Multiple sequence alignment - TraesCS7A01G449800

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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 TraesCS7A01G449800 chr7A 100.000 2540 0 0 1 2540 643633728 643636267 0.000000e+00 4691.0
1 TraesCS7A01G449800 chr7A 91.130 823 37 20 1 796 134602809 134603622 0.000000e+00 1083.0
2 TraesCS7A01G449800 chr7A 90.621 821 46 19 1 796 38743924 38744738 0.000000e+00 1061.0
3 TraesCS7A01G449800 chr7A 90.954 807 46 18 1 792 192632178 192632972 0.000000e+00 1061.0
4 TraesCS7A01G449800 chr7A 88.400 250 15 3 557 795 38734499 38734253 3.200000e-74 289.0
5 TraesCS7A01G449800 chr7A 87.600 250 15 3 559 797 192621870 192621626 2.490000e-70 276.0
6 TraesCS7A01G449800 chr7A 85.276 163 21 3 1043 1204 643645174 643645334 5.620000e-37 165.0
7 TraesCS7A01G449800 chr7A 79.630 216 34 7 1000 1206 643603173 643603387 2.040000e-31 147.0
8 TraesCS7A01G449800 chr7B 89.754 1015 81 14 825 1820 606185908 606186918 0.000000e+00 1277.0
9 TraesCS7A01G449800 chr7B 89.469 1016 81 17 825 1820 606136166 606137175 0.000000e+00 1260.0
10 TraesCS7A01G449800 chr7B 89.111 799 65 10 11 795 315550268 315549478 0.000000e+00 974.0
11 TraesCS7A01G449800 chr7B 88.986 799 70 8 11 795 315275388 315274594 0.000000e+00 972.0
12 TraesCS7A01G449800 chr7B 79.026 267 49 6 1044 1308 605874158 605874419 2.600000e-40 176.0
13 TraesCS7A01G449800 chr7B 74.580 476 85 29 1049 1500 606039373 606039836 2.600000e-40 176.0
14 TraesCS7A01G449800 chr7B 86.087 115 14 2 1387 1500 605969349 605969462 3.430000e-24 122.0
15 TraesCS7A01G449800 chr7B 80.488 123 24 0 1082 1204 606533579 606533701 7.480000e-16 95.3
16 TraesCS7A01G449800 chr7D 93.892 835 51 0 824 1658 558161103 558161937 0.000000e+00 1260.0
17 TraesCS7A01G449800 chr7D 91.540 721 58 3 1822 2540 632886217 632886936 0.000000e+00 990.0
18 TraesCS7A01G449800 chr7D 75.832 571 100 17 1000 1546 558009707 558010263 3.240000e-64 255.0
19 TraesCS7A01G449800 chr7D 91.061 179 14 1 1644 1820 558161961 558162139 9.080000e-60 241.0
20 TraesCS7A01G449800 chr7D 75.208 480 85 29 1044 1500 557893125 557893593 1.990000e-46 196.0
21 TraesCS7A01G449800 chr7D 79.008 262 38 11 957 1204 558168502 558168760 2.020000e-36 163.0
22 TraesCS7A01G449800 chr7D 78.226 124 19 6 1082 1204 558922402 558922518 3.510000e-09 73.1
23 TraesCS7A01G449800 chr2A 93.943 809 29 7 1 795 677892457 677891655 0.000000e+00 1205.0
24 TraesCS7A01G449800 chr2A 91.278 814 45 8 1 799 778419494 778420296 0.000000e+00 1086.0
