Multiple sequence alignment - TraesCS6D01G382800

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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 TraesCS6D01G382800 chr6D 100.000 9672 0 0 1 9672 462316119 462325790 0.000000e+00 17861.0
1 TraesCS6D01G382800 chr6D 82.883 2220 268 67 1981 4127 460568553 460570733 0.000000e+00 1892.0
2 TraesCS6D01G382800 chr6D 91.121 687 26 6 1 653 144603943 144603258 0.000000e+00 898.0
3 TraesCS6D01G382800 chr6D 81.171 871 114 32 5108 5966 460571574 460572406 0.000000e+00 654.0
4 TraesCS6D01G382800 chr6D 85.330 409 43 7 8473 8869 449386899 449386496 3.250000e-109 407.0
5 TraesCS6D01G382800 chr6D 76.607 731 101 46 1121 1825 460567747 460568433 1.200000e-88 339.0
6 TraesCS6D01G382800 chr6B 95.032 7608 283 49 2118 9672 704789686 704797251 0.000000e+00 11867.0
7 TraesCS6D01G382800 chr6B 82.244 2264 323 56 1982 4206 701656064 701658287 0.000000e+00 1881.0
8 TraesCS6D01G382800 chr6B 84.349 1559 114 51 649 2116 704788112 704789631 0.000000e+00 1408.0
9 TraesCS6D01G382800 chr6B 80.866 878 121 27 5099 5966 701659470 701660310 0.000000e+00 647.0
10 TraesCS6D01G382800 chr6B 76.047 764 107 47 1092 1825 701655260 701655977 2.600000e-85 327.0
11 TraesCS6D01G382800 chr6A 89.098 2449 202 34 1939 4367 609138622 609141025 0.000000e+00 2983.0
12 TraesCS6D01G382800 chr6A 82.601 2184 290 54 1982 4127 606762321 606764452 0.000000e+00 1845.0
13 TraesCS6D01G382800 chr6A 88.816 1225 59 33 649 1829 609137026 609138216 0.000000e+00 1432.0
14 TraesCS6D01G382800 chr6A 84.398 1096 151 13 4626 5709 609141084 609142171 0.000000e+00 1059.0
15 TraesCS6D01G382800 chr6A 83.315 917 120 27 5706 6609 609142634 609143530 0.000000e+00 815.0
16 TraesCS6D01G382800 chr6A 80.730 877 123 28 5099 5966 606765283 606766122 8.190000e-180 641.0
17 TraesCS6D01G382800 chr6A 86.967 399 34 4 256 641 518632237 518632630 5.370000e-117 433.0
18 TraesCS6D01G382800 chr6A 77.366 729 96 40 1121 1825 606761551 606762234 1.530000e-97 368.0
19 TraesCS6D01G382800 chr7D 94.153 667 24 8 1 653 605537073 605537738 0.000000e+00 1002.0
20 TraesCS6D01G382800 chr7D 92.444 675 26 6 1 653 422347282 422346611 0.000000e+00 941.0
21 TraesCS6D01G382800 chr5D 93.041 661 38 5 1 653 415245149 415244489 0.000000e+00 959.0
22 TraesCS6D01G382800 chr4D 92.204 667 37 8 1 653 55060341 55059676 0.000000e+00 929.0
23 TraesCS6D01G382800 chr4D 91.108 686 28 5 1 653 69135918 69135233 0.000000e+00 898.0
24 TraesCS6D01G382800 chr4D 88.889 90 10 0 8473 8562 354587427 354587516 2.860000e-20 111.0
25 TraesCS6D01G382800 chr1D 92.180 665 40 7 1 653 450063557 450062893 0.000000e+00 929.0
26 TraesCS6D01G382800 chr1D 85.012 427 37 6 8473 8875 254532784 254533207 9.040000e-110 409.0
27 TraesCS6D01G382800 chr1D 82.927 82 13 1 7479 7559 473783837 473783756 1.350000e-08 73.1
28 TraesCS6D01G382800 chr1D 85.714 56 6 2 7501 7554 371119071 371119016 3.770000e-04 58.4
29 TraesCS6D01G382800 chr5B 91.716 676 26 7 1 653 302059364 302058696 0.000000e+00 911.0
