Multiple sequence alignment - TraesCS4B01G338300

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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 TraesCS4B01G338300 chr4B 100.000 4962 0 0 1 4962 631070271 631075232 0.000000e+00 9164.0
1 TraesCS4B01G338300 chr4B 84.271 1227 141 36 637 1827 631529170 631527960 0.000000e+00 1149.0
2 TraesCS4B01G338300 chr4B 86.420 405 40 10 245 637 631531301 631530900 3.550000e-116 429.0
3 TraesCS4B01G338300 chr4B 92.500 40 3 0 2348 2387 365628506 365628467 1.930000e-04 58.4
4 TraesCS4B01G338300 chr5A 97.263 3288 60 13 205 3483 672510201 672506935 0.000000e+00 5546.0
5 TraesCS4B01G338300 chr5A 90.783 1009 35 15 3482 4432 672506849 672505841 0.000000e+00 1295.0
6 TraesCS4B01G338300 chr5A 94.455 541 13 8 4429 4962 672505275 672504745 0.000000e+00 817.0
7 TraesCS4B01G338300 chr5A 87.794 680 70 12 681 1354 672823767 672823095 0.000000e+00 784.0
8 TraesCS4B01G338300 chr5A 86.386 404 39 10 245 637 672826982 672826584 1.280000e-115 427.0
9 TraesCS4B01G338300 chr5A 97.512 201 5 0 4 204 672510547 672510347 1.320000e-90 344.0
10 TraesCS4B01G338300 chr5A 83.481 339 42 8 1494 1827 672822899 672822570 2.240000e-78 303.0
11 TraesCS4B01G338300 chr5A 86.932 176 20 3 3578 3751 474876271 474876097 1.410000e-45 195.0
12 TraesCS4B01G338300 chr5A 84.685 111 9 5 2396 2500 672822326 672822218 2.440000e-18 104.0
13 TraesCS4B01G338300 chr4D 97.515 3260 53 13 233 3483 492815380 492812140 0.000000e+00 5546.0
14 TraesCS4B01G338300 chr4D 90.737 1004 38 18 3482 4432 492812054 492811053 0.000000e+00 1288.0
15 TraesCS4B01G338300 chr4D 85.037 1223 134 35 637 1827 491949929 491948724 0.000000e+00 1199.0
16 TraesCS4B01G338300 chr4D 84.898 1172 134 28 681 1827 493757338 493758491 0.000000e+00 1144.0
17 TraesCS4B01G338300 chr4D 95.009 541 11 5 4429 4962 492810472 492809941 0.000000e+00 835.0
18 TraesCS4B01G338300 chr4D 89.510 429 40 4 211 637 491952279 491951854 5.650000e-149 538.0
19 TraesCS4B01G338300 chr4D 86.881 404 40 8 245 637 493738585 493738986 1.640000e-119 440.0
20 TraesCS4B01G338300 chr4D 99.020 204 2 0 1 204 492815744 492815541 2.820000e-97 366.0
21 TraesCS4B01G338300 chr4D 85.586 111 8 5 2396 2500 493758735 493758843 5.250000e-20 110.0
22 TraesCS4B01G338300 chr4D 83.051 118 12 5 2396 2507 491948449 491948334 3.160000e-17 100.0
23 TraesCS4B01G338300 chr4D 95.745 47 2 0 3878 3924 503521504 503521550 5.330000e-10 76.8
24 TraesCS4B01G338300 chrUn 92.037 540 27 8 4430 4962 76650614 76650084 0.000000e+00 745.0
25 TraesCS4B01G338300 chrUn 100.000 30 0 0 2359 2388 273236420 273236391 6.940000e-04 56.5
