Multiple sequence alignment - TraesCS7B01G392400

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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 TraesCS7B01G392400 chr7B 100.000 3508 0 0 1 3508 658879111 658882618 0.000000e+00 6479.0
1 TraesCS7B01G392400 chr7B 94.797 2710 93 22 1 2703 658621397 658624065 0.000000e+00 4180.0
2 TraesCS7B01G392400 chr7B 91.690 1456 92 13 1255 2703 658747797 658749230 0.000000e+00 1991.0
3 TraesCS7B01G392400 chr7B 98.407 565 7 2 1 563 658731713 658732277 0.000000e+00 992.0
4 TraesCS7B01G392400 chr7B 98.404 564 7 2 1 563 658746392 658746954 0.000000e+00 990.0
5 TraesCS7B01G392400 chr7B 79.927 822 94 34 2702 3457 720514561 720513745 3.980000e-149 538.0
6 TraesCS7B01G392400 chr7B 99.216 255 2 0 560 814 658732486 658732740 8.870000e-126 460.0
7 TraesCS7B01G392400 chr7B 99.216 255 2 0 560 814 658747163 658747417 8.870000e-126 460.0
8 TraesCS7B01G392400 chr7A 91.841 1863 129 15 848 2701 679377351 679379199 0.000000e+00 2577.0
9 TraesCS7B01G392400 chr7A 91.367 1865 125 21 848 2703 679388819 679390656 0.000000e+00 2519.0
10 TraesCS7B01G392400 chr7A 89.903 1862 139 24 848 2703 679525206 679527024 0.000000e+00 2351.0
11 TraesCS7B01G392400 chr7A 92.532 1339 96 3 1363 2701 679362210 679363544 0.000000e+00 1916.0
12 TraesCS7B01G392400 chr7A 88.477 1267 125 13 1271 2525 679531645 679530388 0.000000e+00 1511.0
13 TraesCS7B01G392400 chr7A 88.372 1247 130 10 1271 2511 679594668 679593431 0.000000e+00 1485.0
14 TraesCS7B01G392400 chr7A 91.701 241 16 2 596 836 679377130 679377366 7.260000e-87 331.0
15 TraesCS7B01G392400 chr7D 91.404 1745 125 13 847 2580 587728763 587727033 0.000000e+00 2368.0
16 TraesCS7B01G392400 chr7D 87.932 1881 162 35 847 2706 587554393 587556229 0.000000e+00 2156.0
17 TraesCS7B01G392400 chr7D 78.909 678 84 25 2818 3454 465818592 465819251 4.220000e-109 405.0
18 TraesCS7B01G392400 chr7D 89.922 129 11 1 3331 3457 40118022 40117894 7.790000e-37 165.0
19 TraesCS7B01G392400 chr7D 97.619 84 2 0 2620 2703 587727033 587726950 1.010000e-30 145.0
20 TraesCS7B01G392400 chrUn 94.263 1534 70 10 816 2343 392396048 392397569 0.000000e+00 2329.0
21 TraesCS7B01G392400 chrUn 92.423 1465 89 14 848 2303 361873008 361871557 0.000000e+00 2071.0
22 TraesCS7B01G392400 chrUn 96.900 871 21 4 816 1680 393981362 393982232 0.000000e+00 1454.0
23 TraesCS7B01G392400 chrUn 99.725 727 1 1 560 1285 234008852 234008126 0.000000e+00 1330.0
24 TraesCS7B01G392400 chrUn 97.234 723 14 4 816 1532 456386880 456386158 0.000000e+00 1219.0
25 TraesCS7B01G392400 chrUn 98.938 565 4 2 1 563 354101869 354101305 0.000000e+00 1009.0
26 TraesCS7B01G392400 chrUn 98.938 565 4 2 1 563 423803472 423802908 0.000000e+00 1009.0
