Multiple sequence alignment - TraesCS1B01G472300

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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 TraesCS1B01G472300 chr1B 100.000 2966 0 0 1 2966 680780630 680783595 0.000000e+00 5478.0
1 TraesCS1B01G472300 chr1B 95.334 643 29 1 1 642 394065328 394064686 0.000000e+00 1020.0
2 TraesCS1B01G472300 chr1B 86.314 643 87 1 1 642 683457202 683456560 0.000000e+00 699.0
3 TraesCS1B01G472300 chr1B 86.321 636 49 14 1919 2534 681802838 681803455 0.000000e+00 658.0
4 TraesCS1B01G472300 chr1B 100.000 176 0 0 3239 3414 680783868 680784043 3.290000e-85 326.0
5 TraesCS1B01G472300 chr1B 95.161 62 3 0 2794 2855 491082968 491083029 7.800000e-17 99.0
6 TraesCS1B01G472300 chr1B 91.935 62 2 1 652 713 681802512 681802570 2.180000e-12 84.2
7 TraesCS1B01G472300 chr1D 95.935 1107 37 3 1863 2966 460252879 460251778 0.000000e+00 1788.0
8 TraesCS1B01G472300 chr1D 88.215 297 25 4 1433 1723 460257942 460257650 2.520000e-91 346.0
9 TraesCS1B01G472300 chr1D 88.688 221 14 3 903 1120 460258354 460258142 3.380000e-65 259.0
10 TraesCS1B01G472300 chr1D 97.279 147 4 0 1724 1870 460257598 460257452 2.030000e-62 250.0
11 TraesCS1B01G472300 chr1D 91.228 171 11 4 1236 1404 460258106 460257938 2.650000e-56 230.0
12 TraesCS1B01G472300 chr1D 77.540 187 28 12 652 835 460258548 460258373 2.170000e-17 100.0
13 TraesCS1B01G472300 chr1D 83.951 81 9 3 2427 2504 488643957 488644036 1.310000e-09 75.0
14 TraesCS1B01G472300 chr1D 86.765 68 7 2 2442 2508 490307038 490307104 1.310000e-09 75.0
15 TraesCS1B01G472300 chr1D 97.500 40 1 0 1566 1605 460257778 460257739 6.110000e-08 69.4
16 TraesCS1B01G472300 chr1A 95.204 834 24 3 1724 2557 588378177 588377360 0.000000e+00 1304.0
17 TraesCS1B01G472300 chr1A 90.980 643 57 1 1 642 564124078 564123436 0.000000e+00 865.0
18 TraesCS1B01G472300 chr1A 87.618 638 37 18 1912 2534 587663385 587662775 0.000000e+00 702.0
19 TraesCS1B01G472300 chr1A 94.458 415 19 2 2555 2966 588377237 588376824 1.340000e-178 636.0
20 TraesCS1B01G472300 chr1A 86.426 582 36 18 850 1415 588378962 588378408 6.310000e-167 597.0
21 TraesCS1B01G472300 chr1A 91.954 174 14 0 3239 3412 588376458 588376285 9.460000e-61 244.0
22 TraesCS1B01G472300 chr1A 89.189 185 14 3 1545 1723 588378413 588378229 3.430000e-55 226.0
23 TraesCS1B01G472300 chr1A 86.777 121 8 5 653 772 588379074 588378961 9.940000e-26 128.0
24 TraesCS1B01G472300 chr1A 97.561 41 1 0 1566 1606 588378357 588378317 1.700000e-08 71.3
25 TraesCS1B01G472300 chr7B 97.188 640 17 1 1 639 56492470 56493109 0.000000e+00 1081.0
26 TraesCS1B01G472300 chr7B 96.078 51 1 1 1428 1477 741242974 741242924 7.850000e-12 82.4
27 TraesCS1B01G472300 chr5B 93.559 590 37 1 51 639 441098776 441099365 0.000000e+00 878.0
28 TraesCS1B01G472300 chr5B 91.667 216 17 1 1 215 697246593 697246378 7.160000e-77 298.0
29 TraesCS1B01G472300 chr5B 95.918 49 2 0 1 49 441097154 441097202 2.820000e-11 80.5
30 TraesCS1B01G472300 chr5B 94.231 52 1 1 1423 1474 466991908 466991957 1.020000e-10 78.7
31 TraesCS1B01G472300 chr3A 91.094 640 46 2 1 639 57256837 57257466 0.000000e+00 856.0
32 TraesCS1B01G472300 chr5A 84.259 108 13 3 1379 1482 585406070 585405963 6.030000e-18 102.0
33 TraesCS1B01G472300 chr5A 91.228 57 3 1 1429 1485 669572941 669572887 3.650000e-10 76.8
34 TraesCS1B01G472300 chr5D 96.429 56 1 1 2801 2855 475190732 475190677 1.300000e-14 91.6
35 TraesCS1B01G472300 chr3B 96.154 52 2 0 1423 1474 753165175 753165226 6.070000e-13 86.1
36 TraesCS1B01G472300 chr4D 92.982 57 4 0 2799 2855 482363707 482363651 2.180000e-12 84.2
37 TraesCS1B01G472300 chr4D 91.228 57 3 1 1429 1485 487634266 487634212 3.650000e-10 76.8
38 TraesCS1B01G472300 chr4D 89.474 57 6 0 2799 2855 5067898 5067842 4.730000e-09 73.1
39 TraesCS1B01G472300 chr4A 91.228 57 5 0 2799 2855 59285777 59285833 1.020000e-10 78.7
40 TraesCS1B01G472300 chr4A 100.000 28 0 0 2937 2964 719825031 719825004 6.000000e-03 52.8