30 TraesCS6D01G382800 chr5B 92.857 42 3 0 7515 7556 408459116 408459075 2.920000e-05 62.1
31 TraesCS6D01G382800 chr3D 91.729 665 42 8 1 653 32435082 32435745 0.000000e+00 911.0
32 TraesCS6D01G382800 chr3D 81.982 111 11 9 7483 7590 151070843 151070947 1.730000e-12 86.1
33 TraesCS6D01G382800 chr3D 85.714 56 4 4 7493 7545 562501966 562501912 1.000000e-03 56.5
34 TraesCS6D01G382800 chr2D 91.579 665 44 7 1 653 72687719 72687055 0.000000e+00 907.0
35 TraesCS6D01G382800 chr3B 91.259 675 34 10 1 653 821156507 821157178 0.000000e+00 896.0
36 TraesCS6D01G382800 chr3B 89.583 48 2 3 8228 8274 30588518 30588473 3.770000e-04 58.4
37 TraesCS6D01G382800 chr4A 90.962 686 21 11 1 653 631640713 631641390 0.000000e+00 885.0
38 TraesCS6D01G382800 chr4A 89.776 626 56 7 1 622 155277358 155277979 0.000000e+00 795.0
39 TraesCS6D01G382800 chr4A 100.000 28 0 0 1276 1303 669239132 669239105 1.800000e-02 52.8
40 TraesCS6D01G382800 chr7B 89.451 692 30 9 1 653 605109764 605109077 0.000000e+00 833.0
41 TraesCS6D01G382800 chr7B 95.679 486 18 1 1 483 63566291 63566776 0.000000e+00 778.0
42 TraesCS6D01G382800 chrUn 85.246 427 36 6 8473 8875 351214802 351214379 1.940000e-111 414.0
43 TraesCS6D01G382800 chrUn 85.246 427 36 6 8473 8875 363863348 363862925 1.940000e-111 414.0
44 TraesCS6D01G382800 chrUn 85.036 421 36 6 8473 8869 354743625 354743208 4.210000e-108 403.0
45 TraesCS6D01G382800 chr4B 83.732 209 15 3 8473 8662 151526634 151526842 7.720000e-41 180.0
46 TraesCS6D01G382800 chr4B 81.714 175 13 3 8473 8628 151526122 151526296 2.840000e-25 128.0
47 TraesCS6D01G382800 chr2B 90.000 110 6 3 8767 8875 21945462 21945357 4.710000e-28 137.0
48 TraesCS6D01G382800 chr2B 87.273 55 5 2 7500 7554 793699501 793699449 2.920000e-05 62.1
49 TraesCS6D01G382800 chr3A 78.226 124 18 8 7441 7558 180235583 180235463 4.850000e-08 71.3
50 TraesCS6D01G382800 chr3A 86.207 58 7 1 7500 7556 118590446 118590503 2.920000e-05 62.1


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 TraesCS6D01G382800 chr6D 462316119 462325790 9671 False 17861.000000 17861 100.000000 1 9672 1 chr6D.!!$F1 9671
1 TraesCS6D01G382800 chr6D 460567747 460572406 4659 False 961.666667 1892 80.220333 1121 5966 3 chr6D.!!$F2 4845
2 TraesCS6D01G382800 chr6D 144603258 144603943 685 True 898.000000 898 91.121000 1 653 1 chr6D.!!$R1 652
3 TraesCS6D01G382800 chr6B 704788112 704797251 9139 False 6637.500000 11867 89.690500 649 9672 2 chr6B.!!$F2 9023
4 TraesCS6D01G382800 chr6B 701655260 701660310 5050 False 951.666667 1881 79.719000 1092 5966 3 chr6B.!!$F1 4874
5 TraesCS6D01G382800 chr6A 609137026 609143530 6504 False 1572.250000 2983 86.406750 649 6609 4 chr6A.!!$F3 5960
6 TraesCS6D01G382800 chr6A 606761551 606766122 4571 False 951.333333 1845 80.232333 1121 5966 3 chr6A.!!$F2 4845
7 TraesCS6D01G382800 chr7D 605537073 605537738 665 False 1002.000000 1002 94.153000 1 653 1 chr7D.!!$F1 652
8 TraesCS6D01G382800 chr7D 422346611 422347282 671 True 941.000000 941 92.444000 1 653 1 chr7D.!!$R1 652