27 TraesCS7B01G392400 chrUn 98.410 566 5 2 1 563 234009625 234009061 0.000000e+00 992.0
28 TraesCS7B01G392400 chrUn 99.216 255 2 0 560 814 354101096 354100842 8.870000e-126 460.0
29 TraesCS7B01G392400 chrUn 99.216 255 2 0 560 814 423802699 423802445 8.870000e-126 460.0
30 TraesCS7B01G392400 chrUn 99.177 243 1 1 1 243 336505268 336505027 1.500000e-118 436.0
31 TraesCS7B01G392400 chrUn 91.701 241 16 2 596 836 361873229 361872993 7.260000e-87 331.0
32 TraesCS7B01G392400 chrUn 91.701 241 16 2 596 836 361996467 361996231 7.260000e-87 331.0
33 TraesCS7B01G392400 chrUn 98.077 52 1 0 3457 3508 56230032 56230083 1.340000e-14 91.6
34 TraesCS7B01G392400 chrUn 98.077 52 1 0 3457 3508 84483712 84483661 1.340000e-14 91.6
35 TraesCS7B01G392400 chrUn 98.077 52 1 0 3457 3508 234675951 234676002 1.340000e-14 91.6
36 TraesCS7B01G392400 chrUn 98.077 52 1 0 3457 3508 235551537 235551486 1.340000e-14 91.6
37 TraesCS7B01G392400 chrUn 97.143 35 1 0 2702 2736 49869540 49869574 3.780000e-05 60.2
38 TraesCS7B01G392400 chr3A 85.909 809 68 19 2689 3457 349154759 349153957 0.000000e+00 821.0
39 TraesCS7B01G392400 chr3A 85.036 274 40 1 3182 3454 193986249 193985976 9.590000e-71 278.0
40 TraesCS7B01G392400 chr2B 90.248 646 27 3 2702 3312 690208042 690207398 0.000000e+00 811.0
41 TraesCS7B01G392400 chr2B 79.679 748 104 20 2703 3405 588883745 588883001 2.430000e-136 496.0
42 TraesCS7B01G392400 chr2B 90.164 244 24 0 21 264 250727552 250727795 5.650000e-83 318.0
43 TraesCS7B01G392400 chr2B 85.818 275 27 1 1 263 466151971 466152245 7.410000e-72 281.0
44 TraesCS7B01G392400 chr2B 92.715 151 8 2 3310 3457 690207316 690207166 7.630000e-52 215.0
45 TraesCS7B01G392400 chr5A 80.180 777 111 28 2702 3457 37610871 37610117 3.080000e-150 542.0
46 TraesCS7B01G392400 chr5A 84.810 158 16 4 3030 3179 687702880 687703037 6.060000e-33 152.0
47 TraesCS7B01G392400 chr5A 94.872 39 2 0 2701 2739 503610414 503610376 1.050000e-05 62.1
48 TraesCS7B01G392400 chr3B 79.842 759 115 26 2718 3457 697086657 697085918 1.440000e-143 520.0
49 TraesCS7B01G392400 chr6A 91.089 202 13 5 2699 2899 289024426 289024229 5.770000e-68 268.0
50 TraesCS7B01G392400 chr6A 85.859 198 23 3 3264 3457 615761371 615761175 4.590000e-49 206.0
51 TraesCS7B01G392400 chr2A 84.962 266 22 7 1 266 311479801 311479554 1.620000e-63 254.0
52 TraesCS7B01G392400 chr2A 78.049 328 34 16 2861 3179 61506743 61507041 4.660000e-39 172.0
53 TraesCS7B01G392400 chr2A 89.552 67 5 2 3115 3179 313167317 313167383 2.240000e-12 84.2
54 TraesCS7B01G392400 chr2A 93.023 43 3 0 2702 2744 95615991 95615949 2.920000e-06 63.9
55 TraesCS7B01G392400 chr6B 90.256 195 15 4 2701 2894 217543910 217544101 5.810000e-63 252.0