25 TraesCS7A01G449800 chr2A 90.985 721 63 2 1822 2540 720053108 720053828 0.000000e+00 970.0
26 TraesCS7A01G449800 chr2A 92.308 65 5 0 1 65 601808420 601808356 2.690000e-15 93.5
27 TraesCS7A01G449800 chr5B 92.732 798 35 14 1 795 548561557 548560780 0.000000e+00 1131.0
28 TraesCS7A01G449800 chr5B 83.858 254 26 8 554 795 528749069 528748819 7.070000e-56 228.0
29 TraesCS7A01G449800 chr5A 90.998 822 39 21 1 795 288262357 288261544 0.000000e+00 1075.0
30 TraesCS7A01G449800 chr5A 90.413 824 43 22 1 798 606695233 606696046 0.000000e+00 1051.0
31 TraesCS7A01G449800 chr5A 88.538 253 13 5 554 795 288271910 288272157 2.470000e-75 292.0
32 TraesCS7A01G449800 chr2D 92.083 720 55 2 1822 2540 58881903 58881185 0.000000e+00 1013.0
33 TraesCS7A01G449800 chr3D 91.620 716 59 1 1824 2538 253575147 253574432 0.000000e+00 989.0
34 TraesCS7A01G449800 chr3D 90.846 721 62 4 1822 2540 250502366 250501648 0.000000e+00 963.0
35 TraesCS7A01G449800 chr4D 91.401 721 58 4 1821 2540 69233978 69234695 0.000000e+00 985.0
36 TraesCS7A01G449800 chrUn 91.250 720 62 1 1822 2540 29825868 29825149 0.000000e+00 979.0
37 TraesCS7A01G449800 chr1A 91.226 718 62 1 1824 2540 394005000 394004283 0.000000e+00 976.0
38 TraesCS7A01G449800 chr2B 91.086 718 61 3 1825 2540 480929073 480928357 0.000000e+00 968.0
39 TraesCS7A01G449800 chr2B 80.507 631 80 23 197 795 29747686 29747067 6.450000e-121 444.0
40 TraesCS7A01G449800 chr4A 83.302 527 53 22 262 763 637829023 637828507 1.070000e-123 453.0
41 TraesCS7A01G449800 chr4A 89.444 180 8 1 554 722 637840036 637840215 1.530000e-52 217.0


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 TraesCS7A01G449800 chr7A 643633728 643636267 2539 False 4691.0 4691 100.0000 1 2540 1 chr7A.!!$F5 2539
1 TraesCS7A01G449800 chr7A 134602809 134603622 813 False 1083.0 1083 91.1300 1 796 1 chr7A.!!$F2 795
2 TraesCS7A01G449800 chr7A 38743924 38744738 814 False 1061.0 1061 90.6210 1 796 1 chr7A.!!$F1 795
3 TraesCS7A01G449800 chr7A 192632178 192632972 794 False 1061.0 1061 90.9540 1 792 1 chr7A.!!$F3 791
4 TraesCS7A01G449800 chr7B 606185908 606186918 1010 False 1277.0 1277 89.7540 825 1820 1 chr7B.!!$F5 995
5 TraesCS7A01G449800 chr7B 606136166 606137175 1009 False 1260.0 1260 89.4690 825 1820 1 chr7B.!!$F4 995
6 TraesCS7A01G449800 chr7B 315549478 315550268 790 True 974.0 974 89.1110 11 795 1 chr7B.!!$R2 784
7 TraesCS7A01G449800 chr7B 315274594 315275388 794 True 972.0 972 88.9860 11 795 1 chr7B.!!$R1 784
