Multiple sequence alignment - TraesCS6D01G138300

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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 TraesCS6D01G138300 chr6D 100.000 3184 0 0 1 3184 106950702 106953885 0.000000e+00 5880.0
1 TraesCS6D01G138300 chr6D 87.024 1102 85 22 1020 2081 60556923 60555840 0.000000e+00 1190.0
2 TraesCS6D01G138300 chr6D 94.265 680 28 9 3 681 400782826 400783495 0.000000e+00 1029.0
3 TraesCS6D01G138300 chr6D 93.255 682 29 7 3 681 463711821 463711154 0.000000e+00 989.0
4 TraesCS6D01G138300 chr6D 91.266 687 35 14 17 693 449999765 449999094 0.000000e+00 913.0
5 TraesCS6D01G138300 chr6D 92.647 408 15 11 3 405 450000446 450000049 9.910000e-160 573.0
6 TraesCS6D01G138300 chr6D 89.706 408 13 8 3 405 388355896 388356279 7.930000e-136 494.0
7 TraesCS6D01G138300 chr6A 95.840 1779 53 12 685 2448 130412468 130414240 0.000000e+00 2856.0
8 TraesCS6D01G138300 chr6A 93.411 516 16 4 2670 3184 130414228 130414726 0.000000e+00 749.0
9 TraesCS6D01G138300 chr5B 88.100 1437 100 26 810 2202 467019158 467020567 0.000000e+00 1640.0
10 TraesCS6D01G138300 chr5B 86.917 1093 94 28 1020 2081 465053843 465054917 0.000000e+00 1181.0
11 TraesCS6D01G138300 chr5B 92.169 332 20 4 2857 3182 466969999 466970330 6.220000e-127 464.0
12 TraesCS6D01G138300 chr5B 82.609 391 45 7 2392 2759 466968305 466968695 1.100000e-84 324.0
13 TraesCS6D01G138300 chr5B 82.051 390 48 7 2392 2759 466949658 466950047 2.380000e-81 313.0
14 TraesCS6D01G138300 chr5B 78.862 492 65 21 2392 2846 466781665 466782154 2.400000e-76 296.0
15 TraesCS6D01G138300 chr5B 94.444 126 6 1 2857 2981 466951334 466951459 3.240000e-45 193.0
16 TraesCS6D01G138300 chr5D 87.862 1450 101 31 805 2203 388380537 388381962 0.000000e+00 1633.0
17 TraesCS6D01G138300 chr5D 88.282 1263 80 27 1020 2233 388411811 388413054 0.000000e+00 1450.0
18 TraesCS6D01G138300 chr5D 85.617 1321 86 38 931 2203 388591835 388593099 0.000000e+00 1291.0
19 TraesCS6D01G138300 chr5D 87.697 1081 98 17 1020 2082 386958425 386959488 0.000000e+00 1227.0
20 TraesCS6D01G138300 chr5D 86.154 1170 85 20 1020 2149 353953843 353954975 0.000000e+00 1192.0
21 TraesCS6D01G138300 chr5D 85.993 1078 104 20 1020 2079 370777564 370778612 0.000000e+00 1110.0
22 TraesCS6D01G138300 chr5D 91.545 686 33 14 18 693 545812574 545811904 0.000000e+00 922.0
23 TraesCS6D01G138300 chr5D 90.533 676 41 14 17 680 498307760 498308424 0.000000e+00 872.0
24 TraesCS6D01G138300 chr5D 91.912 408 18 12 3 405 545812791 545812394 9.980000e-155 556.0
25 TraesCS6D01G138300 chr5D 92.331 326 16 5 2857 3182 388430246 388430562 3.740000e-124 455.0
26 TraesCS6D01G138300 chr5D 85.366 369 32 16 2392 2759 388413990 388414337 2.330000e-96 363.0