56 TraesCS7B01G392400 chr3D 84.711 242 31 2 3216 3457 362862960 362862725 1.630000e-58 237.0
57 TraesCS7B01G392400 chr3D 75.816 521 74 25 2703 3188 574708554 574709057 2.120000e-52 217.0
58 TraesCS7B01G392400 chr3D 96.491 57 2 0 3452 3508 110136567 110136511 1.040000e-15 95.3
59 TraesCS7B01G392400 chr1B 78.829 222 45 2 3184 3404 615521454 615521674 7.850000e-32 148.0
60 TraesCS7B01G392400 chr5B 96.429 56 2 0 3453 3508 466736468 466736413 3.730000e-15 93.5
61 TraesCS7B01G392400 chr4D 98.077 52 1 0 3457 3508 25999780 25999729 1.340000e-14 91.6
62 TraesCS7B01G392400 chr4D 98.077 52 1 0 3457 3508 49547729 49547678 1.340000e-14 91.6
63 TraesCS7B01G392400 chr4D 98.077 52 1 0 3457 3508 50209628 50209679 1.340000e-14 91.6


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 TraesCS7B01G392400 chr7B 658879111 658882618 3507 False 6479.0 6479 100.000000 1 3508 1 chr7B.!!$F2 3507
1 TraesCS7B01G392400 chr7B 658621397 658624065 2668 False 4180.0 4180 94.797000 1 2703 1 chr7B.!!$F1 2702
2 TraesCS7B01G392400 chr7B 658746392 658749230 2838 False 1147.0 1991 96.436667 1 2703 3 chr7B.!!$F4 2702
3 TraesCS7B01G392400 chr7B 658731713 658732740 1027 False 726.0 992 98.811500 1 814 2 chr7B.!!$F3 813
4 TraesCS7B01G392400 chr7B 720513745 720514561 816 True 538.0 538 79.927000 2702 3457 1 chr7B.!!$R1 755
5 TraesCS7B01G392400 chr7A 679388819 679390656 1837 False 2519.0 2519 91.367000 848 2703 1 chr7A.!!$F2 1855
6 TraesCS7B01G392400 chr7A 679525206 679527024 1818 False 2351.0 2351 89.903000 848 2703 1 chr7A.!!$F3 1855
7 TraesCS7B01G392400 chr7A 679362210 679363544 1334 False 1916.0 1916 92.532000 1363 2701 1 chr7A.!!$F1 1338
8 TraesCS7B01G392400 chr7A 679530388 679531645 1257 True 1511.0 1511 88.477000 1271 2525 1 chr7A.!!$R1 1254
9 TraesCS7B01G392400 chr7A 679593431 679594668 1237 True 1485.0 1485 88.372000 1271 2511 1 chr7A.!!$R2 1240
10 TraesCS7B01G392400 chr7A 679377130 679379199 2069 False 1454.0 2577 91.771000 596 2701 2 chr7A.!!$F4 2105
11 TraesCS7B01G392400 chr7D 587554393 587556229 1836 False 2156.0 2156 87.932000 847 2706 1 chr7D.!!$F2 1859
12 TraesCS7B01G392400 chr7D 587726950 587728763 1813 True 1256.5 2368 94.511500 847 2703 2 chr7D.!!$R2 1856
13 TraesCS7B01G392400 chr7D 465818592 465819251 659 False 405.0 405 78.909000 2818 3454 1 chr7D.!!$F1 636
14 TraesCS7B01G392400 chrUn 392396048 392397569 1521 False 2329.0 2329 94.263000 816 2343 1 chrUn.!!$F4 1527
15 TraesCS7B01G392400 chrUn 393981362 393982232 870 False 1454.0 1454 96.900000 816 1680 1 chrUn.!!$F5 864
16 TraesCS7B01G392400 chrUn 456386158 456386880 722 True 1219.0 1219 97.234000 816 1532 1 chrUn.!!$R5 716