8 TraesCS7A01G449800 chr7D 632886217 632886936 719 False 990.0 990 91.5400 1822 2540 1 chr7D.!!$F5 718
9 TraesCS7A01G449800 chr7D 558161103 558162139 1036 False 750.5 1260 92.4765 824 1820 2 chr7D.!!$F6 996
10 TraesCS7A01G449800 chr7D 558009707 558010263 556 False 255.0 255 75.8320 1000 1546 1 chr7D.!!$F2 546
11 TraesCS7A01G449800 chr2A 677891655 677892457 802 True 1205.0 1205 93.9430 1 795 1 chr2A.!!$R2 794
12 TraesCS7A01G449800 chr2A 778419494 778420296 802 False 1086.0 1086 91.2780 1 799 1 chr2A.!!$F2 798
13 TraesCS7A01G449800 chr2A 720053108 720053828 720 False 970.0 970 90.9850 1822 2540 1 chr2A.!!$F1 718
14 TraesCS7A01G449800 chr5B 548560780 548561557 777 True 1131.0 1131 92.7320 1 795 1 chr5B.!!$R2 794
15 TraesCS7A01G449800 chr5A 288261544 288262357 813 True 1075.0 1075 90.9980 1 795 1 chr5A.!!$R1 794
16 TraesCS7A01G449800 chr5A 606695233 606696046 813 False 1051.0 1051 90.4130 1 798 1 chr5A.!!$F2 797
17 TraesCS7A01G449800 chr2D 58881185 58881903 718 True 1013.0 1013 92.0830 1822 2540 1 chr2D.!!$R1 718
18 TraesCS7A01G449800 chr3D 253574432 253575147 715 True 989.0 989 91.6200 1824 2538 1 chr3D.!!$R2 714
19 TraesCS7A01G449800 chr3D 250501648 250502366 718 True 963.0 963 90.8460 1822 2540 1 chr3D.!!$R1 718
20 TraesCS7A01G449800 chr4D 69233978 69234695 717 False 985.0 985 91.4010 1821 2540 1 chr4D.!!$F1 719
21 TraesCS7A01G449800 chrUn 29825149 29825868 719 True 979.0 979 91.2500 1822 2540 1 chrUn.!!$R1 718
22 TraesCS7A01G449800 chr1A 394004283 394005000 717 True 976.0 976 91.2260 1824 2540 1 chr1A.!!$R1 716
23 TraesCS7A01G449800 chr2B 480928357 480929073 716 True 968.0 968 91.0860 1825 2540 1 chr2B.!!$R2 715
24 TraesCS7A01G449800 chr2B 29747067 29747686 619 True 444.0 444 80.5070 197 795 1 chr2B.!!$R1 598
25 TraesCS7A01G449800 chr4A 637828507 637829023 516 True 453.0 453 83.3020 262 763 1 chr4A.!!$R1 501

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
920 982 0.109723 GTTCCTGCCACCTACCAACA 59.89 55.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2459 2591 0.968393 TAAAGCCCCCAATTCGCACC 60.968 55.0 0.0 0.0 0.0 5.01 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
181 185 5.768164 TCATCACCCCTCTTAGTTCAAAAAC 59.232 40.000 0.00 0.00 35.50 2.43
187 194 6.839134 ACCCCTCTTAGTTCAAAAACAATTCT 59.161 34.615 0.00 0.00 37.88 2.40
304 319 7.764695 ACAATTTCCTAAAACAAAGAAACCG 57.235 32.000 0.00 0.00 31.51 4.44
452 469 2.817258 GAGTGGAGGATGGAGTAGATCG 59.183 54.545 0.00 0.00 0.00 3.69