27 TraesCS6D01G138300 chr5D 78.740 508 51 30 2392 2846 388104293 388104796 1.450000e-73 287.0
28 TraesCS6D01G138300 chr5D 83.784 259 27 8 2516 2759 388426200 388426458 6.870000e-57 231.0
29 TraesCS6D01G138300 chr5D 80.919 283 45 4 1803 2082 300159700 300159424 6.920000e-52 215.0
30 TraesCS6D01G138300 chr5D 80.565 283 49 3 1803 2082 300322123 300321844 2.490000e-51 213.0
31 TraesCS6D01G138300 chr5D 79.730 222 30 6 1063 1269 299389063 299389284 2.560000e-31 147.0
32 TraesCS6D01G138300 chr5D 80.093 216 28 8 1069 1269 300160573 300160358 2.560000e-31 147.0
33 TraesCS6D01G138300 chr5D 88.136 118 5 1 3053 3170 388327514 388327622 7.170000e-27 132.0
34 TraesCS6D01G138300 chr5D 78.704 216 31 8 1069 1269 299068818 299069033 2.580000e-26 130.0
35 TraesCS6D01G138300 chr5D 80.000 125 11 2 2410 2520 388424119 388424243 2.630000e-11 80.5
36 TraesCS6D01G138300 chr5A 88.319 1053 91 17 1020 2054 491584008 491585046 0.000000e+00 1234.0
37 TraesCS6D01G138300 chr5A 86.175 1085 99 23 1020 2081 489661507 489662563 0.000000e+00 1125.0
38 TraesCS6D01G138300 chr5A 90.393 687 33 11 825 1486 491568691 491569369 0.000000e+00 872.0
39 TraesCS6D01G138300 chr5A 87.705 732 50 14 1518 2226 491569364 491570078 0.000000e+00 817.0
40 TraesCS6D01G138300 chr5A 91.691 337 22 4 2852 3182 491315018 491315354 2.240000e-126 462.0
41 TraesCS6D01G138300 chr5A 80.818 391 52 9 2392 2759 491313342 491313732 5.200000e-73 285.0
42 TraesCS6D01G138300 chr5A 88.966 145 3 3 685 825 491568482 491568617 1.960000e-37 167.0
43 TraesCS6D01G138300 chr5A 90.909 66 6 0 3118 3183 491319698 491319763 4.370000e-14 89.8
44 TraesCS6D01G138300 chr7B 86.765 1088 93 19 1020 2081 456502678 456501616 0.000000e+00 1164.0
45 TraesCS6D01G138300 chr7D 83.333 1314 124 49 827 2081 437591945 437593222 0.000000e+00 1125.0
46 TraesCS6D01G138300 chr7D 93.529 680 30 9 3 681 629617533 629616867 0.000000e+00 1000.0
47 TraesCS6D01G138300 chr7D 91.285 677 35 14 17 680 566100037 566099372 0.000000e+00 902.0
48 TraesCS6D01G138300 chr7D 90.815 675 39 14 17 680 412390661 412391323 0.000000e+00 881.0
49 TraesCS6D01G138300 chr7D 91.951 410 17 12 1 405 527916229 527915831 7.710000e-156 560.0
50 TraesCS6D01G138300 chr2D 92.636 679 24 9 3 680 56096089 56096742 0.000000e+00 953.0
51 TraesCS6D01G138300 chr2D 91.581 677 33 9 4 680 637671653 637671001 0.000000e+00 913.0
52 TraesCS6D01G138300 chr3D 92.478 678 27 10 3 680 303464671 303464018 0.000000e+00 948.0
53 TraesCS6D01G138300 chr3D 91.691 674 35 12 17 680 130495157 130494495 0.000000e+00 915.0
54 TraesCS6D01G138300 chr4A 84.127 693 37 28 810 1486 45870903 45871538 1.260000e-168 603.0
55 TraesCS6D01G138300 chr4A 85.018 554 47 19 1518 2065 45871533 45872056 6.050000e-147 531.0