26 TraesCS4B01G338300 chrUn 100.000 30 0 0 2359 2388 432306509 432306480 6.940000e-04 56.5
27 TraesCS4B01G338300 chrUn 100.000 29 0 0 2359 2387 45072609 45072581 2.000000e-03 54.7
28 TraesCS4B01G338300 chrUn 100.000 29 0 0 2359 2387 428854846 428854874 2.000000e-03 54.7
29 TraesCS4B01G338300 chr7D 91.489 329 20 4 4641 4962 168243778 168244105 3.520000e-121 446.0
30 TraesCS4B01G338300 chr7D 100.000 30 0 0 2359 2388 349186553 349186582 6.940000e-04 56.5
31 TraesCS4B01G338300 chr7D 100.000 30 0 0 2359 2388 633533378 633533407 6.940000e-04 56.5
32 TraesCS4B01G338300 chr7D 100.000 28 0 0 2319 2346 336275769 336275796 9.000000e-03 52.8
33 TraesCS4B01G338300 chr6A 90.578 329 23 7 4641 4962 15650483 15650810 3.550000e-116 429.0
34 TraesCS4B01G338300 chr7B 89.058 329 28 5 4641 4962 162841219 162841546 7.740000e-108 401.0
35 TraesCS4B01G338300 chr5B 88.788 330 27 6 4641 4962 326886591 326886264 3.600000e-106 396.0
36 TraesCS4B01G338300 chr5B 92.063 126 4 2 4842 4962 326886225 326886101 6.600000e-39 172.0
37 TraesCS4B01G338300 chr2D 82.095 296 27 8 4641 4934 644396579 644396850 3.860000e-56 230.0
38 TraesCS4B01G338300 chr2D 100.000 30 0 0 2359 2388 635034883 635034854 6.940000e-04 56.5
39 TraesCS4B01G338300 chr1B 88.344 163 16 3 4641 4801 150780286 150780447 5.070000e-45 193.0
40 TraesCS4B01G338300 chr1B 81.356 177 21 9 3577 3750 35473649 35473816 3.120000e-27 134.0
41 TraesCS4B01G338300 chr7A 87.195 164 20 1 3589 3752 689390611 689390773 8.480000e-43 185.0
42 TraesCS4B01G338300 chr7A 82.000 200 29 7 2116 2315 167844266 167844458 3.970000e-36 163.0
43 TraesCS4B01G338300 chr3D 80.478 251 31 16 2112 2350 28680410 28680166 5.110000e-40 176.0
44 TraesCS4B01G338300 chr3D 81.879 149 13 12 1545 1687 30429280 30429420 4.060000e-21 113.0
45 TraesCS4B01G338300 chr3D 100.000 30 0 0 2359 2388 202609569 202609540 6.940000e-04 56.5
46 TraesCS4B01G338300 chr6D 82.673 202 29 6 2114 2315 289507425 289507620 1.840000e-39 174.0
47 TraesCS4B01G338300 chr6D 95.833 48 2 0 3877 3924 463758426 463758379 1.480000e-10 78.7
48 TraesCS4B01G338300 chr1A 80.738 244 30 13 2119 2350 324524047 324523809 1.840000e-39 174.0
49 TraesCS4B01G338300 chr1A 89.362 47 4 1 3870 3916 118936746 118936791 1.930000e-04 58.4
50 TraesCS4B01G338300 chr3B 76.720 378 45 28 3578 3924 120398188 120398553 2.380000e-38 171.0
51 TraesCS4B01G338300 chr3B 79.878 164 21 11 1545 1702 53354856 53354699 5.250000e-20 110.0
52 TraesCS4B01G338300 chr3B 91.667 48 4 0 3877 3924 667854178 667854131 3.210000e-07 67.6