9 TraesCS6D01G382800 chr5D 415244489 415245149 660 True 959.000000 959 93.041000 1 653 1 chr5D.!!$R1 652
10 TraesCS6D01G382800 chr4D 55059676 55060341 665 True 929.000000 929 92.204000 1 653 1 chr4D.!!$R1 652
11 TraesCS6D01G382800 chr4D 69135233 69135918 685 True 898.000000 898 91.108000 1 653 1 chr4D.!!$R2 652
12 TraesCS6D01G382800 chr1D 450062893 450063557 664 True 929.000000 929 92.180000 1 653 1 chr1D.!!$R2 652
13 TraesCS6D01G382800 chr5B 302058696 302059364 668 True 911.000000 911 91.716000 1 653 1 chr5B.!!$R1 652
14 TraesCS6D01G382800 chr3D 32435082 32435745 663 False 911.000000 911 91.729000 1 653 1 chr3D.!!$F1 652
15 TraesCS6D01G382800 chr2D 72687055 72687719 664 True 907.000000 907 91.579000 1 653 1 chr2D.!!$R1 652
16 TraesCS6D01G382800 chr3B 821156507 821157178 671 False 896.000000 896 91.259000 1 653 1 chr3B.!!$F1 652
17 TraesCS6D01G382800 chr4A 631640713 631641390 677 False 885.000000 885 90.962000 1 653 1 chr4A.!!$F2 652
18 TraesCS6D01G382800 chr4A 155277358 155277979 621 False 795.000000 795 89.776000 1 622 1 chr4A.!!$F1 621
19 TraesCS6D01G382800 chr7B 605109077 605109764 687 True 833.000000 833 89.451000 1 653 1 chr7B.!!$R1 652

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
854 965 0.447801 GCGTGAATCACCATCACCAC 59.552 55.000 7.91 0.00 43.34 4.16 F
1665 1846 0.320421 GGTGAGCACGCCACTAAAGA 60.320 55.000 9.03 0.00 45.14 2.52 F
2269 2879 0.884704 GCGAGAAGTTGGACAAGGCA 60.885 55.000 0.00 0.00 0.00 4.75 F
2592 3207 0.964358 GGAAAGACGTCTCCCCTCGA 60.964 60.000 20.33 0.00 0.00 4.04 F
2670 3285 1.211949 TCTACATGCAAGGTAAGCCCC 59.788 52.381 0.00 0.00 30.07 5.80 F
2686 3301 4.779993 AGCCCCTTCTTATACTTTGAGG 57.220 45.455 0.00 0.00 0.00 3.86 F
4655 5903 4.637387 ATTGCCTTCATGGGAGAGATAG 57.363 45.455 0.00 0.00 37.50 2.08 F
6153 8009 2.507992 CGAGAAGGCAGGCTGTCG 60.508 66.667 17.16 12.94 0.00 4.35 F
6504 8364 1.064166 CCAATCCCAATCAGAGCTGGT 60.064 52.381 0.00 0.00 0.00 4.00 F
8181 10058 1.077716 GTGAGCCGGCCCAGTTAAT 60.078 57.895 26.15 0.00 0.00 1.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1885 2322 0.512952 AGAAAGTTGTGCGTCGATGC 59.487 50.000 22.77 22.77 0.00 3.91 R
2592 3207 3.308473 GGGCTTCATTAACCTTCCTCTGT 60.308 47.826 0.00 0.00 0.00 3.41 R
3762 4412 3.469008 TCTGCAAAAGACCGAGAAAGA 57.531 42.857 0.00 0.00 0.00 2.52 R
4498 5746 3.516700 CCTTCCTACGTCCTAAAAAGGGA 59.483 47.826 0.00 0.00 0.00 4.20 R
4557 5805 6.449448 GTACAGTTGTACTAAAGCAGTGAC 57.551 41.667 13.72 0.00 45.47 3.67 R
4786 6066 7.373493 CCTGTAGTTCGTACTCCTTTAGAAAA 58.627 38.462 0.00 0.00 35.78 2.29 R
6443 8303 1.028905 TCCACAAACCGCTTTCAAGG 58.971 50.000 0.00 0.00 0.00 3.61 R
7171 9035 0.462047 AATCATGTCCGGTCGCCTTC 60.462 55.000 0.00 0.00 0.00 3.46 R
8405 10282 0.526662 GAGACATCGACGGGTTCTGT 59.473 55.000 0.00 0.00 0.00 3.41 R
9610 11497 2.592861 GCCCATTGCGGCTCTAGG 60.593 66.667 0.00 0.00 46.10 3.02 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