56 TraesCS6D01G138300 chr4A 90.780 141 4 2 685 825 45870723 45870854 2.520000e-41 180.0
57 TraesCS6D01G138300 chr4D 93.352 361 13 7 3 362 463691877 463691527 1.010000e-144 523.0
58 TraesCS6D01G138300 chr1B 93.902 328 20 0 2857 3184 507471092 507470765 2.210000e-136 496.0
59 TraesCS6D01G138300 chr1B 88.136 295 25 6 2475 2759 507472645 507472351 3.040000e-90 342.0
60 TraesCS6D01G138300 chr1D 83.696 368 37 7 2415 2759 378869049 378868682 3.060000e-85 326.0
61 TraesCS6D01G138300 chr1D 91.549 213 18 0 2857 3069 378867383 378867171 8.640000e-76 294.0
62 TraesCS6D01G138300 chr1D 98.684 76 1 0 3109 3184 378867173 378867098 5.540000e-28 135.0
63 TraesCS6D01G138300 chr1A 88.208 212 22 2 2475 2683 479710884 479710673 1.900000e-62 250.0
64 TraesCS6D01G138300 chr6B 82.432 222 35 3 2475 2693 57594813 57595033 1.170000e-44 191.0


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 TraesCS6D01G138300 chr6D 106950702 106953885 3183 False 5880.000000 5880 100.000000 1 3184 1 chr6D.!!$F1 3183
1 TraesCS6D01G138300 chr6D 60555840 60556923 1083 True 1190.000000 1190 87.024000 1020 2081 1 chr6D.!!$R1 1061
2 TraesCS6D01G138300 chr6D 400782826 400783495 669 False 1029.000000 1029 94.265000 3 681 1 chr6D.!!$F3 678
3 TraesCS6D01G138300 chr6D 463711154 463711821 667 True 989.000000 989 93.255000 3 681 1 chr6D.!!$R2 678
4 TraesCS6D01G138300 chr6D 449999094 450000446 1352 True 743.000000 913 91.956500 3 693 2 chr6D.!!$R3 690
5 TraesCS6D01G138300 chr6A 130412468 130414726 2258 False 1802.500000 2856 94.625500 685 3184 2 chr6A.!!$F1 2499
6 TraesCS6D01G138300 chr5B 467019158 467020567 1409 False 1640.000000 1640 88.100000 810 2202 1 chr5B.!!$F3 1392
7 TraesCS6D01G138300 chr5B 465053843 465054917 1074 False 1181.000000 1181 86.917000 1020 2081 1 chr5B.!!$F1 1061
8 TraesCS6D01G138300 chr5B 466968305 466970330 2025 False 394.000000 464 87.389000 2392 3182 2 chr5B.!!$F5 790
9 TraesCS6D01G138300 chr5B 466949658 466951459 1801 False 253.000000 313 88.247500 2392 2981 2 chr5B.!!$F4 589
10 TraesCS6D01G138300 chr5D 388380537 388381962 1425 False 1633.000000 1633 87.862000 805 2203 1 chr5D.!!$F8 1398
11 TraesCS6D01G138300 chr5D 388591835 388593099 1264 False 1291.000000 1291 85.617000 931 2203 1 chr5D.!!$F9 1272
12 TraesCS6D01G138300 chr5D 386958425 386959488 1063 False 1227.000000 1227 87.697000 1020 2082 1 chr5D.!!$F5 1062
13 TraesCS6D01G138300 chr5D 353953843 353954975 1132 False 1192.000000 1192 86.154000 1020 2149 1 chr5D.!!$F3 1129
14 TraesCS6D01G138300 chr5D 370777564 370778612 1048 False 1110.000000 1110 85.993000 1020 2079 1 chr5D.!!$F4 1059