53 TraesCS4B01G338300 chr6B 81.863 204 31 5 2112 2315 560196818 560197015 3.070000e-37 167.0
54 TraesCS4B01G338300 chr2A 81.592 201 29 7 2117 2315 81787600 81787406 5.140000e-35 159.0
55 TraesCS4B01G338300 chr2A 78.715 249 32 16 2116 2350 513641080 513641321 4.000000e-31 147.0
56 TraesCS4B01G338300 chr3A 79.878 164 21 11 1545 1702 42366546 42366389 5.250000e-20 110.0
57 TraesCS4B01G338300 chr2B 93.023 43 3 0 3873 3915 44104062 44104020 4.150000e-06 63.9


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 TraesCS4B01G338300 chr4B 631070271 631075232 4961 False 9164.000000 9164 100.00000 1 4962 1 chr4B.!!$F1 4961
1 TraesCS4B01G338300 chr4B 631527960 631531301 3341 True 789.000000 1149 85.34550 245 1827 2 chr4B.!!$R2 1582
2 TraesCS4B01G338300 chr5A 672504745 672510547 5802 True 2000.500000 5546 95.00325 4 4962 4 chr5A.!!$R2 4958
3 TraesCS4B01G338300 chr5A 672822218 672826982 4764 True 404.500000 784 85.58650 245 2500 4 chr5A.!!$R3 2255
4 TraesCS4B01G338300 chr4D 492809941 492815744 5803 True 2008.750000 5546 95.57025 1 4962 4 chr4D.!!$R2 4961
5 TraesCS4B01G338300 chr4D 493757338 493758843 1505 False 627.000000 1144 85.24200 681 2500 2 chr4D.!!$F3 1819
6 TraesCS4B01G338300 chr4D 491948334 491952279 3945 True 612.333333 1199 85.86600 211 2507 3 chr4D.!!$R1 2296
7 TraesCS4B01G338300 chrUn 76650084 76650614 530 True 745.000000 745 92.03700 4430 4962 1 chrUn.!!$R2 532

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
74 75 1.204704 GGTGGGCTATTTCTGTTTGGC 59.795 52.381 0.00 0.0 0.00 4.52 F
306 452 2.029288 CGCAAGCGAAGAGGCAAGA 61.029 57.895 9.11 0.0 42.83 3.02 F
857 4027 3.120616 TGTTCGTCGTATTCTCGCTTTTG 59.879 43.478 0.00 0.0 0.00 2.44 F
1330 4501 4.559862 AGAGGGGTGTTAATTGACAGAG 57.440 45.455 2.84 0.0 0.00 3.35 F
2937 6470 2.217429 ATTTGTTGGTTGTTGTCGCC 57.783 45.000 0.00 0.0 0.00 5.54 F
3357 6892 2.389715 CCCCAACCGTATCTTCTCTCT 58.610 52.381 0.00 0.0 0.00 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1530 4795 5.745227 TCCCAGCCTATAGAACAAAGAAAG 58.255 41.667 0.00 0.00 0.00 2.62 R
2077 5602 6.812160 ACTTGTTCCGTAGATCACTCAAATAC 59.188 38.462 0.00 0.00 0.00 1.89 R
2576 6108 2.503546 GCTCACAGCTCTAGGCCC 59.496 66.667 0.00 0.00 43.05 5.80 R
3225 6759 2.012673 GGGCAGCTGTTGAAGATGTAG 58.987 52.381 16.64 0.00 44.50 2.74 R
3927 7561 0.108992 GCCCACAATGCTGACACATG 60.109 55.000 0.00 0.00 0.00 3.21 R
4163 7817 0.885196 GAGCTGACGTCTCTTCACCT 59.115 55.000 17.92 2.34 0.00 4.00 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
74 75 1.204704 GGTGGGCTATTTCTGTTTGGC 59.795 52.381 0.00 0.00 0.00 4.52