781 843 7.833285 TTTTGTTAGCCTTTTAGGTCAGAAT 57.167 32.000 0.00 0.00 37.80 2.40
783 845 9.528489 TTTTGTTAGCCTTTTAGGTCAGAATAT 57.472 29.630 0.00 0.00 37.80 1.28
799 861 6.544564 GTCAGAATATTAATTTTGTCCCCCGA 59.455 38.462 0.00 0.00 30.96 5.14
800 862 6.544564 TCAGAATATTAATTTTGTCCCCCGAC 59.455 38.462 0.00 0.00 39.66 4.79
801 863 5.529800 AGAATATTAATTTTGTCCCCCGACG 59.470 40.000 0.00 0.00 42.37 5.12
802 864 1.166989 TTAATTTTGTCCCCCGACGC 58.833 50.000 0.00 0.00 42.37 5.19
803 865 0.677414 TAATTTTGTCCCCCGACGCC 60.677 55.000 0.00 0.00 42.37 5.68
804 866 3.931190 ATTTTGTCCCCCGACGCCC 62.931 63.158 0.00 0.00 42.37 6.13
812 874 3.556306 CCCGACGCCCATGGGTAT 61.556 66.667 31.58 20.07 37.85 2.73
813 875 2.211410 CCCGACGCCCATGGGTATA 61.211 63.158 31.58 0.00 37.85 1.47
814 876 1.292223 CCGACGCCCATGGGTATAG 59.708 63.158 31.58 21.38 37.85 1.31
815 877 1.183030 CCGACGCCCATGGGTATAGA 61.183 60.000 31.58 0.00 37.85 1.98
816 878 0.895530 CGACGCCCATGGGTATAGAT 59.104 55.000 31.58 11.13 37.85 1.98
817 879 2.097036 CGACGCCCATGGGTATAGATA 58.903 52.381 31.58 0.00 37.85 1.98
818 880 2.099263 CGACGCCCATGGGTATAGATAG 59.901 54.545 31.58 14.53 37.85 2.08
819 881 3.362706 GACGCCCATGGGTATAGATAGA 58.637 50.000 31.58 0.00 37.85 1.98
820 882 3.097614 ACGCCCATGGGTATAGATAGAC 58.902 50.000 31.58 10.01 35.62 2.59
821 883 3.245658 ACGCCCATGGGTATAGATAGACT 60.246 47.826 31.58 2.09 35.62 3.24
822 884 4.017775 ACGCCCATGGGTATAGATAGACTA 60.018 45.833 31.58 0.00 35.62 2.59
879 941 3.138798 GGGCTCCGTCTCGTGCTA 61.139 66.667 0.00 0.00 0.00 3.49
882 944 1.507174 GCTCCGTCTCGTGCTAGTT 59.493 57.895 0.00 0.00 0.00 2.24
904 966 1.680249 GCCATTCTCCACCTCCAGTTC 60.680 57.143 0.00 0.00 0.00 3.01
920 982 0.109723 GTTCCTGCCACCTACCAACA 59.890 55.000 0.00 0.00 0.00 3.33
990 1052 2.766263 CCCAGTTGCTACCATCTACTGA 59.234 50.000 0.00 0.00 38.81 3.41
1206 1280 1.141234 GCACTACTACCCCGACAGC 59.859 63.158 0.00 0.00 0.00 4.40
1207 1281 1.432251 CACTACTACCCCGACAGCG 59.568 63.158 0.00 0.00 37.24 5.18
1208 1282 1.001641 ACTACTACCCCGACAGCGT 60.002 57.895 0.00 0.00 35.23 5.07
1259 1333 3.531538 TCTTTCTGAAGCTTGTTGACGT 58.468 40.909 2.10 0.00 32.75 4.34
1267 1341 1.416049 CTTGTTGACGTCGATGCCG 59.584 57.895 9.14 0.00 37.07 5.69
1329 1409 2.362375 GGGAATCCAAGGCCGCAA 60.362 61.111 0.09 0.00 0.00 4.85
1330 1410 1.758122 GGGAATCCAAGGCCGCAAT 60.758 57.895 0.09 0.00 0.00 3.56
1333 1413 0.307760 GAATCCAAGGCCGCAATACG 59.692 55.000 0.00 0.00 43.15 3.06
1369 1452 1.344065 TACCTTTTCGGGCAGAGACA 58.656 50.000 0.00 0.00 36.97 3.41