15 TraesCS6D01G138300 chr5D 388411811 388414337 2526 False 906.500000 1450 86.824000 1020 2759 2 chr5D.!!$F11 1739
16 TraesCS6D01G138300 chr5D 498307760 498308424 664 False 872.000000 872 90.533000 17 680 1 chr5D.!!$F10 663
17 TraesCS6D01G138300 chr5D 545811904 545812791 887 True 739.000000 922 91.728500 3 693 2 chr5D.!!$R3 690
18 TraesCS6D01G138300 chr5D 388104293 388104796 503 False 287.000000 287 78.740000 2392 2846 1 chr5D.!!$F6 454
19 TraesCS6D01G138300 chr5D 388424119 388430562 6443 False 255.500000 455 85.371667 2410 3182 3 chr5D.!!$F12 772
20 TraesCS6D01G138300 chr5A 491584008 491585046 1038 False 1234.000000 1234 88.319000 1020 2054 1 chr5A.!!$F3 1034
21 TraesCS6D01G138300 chr5A 489661507 489662563 1056 False 1125.000000 1125 86.175000 1020 2081 1 chr5A.!!$F1 1061
22 TraesCS6D01G138300 chr5A 491568482 491570078 1596 False 618.666667 872 89.021333 685 2226 3 chr5A.!!$F5 1541
23 TraesCS6D01G138300 chr5A 491313342 491315354 2012 False 373.500000 462 86.254500 2392 3182 2 chr5A.!!$F4 790
24 TraesCS6D01G138300 chr7B 456501616 456502678 1062 True 1164.000000 1164 86.765000 1020 2081 1 chr7B.!!$R1 1061
25 TraesCS6D01G138300 chr7D 437591945 437593222 1277 False 1125.000000 1125 83.333000 827 2081 1 chr7D.!!$F2 1254
26 TraesCS6D01G138300 chr7D 629616867 629617533 666 True 1000.000000 1000 93.529000 3 681 1 chr7D.!!$R3 678
27 TraesCS6D01G138300 chr7D 566099372 566100037 665 True 902.000000 902 91.285000 17 680 1 chr7D.!!$R2 663
28 TraesCS6D01G138300 chr7D 412390661 412391323 662 False 881.000000 881 90.815000 17 680 1 chr7D.!!$F1 663
29 TraesCS6D01G138300 chr2D 56096089 56096742 653 False 953.000000 953 92.636000 3 680 1 chr2D.!!$F1 677
30 TraesCS6D01G138300 chr2D 637671001 637671653 652 True 913.000000 913 91.581000 4 680 1 chr2D.!!$R1 676
31 TraesCS6D01G138300 chr3D 303464018 303464671 653 True 948.000000 948 92.478000 3 680 1 chr3D.!!$R2 677
32 TraesCS6D01G138300 chr3D 130494495 130495157 662 True 915.000000 915 91.691000 17 680 1 chr3D.!!$R1 663
33 TraesCS6D01G138300 chr4A 45870723 45872056 1333 False 438.000000 603 86.641667 685 2065 3 chr4A.!!$F1 1380
34 TraesCS6D01G138300 chr1B 507470765 507472645 1880 True 419.000000 496 91.019000 2475 3184 2 chr1B.!!$R1 709
35 TraesCS6D01G138300 chr1D 378867098 378869049 1951 True 251.666667 326 91.309667 2415 3184 3 chr1D.!!$R1 769

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
233 454 0.03213 CGCGCTAGGGCATCTTTAGA 59.968 55.0 28.7 0.0 38.6 2.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2228 3500 0.035317 AAATCAGTCAGCTGCCGTCA 59.965 50.0 9.47 0.0 42.29 4.35 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
206 427 3.399181 GGAGACGGGCATGTGGGA 61.399 66.667 0.00 0.00 0.00 4.37