306 452 2.029288 CGCAAGCGAAGAGGCAAGA 61.029 57.895 9.11 0.00 42.83 3.02
857 4027 3.120616 TGTTCGTCGTATTCTCGCTTTTG 59.879 43.478 0.00 0.00 0.00 2.44
867 4037 6.129457 CGTATTCTCGCTTTTGTTTTTCCTTG 60.129 38.462 0.00 0.00 0.00 3.61
1330 4501 4.559862 AGAGGGGTGTTAATTGACAGAG 57.440 45.455 2.84 0.00 0.00 3.35
1530 4795 5.048713 CCCTTTTTCTGGTGTCACTTATGTC 60.049 44.000 2.35 0.00 0.00 3.06
2360 5885 9.322773 ACATGTCATCTCACTTATGATAGTTTG 57.677 33.333 0.00 0.00 35.87 2.93
2362 5887 7.559486 TGTCATCTCACTTATGATAGTTTGCT 58.441 34.615 0.00 0.00 35.87 3.91
2364 5889 8.333908 GTCATCTCACTTATGATAGTTTGCTTG 58.666 37.037 0.00 0.00 35.87 4.01
2365 5890 8.260114 TCATCTCACTTATGATAGTTTGCTTGA 58.740 33.333 0.00 0.00 33.22 3.02
2366 5891 8.886719 CATCTCACTTATGATAGTTTGCTTGAA 58.113 33.333 0.00 0.00 33.22 2.69
2367 5892 9.624373 ATCTCACTTATGATAGTTTGCTTGAAT 57.376 29.630 0.00 0.00 33.22 2.57
2368 5893 9.453572 TCTCACTTATGATAGTTTGCTTGAATT 57.546 29.630 0.00 0.00 33.22 2.17
2369 5894 9.713740 CTCACTTATGATAGTTTGCTTGAATTC 57.286 33.333 0.00 0.00 33.22 2.17
2371 5896 9.844790 CACTTATGATAGTTTGCTTGAATTCAA 57.155 29.630 19.45 19.45 0.00 2.69
2382 5907 9.801714 GTTTGCTTGAATTCAATTACAAGATTG 57.198 29.630 20.76 6.83 41.16 2.67
2383 5908 9.761504 TTTGCTTGAATTCAATTACAAGATTGA 57.238 25.926 20.76 8.16 42.58 2.57
2404 5933 7.732222 TTGAATAACCAAATGAGGCCTAAAT 57.268 32.000 4.42 0.00 0.00 1.40
2454 5986 5.473039 GGAGTAATGTTGCTTTGAATGCTT 58.527 37.500 4.67 0.00 0.00 3.91
2576 6108 6.612247 TTGTTAATGCTATATGTTCCCACG 57.388 37.500 0.00 0.00 0.00 4.94
2586 6118 3.081409 TTCCCACGGGCCTAGAGC 61.081 66.667 0.84 0.00 42.60 4.09
2609 6141 5.507985 GCTGTGAGCTTAAAACCAAGACAAT 60.508 40.000 0.00 0.00 38.45 2.71
2706 6239 8.837389 GTGATAACATTAAGACCCCATTAAGTC 58.163 37.037 0.00 0.00 0.00 3.01
2937 6470 2.217429 ATTTGTTGGTTGTTGTCGCC 57.783 45.000 0.00 0.00 0.00 5.54
2960 6493 3.325135 CCACTCTATGAAGTATGGACCCC 59.675 52.174 0.00 0.00 33.26 4.95
3021 6554 5.237561 GTCGAGACTGCTACATATTCTGAGA 59.762 44.000 0.00 0.00 0.00 3.27
3101 6634 7.517614 TTAGTTATGTGTTCATTTCTGCCAA 57.482 32.000 0.00 0.00 35.70 4.52
3102 6635 6.594788 AGTTATGTGTTCATTTCTGCCAAT 57.405 33.333 0.00 0.00 35.70 3.16
3133 6666 7.041721 TGTATCTCAGATACACATTGTTGTCC 58.958 38.462 21.64 0.00 32.34 4.02
3201 6734 5.488262 AATTTAGGGCAGCAAAAAGTGAT 57.512 34.783 0.00 0.00 0.00 3.06
3345 6880 2.666098 CCTACCACTCCCCCAACCG 61.666 68.421 0.00 0.00 0.00 4.44
3357 6892 2.389715 CCCCAACCGTATCTTCTCTCT 58.610 52.381 0.00 0.00 0.00 3.10
3358 6893 3.563223 CCCCAACCGTATCTTCTCTCTA 58.437 50.000 0.00 0.00 0.00 2.43