1378 1461 2.089349 GGCAGAGACACTTCGACGC 61.089 63.158 0.00 0.00 0.00 5.19
1410 1493 0.749818 TCATCGAGAGGAGCGAGCTT 60.750 55.000 0.00 0.00 41.49 3.74
1419 1502 1.435408 GGAGCGAGCTTGAAGGATGC 61.435 60.000 4.70 0.00 0.00 3.91
1564 1648 0.180406 CCGACGAGGGGATGGATTTT 59.820 55.000 0.00 0.00 35.97 1.82
1606 1690 4.606071 GACTCGCTTGTCCATGCT 57.394 55.556 4.02 0.00 0.00 3.79
1607 1691 2.846371 GACTCGCTTGTCCATGCTT 58.154 52.632 4.02 0.00 0.00 3.91
1654 1738 3.553511 CGATGCTGAGTACCTTTCATGAC 59.446 47.826 0.00 0.00 0.00 3.06
1658 1742 4.081642 TGCTGAGTACCTTTCATGACTACC 60.082 45.833 0.00 0.00 0.00 3.18
1659 1743 4.081642 GCTGAGTACCTTTCATGACTACCA 60.082 45.833 0.00 0.00 0.00 3.25
1665 1790 7.231467 AGTACCTTTCATGACTACCAATGTTT 58.769 34.615 0.00 0.00 0.00 2.83
1706 1831 0.675633 ACCAGTGCCAAGTTCATTGC 59.324 50.000 0.00 0.00 37.60 3.56
1718 1843 2.926200 AGTTCATTGCGATCTTCGTCTG 59.074 45.455 0.00 0.00 42.81 3.51
1757 1884 3.553105 GCTTTGCATTTGCTATAGTTGCC 59.447 43.478 3.94 0.00 42.66 4.52
1763 1890 4.497006 GCATTTGCTATAGTTGCCTGTGAG 60.497 45.833 0.84 0.00 38.21 3.51
1765 1892 3.526931 TGCTATAGTTGCCTGTGAGTC 57.473 47.619 0.84 0.00 0.00 3.36
1876 2004 6.942532 CAGCCATCCTAAACTGCTTAAATA 57.057 37.500 0.00 0.00 0.00 1.40
1891 2019 5.708230 TGCTTAAATACCGGACAGAAACATT 59.292 36.000 9.46 0.00 0.00 2.71
1899 2027 5.617252 ACCGGACAGAAACATTCTAAAAGA 58.383 37.500 9.46 0.00 38.11 2.52
1901 2029 5.932303 CCGGACAGAAACATTCTAAAAGAGA 59.068 40.000 0.00 0.00 38.11 3.10
1930 2058 4.036498 GTCCTTCATGAAATGCTCCATGAG 59.964 45.833 9.88 0.00 46.52 2.90
1937 2065 3.624410 TGAAATGCTCCATGAGATTCACG 59.376 43.478 0.00 0.00 29.94 4.35
1980 2109 6.060028 TGTTTTCAAAGTGGATTTCGAGAG 57.940 37.500 0.00 0.00 0.00 3.20
2002 2131 7.478322 AGAGAGCGTACGATAAAGTCAAATAA 58.522 34.615 21.65 0.00 0.00 1.40
2033 2162 1.904287 ACAGGCCTTGCGTATGAAAA 58.096 45.000 0.00 0.00 0.00 2.29
2045 2174 6.552859 TGCGTATGAAAAGTTTTGATCAGA 57.447 33.333 5.36 0.00 0.00 3.27
2046 2175 6.964908 TGCGTATGAAAAGTTTTGATCAGAA 58.035 32.000 5.36 0.00 0.00 3.02
2056 2185 2.768253 TTGATCAGAACTGGCGACAT 57.232 45.000 0.00 0.00 41.51 3.06
2160 2290 3.894427 GCCTGAGACAAGGAGATCTGATA 59.106 47.826 0.00 0.00 40.02 2.15
2164 2294 6.438108 CCTGAGACAAGGAGATCTGATATCAT 59.562 42.308 13.68 4.14 40.02 2.45
2209 2339 8.902540 AGTTGACATATTGGCGATTCTAATAA 57.097 30.769 0.00 0.00 32.86 1.40
2228 2358 8.333235 TCTAATAAAAAGGGCTAAGGATGTTGA 58.667 33.333 0.00 0.00 0.00 3.18