339 354 3.417224 CGACCTCACCGACGACGA 61.417 66.667 9.28 0.00 42.66 4.20
459 511 4.966787 GGTGGACTTTGGCCGGCA 62.967 66.667 30.85 12.04 0.00 5.69
699 781 1.930817 GCGTATATGTCGGCTCTGGTG 60.931 57.143 0.00 0.00 0.00 4.17
700 782 1.335964 CGTATATGTCGGCTCTGGTGG 60.336 57.143 0.00 0.00 0.00 4.61
701 783 1.687123 GTATATGTCGGCTCTGGTGGT 59.313 52.381 0.00 0.00 0.00 4.16
785 896 1.143073 GTCAACTATCCATGGTCCCCC 59.857 57.143 12.58 0.00 0.00 5.40
854 965 0.447801 GCGTGAATCACCATCACCAC 59.552 55.000 7.91 0.00 43.34 4.16
855 966 1.945819 GCGTGAATCACCATCACCACT 60.946 52.381 7.91 0.00 43.34 4.00
856 967 2.426522 CGTGAATCACCATCACCACTT 58.573 47.619 7.91 0.00 43.34 3.16
857 968 2.416547 CGTGAATCACCATCACCACTTC 59.583 50.000 7.91 0.00 43.34 3.01
858 969 3.411446 GTGAATCACCATCACCACTTCA 58.589 45.455 1.10 0.00 41.02 3.02
859 970 3.189287 GTGAATCACCATCACCACTTCAC 59.811 47.826 1.10 0.00 41.02 3.18
860 971 2.496899 ATCACCATCACCACTTCACC 57.503 50.000 0.00 0.00 0.00 4.02
861 972 1.135960 TCACCATCACCACTTCACCA 58.864 50.000 0.00 0.00 0.00 4.17
954 1068 1.132232 GTCGTGGTCGTCTCGTCTC 59.868 63.158 0.00 0.00 38.33 3.36
955 1069 2.031516 TCGTGGTCGTCTCGTCTCC 61.032 63.158 0.00 0.00 38.33 3.71
961 1075 1.371595 GTCGTCTCGTCTCCTTAGCT 58.628 55.000 0.00 0.00 0.00 3.32
965 1079 2.085320 GTCTCGTCTCCTTAGCTCACA 58.915 52.381 0.00 0.00 0.00 3.58
992 1116 6.295802 CCACTCATCCTTTCTTCTCTTCTCTT 60.296 42.308 0.00 0.00 0.00 2.85
999 1123 5.480073 CCTTTCTTCTCTTCTCTTCTCTCCA 59.520 44.000 0.00 0.00 0.00 3.86
1304 1432 2.636412 CCTCTGGCGAGTTCACCGA 61.636 63.158 0.00 0.00 35.43 4.69
1305 1433 1.513158 CTCTGGCGAGTTCACCGAT 59.487 57.895 0.00 0.00 32.47 4.18
1312 1440 1.413767 CGAGTTCACCGATCAAGGCG 61.414 60.000 0.00 0.00 33.69 5.52
1314 1442 1.741770 GTTCACCGATCAAGGCGCT 60.742 57.895 7.64 0.00 33.69 5.92
1319 1447 2.436646 CGATCAAGGCGCTGGGTT 60.437 61.111 7.64 0.00 0.00 4.11
1351 1486 4.008330 AGTCGAATTCCTTGTCGTCTCTA 58.992 43.478 0.00 0.00 38.41 2.43
1427 1575 5.132502 TCTTTTCTTGTTCAGATGGCTTGA 58.867 37.500 0.00 0.00 0.00 3.02
1430 1578 6.409524 TTTCTTGTTCAGATGGCTTGAATT 57.590 33.333 3.69 0.00 0.00 2.17
1431 1579 5.381174 TCTTGTTCAGATGGCTTGAATTG 57.619 39.130 3.69 0.00 0.00 2.32
1432 1580 3.581024 TGTTCAGATGGCTTGAATTGC 57.419 42.857 3.69 0.00 0.00 3.56
1439 1611 5.653330 TCAGATGGCTTGAATTGCAAATCTA 59.347 36.000 15.28 7.23 35.25 1.98
1440 1612 6.322969 TCAGATGGCTTGAATTGCAAATCTAT 59.677 34.615 15.28 3.08 35.25 1.98
1505 1680 2.045536 GCTGGGCTCCTCAAGGTG 60.046 66.667 0.00 0.00 36.34 4.00
1592 1773 2.505982 GCCATCTTCCTGCCGCTA 59.494 61.111 0.00 0.00 0.00 4.26
1665 1846 0.320421 GGTGAGCACGCCACTAAAGA 60.320 55.000 9.03 0.00 45.14 2.52
1692 1874 5.333798 GCGAATTGCTTAACACTAACAGTGA 60.334 40.000 13.03 0.00 44.22 3.41
1775 1966 4.265893 TCGTCTCTGATCCAGATATAGCC 58.734 47.826 0.00 0.00 39.92 3.93
1869 2306 3.375699 TCAAGAAGAGGGTATGACTCCC 58.624 50.000 0.00 0.00 44.90 4.30
1885 2322 2.139484 CCCAGCCTCTAGCCCTCTG 61.139 68.421 0.00 0.00 45.47 3.35