3360 6895 4.038162 CCCCAACCGTATCTTCTCTCTAAG 59.962 50.000 0.00 0.00 0.00 2.18
3362 6897 4.888239 CCAACCGTATCTTCTCTCTAAGGA 59.112 45.833 0.00 0.00 0.00 3.36
3363 6898 5.360144 CCAACCGTATCTTCTCTCTAAGGAA 59.640 44.000 0.00 0.00 0.00 3.36
3364 6899 6.460399 CCAACCGTATCTTCTCTCTAAGGAAG 60.460 46.154 0.00 0.00 39.94 3.46
3366 6901 6.424883 ACCGTATCTTCTCTCTAAGGAAGAA 58.575 40.000 9.02 3.90 46.92 2.52
3367 6902 6.544564 ACCGTATCTTCTCTCTAAGGAAGAAG 59.455 42.308 9.02 5.24 46.92 2.85
3457 6992 3.100545 CATGATTTGGACGGGGGAG 57.899 57.895 0.00 0.00 0.00 4.30
3470 7005 4.329392 GACGGGGGAGAAGTTCAATTTTA 58.671 43.478 5.50 0.00 0.00 1.52
3630 7252 4.453136 TGCACCCTCGTAAACAGTAAAATC 59.547 41.667 0.00 0.00 0.00 2.17
3742 7368 2.916716 CAACATTCCGAAAATGCTTCCG 59.083 45.455 9.55 0.00 0.00 4.30
3772 7399 7.538303 AAACAAAATTGACACTTCATGTTCC 57.462 32.000 0.00 0.00 43.56 3.62
3774 7401 4.503741 AAATTGACACTTCATGTTCCCG 57.496 40.909 0.00 0.00 43.56 5.14
3775 7402 2.631160 TTGACACTTCATGTTCCCGT 57.369 45.000 0.00 0.00 43.56 5.28
3778 7405 4.074627 TGACACTTCATGTTCCCGTTTA 57.925 40.909 0.00 0.00 43.56 2.01
3780 7407 2.803956 ACACTTCATGTTCCCGTTTACG 59.196 45.455 0.00 0.00 38.98 3.18
3941 7575 2.745102 TGTTTGCATGTGTCAGCATTG 58.255 42.857 0.00 0.00 40.94 2.82
3974 7608 5.237344 GGCTATTCATGAGTGACACATTACC 59.763 44.000 8.59 0.00 33.11 2.85
4077 7730 3.057174 CCAAAAACCATCGAATCGGGAAA 60.057 43.478 1.76 0.00 0.00 3.13
4255 7909 1.673808 ATAACCTGCGAGTCCCCGTC 61.674 60.000 0.00 0.00 0.00 4.79
4294 7976 0.037326 CAGCTTGAAGACGGGCTACA 60.037 55.000 0.00 0.00 33.43 2.74
4359 8041 2.003937 TTTTACAAGGAACCCCTGCC 57.996 50.000 0.00 0.00 43.48 4.85
4453 8726 8.585018 CCAAAATAAAAGGGTCTATGTTGTCTT 58.415 33.333 0.00 0.00 0.00 3.01
4456 8729 8.934023 AATAAAAGGGTCTATGTTGTCTTTGA 57.066 30.769 0.00 0.00 0.00 2.69
4603 8876 8.488651 TGCAGCAATATTCAGTGATCTATATG 57.511 34.615 0.00 0.00 0.00 1.78
4604 8877 8.316214 TGCAGCAATATTCAGTGATCTATATGA 58.684 33.333 0.00 0.00 0.00 2.15
4605 8878 8.602328 GCAGCAATATTCAGTGATCTATATGAC 58.398 37.037 0.00 0.00 0.00 3.06
4606 8879 9.872721 CAGCAATATTCAGTGATCTATATGACT 57.127 33.333 0.00 0.00 28.47 3.41
4649 8923 5.733226 TGACTATGTTGCACCAATATTCG 57.267 39.130 0.00 0.00 0.00 3.34
4817 9093 4.503910 GCACACATTCAGTACATCACCTA 58.496 43.478 0.00 0.00 0.00 3.08
4821 9097 6.988580 CACACATTCAGTACATCACCTATCAT 59.011 38.462 0.00 0.00 0.00 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 1.739667 GCCAAAAGCAAGGAACCGT 59.260 52.632 0.00 0.00 42.97 4.83
74 75 1.217244 GGCTGCTTGCATCCTTTGG 59.783 57.895 8.09 0.00 45.15 3.28
