 0.00 3.35
211 851 8.764287 TGTGAAAGAAATGTATATGCATACTCG 58.236 33.333 8.99 0.00 38.30 4.18
275 915 9.426837 CAACTTTGTCATTCCAAATATTCACAT 57.573 29.630 0.00 0.00 34.07 3.21
294 934 6.919662 ACAACATGAATCTAGCAACAACTTTG 59.080 34.615 0.00 0.00 0.00 2.77
318 958 8.705048 AACGGAGAGAATAGTTTTTATCTGAC 57.295 34.615 0.00 0.00 27.74 3.51
319 959 7.980099 GGAACGGAGAGAATAGTTTTTATCTGA 59.020 37.037 0.00 0.00 27.74 3.27
320 960 7.764443 TGGAACGGAGAGAATAGTTTTTATCTG 59.236 37.037 0.00 0.00 27.74 2.90
321 961 7.848128 TGGAACGGAGAGAATAGTTTTTATCT 58.152 34.615 0.00 0.00 30.15 1.98
323 963 8.857694 TTTGGAACGGAGAGAATAGTTTTTAT 57.142 30.769 0.00 0.00 0.00 1.40
324 964 8.680039 TTTTGGAACGGAGAGAATAGTTTTTA 57.320 30.769 0.00 0.00 0.00 1.52
325 965 7.576861 TTTTGGAACGGAGAGAATAGTTTTT 57.423 32.000 0.00 0.00 0.00 1.94
333 973 7.013846 ACAACAATTATTTTGGAACGGAGAGAA 59.986 33.333 0.00 0.00 0.00 2.87
367 1007 7.976734 TGTCGTGGTTTAAGTTCAAATTTCAAT 59.023 29.630 0.00 0.00 0.00 2.57
370 1010 7.698970 TCTTGTCGTGGTTTAAGTTCAAATTTC 59.301 33.333 0.00 0.00 0.00 2.17
373 1013 6.687081 TCTTGTCGTGGTTTAAGTTCAAAT 57.313 33.333 0.00 0.00 0.00 2.32
390 1030 3.057526 CCCTCCGTTCCAAAATTCTTGTC 60.058 47.826 0.00 0.00 0.00 3.18
392 1032 3.153919 TCCCTCCGTTCCAAAATTCTTG 58.846 45.455 0.00 0.00 0.00 3.02
403 1043 3.672767 TTTCAAGTACTCCCTCCGTTC 57.327 47.619 0.00 0.00 0.00 3.95
448 1088 1.540707 TCACATGTGTGCGCATGAAAT 59.459 42.857 26.29 0.43 46.65 2.17
456 1097 4.153296 TGGTAAATTACTCACATGTGTGCG 59.847 41.667 24.63 16.19 45.25 5.34
560 1206 2.358322 AGTCGTGGGATTTGTGGTTT 57.642 45.000 0.00 0.00 0.00 3.27
586 1232 3.254657 TGTAATACACCCTTGCAAACTGC 59.745 43.478 0.00 0.00 45.29 4.40
609 1255 9.503427 GGATTTGATCTTACCGAAATTTAACAG 57.497 33.333 0.00 0.00 0.00 3.16
610 1256 8.463607 GGGATTTGATCTTACCGAAATTTAACA 58.536 33.333 0.00 0.00 0.00 2.41
611 1257 8.463607 TGGGATTTGATCTTACCGAAATTTAAC 58.536 33.333 0.00 0.00 0.00 2.01
612 1258 8.463607 GTGGGATTTGATCTTACCGAAATTTAA 58.536 33.333 0.00 0.00 0.00 1.52
614 1260 6.435904 TGTGGGATTTGATCTTACCGAAATTT 59.564 34.615 0.00 0.00 0.00 1.82
617 1263 4.912586 TGTGGGATTTGATCTTACCGAAA 58.087 39.130 0.00 0.00 0.00 3.46
619 1265 4.771114 ATGTGGGATTTGATCTTACCGA 57.229 40.909 0.00 0.00 0.00 4.69
620 1266 5.835113 AAATGTGGGATTTGATCTTACCG 57.165 39.130 0.00 0.00 0.00 4.02
627 1274 5.482163 AAACCGAAAATGTGGGATTTGAT 57.518 34.783 0.00 0.00 0.00 2.57
661 1308 9.522804 GTATTTGCGGTGATTTTCCATTTTATA 57.477 29.630 0.00 0.00 0.00 0.98
663 1310 7.378966 TGTATTTGCGGTGATTTTCCATTTTA 58.621 30.769 0.00 0.00 0.00 1.52
678 1325 7.145985 ACTGTATAGACTGTATGTATTTGCGG 58.854 38.462 0.00 0.00 36.10 5.69
680 1327 9.400638 GAGACTGTATAGACTGTATGTATTTGC 57.599 37.037 0.00 0.00 37.82 3.68
797 1445 2.980233 GCCAGCATCGCATACCCC 60.980 66.667 0.00 0.00 0.00 4.95