1893 2330 1.007964 CTAGCCCTCTGCATCGACG 60.008 63.158 0.00 0.00 44.83 5.12
1935 2422 9.944663 TTGCAAAGTTTATGTAGTTACTTTCAG 57.055 29.630 0.00 0.00 38.41 3.02
2097 2644 3.860125 CGGCGTGCCATTGTACCG 61.860 66.667 12.06 0.00 35.37 4.02
2150 2752 7.259290 ACTCACTATTAAGGTTTTGTGTGTG 57.741 36.000 0.00 0.00 33.10 3.82
2269 2879 0.884704 GCGAGAAGTTGGACAAGGCA 60.885 55.000 0.00 0.00 0.00 4.75
2405 3015 3.788227 TGGTTGAGGTTATTGCTCAGT 57.212 42.857 0.00 0.00 0.00 3.41
2406 3016 4.098914 TGGTTGAGGTTATTGCTCAGTT 57.901 40.909 0.00 0.00 0.00 3.16
2456 3070 7.481275 TGAAATTTCATTTGCTTGTCTTTCC 57.519 32.000 16.91 0.00 31.47 3.13
2465 3079 6.767524 TTTGCTTGTCTTTCCTTTTCTGTA 57.232 33.333 0.00 0.00 0.00 2.74
2468 3082 6.795399 TGCTTGTCTTTCCTTTTCTGTAAAG 58.205 36.000 0.30 0.30 42.41 1.85
2489 3104 5.366829 AGTTTAGTATTCGGTTTGTTGGC 57.633 39.130 0.00 0.00 0.00 4.52
2581 3196 5.825679 TGGAAAATACCCATATGGAAAGACG 59.174 40.000 24.00 7.59 37.39 4.18
2592 3207 0.964358 GGAAAGACGTCTCCCCTCGA 60.964 60.000 20.33 0.00 0.00 4.04
2613 3228 3.942115 GACAGAGGAAGGTTAATGAAGCC 59.058 47.826 0.00 0.00 33.30 4.35
2670 3285 1.211949 TCTACATGCAAGGTAAGCCCC 59.788 52.381 0.00 0.00 30.07 5.80
2685 3300 6.056236 GGTAAGCCCCTTCTTATACTTTGAG 58.944 44.000 0.00 0.00 31.92 3.02
2686 3301 4.779993 AGCCCCTTCTTATACTTTGAGG 57.220 45.455 0.00 0.00 0.00 3.86
2709 3331 7.200455 AGGTTAGCAATTGTTGTGTTTAGAAC 58.800 34.615 7.40 0.00 0.00 3.01
2732 3354 6.146760 ACAATCATGACCCTAAGACTCCTAT 58.853 40.000 0.00 0.00 0.00 2.57
2789 3411 9.736414 AGTTTCATGAGGAATATATGAATGAGG 57.264 33.333 0.00 0.00 39.67 3.86
2853 3475 8.743714 AGAAGATGTATGACGATATAGATGCAA 58.256 33.333 0.00 0.00 0.00 4.08
3337 3965 5.964477 TGATGTTCTAGGAGATGGTTTACCT 59.036 40.000 0.00 0.00 36.82 3.08
3346 3974 7.027874 AGGAGATGGTTTACCTACAATTGAA 57.972 36.000 13.59 0.00 36.82 2.69
3364 3992 9.736023 ACAATTGAAGATGTGAAGAAACTAAAC 57.264 29.630 13.59 0.00 0.00 2.01
3762 4412 6.742644 GCATATTAGCATGGAGTGTTCCTACT 60.743 42.308 0.00 0.00 44.36 2.57
3802 4452 7.656412 TGCAGACTATTTTGCTCAACATTTTA 58.344 30.769 0.00 0.00 40.87 1.52
3871 4523 6.799926 AATTGTTGTTATTGTTGGGCATTC 57.200 33.333 0.00 0.00 0.00 2.67
4333 5579 7.885297 ACATATTTTGTGACTATGTTGTTGCT 58.115 30.769 0.00 0.00 37.11 3.91
4367 5613 8.751335 GTGTCGTGAAAAATATTCACACAAATT 58.249 29.630 18.24 0.00 46.70 1.82
4376 5622 9.480053 AAAATATTCACACAAATTCCTTCACAG 57.520 29.630 0.00 0.00 0.00 3.66
4391 5637 7.490657 TCCTTCACAGTAACCATTACATACT 57.509 36.000 1.84 0.00 38.60 2.12
4557 5805 6.573434 TCCCTTCGATCCATATTAATCATCG 58.427 40.000 10.53 10.53 38.14 3.84
4655 5903 4.637387 ATTGCCTTCATGGGAGAGATAG 57.363 45.455 0.00 0.00 37.50 2.08
4808 6089 8.809159 AACTTTTCTAAAGGAGTACGAACTAC 57.191 34.615 4.40 0.00 35.56 2.73
4809 6090 7.945134 ACTTTTCTAAAGGAGTACGAACTACA 58.055 34.615 4.40 0.00 39.27 2.74
4853 6134 3.342719 TCTGGCATTTTGAATCGCTACA 58.657 40.909 0.00 0.00 0.00 2.74
4869 6150 5.516090 TCGCTACAAAGGAACAATTTGAAC 58.484 37.500 2.79 0.00 39.50 3.18