857 4027 4.330944 AATCGGGGAAACAAGGAAAAAC 57.669 40.909 0.00 0.00 0.00 2.43
867 4037 6.702716 TTGGTCAATAATAATCGGGGAAAC 57.297 37.500 0.00 0.00 0.00 2.78
1530 4795 5.745227 TCCCAGCCTATAGAACAAAGAAAG 58.255 41.667 0.00 0.00 0.00 2.62
2077 5602 6.812160 ACTTGTTCCGTAGATCACTCAAATAC 59.188 38.462 0.00 0.00 0.00 1.89
2372 5897 8.250332 GCCTCATTTGGTTATTCAATCTTGTAA 58.750 33.333 0.00 0.00 0.00 2.41
2373 5898 7.147915 GGCCTCATTTGGTTATTCAATCTTGTA 60.148 37.037 0.00 0.00 0.00 2.41
2374 5899 6.351286 GGCCTCATTTGGTTATTCAATCTTGT 60.351 38.462 0.00 0.00 0.00 3.16
2375 5900 6.044682 GGCCTCATTTGGTTATTCAATCTTG 58.955 40.000 0.00 0.00 0.00 3.02
2376 5901 5.960202 AGGCCTCATTTGGTTATTCAATCTT 59.040 36.000 0.00 0.00 0.00 2.40
2377 5902 5.522641 AGGCCTCATTTGGTTATTCAATCT 58.477 37.500 0.00 0.00 0.00 2.40
2378 5903 5.859205 AGGCCTCATTTGGTTATTCAATC 57.141 39.130 0.00 0.00 0.00 2.67
2379 5904 7.732222 TTTAGGCCTCATTTGGTTATTCAAT 57.268 32.000 9.68 0.00 0.00 2.57
2380 5905 7.398618 TCATTTAGGCCTCATTTGGTTATTCAA 59.601 33.333 9.68 0.00 0.00 2.69
2382 5907 7.346751 TCATTTAGGCCTCATTTGGTTATTC 57.653 36.000 9.68 0.00 0.00 1.75
2383 5908 7.564660 TCATCATTTAGGCCTCATTTGGTTATT 59.435 33.333 9.68 0.00 0.00 1.40
2384 5909 7.068702 TCATCATTTAGGCCTCATTTGGTTAT 58.931 34.615 9.68 0.00 0.00 1.89
2385 5910 6.430864 TCATCATTTAGGCCTCATTTGGTTA 58.569 36.000 9.68 0.00 0.00 2.85
2404 5933 6.126768 CCTTGGTCCCTCTACTTTAATCATCA 60.127 42.308 0.00 0.00 0.00 3.07
2528 6060 8.996651 AAAGTATCATAGAAAACCTTATGGGG 57.003 34.615 0.00 0.00 40.03 4.96
2576 6108 2.503546 GCTCACAGCTCTAGGCCC 59.496 66.667 0.00 0.00 43.05 5.80
2586 6118 5.499139 TTGTCTTGGTTTTAAGCTCACAG 57.501 39.130 0.00 0.00 0.00 3.66
2706 6239 3.123804 CAGATTAATCAACGAGGGGTCG 58.876 50.000 17.56 0.00 39.31 4.79
2937 6470 3.325135 GGGTCCATACTTCATAGAGTGGG 59.675 52.174 0.00 0.00 33.34 4.61
3021 6554 5.982890 AGGCTACAATTAAGTGCAAATGT 57.017 34.783 2.17 0.00 0.00 2.71
3101 6634 7.565190 ATGTGTATCTGAGATACAATGGGAT 57.435 36.000 30.56 17.05 36.40 3.85
3102 6635 7.147497 ACAATGTGTATCTGAGATACAATGGGA 60.147 37.037 30.56 15.85 36.40 4.37
3133 6666 7.962918 GTGCTGACTATTTTGTTTGTAGTATGG 59.037 37.037 0.00 0.00 0.00 2.74
3222 6756 3.126000 GGCAGCTGTTGAAGATGTAGAAC 59.874 47.826 16.64 0.00 44.50 3.01
3225 6759 2.012673 GGGCAGCTGTTGAAGATGTAG 58.987 52.381 16.64 0.00 44.50 2.74
3345 6880 7.255486 GGAGCTTCTTCCTTAGAGAGAAGATAC 60.255 44.444 20.56 14.81 45.84 2.24
3360 6895 1.219393 CGGTGGAGGAGCTTCTTCC 59.781 63.158 0.00 2.76 42.43 3.46
3362 6897 2.160721 TATCGGTGGAGGAGCTTCTT 57.839 50.000 0.00 0.00 0.00 2.52