2239 2369 5.304614 GCTAAGGATGTTGATCAGGTAGGTA 59.695 44.000 0.00 0.00 0.00 3.08
2329 2460 6.832520 TTATAGAGCATGACTTGGCAAAAA 57.167 33.333 0.00 0.00 0.00 1.94
2345 2476 3.796178 GCAAAAACGAGAAACATGAAGCA 59.204 39.130 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.853555 CATACTTTATTTGCAAAAGACATGGTA 57.146 29.630 17.19 12.49 37.38 3.25
181 185 7.482474 TGTGCATATGTTGTCCATAAGAATTG 58.518 34.615 4.29 0.00 39.43 2.32
187 194 6.089476 CGTTTTGTGCATATGTTGTCCATAA 58.911 36.000 4.29 0.00 39.43 1.90
304 319 7.283580 ACACTAGGTGATGTTAGATGAGTAGAC 59.716 40.741 4.62 0.00 36.96 2.59
452 469 1.614317 CCTCACACCAAATCCTCACCC 60.614 57.143 0.00 0.00 0.00 4.61
732 790 5.967088 TCCGATTTGACCTTGTTTCAAAAA 58.033 33.333 1.90 0.00 44.14 1.94
733 791 5.584253 TCCGATTTGACCTTGTTTCAAAA 57.416 34.783 1.90 0.00 44.14 2.44
781 843 2.944349 GCGTCGGGGGACAAAATTAATA 59.056 45.455 0.00 0.00 0.00 0.98
783 845 1.166989 GCGTCGGGGGACAAAATTAA 58.833 50.000 0.00 0.00 0.00 1.40
799 861 3.097614 GTCTATCTATACCCATGGGCGT 58.902 50.000 31.73 21.29 39.32 5.68
800 862 3.366396 AGTCTATCTATACCCATGGGCG 58.634 50.000 31.73 16.41 39.32 6.13
801 863 8.589338 CAATATAGTCTATCTATACCCATGGGC 58.411 40.741 31.73 10.18 42.27 5.36
802 864 9.883293 TCAATATAGTCTATCTATACCCATGGG 57.117 37.037 30.23 30.23 42.27 4.00
819 881 9.140286 CGATGATGGTCGTATTTTCAATATAGT 57.860 33.333 0.00 0.00 36.88 2.12
842 904 4.685575 GCCCTCGAGGTACCTATATACGAT 60.686 50.000 29.25 0.00 38.26 3.73
879 941 1.272147 GGAGGTGGAGAATGGCAAACT 60.272 52.381 0.00 0.00 0.00 2.66
882 944 0.329261 CTGGAGGTGGAGAATGGCAA 59.671 55.000 0.00 0.00 0.00 4.52
904 966 0.893727 GGTTGTTGGTAGGTGGCAGG 60.894 60.000 0.00 0.00 0.00 4.85
920 982 3.069318 GACGGAGCCCTCGAGGTT 61.069 66.667 29.25 17.49 38.26 3.50
990 1052 1.802880 GCGTTGGACATGTCGCTAGAT 60.803 52.381 19.33 0.00 44.28 1.98
1186 1260 0.892755 CTGTCGGGGTAGTAGTGCAA 59.107 55.000 0.00 0.00 0.00 4.08
1207 1281 2.737376 GGAGTCGTGGCGGTTCAC 60.737 66.667 0.00 0.00 0.00 3.18
1208 1282 4.351938 CGGAGTCGTGGCGGTTCA 62.352 66.667 0.00 0.00 0.00 3.18
1267 1341 5.353123 TCGTGTATTTGGCTTCCACTTTATC 59.647 40.000 0.00 0.00 30.78 1.75
1276 1350 5.502544 GCAGACTAATCGTGTATTTGGCTTC 60.503 44.000 0.00 0.00 36.65 3.86
1333 1413 3.379865 TATTCTGGCCCGCACGGAC 62.380 63.158 11.42 0.00 42.05 4.79
1378 1461 2.590092 GATGAGACCAACCCCCGG 59.410 66.667 0.00 0.00 0.00 5.73
1410 1493 1.271856 TGAGGTAACCGCATCCTTCA 58.728 50.000 0.00 0.00 37.17 3.02
1419 1502 0.455633 CGTCGTCCTTGAGGTAACCG 60.456 60.000 0.00 0.00 36.34 4.44