41 TraesCS1B01G472300 chr4A 100.000 28 0 0 2937 2964 719900870 719900843 6.000000e-03 52.8
42 TraesCS1B01G472300 chr3D 91.071 56 5 0 2800 2855 591881865 591881810 3.650000e-10 76.8
43 TraesCS1B01G472300 chr2B 90.909 55 5 0 2801 2855 209098515 209098569 1.310000e-09 75.0
44 TraesCS1B01G472300 chr2B 100.000 28 0 0 2936 2963 406542789 406542816 6.000000e-03 52.8
45 TraesCS1B01G472300 chrUn 87.500 64 6 2 2442 2504 9170505 9170443 4.730000e-09 73.1
46 TraesCS1B01G472300 chrUn 87.500 64 6 2 2442 2504 205600137 205600075 4.730000e-09 73.1
47 TraesCS1B01G472300 chrUn 87.500 64 6 2 2442 2504 377538753 377538815 4.730000e-09 73.1
48 TraesCS1B01G472300 chrUn 100.000 31 0 0 2936 2966 27121646 27121676 1.320000e-04 58.4
49 TraesCS1B01G472300 chr2A 97.619 42 1 0 1432 1473 500499429 500499470 4.730000e-09 73.1
50 TraesCS1B01G472300 chr2A 97.619 42 1 0 1432 1473 677133628 677133669 4.730000e-09 73.1
51 TraesCS1B01G472300 chr7D 100.000 30 0 0 2937 2966 476997979 476997950 4.760000e-04 56.5
52 TraesCS1B01G472300 chr6B 100.000 29 0 0 2857 2885 34206584 34206612 2.000000e-03 54.7


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 TraesCS1B01G472300 chr1B 680780630 680784043 3413 False 2902.000000 5478 100.000000 1 3414 2 chr1B.!!$F2 3413
1 TraesCS1B01G472300 chr1B 394064686 394065328 642 True 1020.000000 1020 95.334000 1 642 1 chr1B.!!$R1 641
2 TraesCS1B01G472300 chr1B 683456560 683457202 642 True 699.000000 699 86.314000 1 642 1 chr1B.!!$R2 641
3 TraesCS1B01G472300 chr1B 681802512 681803455 943 False 371.100000 658 89.128000 652 2534 2 chr1B.!!$F3 1882
4 TraesCS1B01G472300 chr1D 460251778 460252879 1101 True 1788.000000 1788 95.935000 1863 2966 1 chr1D.!!$R1 1103
5 TraesCS1B01G472300 chr1D 460257452 460258548 1096 True 209.066667 346 90.075000 652 1870 6 chr1D.!!$R2 1218
6 TraesCS1B01G472300 chr1A 564123436 564124078 642 True 865.000000 865 90.980000 1 642 1 chr1A.!!$R1 641
7 TraesCS1B01G472300 chr1A 587662775 587663385 610 True 702.000000 702 87.618000 1912 2534 1 chr1A.!!$R2 622
8 TraesCS1B01G472300 chr1A 588376285 588379074 2789 True 458.042857 1304 91.652714 653 3412 7 chr1A.!!$R3 2759
9 TraesCS1B01G472300 chr7B 56492470 56493109 639 False 1081.000000 1081 97.188000 1 639 1 chr7B.!!$F1 638
10 TraesCS1B01G472300 chr5B 441097154 441099365 2211 False 479.250000 878 94.738500 1 639 2 chr5B.!!$F2 638
11 TraesCS1B01G472300 chr3A 57256837 57257466 629 False 856.000000 856 91.094000 1 639 1 chr3A.!!$F1 638

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
930 2516 0.031515 TCTAGATTGGGGAGCCGGAA 60.032 55.0 5.05 0.0 0.0 4.30 F
1211 2810 0.830648 TCCAGGTTCATTAGGCTCCG 59.169 55.0 0.00 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2037 3759 0.178921 ACAGCTCCTCCACCTTCTGA 60.179 55.0 0.0 0.0 0.0 3.27 R
2874 4745 0.824759 ATGGACGAACTACTGCCTCC 59.175 55.0 0.0 0.0 0.0 4.30 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
217 1791 1.995484 CTGCACACATAGGACAGTTCG 59.005 52.381 0.00 0.00 0.00 3.95
285 1859 0.251341 ACCCATGCAGGACTTTCCAC 60.251 55.000 0.00 0.00 39.61 4.02
315 1889 2.505650 TGATCTTTCCCGGCAATGAA 57.494 45.000 0.00 0.00 0.00 2.57
318 1892 2.806945 TCTTTCCCGGCAATGAAGAT 57.193 45.000 0.00 0.00 0.00 2.40
371 1945 0.168128 GATTGTTGGCCTTCCGTTCG 59.832 55.000 3.32 0.00 34.14 3.95
543 2117 3.009723 CTGCCAAAACGTATCCATCACT 58.990 45.455 0.00 0.00 0.00 3.41
645 2219 2.564975 CGTCCGTCCGCACTAGTT 59.435 61.111 0.00 0.00 0.00 2.24
646 2220 1.513586 CGTCCGTCCGCACTAGTTC 60.514 63.158 0.00 0.00 0.00 3.01
647 2221 1.153881 GTCCGTCCGCACTAGTTCC 60.154 63.158 0.00 0.00 0.00 3.62
648 2222 2.202570 CCGTCCGCACTAGTTCCG 60.203 66.667 0.00 0.00 0.00 4.30
649 2223 2.693762 CCGTCCGCACTAGTTCCGA 61.694 63.158 12.85 0.00 0.00 4.55
650 2224 1.513586 CGTCCGCACTAGTTCCGAC 60.514 63.158 12.85 8.65 0.00 4.79
713 2293 5.591643 AGATTATAATAAGTTGGCGCACG 57.408 39.130 10.83 0.00 0.00 5.34
714 2294 5.054477 AGATTATAATAAGTTGGCGCACGT 58.946 37.500 10.83 0.00 0.00 4.49