17 TraesCS7B01G392400 chrUn 361871557 361873229 1672 True 1201.0 2071 92.062000 596 2303 2 chrUn.!!$R8 1707
18 TraesCS7B01G392400 chrUn 234008126 234009625 1499 True 1161.0 1330 99.067500 1 1285 2 chrUn.!!$R6 1284
19 TraesCS7B01G392400 chrUn 354100842 354101869 1027 True 734.5 1009 99.077000 1 814 2 chrUn.!!$R7 813
20 TraesCS7B01G392400 chrUn 423802445 423803472 1027 True 734.5 1009 99.077000 1 814 2 chrUn.!!$R9 813
21 TraesCS7B01G392400 chr3A 349153957 349154759 802 True 821.0 821 85.909000 2689 3457 1 chr3A.!!$R2 768
22 TraesCS7B01G392400 chr2B 690207166 690208042 876 True 513.0 811 91.481500 2702 3457 2 chr2B.!!$R2 755
23 TraesCS7B01G392400 chr2B 588883001 588883745 744 True 496.0 496 79.679000 2703 3405 1 chr2B.!!$R1 702
24 TraesCS7B01G392400 chr5A 37610117 37610871 754 True 542.0 542 80.180000 2702 3457 1 chr5A.!!$R1 755
25 TraesCS7B01G392400 chr3B 697085918 697086657 739 True 520.0 520 79.842000 2718 3457 1 chr3B.!!$R1 739
26 TraesCS7B01G392400 chr3D 574708554 574709057 503 False 217.0 217 75.816000 2703 3188 1 chr3D.!!$F1 485

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
1460 1698 2.444624 CGTGGAGCAATCGGACGTG 61.445 63.158 0.0 0.0 0.0 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2998 3313 0.174162 AAATGCCTCATTTGGAGCGC 59.826 50.0 0.0 0.0 41.7 5.92 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
1460 1698 2.444624 CGTGGAGCAATCGGACGTG 61.445 63.158 0.00 0.00 0.00 4.49
1967 2217 1.597461 GGCCTTCTCGTACTGCCTT 59.403 57.895 0.00 0.00 39.05 4.35
2010 2260 2.351244 TTCCTCACTCTCGGCGCAT 61.351 57.895 10.83 0.00 0.00 4.73
2019 2269 3.699955 CTCGGCGCATCAACCTCGA 62.700 63.158 10.83 5.23 0.00 4.04
2025 2275 1.428448 CGCATCAACCTCGAGTTTCA 58.572 50.000 12.31 0.00 36.18 2.69
2162 2412 1.364171 GTCGATCATGGACTCCGGG 59.636 63.158 0.00 0.00 0.00 5.73
2232 2482 0.960364 GTTCAAGGCCGGCATGAAGA 60.960 55.000 34.08 22.39 34.02 2.87
2316 2566 1.136305 CCATCAACATACCGACCGTCT 59.864 52.381 0.00 0.00 0.00 4.18
2357 2607 2.394912 GTCGTCGACCTCGTCTCG 59.605 66.667 14.60 0.00 40.80 4.04
2492 2742 1.302192 CGGCTCCTTCGGGTTCAAA 60.302 57.895 0.00 0.00 36.28 2.69
2568 2820 4.726416 TCCAGTTCGTCGTATACTTGTTC 58.274 43.478 0.56 0.00 0.00 3.18
2594 2846 5.520632 TGCTGCGAGCTACTTATAGTAAAG 58.479 41.667 9.12 0.00 42.97 1.85
2595 2847 4.918583 GCTGCGAGCTACTTATAGTAAAGG 59.081 45.833 0.00 0.00 38.45 3.11
2596 2848 5.278364 GCTGCGAGCTACTTATAGTAAAGGA 60.278 44.000 0.00 0.00 38.45 3.36
2597 2849 6.069684 TGCGAGCTACTTATAGTAAAGGAC 57.930 41.667 0.00 0.00 29.00 3.85
2690 2966 1.599419 GCGTGCAAACTACCAACCAAG 60.599 52.381 0.00 0.00 0.00 3.61
2998 3313 5.864418 TGTACAGTTGGTTAGCCTATAGG 57.136 43.478 15.01 15.01 38.53 2.57