5056 6424 9.801873 ACACCATTATTGCAATAAAGTTGATAC 57.198 29.630 30.12 0.00 34.79 2.24
5457 6838 9.717892 GCCTTCTTCTTTTTCTATATTTTACCG 57.282 33.333 0.00 0.00 0.00 4.02
6060 7914 3.559238 ATGTTTTCGTGCATCCACTTC 57.441 42.857 0.00 0.00 39.86 3.01
6125 7981 8.217131 ACCTTCTCTAAAAATACGTTGTTTGT 57.783 30.769 0.00 0.00 0.00 2.83
6153 8009 2.507992 CGAGAAGGCAGGCTGTCG 60.508 66.667 17.16 12.94 0.00 4.35
6287 8146 9.107177 TGCATTCAGTGTTTCACATTTTTAATT 57.893 25.926 2.80 0.00 36.74 1.40
6339 8198 6.942576 AGAGAGCTGAAATTTTAACAAGCCTA 59.057 34.615 0.00 0.00 0.00 3.93
6504 8364 1.064166 CCAATCCCAATCAGAGCTGGT 60.064 52.381 0.00 0.00 0.00 4.00
6586 8446 6.148150 TGGTTGTTCGATGTTATTTACCAGTC 59.852 38.462 0.00 0.00 0.00 3.51
6865 8729 1.871408 GCTCGATGCATTCACGGAGAT 60.871 52.381 0.00 0.00 42.31 2.75
6875 8739 5.163764 TGCATTCACGGAGATATTTGTTGAC 60.164 40.000 0.00 0.00 0.00 3.18
6889 8753 5.437289 TTTGTTGACATCAATGAGACCAC 57.563 39.130 0.00 0.00 38.24 4.16
6986 8850 4.315803 ACCCTTGTGAACGACAAATAGAG 58.684 43.478 0.00 0.00 44.14 2.43
7010 8874 3.245990 TCGACGCATGCTTGATCTAAATG 59.754 43.478 17.13 0.00 0.00 2.32
7088 8952 1.366319 AGGTCTGTCAGCCCAAGAAT 58.634 50.000 2.14 0.00 0.00 2.40
7101 8965 3.588955 CCCAAGAATTTTTGCCTGCTAC 58.411 45.455 3.20 0.00 0.00 3.58
7118 8982 6.397272 CCTGCTACAAGGCATGAAATAAAAA 58.603 36.000 0.00 0.00 41.63 1.94
7119 8983 6.311200 CCTGCTACAAGGCATGAAATAAAAAC 59.689 38.462 0.00 0.00 41.63 2.43
7126 8990 9.341078 ACAAGGCATGAAATAAAAACAAAAGAT 57.659 25.926 0.00 0.00 0.00 2.40
7165 9029 3.842925 TTTGGCACAGGACCGGAGC 62.843 63.158 9.46 5.50 42.39 4.70
7232 9096 2.194212 GCAGGCTCGTCTATCGGGA 61.194 63.158 0.00 0.00 43.64 5.14
7258 9122 4.859798 GCTATGTATCGCCTAATGTGAGAC 59.140 45.833 0.00 0.00 44.14 3.36
7302 9166 1.612950 TGAACGCTAGTAAACCGGTCA 59.387 47.619 8.04 3.68 45.24 4.02
7349 9213 4.287552 ACAATCTTCTATGGACCGGTACT 58.712 43.478 19.95 6.17 0.00 2.73
7402 9268 9.930693 TTTTTGTGTGTTTTCTTTAATGGTACT 57.069 25.926 0.00 0.00 0.00 2.73
7460 9326 8.765044 AAATGTTTTTCAAATACATGCAAACG 57.235 26.923 6.94 0.00 33.10 3.60
7510 9376 8.842280 TCTTTCGTATACAGGTTGAAATTTTGT 58.158 29.630 3.32 0.00 0.00 2.83
7511 9377 9.113876 CTTTCGTATACAGGTTGAAATTTTGTC 57.886 33.333 3.32 0.00 0.00 3.18
7615 9481 6.037720 TGTGAACATTCTTTTGACGTACATGT 59.962 34.615 2.69 2.69 0.00 3.21
7616 9482 6.910433 GTGAACATTCTTTTGACGTACATGTT 59.090 34.615 2.30 3.01 37.50 2.71
7689 9555 9.730420 GTCAAGTGTTACAGTAATGAATGTTTT 57.270 29.630 0.00 0.00 0.00 2.43
7784 9660 6.509837 CGTGAACATTGCATGAACATTGTTTT 60.510 34.615 3.08 0.00 41.62 2.43
7828 9704 3.004002 GGAACCCACGAGAACGAAATTTT 59.996 43.478 0.00 0.00 42.66 1.82
7836 9712 4.156182 CGAGAACGAAATTTTTAGCACCC 58.844 43.478 0.00 0.00 42.66 4.61
7999 9876 2.540931 GACGAAACAAAACCTCGCACTA 59.459 45.455 0.00 0.00 36.03 2.74
8021 9898 7.976175 CACTAAGAAAGAGAAAACAAAAAGGCT 59.024 33.333 0.00 0.00 0.00 4.58
8043 9920 2.669240 GCCGGACCACTAAAGGCT 59.331 61.111 5.05 0.00 44.06 4.58