715 2295 4.782252 TTATAATAAGTTGGCGCACGTC 57.218 40.909 10.83 0.00 0.00 4.34
716 2296 2.081725 TAATAAGTTGGCGCACGTCA 57.918 45.000 10.83 0.00 0.00 4.35
717 2297 0.515564 AATAAGTTGGCGCACGTCAC 59.484 50.000 10.83 0.00 0.00 3.67
721 2301 4.980805 TTGGCGCACGTCACCCTC 62.981 66.667 10.83 0.00 0.00 4.30
726 2306 4.736896 GCACGTCACCCTCCCGAC 62.737 72.222 0.00 0.00 0.00 4.79
738 2318 1.901650 CTCCCGACAGCGCAAGAAAC 61.902 60.000 11.47 0.00 43.02 2.78
739 2319 1.961277 CCCGACAGCGCAAGAAACT 60.961 57.895 11.47 0.00 43.02 2.66
741 2321 1.359848 CCGACAGCGCAAGAAACTAT 58.640 50.000 11.47 0.00 43.02 2.12
765 2351 3.840078 CCCAATCCCCAAATCTTCTTGTT 59.160 43.478 0.00 0.00 0.00 2.83
766 2352 4.322953 CCCAATCCCCAAATCTTCTTGTTG 60.323 45.833 0.00 0.00 0.00 3.33
767 2353 4.284234 CCAATCCCCAAATCTTCTTGTTGT 59.716 41.667 0.00 0.00 0.00 3.32
788 2374 3.075005 CGGAGGCGGAAGGAAGGA 61.075 66.667 0.00 0.00 0.00 3.36
789 2375 2.585153 GGAGGCGGAAGGAAGGAC 59.415 66.667 0.00 0.00 0.00 3.85
790 2376 2.184579 GAGGCGGAAGGAAGGACG 59.815 66.667 0.00 0.00 0.00 4.79
791 2377 3.372554 GAGGCGGAAGGAAGGACGG 62.373 68.421 0.00 0.00 0.00 4.79
792 2378 3.703127 GGCGGAAGGAAGGACGGT 61.703 66.667 0.00 0.00 0.00 4.83
793 2379 2.434359 GCGGAAGGAAGGACGGTG 60.434 66.667 0.00 0.00 0.00 4.94
794 2380 2.939261 GCGGAAGGAAGGACGGTGA 61.939 63.158 0.00 0.00 0.00 4.02
795 2381 1.669440 CGGAAGGAAGGACGGTGAA 59.331 57.895 0.00 0.00 0.00 3.18
796 2382 0.034337 CGGAAGGAAGGACGGTGAAA 59.966 55.000 0.00 0.00 0.00 2.69
797 2383 1.809684 GGAAGGAAGGACGGTGAAAG 58.190 55.000 0.00 0.00 0.00 2.62
800 2386 2.011122 AGGAAGGACGGTGAAAGAGA 57.989 50.000 0.00 0.00 0.00 3.10
810 2396 2.028020 CGGTGAAAGAGAAACCCTAGCT 60.028 50.000 0.00 0.00 0.00 3.32
839 2425 2.903357 GAGCGCCCAGATCCTCAA 59.097 61.111 2.29 0.00 0.00 3.02
840 2426 1.227497 GAGCGCCCAGATCCTCAAG 60.227 63.158 2.29 0.00 0.00 3.02
841 2427 2.203126 GCGCCCAGATCCTCAAGG 60.203 66.667 0.00 0.00 0.00 3.61
895 2481 0.948623 CGCAAGGTGATTCGTGACCA 60.949 55.000 0.00 0.00 34.36 4.02
900 2486 2.227194 AGGTGATTCGTGACCAAAACC 58.773 47.619 0.00 0.00 34.36 3.27
928 2514 0.470080 TCTCTAGATTGGGGAGCCGG 60.470 60.000 0.00 0.00 0.00 6.13
929 2515 0.470080 CTCTAGATTGGGGAGCCGGA 60.470 60.000 5.05 0.00 0.00 5.14
930 2516 0.031515 TCTAGATTGGGGAGCCGGAA 60.032 55.000 5.05 0.00 0.00 4.30
931 2517 0.837272 CTAGATTGGGGAGCCGGAAA 59.163 55.000 5.05 0.00 0.00 3.13
952 2538 2.442188 GGCGGTGATTCGTGACGTC 61.442 63.158 9.11 9.11 0.00 4.34
994 2580 1.014352 ATTATTTGCAGACCGGCGAC 58.986 50.000 9.30 1.53 36.28 5.19
1008 2594 2.278792 CGACGATCGATGGCAGCA 60.279 61.111 24.34 0.00 43.74 4.41
1028 2618 3.371097 TTCGATGCCTGGCGAGGAC 62.371 63.158 20.35 10.44 42.93 3.85
1030 2620 3.838271 GATGCCTGGCGAGGACGA 61.838 66.667 20.35 1.18 42.93 4.20
1043 2633 1.135333 GAGGACGAGGCTTGGTAGAAG 59.865 57.143 6.71 0.00 0.00 2.85
1137 2736 4.280929 TCACGATTTATCTCCCGACATCAT 59.719 41.667 0.00 0.00 0.00 2.45
1195 2794 5.220989 CCGTCTCATATACTTTCTTCGTCCA 60.221 44.000 0.00 0.00 0.00 4.02
1200 2799 6.570692 TCATATACTTTCTTCGTCCAGGTTC 58.429 40.000 0.00 0.00 0.00 3.62
1205 2804 5.238583 ACTTTCTTCGTCCAGGTTCATTAG 58.761 41.667 0.00 0.00 0.00 1.73
1211 2810 0.830648 TCCAGGTTCATTAGGCTCCG 59.169 55.000 0.00 0.00 0.00 4.63
1248 2847 7.859377 CCGTTTCTCTTTACTTCGCATATAGTA 59.141 37.037 0.00 0.00 0.00 1.82
1360 2972 7.026631 ACGTGATATTGATTTGGTATTGTGG 57.973 36.000 0.00 0.00 0.00 4.17
1396 3008 5.786264 TTTCTACTCCCTTCGATCCATAC 57.214 43.478 0.00 0.00 0.00 2.39
1412 3027 2.609459 CCATACCACTCATCGCTCAAAC 59.391 50.000 0.00 0.00 0.00 2.93
1413 3028 3.261580 CATACCACTCATCGCTCAAACA 58.738 45.455 0.00 0.00 0.00 2.83
1414 3029 2.254546 ACCACTCATCGCTCAAACAA 57.745 45.000 0.00 0.00 0.00 2.83
1415 3030 2.571212 ACCACTCATCGCTCAAACAAA 58.429 42.857 0.00 0.00 0.00 2.83
1416 3031 3.149196 ACCACTCATCGCTCAAACAAAT 58.851 40.909 0.00 0.00 0.00 2.32
1417 3032 3.058016 ACCACTCATCGCTCAAACAAATG 60.058 43.478 0.00 0.00 0.00 2.32