3060 3377 5.362556 AATTCGTGTGACCAAATCTTGAG 57.637 39.130 0.00 0.00 0.00 3.02
3087 3424 8.007405 ACTGGAAAAATAAAGTATGGGCATAC 57.993 34.615 0.00 0.00 42.96 2.39
3281 3688 8.487028 ACCTTGTATAGAAAATCCCTACTCAAG 58.513 37.037 0.00 0.00 34.19 3.02
3298 3705 5.762045 ACTCAAGTGATTTCATGGTTTTCG 58.238 37.500 0.00 0.00 0.00 3.46
3312 3803 2.450160 GTTTTCGGTCACAGCAAAGTG 58.550 47.619 0.00 0.00 40.85 3.16
3324 3815 4.756642 CACAGCAAAGTGACAATTAGGAGA 59.243 41.667 0.00 0.00 42.05 3.71
3334 3825 7.624549 AGTGACAATTAGGAGATGTGTTGTAT 58.375 34.615 0.00 0.00 30.70 2.29
3459 3953 3.928727 TGGAAGCTGCAAGATTTCAAG 57.071 42.857 1.02 0.00 46.51 3.02
3460 3954 2.029649 TGGAAGCTGCAAGATTTCAAGC 60.030 45.455 1.02 0.00 46.51 4.01
3461 3955 2.230750 GGAAGCTGCAAGATTTCAAGCT 59.769 45.455 1.02 0.00 41.66 3.74
3462 3956 3.305881 GGAAGCTGCAAGATTTCAAGCTT 60.306 43.478 7.87 7.87 41.66 3.74
3463 3957 3.572604 AGCTGCAAGATTTCAAGCTTC 57.427 42.857 1.02 0.00 31.24 3.86
3464 3958 3.155501 AGCTGCAAGATTTCAAGCTTCT 58.844 40.909 1.02 0.00 31.24 2.85
3465 3959 3.573110 AGCTGCAAGATTTCAAGCTTCTT 59.427 39.130 1.02 0.00 31.24 2.52
3466 3960 3.673809 GCTGCAAGATTTCAAGCTTCTTG 59.326 43.478 17.20 17.20 45.80 3.02
3471 3965 6.780706 CAAGATTTCAAGCTTCTTGCAATT 57.219 33.333 11.17 0.00 45.94 2.32
3472 3966 6.818416 CAAGATTTCAAGCTTCTTGCAATTC 58.182 36.000 11.17 6.04 45.94 2.17
3473 3967 5.159209 AGATTTCAAGCTTCTTGCAATTCG 58.841 37.500 0.00 0.00 45.94 3.34
3474 3968 3.988379 TTCAAGCTTCTTGCAATTCGT 57.012 38.095 0.00 0.00 45.94 3.85
3475 3969 3.542712 TCAAGCTTCTTGCAATTCGTC 57.457 42.857 0.00 0.00 45.94 4.20
3476 3970 2.226437 TCAAGCTTCTTGCAATTCGTCC 59.774 45.455 0.00 0.00 45.94 4.79
3477 3971 2.191128 AGCTTCTTGCAATTCGTCCT 57.809 45.000 0.00 0.00 45.94 3.85
3478 3972 2.508526 AGCTTCTTGCAATTCGTCCTT 58.491 42.857 0.00 0.00 45.94 3.36
3479 3973 3.674997 AGCTTCTTGCAATTCGTCCTTA 58.325 40.909 0.00 0.00 45.94 2.69
3480 3974 4.072131 AGCTTCTTGCAATTCGTCCTTAA 58.928 39.130 0.00 0.00 45.94 1.85
3481 3975 4.154918 AGCTTCTTGCAATTCGTCCTTAAG 59.845 41.667 0.00 0.00 45.94 1.85
3482 3976 4.406943 CTTCTTGCAATTCGTCCTTAAGC 58.593 43.478 0.00 0.00 0.00 3.09
3483 3977 2.415168 TCTTGCAATTCGTCCTTAAGCG 59.585 45.455 0.00 0.00 0.00 4.68
3484 3978 1.083489 TGCAATTCGTCCTTAAGCGG 58.917 50.000 0.00 0.00 0.00 5.52
3485 3979 0.248094 GCAATTCGTCCTTAAGCGGC 60.248 55.000 0.00 0.00 0.00 6.53
3486 3980 1.369625 CAATTCGTCCTTAAGCGGCT 58.630 50.000 0.00 0.00 0.00 5.52
3487 3981 1.062587 CAATTCGTCCTTAAGCGGCTG 59.937 52.381 1.81 0.00 0.00 4.85
3488 3982 1.090052 ATTCGTCCTTAAGCGGCTGC 61.090 55.000 10.33 10.33 43.24 5.25
3498 3992 3.118454 GCGGCTGCGTGTACACAT 61.118 61.111 24.98 0.00 0.00 3.21