209 430 2.187946 GACGGGCATGTGGGAGAG 59.812 66.667 0.00 0.00 0.00 3.20
211 432 3.083349 CGGGCATGTGGGAGAGGA 61.083 66.667 0.00 0.00 0.00 3.71
212 433 2.914289 GGGCATGTGGGAGAGGAG 59.086 66.667 0.00 0.00 0.00 3.69
213 434 1.690633 GGGCATGTGGGAGAGGAGA 60.691 63.158 0.00 0.00 0.00 3.71
214 435 1.524482 GGCATGTGGGAGAGGAGAC 59.476 63.158 0.00 0.00 0.00 3.36
215 436 1.142748 GCATGTGGGAGAGGAGACG 59.857 63.158 0.00 0.00 0.00 4.18
216 437 1.142748 CATGTGGGAGAGGAGACGC 59.857 63.158 0.00 0.00 0.00 5.19
217 438 2.418910 ATGTGGGAGAGGAGACGCG 61.419 63.158 3.53 3.53 34.13 6.01
218 439 4.500116 GTGGGAGAGGAGACGCGC 62.500 72.222 5.73 0.00 34.13 6.86
219 440 4.742649 TGGGAGAGGAGACGCGCT 62.743 66.667 5.73 3.91 34.13 5.92
220 441 2.516460 GGGAGAGGAGACGCGCTA 60.516 66.667 5.73 0.00 34.13 4.26
221 442 2.548295 GGGAGAGGAGACGCGCTAG 61.548 68.421 5.73 0.00 34.13 3.42
224 445 4.273257 GAGGAGACGCGCTAGGGC 62.273 72.222 21.18 21.18 0.00 5.19
233 454 0.032130 CGCGCTAGGGCATCTTTAGA 59.968 55.000 28.70 0.00 38.60 2.10
252 473 4.910458 AGAAGTTGCCACCTACTAACAT 57.090 40.909 0.00 0.00 0.00 2.71
398 1296 2.625790 GGCAAATGACAGTTTGGGTGTA 59.374 45.455 10.40 0.00 39.03 2.90
422 1320 0.548682 AGTGGGAGAATGGGCAGTCT 60.549 55.000 0.00 0.00 38.60 3.24
555 1456 1.526887 CCTCACACCCACACACACT 59.473 57.895 0.00 0.00 0.00 3.55
586 1488 2.048601 TGGCACACAAAATCAGCCC 58.951 52.632 0.00 0.00 44.60 5.19
674 1576 2.029964 ACACGTGTGGGCGTTAGG 59.970 61.111 22.71 0.00 43.83 2.69
888 1873 8.955061 ATGTAAACATTTCGATTTCTTCACAG 57.045 30.769 0.00 0.00 31.37 3.66
912 1907 1.156736 CAAACACGGCTTCGATTCCT 58.843 50.000 0.00 0.00 37.63 3.36
1065 2113 2.754375 GAACCGGGAGCCCTTCAA 59.246 61.111 6.32 0.00 0.00 2.69
1067 2115 2.125766 GAACCGGGAGCCCTTCAACT 62.126 60.000 6.32 0.00 0.00 3.16
1129 2195 1.371183 CCAGCGGTTCCAGTCAGAA 59.629 57.895 0.00 0.00 0.00 3.02
1138 2204 2.049156 CAGTCAGAACTCGCCGCA 60.049 61.111 0.00 0.00 31.71 5.69
1508 2617 3.785252 ATCCGTCGACGCGTCATCG 62.785 63.158 35.71 33.28 41.00 3.84
1989 3194 2.623418 TGGGACTCTTCCTCAAGCTA 57.377 50.000 0.00 0.00 42.38 3.32
2198 3465 7.233389 AGTCTCAGCTCAGTTAGTGATTTTA 57.767 36.000 0.00 0.00 33.51 1.52
2307 3580 1.819288 TGTCGTTCTTAGGCCTCAGAG 59.181 52.381 9.68 6.44 0.00 3.35
2359 4373 2.361610 CCGGGGCAGAGCAAACAT 60.362 61.111 0.00 0.00 0.00 2.71
2533 6569 2.974698 AGTTCAGGTGCGTGCTGC 60.975 61.111 0.00 0.00 46.70 5.25
2555 6592 3.381272 CCTTGTGGTTGATCTGTTTGTGT 59.619 43.478 0.00 0.00 0.00 3.72
2576 6616 1.817099 CTGGTGCGCTTCTGGATCC 60.817 63.158 9.73 4.20 0.00 3.36
2587 6632 0.624206 TCTGGATCCTTCATGGGGCA 60.624 55.000 14.23 0.00 36.20 5.36
2678 6723 0.555769 TGGACAACAAGGGGAAGCTT 59.444 50.000 0.00 0.00 0.00 3.74