1418 3033 3.189080 CCACTCATCGCTCAAACAAATGA 59.811 43.478 0.00 0.00 0.00 2.57
1419 3034 4.320421 CCACTCATCGCTCAAACAAATGAA 60.320 41.667 0.00 0.00 0.00 2.57
1420 3035 5.396484 CACTCATCGCTCAAACAAATGAAT 58.604 37.500 0.00 0.00 0.00 2.57
1421 3036 5.510674 CACTCATCGCTCAAACAAATGAATC 59.489 40.000 0.00 0.00 0.00 2.52
1422 3037 5.413833 ACTCATCGCTCAAACAAATGAATCT 59.586 36.000 0.00 0.00 0.00 2.40
1423 3038 6.595326 ACTCATCGCTCAAACAAATGAATCTA 59.405 34.615 0.00 0.00 0.00 1.98
1424 3039 6.775088 TCATCGCTCAAACAAATGAATCTAC 58.225 36.000 0.00 0.00 0.00 2.59
1425 3040 6.371271 TCATCGCTCAAACAAATGAATCTACA 59.629 34.615 0.00 0.00 0.00 2.74
1426 3041 5.927030 TCGCTCAAACAAATGAATCTACAC 58.073 37.500 0.00 0.00 0.00 2.90
1427 3042 5.088739 CGCTCAAACAAATGAATCTACACC 58.911 41.667 0.00 0.00 0.00 4.16
1428 3043 5.106555 CGCTCAAACAAATGAATCTACACCT 60.107 40.000 0.00 0.00 0.00 4.00
1429 3044 6.092122 CGCTCAAACAAATGAATCTACACCTA 59.908 38.462 0.00 0.00 0.00 3.08
1430 3045 7.467623 GCTCAAACAAATGAATCTACACCTAG 58.532 38.462 0.00 0.00 0.00 3.02
1431 3046 7.334421 GCTCAAACAAATGAATCTACACCTAGA 59.666 37.037 0.00 0.00 33.32 2.43
1432 3047 9.388506 CTCAAACAAATGAATCTACACCTAGAT 57.611 33.333 0.00 0.00 40.90 1.98
1437 3052 9.988815 ACAAATGAATCTACACCTAGATACATC 57.011 33.333 0.00 0.00 38.58 3.06
1438 3053 9.429359 CAAATGAATCTACACCTAGATACATCC 57.571 37.037 0.00 0.00 38.58 3.51
1450 3065 4.848562 AGATACATCCGTTTGAGCGATA 57.151 40.909 0.00 0.00 0.00 2.92
1454 3069 4.380841 ACATCCGTTTGAGCGATAAGTA 57.619 40.909 0.00 0.00 0.00 2.24
1480 3095 9.661954 AATATGGATCGAAGGGAGTATATATGT 57.338 33.333 0.00 0.00 0.00 2.29
1481 3096 7.979786 ATGGATCGAAGGGAGTATATATGTT 57.020 36.000 0.00 0.00 0.00 2.71
1482 3097 7.792364 TGGATCGAAGGGAGTATATATGTTT 57.208 36.000 0.00 0.00 0.00 2.83
1483 3098 8.202461 TGGATCGAAGGGAGTATATATGTTTT 57.798 34.615 0.00 0.00 0.00 2.43
1518 3133 9.400638 CAAACCTTATATGCGAAGTAAAAACAA 57.599 29.630 0.00 0.00 0.00 2.83
1597 3247 7.942341 TCATAATTGTTTAACCTGACCTGAACT 59.058 33.333 0.00 0.00 0.00 3.01
1606 3256 3.265791 CCTGACCTGAACTGAGCATAAC 58.734 50.000 0.00 0.00 0.00 1.89
1611 3261 4.770795 ACCTGAACTGAGCATAACCATAC 58.229 43.478 0.00 0.00 0.00 2.39
1613 3263 4.813161 CCTGAACTGAGCATAACCATACTG 59.187 45.833 0.00 0.00 0.00 2.74
1614 3264 5.420725 TGAACTGAGCATAACCATACTGT 57.579 39.130 0.00 0.00 0.00 3.55
1615 3265 5.419542 TGAACTGAGCATAACCATACTGTC 58.580 41.667 0.00 0.00 0.00 3.51
1616 3266 4.408182 ACTGAGCATAACCATACTGTCC 57.592 45.455 0.00 0.00 0.00 4.02
1618 3268 4.141846 ACTGAGCATAACCATACTGTCCTG 60.142 45.833 0.00 0.00 0.00 3.86
1620 3270 4.655649 TGAGCATAACCATACTGTCCTGAT 59.344 41.667 0.00 0.00 0.00 2.90
1621 3271 5.130975 TGAGCATAACCATACTGTCCTGATT 59.869 40.000 0.00 0.00 0.00 2.57
1622 3272 5.371526 AGCATAACCATACTGTCCTGATTG 58.628 41.667 0.00 0.00 0.00 2.67
1623 3273 5.130975 AGCATAACCATACTGTCCTGATTGA 59.869 40.000 0.00 0.00 0.00 2.57
1624 3274 6.000219 GCATAACCATACTGTCCTGATTGAT 59.000 40.000 0.00 0.00 0.00 2.57
1625 3275 6.488006 GCATAACCATACTGTCCTGATTGATT 59.512 38.462 0.00 0.00 0.00 2.57
1652 3308 7.011389 CGAGCATAATGACTTTTTACTCATCCA 59.989 37.037 0.00 0.00 0.00 3.41
1669 3325 7.593825 ACTCATCCATTTAGCAAACTGTTAAC 58.406 34.615 0.00 0.00 0.00 2.01
1680 3336 4.387256 GCAAACTGTTAACTGCAACACAAA 59.613 37.500 11.98 0.00 34.75 2.83
1691 3347 2.425312 TGCAACACAAAAGGTTCGATGT 59.575 40.909 0.00 0.00 0.00 3.06
1700 3356 3.626028 AAGGTTCGATGTTTGCTGTTC 57.374 42.857 0.00 0.00 0.00 3.18
1723 3379 7.443302 TCTGATATATTGAATCATCCCCTCC 57.557 40.000 0.00 0.00 33.08 4.30
1724 3380 6.967652 TCTGATATATTGAATCATCCCCTCCA 59.032 38.462 0.00 0.00 33.08 3.86
1726 3382 2.645838 ATTGAATCATCCCCTCCACG 57.354 50.000 0.00 0.00 0.00 4.94
1786 3493 4.362470 TTCCTAGCAATGATCCATCCAG 57.638 45.455 0.00 0.00 0.00 3.86
1847 3554 8.965819 TCTTTATTAGCAACCAAATCAAGCATA 58.034 29.630 0.00 0.00 0.00 3.14
1905 3623 7.556844 ACCTCACCTAATTGACAGTTAGTATG 58.443 38.462 14.52 12.36 0.00 2.39