8054 9931 3.378427 CCACTAAAGGCTATTGTTGAGGC 59.622 47.826 0.00 0.00 39.71 4.70
8101 9978 5.374921 ACCTCCTTCTTCGAGATTCGTATA 58.625 41.667 0.00 0.00 41.35 1.47
8128 10005 1.374125 GTTGCGGCAAATTGACCCC 60.374 57.895 18.23 0.00 0.00 4.95
8130 10007 1.118356 TTGCGGCAAATTGACCCCTT 61.118 50.000 13.93 0.00 0.00 3.95
8139 10016 1.805428 ATTGACCCCTTTGCGCACAC 61.805 55.000 11.12 0.00 0.00 3.82
8140 10017 2.904866 GACCCCTTTGCGCACACA 60.905 61.111 11.12 0.00 0.00 3.72
8152 10029 2.174107 CACACATGGAAGCGCACG 59.826 61.111 11.47 0.00 0.00 5.34
8181 10058 1.077716 GTGAGCCGGCCCAGTTAAT 60.078 57.895 26.15 0.00 0.00 1.40
8184 10061 1.077716 AGCCGGCCCAGTTAATGTC 60.078 57.895 26.15 0.00 0.00 3.06
8196 10073 5.006386 CCAGTTAATGTCTTGCCTCTTTCT 58.994 41.667 0.00 0.00 0.00 2.52
8279 10156 6.415798 ACCGATTTGTTTTTGTTTTTCCAG 57.584 33.333 0.00 0.00 0.00 3.86
8397 10274 5.662657 TGATACTTCTGTCATTCCATCCTCA 59.337 40.000 0.00 0.00 0.00 3.86
8403 10280 4.008330 CTGTCATTCCATCCTCATATGGC 58.992 47.826 2.13 0.00 45.21 4.40
8405 10282 4.845796 TGTCATTCCATCCTCATATGGCTA 59.154 41.667 2.13 0.00 45.21 3.93
8422 10299 1.798079 GCTACAGAACCCGTCGATGTC 60.798 57.143 3.52 0.00 0.00 3.06
8436 10313 1.759994 GATGTCTCGGCTGTGATACG 58.240 55.000 0.00 0.00 0.00 3.06
8444 10321 1.522569 GCTGTGATACGGGAGGCTT 59.477 57.895 0.00 0.00 0.00 4.35
8470 10347 2.341846 AGTCGGAGGAGAGATCACTC 57.658 55.000 11.36 11.36 42.90 3.51
8482 10359 4.515361 AGAGATCACTCATTGGCAAAGAG 58.485 43.478 25.99 25.99 44.79 2.85
8498 10375 5.638234 GGCAAAGAGAAACAGAGTACGTTAT 59.362 40.000 0.00 0.00 0.00 1.89
8501 10378 8.373992 GCAAAGAGAAACAGAGTACGTTATAAG 58.626 37.037 0.00 0.00 0.00 1.73
8609 10486 2.183478 TTTGATGAGCCTCGCTTTGA 57.817 45.000 0.00 0.00 39.88 2.69
8662 10539 8.903820 CGGAATAATGAATTAAGGAAGAAAGGT 58.096 33.333 0.00 0.00 0.00 3.50
8676 10553 5.236695 GGAAGAAAGGTTATGAATCTACCGC 59.763 44.000 0.00 0.00 37.04 5.68
8713 10590 7.946219 AGATTTCATGATACTCAATATTGGCCA 59.054 33.333 15.36 0.00 0.00 5.36
8714 10591 8.660295 ATTTCATGATACTCAATATTGGCCAT 57.340 30.769 6.09 0.00 0.00 4.40
8813 10690 4.473196 TGGCTATTTACACAGAGGAATGGA 59.527 41.667 0.00 0.00 0.00 3.41
8913 10790 8.706492 TTCCTTGATTTCAAACATAATGCATC 57.294 30.769 0.00 0.00 35.15 3.91
8955 10832 7.617533 CCATAAGGTTTTACGTGAAAAACAG 57.382 36.000 21.87 10.15 45.70 3.16
8961 10838 5.273170 GTTTTACGTGAAAAACAGGGGTAC 58.727 41.667 17.66 0.00 44.86 3.34
8977 10854 7.182060 ACAGGGGTACATTATCTCAAAATGTT 58.818 34.615 6.75 0.00 43.31 2.71
8979 10856 6.542370 AGGGGTACATTATCTCAAAATGTTCG 59.458 38.462 6.75 0.00 43.31 3.95
8988 10865 9.981114 ATTATCTCAAAATGTTCGGTTCTTTTT 57.019 25.926 0.00 0.00 0.00 1.94
8989 10866 7.698836 ATCTCAAAATGTTCGGTTCTTTTTG 57.301 32.000 14.00 14.00 39.27 2.44
9097 10975 8.947304 AAACAATTGTTCACAATGTTGAAAAC 57.053 26.923 23.47 4.39 45.06 2.43
9166 11044 9.825109 TGGTTTTCGAAAATTTCTAAGGATTTT 57.175 25.926 24.93 0.00 37.96 1.82
9319 11197 8.576442 AGTTCAGGTGTGTAAAAATTATTCCTG 58.424 33.333 0.00 0.00 40.55 3.86