2831 7959 9.169592 GACTTTATTTATAAGCCGGGCATAATA 57.830 33.333 23.09 12.29 0.00 0.98
2872 10667 1.048601 ATGACCTGCCGATCGGTATT 58.951 50.000 33.33 19.68 37.65 1.89
2873 10668 0.104120 TGACCTGCCGATCGGTATTG 59.896 55.000 33.33 24.13 37.65 1.90
2874 10669 1.222115 GACCTGCCGATCGGTATTGC 61.222 60.000 33.33 19.73 37.65 3.56
2875 10670 1.069765 CCTGCCGATCGGTATTGCT 59.930 57.895 33.33 0.00 37.65 3.91
2876 10671 1.224069 CCTGCCGATCGGTATTGCTG 61.224 60.000 33.33 21.09 37.65 4.41
2877 10672 1.224069 CTGCCGATCGGTATTGCTGG 61.224 60.000 33.33 13.77 37.65 4.85
2878 10673 2.607892 GCCGATCGGTATTGCTGGC 61.608 63.158 33.33 13.31 37.65 4.85
2879 10674 1.961277 CCGATCGGTATTGCTGGCC 60.961 63.158 26.35 0.00 0.00 5.36
2880 10675 1.227527 CGATCGGTATTGCTGGCCA 60.228 57.895 4.71 4.71 0.00 5.36
2881 10676 0.603707 CGATCGGTATTGCTGGCCAT 60.604 55.000 5.51 0.00 0.00 4.40
2882 10677 1.337728 CGATCGGTATTGCTGGCCATA 60.338 52.381 5.51 0.00 0.00 2.74
2883 10678 2.778299 GATCGGTATTGCTGGCCATAA 58.222 47.619 5.51 5.30 0.00 1.90
2884 10679 1.961793 TCGGTATTGCTGGCCATAAC 58.038 50.000 5.51 0.00 0.00 1.89
2885 10680 0.951558 CGGTATTGCTGGCCATAACC 59.048 55.000 5.51 8.92 0.00 2.85
2886 10681 1.748939 CGGTATTGCTGGCCATAACCA 60.749 52.381 5.51 0.00 38.29 3.67
2887 10682 2.597455 GGTATTGCTGGCCATAACCAT 58.403 47.619 5.51 0.00 39.54 3.55
2891 10687 3.608316 TTGCTGGCCATAACCATTTTC 57.392 42.857 5.51 0.00 39.54 2.29
2999 10795 6.780457 AATTCTGTCAAGTTGATAATGGGG 57.220 37.500 9.18 0.00 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 9.748708 CAACTCCTAAAGTTTTTCAAATCATGA 57.251 29.630 0.00 0.00 46.26 3.07
206 427 2.517402 CCCTAGCGCGTCTCCTCT 60.517 66.667 8.43 0.00 0.00 3.69
209 430 3.850095 GATGCCCTAGCGCGTCTCC 62.850 68.421 13.32 0.00 44.31 3.71
212 433 0.249322 TAAAGATGCCCTAGCGCGTC 60.249 55.000 12.80 12.80 44.31 5.19
213 434 0.249489 CTAAAGATGCCCTAGCGCGT 60.249 55.000 8.43 0.00 44.31 6.01
214 435 0.032130 TCTAAAGATGCCCTAGCGCG 59.968 55.000 0.00 0.00 44.31 6.86
215 436 2.139118 CTTCTAAAGATGCCCTAGCGC 58.861 52.381 0.00 0.00 44.31 5.92
216 437 3.460857 ACTTCTAAAGATGCCCTAGCG 57.539 47.619 0.00 0.00 44.31 4.26
224 445 5.491982 AGTAGGTGGCAACTTCTAAAGATG 58.508 41.667 11.85 0.00 34.72 2.90
233 454 6.171213 GTCTAATGTTAGTAGGTGGCAACTT 58.829 40.000 11.85 0.00 32.57 2.66
252 473 2.616960 CGCTACATGGCAACTGTCTAA 58.383 47.619 0.00 0.00 37.61 2.10
398 1296 0.985490 GCCCATTCTCCCACTCTCCT 60.985 60.000 0.00 0.00 0.00 3.69
422 1320 3.519510 CACTTCTGTTCCCCATCTCCTAA 59.480 47.826 0.00 0.00 0.00 2.69
529 1429 1.458777 TGGGTGTGAGGGAGTTCGT 60.459 57.895 0.00 0.00 0.00 3.85
555 1456 1.000060 GTGTGCCACGTAGGACAACTA 60.000 52.381 10.20 0.00 41.22 2.24
586 1488 1.267732 GCACGAATCTCGGCATGAAAG 60.268 52.381 0.00 0.00 45.59 2.62