1982 3700 3.996921 ATGAAGGAAGCACACTGATCT 57.003 42.857 0.00 0.00 0.00 2.75
2005 3727 8.279970 TCTTTATTTGTGTGTATCAATCCAGG 57.720 34.615 0.00 0.00 0.00 4.45
2037 3759 5.130643 TGAGATGAAGCAGAAGATGAGGAAT 59.869 40.000 0.00 0.00 0.00 3.01
2185 3919 7.887381 TCCTTAAGTTTCTGTTTGTTTGACAA 58.113 30.769 0.97 0.00 36.11 3.18
2186 3920 8.527810 TCCTTAAGTTTCTGTTTGTTTGACAAT 58.472 29.630 0.97 0.00 38.00 2.71
2187 3921 9.796120 CCTTAAGTTTCTGTTTGTTTGACAATA 57.204 29.630 0.97 0.00 38.00 1.90
2189 3923 9.796120 TTAAGTTTCTGTTTGTTTGACAATAGG 57.204 29.630 0.00 0.00 38.00 2.57
2190 3924 7.639113 AGTTTCTGTTTGTTTGACAATAGGA 57.361 32.000 0.00 0.00 38.00 2.94
2233 3975 0.250510 TTTCCACATGCAGGCGTACA 60.251 50.000 0.00 0.00 0.00 2.90
2269 4011 1.165270 GGATTCGGGGTGTGTTTGAG 58.835 55.000 0.00 0.00 0.00 3.02
2323 4065 2.629051 GTTGCTTATGCGGTTAGTCCT 58.371 47.619 0.00 0.00 43.34 3.85
2377 4119 2.703798 CCCACAATGCGGCTTGAGG 61.704 63.158 15.68 15.82 36.83 3.86
2538 4280 4.278170 TCGAACAAATTGTGCAAGGAATCT 59.722 37.500 4.81 0.00 0.00 2.40
2688 4555 3.247648 AGGTTGAATTTTGACGTCACTCG 59.752 43.478 19.90 0.00 46.00 4.18
2741 4611 1.073923 ACAAATTCTCCAGGAAGCGGT 59.926 47.619 0.00 0.00 37.36 5.68
2742 4612 2.304761 ACAAATTCTCCAGGAAGCGGTA 59.695 45.455 0.00 0.00 37.36 4.02
2894 4765 1.471676 GGAGGCAGTAGTTCGTCCATG 60.472 57.143 4.33 0.00 37.25 3.66
2899 4770 3.326747 GCAGTAGTTCGTCCATGTCTTT 58.673 45.455 0.00 0.00 0.00 2.52
2901 4772 4.307432 CAGTAGTTCGTCCATGTCTTTGT 58.693 43.478 0.00 0.00 0.00 2.83
3281 5245 4.538283 CGACGCCGACGATCAGCT 62.538 66.667 2.16 0.00 43.93 4.24
3287 5251 3.260483 CGACGATCAGCTGCCAGC 61.260 66.667 9.13 9.13 42.84 4.85
3314 5278 2.510691 AGTAAACGCGCCCATCCG 60.511 61.111 5.73 0.00 0.00 4.18
3315 5279 3.569690 GTAAACGCGCCCATCCGG 61.570 66.667 5.73 0.00 0.00 5.14
3340 5304 0.111001 GTTGCGCGACATAACACGTT 60.111 50.000 23.02 0.00 0.00 3.99
3367 5331 9.764363 AGATAATTCAGCGTGTCAGATAATTTA 57.236 29.630 0.00 0.00 0.00 1.40
3399 5363 8.251750 TCCACAATCATAGAAAGTTAGAAACG 57.748 34.615 0.00 0.00 36.23 3.60
3401 5365 6.961554 CACAATCATAGAAAGTTAGAAACGCC 59.038 38.462 0.00 0.00 36.23 5.68
3412 5376 7.704789 AAGTTAGAAACGCCTATTAATACGG 57.295 36.000 9.49 8.00 36.23 4.02
3413 5377 5.693555 AGTTAGAAACGCCTATTAATACGGC 59.306 40.000 18.59 18.59 40.40 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 1.475751 CCAGAGGTGAGTGCACAAACT 60.476 52.381 21.04 14.90 46.96 2.66
217 1791 2.943033 ACCGACATATTGCTTTGCCTAC 59.057 45.455 0.00 0.00 0.00 3.18
285 1859 1.594862 GGAAAGATCAAGATCCACGCG 59.405 52.381 3.53 3.53 38.58 6.01
371 1945 1.880027 AGTTTGGTCGATGGTTTGAGC 59.120 47.619 0.00 0.00 34.82 4.26
543 2117 4.155709 CAGGAGTATGGGATCAAGAGCTA 58.844 47.826 0.00 0.00 0.00 3.32
642 2216 0.602060 GGAAGTCGGAAGTCGGAACT 59.398 55.000 0.00 0.00 39.77 3.01
643 2217 0.731855 CGGAAGTCGGAAGTCGGAAC 60.732 60.000 0.00 0.00 39.77 3.62
644 2218 0.890542 TCGGAAGTCGGAAGTCGGAA 60.891 55.000 0.00 0.00 39.77 4.30
645 2219 0.679002 ATCGGAAGTCGGAAGTCGGA 60.679 55.000 3.10 3.10 39.77 4.55
646 2220 1.002684 CTATCGGAAGTCGGAAGTCGG 60.003 57.143 0.00 0.00 39.77 4.79
647 2221 1.938577 TCTATCGGAAGTCGGAAGTCG 59.061 52.381 0.00 0.00 39.77 4.18
648 2222 4.142425 ACTTTCTATCGGAAGTCGGAAGTC 60.142 45.833 0.00 0.00 39.77 3.01
649 2223 3.762823 ACTTTCTATCGGAAGTCGGAAGT 59.237 43.478 0.00 0.00 39.77 3.01
650 2224 4.373348 ACTTTCTATCGGAAGTCGGAAG 57.627 45.455 0.00 0.00 39.77 3.46
713 2293 4.436998 CGCTGTCGGGAGGGTGAC 62.437 72.222 0.00 0.00 35.67 3.67
719 2299 1.667830 TTTCTTGCGCTGTCGGGAG 60.668 57.895 9.73 0.00 35.95 4.30
720 2300 1.959226 GTTTCTTGCGCTGTCGGGA 60.959 57.895 9.73 0.00 35.95 5.14
721 2301 0.669318 TAGTTTCTTGCGCTGTCGGG 60.669 55.000 9.73 0.00 35.95 5.14
722 2302 1.324736 GATAGTTTCTTGCGCTGTCGG 59.675 52.381 9.73 0.00 35.95 4.79
723 2303 1.324736 GGATAGTTTCTTGCGCTGTCG 59.675 52.381 9.73 0.00 39.07 4.35
724 2304 1.666189 GGGATAGTTTCTTGCGCTGTC 59.334 52.381 9.73 0.00 0.00 3.51