3499 3993 2.677003 GCGGCTGCGTGTACACATT 61.677 57.895 24.98 0.00 0.00 2.71
3500 3994 1.419922 CGGCTGCGTGTACACATTC 59.580 57.895 24.98 13.62 0.00 2.67
3501 3995 1.288419 CGGCTGCGTGTACACATTCA 61.288 55.000 24.98 17.04 0.00 2.57
3502 3996 1.086696 GGCTGCGTGTACACATTCAT 58.913 50.000 24.98 0.00 0.00 2.57
3503 3997 2.276201 GGCTGCGTGTACACATTCATA 58.724 47.619 24.98 4.13 0.00 2.15
3504 3998 2.872245 GGCTGCGTGTACACATTCATAT 59.128 45.455 24.98 0.00 0.00 1.78
3505 3999 3.312421 GGCTGCGTGTACACATTCATATT 59.688 43.478 24.98 0.00 0.00 1.28
3506 4000 4.518217 GCTGCGTGTACACATTCATATTC 58.482 43.478 24.98 6.40 0.00 1.75
3507 4001 4.271049 GCTGCGTGTACACATTCATATTCT 59.729 41.667 24.98 0.00 0.00 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1345 1583 4.394712 CCAAGGTCGGCGCCTTCT 62.395 66.667 26.68 15.75 46.33 2.85
1811 2055 0.947180 GGAAGTTGTTGACGGCGCTA 60.947 55.000 6.90 0.00 0.00 4.26
1967 2217 2.261671 GAGCTTGAAGTCGGCGGA 59.738 61.111 7.21 0.00 0.00 5.54
2010 2260 2.295070 TGACGATGAAACTCGAGGTTGA 59.705 45.455 22.88 13.85 41.12 3.18
2019 2269 1.429463 GGCGTCTTGACGATGAAACT 58.571 50.000 24.65 0.00 34.64 2.66
2162 2412 1.349627 CAGCCGCGTGATGATTGTC 59.650 57.895 4.92 0.00 0.00 3.18
2184 2434 2.483745 CGCAGAGTAAGCCGTCGA 59.516 61.111 0.00 0.00 0.00 4.20
2192 2442 1.154282 CGACGACAGCGCAGAGTAA 60.154 57.895 11.47 0.00 42.48 2.24
2316 2566 2.214216 CCCCGGAGAACACCAGTGA 61.214 63.158 0.73 0.00 0.00 3.41
2353 2603 1.032794 CAGAATGATCCCGTCCGAGA 58.967 55.000 0.00 0.00 39.69 4.04
2357 2607 0.830648 TGTCCAGAATGATCCCGTCC 59.169 55.000 0.00 0.00 39.69 4.79
2481 2731 2.258013 CGCCTGCTTTGAACCCGAA 61.258 57.895 0.00 0.00 0.00 4.30
2483 2733 4.404654 GCGCCTGCTTTGAACCCG 62.405 66.667 0.00 0.00 38.39 5.28
2526 2776 5.730550 TGGATATCCCAATAGTATCAACGC 58.269 41.667 19.34 0.00 43.29 4.84
2594 2846 7.148407 CCACTTCATGTATGTCACTTTTAGTCC 60.148 40.741 0.00 0.00 0.00 3.85
2595 2847 7.148407 CCCACTTCATGTATGTCACTTTTAGTC 60.148 40.741 0.00 0.00 0.00 2.59
2596 2848 6.655003 CCCACTTCATGTATGTCACTTTTAGT 59.345 38.462 0.00 0.00 0.00 2.24
2597 2849 6.094048 CCCCACTTCATGTATGTCACTTTTAG 59.906 42.308 0.00 0.00 0.00 1.85
2690 2966 7.924947 GGGGTATCAACTAGTTACAAGTATGTC 59.075 40.741 8.04 0.00 41.05 3.06
2797 3074 4.979943 TGCAGTGTTCAAACATTCAAGA 57.020 36.364 0.00 0.00 41.59 3.02
2936 3214 8.779354 ATCCAACATAGTTACTTGAGAGAAAC 57.221 34.615 0.00 0.00 0.00 2.78
2998 3313 0.174162 AAATGCCTCATTTGGAGCGC 59.826 50.000 0.00 0.00 41.70 5.92
3060 3377 6.930731 TGCCCATACTTTATTTTTCCAGTTC 58.069 36.000 0.00 0.00 0.00 3.01
3087 3424 5.232202 CAGGTGTGCTTTACATGTACTATCG 59.768 44.000 4.68 0.00 42.24 2.92
3209 3615 9.252962 CTTCCCAAGAAATTATCATGCAATTAC 57.747 33.333 0.00 0.00 0.00 1.89