888 1873 2.127232 GAAGCCGTGTTTGCTCGC 60.127 61.111 0.00 0.00 38.34 5.03
912 1907 7.975616 GCCTTTTAAAGCTTTGTGATCATGATA 59.024 33.333 22.02 0.00 0.00 2.15
1065 2113 2.521958 CTTCCGGCCGGACATGAAGT 62.522 60.000 45.68 0.00 45.11 3.01
1067 2115 2.267642 CTTCCGGCCGGACATGAA 59.732 61.111 45.68 29.59 45.11 2.57
1439 2547 1.280133 CTTCTGCATCTCCACAAGGGA 59.720 52.381 0.00 0.00 45.89 4.20
1508 2617 0.174162 GGCCATCATCTGTTTGTGCC 59.826 55.000 0.00 0.00 0.00 5.01
1750 2943 1.152589 TTGCAGGCATGGTGTTGGA 60.153 52.632 0.00 0.00 0.00 3.53
1989 3194 1.957562 CTTCAGGTCGTGGTCGTCT 59.042 57.895 0.00 0.00 38.33 4.18
2164 3422 5.971763 ACTGAGCTGAGACTCGAATTAATT 58.028 37.500 7.36 0.00 39.68 1.40
2228 3500 0.035317 AAATCAGTCAGCTGCCGTCA 59.965 50.000 9.47 0.00 42.29 4.35
2307 3580 1.996191 CTTTCTCTGCTACACGCCTTC 59.004 52.381 0.00 0.00 38.05 3.46
2533 6569 3.381272 ACACAAACAGATCAACCACAAGG 59.619 43.478 0.00 0.00 42.21 3.61
2555 6592 2.753009 ATCCAGAAGCGCACCAGCAA 62.753 55.000 11.47 0.00 42.27 3.91
2576 6616 0.601558 GCATATGCTGCCCCATGAAG 59.398 55.000 20.64 0.00 45.66 3.02
2831 7959 9.054922 GTCATACTATACTTCTAGACGAAAGGT 57.945 37.037 2.78 0.27 0.00 3.50
2872 10667 1.476085 CGAAAATGGTTATGGCCAGCA 59.524 47.619 13.05 3.22 42.47 4.41
2873 10668 1.476488 ACGAAAATGGTTATGGCCAGC 59.524 47.619 13.05 3.64 42.47 4.85
2874 10669 3.056891 ACAACGAAAATGGTTATGGCCAG 60.057 43.478 13.05 0.00 42.47 4.85
2875 10670 2.894126 ACAACGAAAATGGTTATGGCCA 59.106 40.909 8.56 8.56 43.48 5.36
2876 10671 3.586100 ACAACGAAAATGGTTATGGCC 57.414 42.857 0.00 0.00 0.00 5.36
2877 10672 3.677596 CCAACAACGAAAATGGTTATGGC 59.322 43.478 0.00 0.00 31.22 4.40
2878 10673 5.127693 TCCAACAACGAAAATGGTTATGG 57.872 39.130 0.00 0.00 36.03 2.74
2879 10674 7.359933 CCAAATCCAACAACGAAAATGGTTATG 60.360 37.037 0.00 0.00 34.50 1.90
2880 10675 6.648725 CCAAATCCAACAACGAAAATGGTTAT 59.351 34.615 0.00 0.00 34.50 1.89
2881 10676 5.986135 CCAAATCCAACAACGAAAATGGTTA 59.014 36.000 0.00 0.00 34.50 2.85
2882 10677 4.813697 CCAAATCCAACAACGAAAATGGTT 59.186 37.500 0.00 0.00 34.50 3.67
2883 10678 4.376146 CCAAATCCAACAACGAAAATGGT 58.624 39.130 0.00 0.00 34.50 3.55
2884 10679 3.186205 GCCAAATCCAACAACGAAAATGG 59.814 43.478 0.00 0.00 0.00 3.16
2885 10680 3.121058 CGCCAAATCCAACAACGAAAATG 60.121 43.478 0.00 0.00 0.00 2.32
2886 10681 3.056304 CGCCAAATCCAACAACGAAAAT 58.944 40.909 0.00 0.00 0.00 1.82
2887 10682 2.464865 CGCCAAATCCAACAACGAAAA 58.535 42.857 0.00 0.00 0.00 2.29
2891 10687 1.003262 CTGCGCCAAATCCAACAACG 61.003 55.000 4.18 0.00 0.00 4.10
2999 10795 5.543507 TCAAAGGAGAGGAAGCTGATATC 57.456 43.478 0.00 0.00 0.00 1.63


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

AutoCloner maintained by Alex Coulton.