725 2305 1.679032 GGGGATAGTTTCTTGCGCTGT 60.679 52.381 9.73 0.00 0.00 4.40
726 2306 1.017387 GGGGATAGTTTCTTGCGCTG 58.983 55.000 9.73 1.08 0.00 5.18
738 2318 4.106987 AGAAGATTTGGGGATTGGGGATAG 59.893 45.833 0.00 0.00 0.00 2.08
739 2319 4.061657 AGAAGATTTGGGGATTGGGGATA 58.938 43.478 0.00 0.00 0.00 2.59
741 2321 2.297044 AGAAGATTTGGGGATTGGGGA 58.703 47.619 0.00 0.00 0.00 4.81
782 2368 2.806818 GTTTCTCTTTCACCGTCCTTCC 59.193 50.000 0.00 0.00 0.00 3.46
788 2374 2.289506 GCTAGGGTTTCTCTTTCACCGT 60.290 50.000 0.00 0.00 33.34 4.83
789 2375 2.028020 AGCTAGGGTTTCTCTTTCACCG 60.028 50.000 0.00 0.00 0.00 4.94
790 2376 3.339141 CAGCTAGGGTTTCTCTTTCACC 58.661 50.000 0.00 0.00 0.00 4.02
791 2377 2.744741 GCAGCTAGGGTTTCTCTTTCAC 59.255 50.000 0.00 0.00 0.00 3.18
792 2378 2.290323 GGCAGCTAGGGTTTCTCTTTCA 60.290 50.000 0.00 0.00 0.00 2.69
793 2379 2.026729 AGGCAGCTAGGGTTTCTCTTTC 60.027 50.000 0.00 0.00 0.00 2.62
794 2380 1.988846 AGGCAGCTAGGGTTTCTCTTT 59.011 47.619 0.00 0.00 0.00 2.52
795 2381 1.280421 CAGGCAGCTAGGGTTTCTCTT 59.720 52.381 0.00 0.00 0.00 2.85
796 2382 0.908198 CAGGCAGCTAGGGTTTCTCT 59.092 55.000 0.00 0.00 0.00 3.10
797 2383 0.905357 TCAGGCAGCTAGGGTTTCTC 59.095 55.000 0.00 0.00 0.00 2.87
800 2386 0.547712 TCCTCAGGCAGCTAGGGTTT 60.548 55.000 0.00 0.00 0.00 3.27
810 2396 4.087892 GCGCTCCTTCCTCAGGCA 62.088 66.667 0.00 0.00 43.55 4.75
835 2421 3.118482 TCAGGCAGCTAGAATTCCTTGAG 60.118 47.826 0.65 0.00 0.00 3.02
836 2422 2.840038 TCAGGCAGCTAGAATTCCTTGA 59.160 45.455 0.65 0.00 0.00 3.02
837 2423 3.204526 CTCAGGCAGCTAGAATTCCTTG 58.795 50.000 0.65 0.00 0.00 3.61
838 2424 2.172293 CCTCAGGCAGCTAGAATTCCTT 59.828 50.000 0.65 0.00 0.00 3.36
839 2425 1.767681 CCTCAGGCAGCTAGAATTCCT 59.232 52.381 0.65 0.00 0.00 3.36
840 2426 1.765314 TCCTCAGGCAGCTAGAATTCC 59.235 52.381 0.65 0.00 0.00 3.01
841 2427 3.133721 TCTTCCTCAGGCAGCTAGAATTC 59.866 47.826 0.00 0.00 0.00 2.17
842 2428 3.110705 TCTTCCTCAGGCAGCTAGAATT 58.889 45.455 0.00 0.00 0.00 2.17
843 2429 2.756907 TCTTCCTCAGGCAGCTAGAAT 58.243 47.619 0.00 0.00 0.00 2.40
844 2430 2.238084 TCTTCCTCAGGCAGCTAGAA 57.762 50.000 0.00 0.00 0.00 2.10
845 2431 2.234908 GTTTCTTCCTCAGGCAGCTAGA 59.765 50.000 0.00 0.00 0.00 2.43
846 2432 2.626840 GTTTCTTCCTCAGGCAGCTAG 58.373 52.381 0.00 0.00 0.00 3.42
847 2433 1.066858 CGTTTCTTCCTCAGGCAGCTA 60.067 52.381 0.00 0.00 0.00 3.32
848 2434 0.321122 CGTTTCTTCCTCAGGCAGCT 60.321 55.000 0.00 0.00 0.00 4.24
884 2470 2.414138 CGGTAGGTTTTGGTCACGAATC 59.586 50.000 0.00 0.00 0.00 2.52
885 2471 2.037511 TCGGTAGGTTTTGGTCACGAAT 59.962 45.455 0.00 0.00 0.00 3.34
886 2472 1.411977 TCGGTAGGTTTTGGTCACGAA 59.588 47.619 0.00 0.00 0.00 3.85
887 2473 1.039068 TCGGTAGGTTTTGGTCACGA 58.961 50.000 0.00 0.00 0.00 4.35
888 2474 1.868469 TTCGGTAGGTTTTGGTCACG 58.132 50.000 0.00 0.00 0.00 4.35
889 2475 4.070009 AGATTTCGGTAGGTTTTGGTCAC 58.930 43.478 0.00 0.00 0.00 3.67
890 2476 4.041198 AGAGATTTCGGTAGGTTTTGGTCA 59.959 41.667 0.00 0.00 0.00 4.02
891 2477 4.576879 AGAGATTTCGGTAGGTTTTGGTC 58.423 43.478 0.00 0.00 0.00 4.02
892 2478 4.635699 AGAGATTTCGGTAGGTTTTGGT 57.364 40.909 0.00 0.00 0.00 3.67
895 2481 7.048512 CCAATCTAGAGATTTCGGTAGGTTTT 58.951 38.462 1.90 0.00 42.41 2.43
900 2486 4.833380 TCCCCAATCTAGAGATTTCGGTAG 59.167 45.833 1.90 0.00 42.41 3.18
928 2514 2.388232 ACGAATCACCGCCGCTTTC 61.388 57.895 0.00 0.00 0.00 2.62
929 2515 2.358247 ACGAATCACCGCCGCTTT 60.358 55.556 0.00 0.00 0.00 3.51
930 2516 3.118454 CACGAATCACCGCCGCTT 61.118 61.111 0.00 0.00 0.00 4.68
931 2517 4.063967 TCACGAATCACCGCCGCT 62.064 61.111 0.00 0.00 0.00 5.52
952 2538 3.426615 AGGCATAGAGATAAGGACGAGG 58.573 50.000 0.00 0.00 0.00 4.63
964 2550 6.128445 CGGTCTGCAAATAATTAGGCATAGAG 60.128 42.308 8.99 0.65 35.45 2.43
965 2551 5.700832 CGGTCTGCAAATAATTAGGCATAGA 59.299 40.000 8.99 3.33 35.45 1.98
966 2552 5.106555 CCGGTCTGCAAATAATTAGGCATAG 60.107 44.000 8.99 1.47 35.45 2.23
967 2553 4.759693 CCGGTCTGCAAATAATTAGGCATA 59.240 41.667 8.99 1.63 35.45 3.14