3363 6898 2.160721 TTATCGGTGGAGGAGCTTCT 57.839 50.000 0.00 0.00 0.00 2.85
3364 6899 3.181465 TGAATTATCGGTGGAGGAGCTTC 60.181 47.826 0.00 0.00 0.00 3.86
3365 6900 2.771943 TGAATTATCGGTGGAGGAGCTT 59.228 45.455 0.00 0.00 0.00 3.74
3366 6901 2.398588 TGAATTATCGGTGGAGGAGCT 58.601 47.619 0.00 0.00 0.00 4.09
3367 6902 2.910688 TGAATTATCGGTGGAGGAGC 57.089 50.000 0.00 0.00 0.00 4.70
3448 6983 2.491675 AATTGAACTTCTCCCCCGTC 57.508 50.000 0.00 0.00 0.00 4.79
3450 6985 5.914898 AATAAAATTGAACTTCTCCCCCG 57.085 39.130 0.00 0.00 0.00 5.73
3470 7005 9.705290 GTTTTATTCTCCATTACACCACAAAAT 57.295 29.630 0.00 0.00 0.00 1.82
3577 7199 0.872388 GGTGCACAAGGGTACTTTCG 59.128 55.000 20.43 0.00 33.81 3.46
3875 7509 2.422597 TGCACCCTCGTGAACAATAAG 58.577 47.619 0.00 0.00 43.14 1.73
3925 7559 0.599060 CCACAATGCTGACACATGCA 59.401 50.000 0.00 0.00 43.67 3.96
3927 7561 0.108992 GCCCACAATGCTGACACATG 60.109 55.000 0.00 0.00 0.00 3.21
3941 7575 3.244700 ACTCATGAATAGCCATAGCCCAC 60.245 47.826 0.00 0.00 41.25 4.61
3985 7619 4.947388 TGGCACTTGTGATTAATTAGGTCC 59.053 41.667 4.79 0.00 0.00 4.46
4077 7730 1.005924 GGGGGTCATGGAGTTCAATGT 59.994 52.381 0.00 0.00 0.00 2.71
4134 7787 7.463544 TCATACATTAGCATGTCGACTTTTTG 58.536 34.615 17.92 10.09 43.06 2.44
4163 7817 0.885196 GAGCTGACGTCTCTTCACCT 59.115 55.000 17.92 2.34 0.00 4.00
4255 7909 1.474077 GTGGCCAGTGGAAAAGCATAG 59.526 52.381 15.20 0.00 0.00 2.23
4359 8041 8.387354 GGGATTTTTGCGACATTTAATTAAAGG 58.613 33.333 18.42 18.42 33.59 3.11
4453 8726 2.679349 GCTGCTTTTGTTGGGGTTTCAA 60.679 45.455 0.00 0.00 0.00 2.69
4456 8729 0.908198 TGCTGCTTTTGTTGGGGTTT 59.092 45.000 0.00 0.00 0.00 3.27
4603 8876 9.049523 TCATCTGAACATTTCTGCAATATAGTC 57.950 33.333 0.00 0.00 0.00 2.59
4604 8877 8.834465 GTCATCTGAACATTTCTGCAATATAGT 58.166 33.333 0.00 0.00 0.00 2.12
4605 8878 9.053840 AGTCATCTGAACATTTCTGCAATATAG 57.946 33.333 0.00 0.00 0.00 1.31
4606 8879 8.969260 AGTCATCTGAACATTTCTGCAATATA 57.031 30.769 0.00 0.00 0.00 0.86
4607 8880 7.876936 AGTCATCTGAACATTTCTGCAATAT 57.123 32.000 0.00 0.00 0.00 1.28
4608 8881 8.833493 CATAGTCATCTGAACATTTCTGCAATA 58.167 33.333 0.00 0.00 0.00 1.90
4609 8882 7.338703 ACATAGTCATCTGAACATTTCTGCAAT 59.661 33.333 0.00 0.00 0.00 3.56
4610 8883 6.656270 ACATAGTCATCTGAACATTTCTGCAA 59.344 34.615 0.00 0.00 0.00 4.08
4620 8893 4.002982 TGGTGCAACATAGTCATCTGAAC 58.997 43.478 0.00 0.00 39.98 3.18
4649 8923 8.942338 TGTTGTATTGAATAGTACAGATCACC 57.058 34.615 0.00 0.00 32.87 4.02


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

AutoCloner maintained by Alex Coulton.