3281 3688 4.226761 GTGACCGAAAACCATGAAATCAC 58.773 43.478 0.00 0.00 0.00 3.06
3312 3803 8.184192 CCAAATACAACACATCTCCTAATTGTC 58.816 37.037 0.00 0.00 32.76 3.18
3324 3815 6.343716 TCAAGAATGCCAAATACAACACAT 57.656 33.333 0.00 0.00 0.00 3.21
3454 3948 3.304659 GGACGAATTGCAAGAAGCTTGAA 60.305 43.478 2.10 0.00 45.94 2.69
3457 3951 2.508526 AGGACGAATTGCAAGAAGCTT 58.491 42.857 4.94 0.00 45.94 3.74
3458 3952 2.191128 AGGACGAATTGCAAGAAGCT 57.809 45.000 4.94 0.00 45.94 3.74
3459 3953 2.997485 AAGGACGAATTGCAAGAAGC 57.003 45.000 4.94 0.00 45.96 3.86
3460 3954 4.406943 GCTTAAGGACGAATTGCAAGAAG 58.593 43.478 4.94 0.54 0.00 2.85
3461 3955 3.120338 CGCTTAAGGACGAATTGCAAGAA 60.120 43.478 4.94 0.00 0.00 2.52
3462 3956 2.415168 CGCTTAAGGACGAATTGCAAGA 59.585 45.455 4.94 0.00 0.00 3.02
3463 3957 2.476185 CCGCTTAAGGACGAATTGCAAG 60.476 50.000 4.94 0.00 0.00 4.01
3464 3958 1.466950 CCGCTTAAGGACGAATTGCAA 59.533 47.619 0.00 0.00 0.00 4.08
3465 3959 1.083489 CCGCTTAAGGACGAATTGCA 58.917 50.000 4.29 0.00 0.00 4.08
3466 3960 0.248094 GCCGCTTAAGGACGAATTGC 60.248 55.000 4.29 0.00 0.00 3.56
3467 3961 1.062587 CAGCCGCTTAAGGACGAATTG 59.937 52.381 4.29 0.00 0.00 2.32
3468 3962 1.369625 CAGCCGCTTAAGGACGAATT 58.630 50.000 4.29 0.00 0.00 2.17
3469 3963 1.090052 GCAGCCGCTTAAGGACGAAT 61.090 55.000 4.29 0.00 34.30 3.34
3470 3964 1.740296 GCAGCCGCTTAAGGACGAA 60.740 57.895 4.29 0.00 34.30 3.85
3471 3965 2.125673 GCAGCCGCTTAAGGACGA 60.126 61.111 4.29 0.00 34.30 4.20
3472 3966 3.554692 CGCAGCCGCTTAAGGACG 61.555 66.667 4.29 0.00 35.30 4.79
3473 3967 2.434359 ACGCAGCCGCTTAAGGAC 60.434 61.111 4.29 0.00 38.22 3.85
3474 3968 1.879737 TACACGCAGCCGCTTAAGGA 61.880 55.000 4.29 0.00 38.22 3.36
3475 3969 1.447140 TACACGCAGCCGCTTAAGG 60.447 57.895 4.29 0.00 38.22 2.69
3476 3970 1.011968 TGTACACGCAGCCGCTTAAG 61.012 55.000 0.00 0.00 38.22 1.85
3477 3971 1.005984 TGTACACGCAGCCGCTTAA 60.006 52.632 0.00 0.00 38.22 1.85
3478 3972 1.735198 GTGTACACGCAGCCGCTTA 60.735 57.895 10.84 0.00 38.22 3.09
3479 3973 3.041940 GTGTACACGCAGCCGCTT 61.042 61.111 10.84 0.00 38.22 4.68
3480 3974 3.589654 ATGTGTACACGCAGCCGCT 62.590 57.895 20.61 0.00 39.97 5.52
3481 3975 2.563086 GAATGTGTACACGCAGCCGC 62.563 60.000 20.61 2.79 39.97 6.53
3482 3976 1.288419 TGAATGTGTACACGCAGCCG 61.288 55.000 20.61 0.00 39.97 5.52
3483 3977 1.086696 ATGAATGTGTACACGCAGCC 58.913 50.000 20.61 8.72 39.97 4.85
3484 3978 4.271049 AGAATATGAATGTGTACACGCAGC 59.729 41.667 20.61 10.57 39.97 5.25
3485 3979 5.973651 AGAATATGAATGTGTACACGCAG 57.026 39.130 20.61 0.00 39.97 5.18


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

AutoCloner maintained by Alex Coulton.