968 2554 3.569701 CCGGTCTGCAAATAATTAGGCAT 59.430 43.478 8.99 0.00 35.45 4.40
994 2580 1.815212 CGAACTGCTGCCATCGATCG 61.815 60.000 9.36 9.36 37.48 3.69
1008 2594 2.185350 CTCGCCAGGCATCGAACT 59.815 61.111 13.30 0.00 34.07 3.01
1028 2618 0.460987 CAGCCTTCTACCAAGCCTCG 60.461 60.000 0.00 0.00 0.00 4.63
1029 2619 0.107459 CCAGCCTTCTACCAAGCCTC 60.107 60.000 0.00 0.00 0.00 4.70
1030 2620 1.994463 CCAGCCTTCTACCAAGCCT 59.006 57.895 0.00 0.00 0.00 4.58
1137 2736 1.412079 AACTTTGCTGTTGCCATCCA 58.588 45.000 0.00 0.00 38.71 3.41
1154 2753 8.813643 ATGAGACGGCACTAAGTAATATTAAC 57.186 34.615 0.00 0.00 0.00 2.01
1195 2794 3.262405 TGTAAACGGAGCCTAATGAACCT 59.738 43.478 0.00 0.00 0.00 3.50
1200 2799 2.800544 CGGATGTAAACGGAGCCTAATG 59.199 50.000 0.00 0.00 0.00 1.90
1205 2804 2.178235 GGCGGATGTAAACGGAGCC 61.178 63.158 0.00 0.00 36.08 4.70
1211 2810 2.344025 AGAGAAACGGCGGATGTAAAC 58.656 47.619 13.24 0.00 0.00 2.01
1337 2948 7.258022 TCCACAATACCAAATCAATATCACG 57.742 36.000 0.00 0.00 0.00 4.35
1376 2988 3.139584 TGGTATGGATCGAAGGGAGTAGA 59.860 47.826 0.00 0.00 0.00 2.59
1396 3008 3.189080 TCATTTGTTTGAGCGATGAGTGG 59.811 43.478 0.00 0.00 0.00 4.00
1412 3027 9.429359 GGATGTATCTAGGTGTAGATTCATTTG 57.571 37.037 12.87 0.00 46.16 2.32
1413 3028 8.307483 CGGATGTATCTAGGTGTAGATTCATTT 58.693 37.037 12.87 0.00 46.16 2.32
1414 3029 7.451877 ACGGATGTATCTAGGTGTAGATTCATT 59.548 37.037 12.87 0.24 46.16 2.57
1416 3031 6.304624 ACGGATGTATCTAGGTGTAGATTCA 58.695 40.000 0.41 2.83 42.48 2.57
1417 3032 6.821031 ACGGATGTATCTAGGTGTAGATTC 57.179 41.667 0.41 0.00 42.48 2.52
1418 3033 7.287005 TCAAACGGATGTATCTAGGTGTAGATT 59.713 37.037 0.41 0.00 42.48 2.40
1419 3034 6.776116 TCAAACGGATGTATCTAGGTGTAGAT 59.224 38.462 0.83 0.83 46.14 1.98
1420 3035 6.124340 TCAAACGGATGTATCTAGGTGTAGA 58.876 40.000 0.00 0.00 39.70 2.59
1421 3036 6.387041 TCAAACGGATGTATCTAGGTGTAG 57.613 41.667 0.00 0.00 0.00 2.74
1422 3037 5.221185 GCTCAAACGGATGTATCTAGGTGTA 60.221 44.000 0.00 0.00 0.00 2.90
1423 3038 4.441634 GCTCAAACGGATGTATCTAGGTGT 60.442 45.833 0.00 0.00 0.00 4.16
1424 3039 4.051922 GCTCAAACGGATGTATCTAGGTG 58.948 47.826 0.00 0.00 0.00 4.00
1425 3040 3.243434 CGCTCAAACGGATGTATCTAGGT 60.243 47.826 0.00 0.00 0.00 3.08
1426 3041 3.004419 TCGCTCAAACGGATGTATCTAGG 59.996 47.826 0.00 0.00 0.00 3.02
1427 3042 4.224715 TCGCTCAAACGGATGTATCTAG 57.775 45.455 0.00 0.00 0.00 2.43
1428 3043 4.848562 ATCGCTCAAACGGATGTATCTA 57.151 40.909 0.00 0.00 0.00 1.98
1429 3044 3.735237 ATCGCTCAAACGGATGTATCT 57.265 42.857 0.00 0.00 0.00 1.98
1430 3045 4.982916 ACTTATCGCTCAAACGGATGTATC 59.017 41.667 0.00 0.00 0.00 2.24
1431 3046 4.945246 ACTTATCGCTCAAACGGATGTAT 58.055 39.130 0.00 0.00 0.00 2.29
1432 3047 4.380841 ACTTATCGCTCAAACGGATGTA 57.619 40.909 0.00 0.00 0.00 2.29
1433 3048 3.247006 ACTTATCGCTCAAACGGATGT 57.753 42.857 0.00 0.00 0.00 3.06
1434 3049 5.907197 ATTACTTATCGCTCAAACGGATG 57.093 39.130 0.00 0.00 0.00 3.51
1435 3050 6.590292 CCATATTACTTATCGCTCAAACGGAT 59.410 38.462 0.00 0.00 0.00 4.18
1436 3051 5.924254 CCATATTACTTATCGCTCAAACGGA 59.076 40.000 0.00 0.00 0.00 4.69
1437 3052 5.924254 TCCATATTACTTATCGCTCAAACGG 59.076 40.000 0.00 0.00 0.00 4.44
1438 3053 7.461546 CGATCCATATTACTTATCGCTCAAACG 60.462 40.741 0.00 0.00 33.84 3.60
1450 3065 9.716556 ATATACTCCCTTCGATCCATATTACTT 57.283 33.333 0.00 0.00 0.00 2.24
1454 3069 9.661954 ACATATATACTCCCTTCGATCCATATT 57.338 33.333 0.00 0.00 0.00 1.28
1483 3098 9.781834 CTTCGCATATAAGGTTTGTTTGAAATA 57.218 29.630 0.00 0.00 0.00 1.40
1496 3111 7.217447 CCGTTTGTTTTTACTTCGCATATAAGG 59.783 37.037 0.00 0.00 0.00 2.69
1505 3120 5.159399 TCCTTCCGTTTGTTTTTACTTCG 57.841 39.130 0.00 0.00 0.00 3.79
1518 3133 5.015515 AGCTAAGTAAGTACTCCTTCCGTT 58.984 41.667 10.18 1.51 34.99 4.44
1552 3167 9.529823 AATTATGATGATGCCAATTGATCTAGT 57.470 29.630 7.12 0.00 0.00 2.57
1597 3247 4.030216 TCAGGACAGTATGGTTATGCTCA 58.970 43.478 0.00 0.00 43.62 4.26