905 1553 2.686816 TAAAAGCAAGCGCGGCTCC 61.687 57.895 25.87 4.47 45.49 4.70
906 1554 1.512098 GTAAAAGCAAGCGCGGCTC 60.512 57.895 25.87 12.53 45.49 4.70
934 1585 1.132689 AGGTGGAAGAGGACCAGAAGT 60.133 52.381 0.00 0.00 38.14 3.01
940 1591 2.579738 GCGAGGTGGAAGAGGACC 59.420 66.667 0.00 0.00 0.00 4.46
981 1638 0.251386 TCCTCAACGTCTCTGCCTCT 60.251 55.000 0.00 0.00 0.00 3.69
982 1639 0.820871 ATCCTCAACGTCTCTGCCTC 59.179 55.000 0.00 0.00 0.00 4.70
992 1649 2.758089 GCAGCCTGCATCCTCAACG 61.758 63.158 12.82 0.00 44.26 4.10
1012 1669 1.405661 CCTTTCCTCCGAAGTAGCACC 60.406 57.143 0.00 0.00 0.00 5.01
1269 1943 3.118738 ACAAAGATCGATGGGGTGTAGTC 60.119 47.826 0.54 0.00 0.00 2.59
1272 1946 3.992943 AACAAAGATCGATGGGGTGTA 57.007 42.857 0.54 0.00 0.00 2.90
1273 1947 2.819608 CAAACAAAGATCGATGGGGTGT 59.180 45.455 0.54 0.00 0.00 4.16
1274 1948 2.819608 ACAAACAAAGATCGATGGGGTG 59.180 45.455 0.54 0.00 0.00 4.61
1275 1949 3.154827 ACAAACAAAGATCGATGGGGT 57.845 42.857 0.54 0.00 0.00 4.95
1445 2161 1.078497 TGCTGCGTATGTGGAAGGG 60.078 57.895 0.00 0.00 0.00 3.95
1952 5500 3.518998 CAGGTCCTCGACGGCGAT 61.519 66.667 16.81 0.00 46.80 4.58
2151 5714 2.989166 GTTGAAGTAATTGCTGCAAGGC 59.011 45.455 16.50 12.36 34.89 4.35
2165 5728 7.730364 AGAAATACTTGTCGAATGTTGAAGT 57.270 32.000 0.00 0.00 0.00 3.01
2222 5785 3.057969 TCTTACATCCAACAGCCACAG 57.942 47.619 0.00 0.00 0.00 3.66
2248 5812 4.202524 ACATTTAGTTCACTTGCTACCCCA 60.203 41.667 0.00 0.00 0.00 4.96
2255 5819 5.183140 ACCACCATACATTTAGTTCACTTGC 59.817 40.000 0.00 0.00 0.00 4.01
2282 5846 7.810766 ACGGCAATTTCTTAATAAACACATG 57.189 32.000 0.00 0.00 0.00 3.21
2304 5868 9.687210 TGCATAACTTAGTGGAATAAGTATACG 57.313 33.333 0.25 0.00 43.53 3.06
2323 5887 6.060028 ACGAACCATCACATAATGCATAAC 57.940 37.500 0.00 0.00 0.00 1.89
2368 5932 9.710818 ACACTCTATATTTCTTTACAGAGGGTA 57.289 33.333 2.59 0.00 43.20 3.69
2425 5995 9.473640 GTACTCCCTCCGTAAAGAAAATATAAG 57.526 37.037 0.00 0.00 0.00 1.73
2444 6014 1.747355 TGCGTTGTAGCTAGTACTCCC 59.253 52.381 0.00 0.00 38.13 4.30
2467 6037 6.988522 TGCTCACAAATACTAGTACAACTGA 58.011 36.000 4.31 3.74 0.00 3.41
2480 6050 4.558226 ATGGACACTCTGCTCACAAATA 57.442 40.909 0.00 0.00 0.00 1.40
2489 6059 6.341316 TCTTCAACTTATATGGACACTCTGC 58.659 40.000 0.00 0.00 0.00 4.26
2491 6061 8.364142 GCTATCTTCAACTTATATGGACACTCT 58.636 37.037 0.00 0.00 0.00 3.24
2493 6063 8.256356 AGCTATCTTCAACTTATATGGACACT 57.744 34.615 0.00 0.00 0.00 3.55
2534 6104 7.195646 CCCAATGTCATGTCATAACACATTAC 58.804 38.462 5.86 0.00 38.48 1.89
2557 6166 2.483538 GCATGCCAAATTATGTGTCCCC 60.484 50.000 6.36 0.00 0.00 4.81
2945 6554 6.957631 TGACATCATAATTCAGTTGGGTAGT 58.042 36.000 0.00 0.00 0.00 2.73
2946 6555 7.521099 GCATGACATCATAATTCAGTTGGGTAG 60.521 40.741 0.00 0.00 34.26 3.18


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

AutoCloner maintained by Alex Coulton.