1470 1553 2.291217 GGCCTTGGTGAAGATCTCCTTT 60.291 50.000 0.00 0.00 34.68 3.11
1564 1648 0.319555 CTCCGGCGACTTCAAGAACA 60.320 55.000 9.30 0.00 0.00 3.18
1654 1738 3.980775 CACGGCAAGAAAAACATTGGTAG 59.019 43.478 0.00 0.00 0.00 3.18
1658 1742 5.164196 CGTAATCACGGCAAGAAAAACATTG 60.164 40.000 0.00 0.00 44.59 2.82
1659 1743 4.915085 CGTAATCACGGCAAGAAAAACATT 59.085 37.500 0.00 0.00 44.59 2.71
1691 1816 1.470098 AGATCGCAATGAACTTGGCAC 59.530 47.619 0.00 0.00 35.25 5.01
1706 1831 1.781429 CGCCATAACAGACGAAGATCG 59.219 52.381 0.00 0.00 46.93 3.69
1757 1884 8.373981 AGGATGATTCATATAAAGGACTCACAG 58.626 37.037 0.00 0.00 29.44 3.66
1763 1890 7.605691 CAGGACAGGATGATTCATATAAAGGAC 59.394 40.741 0.00 0.00 39.69 3.85
1765 1892 7.389884 CACAGGACAGGATGATTCATATAAAGG 59.610 40.741 0.00 0.00 39.69 3.11
1862 1990 6.040209 TCTGTCCGGTATTTAAGCAGTTTA 57.960 37.500 0.00 0.00 0.00 2.01
1872 2000 7.989416 TTTAGAATGTTTCTGTCCGGTATTT 57.011 32.000 0.00 0.00 40.94 1.40
1873 2001 7.881232 TCTTTTAGAATGTTTCTGTCCGGTATT 59.119 33.333 0.00 0.00 40.94 1.89
1876 2004 5.617252 TCTTTTAGAATGTTTCTGTCCGGT 58.383 37.500 0.00 0.00 40.94 5.28
1891 2019 6.433847 TGAAGGACCACAATCTCTTTTAGA 57.566 37.500 0.00 0.00 39.02 2.10
1899 2027 4.159135 GCATTTCATGAAGGACCACAATCT 59.841 41.667 8.41 0.00 0.00 2.40
1901 2029 4.091549 AGCATTTCATGAAGGACCACAAT 58.908 39.130 8.41 0.00 0.00 2.71
1953 2081 6.626302 TCGAAATCCACTTTGAAAACAACTT 58.374 32.000 0.00 0.00 0.00 2.66
1980 2109 6.254157 TGGTTATTTGACTTTATCGTACGCTC 59.746 38.462 11.24 0.00 0.00 5.03
2002 2131 2.629617 CAAGGCCTGTTGAAGAAATGGT 59.370 45.455 5.69 0.00 0.00 3.55
2033 2162 2.808543 GTCGCCAGTTCTGATCAAAACT 59.191 45.455 8.67 8.67 36.16 2.66
2045 2174 1.557099 TCTACCTGATGTCGCCAGTT 58.443 50.000 0.00 0.00 0.00 3.16
2046 2175 1.557099 TTCTACCTGATGTCGCCAGT 58.443 50.000 0.00 0.00 0.00 4.00
2056 2185 5.759506 TTTGCGTGAAAAATTCTACCTGA 57.240 34.783 0.00 0.00 0.00 3.86
2193 2323 5.598417 AGCCCTTTTTATTAGAATCGCCAAT 59.402 36.000 0.00 0.00 0.00 3.16
2209 2339 4.934356 TGATCAACATCCTTAGCCCTTTT 58.066 39.130 0.00 0.00 0.00 2.27
2239 2369 2.503356 CAACTAGATGAGGAACCAGGCT 59.497 50.000 0.00 0.00 0.00 4.58
2310 2440 2.287788 CGTTTTTGCCAAGTCATGCTCT 60.288 45.455 0.00 0.00 0.00 4.09
2329 2460 2.146342 CACCTGCTTCATGTTTCTCGT 58.854 47.619 0.00 0.00 0.00 4.18
2345 2476 7.120579 TCAATTGTTCGAATAAGCATAACACCT 59.879 33.333 12.95 0.00 30.28 4.00
2459 2591 0.968393 TAAAGCCCCCAATTCGCACC 60.968 55.000 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.