1606 3256 4.948847 TCGAATCAATCAGGACAGTATGG 58.051 43.478 0.00 0.00 43.62 2.74
1611 3261 2.897436 TGCTCGAATCAATCAGGACAG 58.103 47.619 0.00 0.00 0.00 3.51
1613 3263 5.698089 TCATTATGCTCGAATCAATCAGGAC 59.302 40.000 0.00 0.00 0.00 3.85
1614 3264 5.698089 GTCATTATGCTCGAATCAATCAGGA 59.302 40.000 0.00 0.00 0.00 3.86
1615 3265 5.699915 AGTCATTATGCTCGAATCAATCAGG 59.300 40.000 0.00 0.00 0.00 3.86
1616 3266 6.782298 AGTCATTATGCTCGAATCAATCAG 57.218 37.500 0.00 0.00 0.00 2.90
1618 3268 8.847444 AAAAAGTCATTATGCTCGAATCAATC 57.153 30.769 0.00 0.00 0.00 2.67
1620 3270 8.946085 AGTAAAAAGTCATTATGCTCGAATCAA 58.054 29.630 0.00 0.00 0.00 2.57
1621 3271 8.492673 AGTAAAAAGTCATTATGCTCGAATCA 57.507 30.769 0.00 0.00 0.00 2.57
1622 3272 8.604035 TGAGTAAAAAGTCATTATGCTCGAATC 58.396 33.333 0.00 0.00 0.00 2.52
1623 3273 8.492673 TGAGTAAAAAGTCATTATGCTCGAAT 57.507 30.769 0.00 0.00 0.00 3.34
1624 3274 7.899178 TGAGTAAAAAGTCATTATGCTCGAA 57.101 32.000 0.00 0.00 0.00 3.71
1625 3275 7.224753 GGATGAGTAAAAAGTCATTATGCTCGA 59.775 37.037 0.00 0.00 33.43 4.04
1652 3308 6.475402 GTGTTGCAGTTAACAGTTTGCTAAAT 59.525 34.615 15.88 0.00 40.89 1.40
1669 3325 2.842208 TCGAACCTTTTGTGTTGCAG 57.158 45.000 0.00 0.00 0.00 4.41
1680 3336 3.003689 CAGAACAGCAAACATCGAACCTT 59.996 43.478 0.00 0.00 0.00 3.50
1700 3356 7.052873 GTGGAGGGGATGATTCAATATATCAG 58.947 42.308 0.00 0.00 35.63 2.90
1723 3379 4.051922 GCTAATCCATCAGTTCTACCGTG 58.948 47.826 0.00 0.00 0.00 4.94
1724 3380 3.243434 CGCTAATCCATCAGTTCTACCGT 60.243 47.826 0.00 0.00 0.00 4.83
1726 3382 3.060602 GCGCTAATCCATCAGTTCTACC 58.939 50.000 0.00 0.00 0.00 3.18
1886 3604 8.871125 AGGATACCATACTAACTGTCAATTAGG 58.129 37.037 6.06 0.00 33.47 2.69
1889 3607 8.993424 AGAAGGATACCATACTAACTGTCAATT 58.007 33.333 0.00 0.00 37.17 2.32
1890 3608 8.554490 AGAAGGATACCATACTAACTGTCAAT 57.446 34.615 0.00 0.00 37.17 2.57
1891 3609 7.973048 AGAAGGATACCATACTAACTGTCAA 57.027 36.000 0.00 0.00 37.17 3.18
1892 3610 7.973048 AAGAAGGATACCATACTAACTGTCA 57.027 36.000 0.00 0.00 37.17 3.58
1982 3700 8.685427 CATCCTGGATTGATACACACAAATAAA 58.315 33.333 6.42 0.00 0.00 1.40
2005 3727 3.729966 TCTGCTTCATCTCATGAGCATC 58.270 45.455 18.36 4.40 40.21 3.91
2037 3759 0.178921 ACAGCTCCTCCACCTTCTGA 60.179 55.000 0.00 0.00 0.00 3.27
2218 3960 1.796151 CCTTGTACGCCTGCATGTG 59.204 57.895 0.58 0.58 0.00 3.21
2269 4011 1.726853 ACGTCATCTTGGCAGCTAAC 58.273 50.000 0.00 0.00 0.00 2.34
2323 4065 2.567615 GTCCTCTTCTCTGGGCAGTTTA 59.432 50.000 0.00 0.00 0.00 2.01
2377 4119 2.611518 CCTTCTCTGGTCGTTGATGTC 58.388 52.381 0.00 0.00 0.00 3.06
2509 4251 5.178623 CCTTGCACAATTTGTTCGAGTACTA 59.821 40.000 13.26 0.00 0.00 1.82
2538 4280 5.129320 ACATGATACAATGTAGCAGAGACCA 59.871 40.000 16.57 0.00 39.01 4.02
2873 4744 1.139095 GGACGAACTACTGCCTCCG 59.861 63.158 0.00 0.00 0.00 4.63
2874 4745 0.824759 ATGGACGAACTACTGCCTCC 59.175 55.000 0.00 0.00 0.00 4.30
2877 4748 1.204941 AGACATGGACGAACTACTGCC 59.795 52.381 0.00 0.00 0.00 4.85
2894 4765 5.180680 GGTACAGTCATAACCCAACAAAGAC 59.819 44.000 0.00 0.00 0.00 3.01
2899 4770 3.555377 CGTGGTACAGTCATAACCCAACA 60.555 47.826 0.00 0.00 41.80 3.33
2901 4772 2.633967 ACGTGGTACAGTCATAACCCAA 59.366 45.455 0.00 0.00 41.80 4.12
3248 5212 3.342627 CGGTCAAACGCGCTTCCA 61.343 61.111 5.73 0.00 0.00 3.53
3249 5213 3.039588 TCGGTCAAACGCGCTTCC 61.040 61.111 5.73 0.00 0.00 3.46
3274 5238 3.200593 CCACGCTGGCAGCTGATC 61.201 66.667 34.17 9.32 39.60 2.92
3287 5251 2.860293 CGTTTACTGGCTGCCACG 59.140 61.111 19.30 15.70 0.00 4.94
3297 5261 2.510691 CGGATGGGCGCGTTTACT 60.511 61.111 8.43 0.00 0.00 2.24
3298 5262 3.569690 CCGGATGGGCGCGTTTAC 61.570 66.667 8.43 0.00 0.00 2.01
3333 5297 5.450376 CACGCTGAATTATCTAACGTGTT 57.550 39.130 0.00 0.00 39.60 3.32
3340 5304 9.764363 AAATTATCTGACACGCTGAATTATCTA 57.236 29.630 0.00 0.00 0.00 1.98
3367 5331 6.349300 ACTTTCTATGATTGTGGATAACGCT 58.651 36.000 0.00 0.00 0.00 5.07


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

AutoCloner maintained by Alex Coulton.