9525 11410 7.801104 AGTTCATATAACATGTGACCACCATA 58.199 34.615 0.00 0.00 29.73 2.74
9533 11418 6.252599 ACATGTGACCACCATATAATGAGT 57.747 37.500 0.00 0.00 0.00 3.41
9583 11468 1.520590 CACCAAATTTTTGTCACGCGG 59.479 47.619 12.47 0.00 36.45 6.46
9604 11489 3.493873 GGTTTACTTCACTCCAACGAGGT 60.494 47.826 0.00 0.00 40.77 3.85
9610 11497 1.598130 ACTCCAACGAGGTGCTTGC 60.598 57.895 0.00 0.00 40.77 4.01
9611 11498 2.281484 TCCAACGAGGTGCTTGCC 60.281 61.111 0.00 0.00 39.02 4.52
9615 11502 0.037326 CAACGAGGTGCTTGCCTAGA 60.037 55.000 8.91 0.00 39.34 2.43
9616 11503 0.247736 AACGAGGTGCTTGCCTAGAG 59.752 55.000 8.91 2.00 39.34 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.601067 TACTGGCCCGTCCACGAA 60.601 61.111 1.80 0.00 40.72 3.85
459 511 2.802719 ACATAAAGTGGCCGGTCAAAT 58.197 42.857 12.16 0.00 0.00 2.32
545 626 4.565022 CATTTTAAAATGGGTCGGCTTGT 58.435 39.130 26.58 0.00 41.54 3.16
699 781 6.819397 AATTAAAGGAGCAAACTGTAGACC 57.181 37.500 0.00 0.00 0.00 3.85
700 782 7.084486 CCAAATTAAAGGAGCAAACTGTAGAC 58.916 38.462 0.00 0.00 0.00 2.59
701 783 6.775629 ACCAAATTAAAGGAGCAAACTGTAGA 59.224 34.615 0.00 0.00 0.00 2.59
785 896 2.412847 GCAAATTAAGCTATAGCCGGCG 60.413 50.000 23.20 7.90 43.38 6.46
854 965 1.217882 GTCGTGGTGAACTGGTGAAG 58.782 55.000 0.00 0.00 0.00 3.02
855 966 0.179067 GGTCGTGGTGAACTGGTGAA 60.179 55.000 0.00 0.00 0.00 3.18
856 967 1.444250 GGTCGTGGTGAACTGGTGA 59.556 57.895 0.00 0.00 0.00 4.02
857 968 1.597027 GGGTCGTGGTGAACTGGTG 60.597 63.158 0.00 0.00 33.55 4.17
858 969 2.814835 GGGGTCGTGGTGAACTGGT 61.815 63.158 0.00 0.00 33.55 4.00
859 970 2.032071 GGGGTCGTGGTGAACTGG 59.968 66.667 0.00 0.00 33.55 4.00
860 971 1.301716 CTGGGGTCGTGGTGAACTG 60.302 63.158 0.00 0.00 33.55 3.16
861 972 1.458777 TCTGGGGTCGTGGTGAACT 60.459 57.895 0.00 0.00 33.55 3.01
903 1014 2.020016 CGTATGCAGCGTTCGTGC 59.980 61.111 5.52 10.82 41.59 5.34
916 1027 4.203076 GTCGCCGTCCTGCCGTAT 62.203 66.667 0.00 0.00 0.00 3.06
941 1052 0.377905 GCTAAGGAGACGAGACGACC 59.622 60.000 0.00 0.00 0.00 4.79
954 1068 3.494048 GGATGAGTGGATGTGAGCTAAGG 60.494 52.174 0.00 0.00 0.00 2.69
955 1069 3.387374 AGGATGAGTGGATGTGAGCTAAG 59.613 47.826 0.00 0.00 0.00 2.18
961 1075 4.533707 AGAAGAAAGGATGAGTGGATGTGA 59.466 41.667 0.00 0.00 0.00 3.58
965 1079 5.725822 AGAAGAGAAGAAAGGATGAGTGGAT 59.274 40.000 0.00 0.00 0.00 3.41
992 1116 2.913617 TGGAGAGAGTACACTGGAGAGA 59.086 50.000 0.00 0.00 0.00 3.10
999 1123 0.882474 GTGCGTGGAGAGAGTACACT 59.118 55.000 0.00 0.00 33.13 3.55
1033 1157 2.176798 GGGGAGAAGAGAGAGGATGAGA 59.823 54.545 0.00 0.00 0.00 3.27
1064 1191 4.980805 TGACGGTGCCACGAAGCC 62.981 66.667 4.05 0.00 37.61 4.35
1304 1432 0.392998 CACTAACCCAGCGCCTTGAT 60.393 55.000 2.29 0.00 0.00 2.57
1305 1433 1.003839 CACTAACCCAGCGCCTTGA 60.004 57.895 2.29 0.00 0.00 3.02
1319 1447 1.480954 GGAATTCGACTGGGAGCACTA 59.519 52.381 0.00 0.00 0.00 2.74
1329 1461 2.820787 AGAGACGACAAGGAATTCGACT 59.179 45.455 0.00 0.00 41.74 4.18
1331 1463 3.377485 CCTAGAGACGACAAGGAATTCGA 59.623 47.826 0.00 0.00 38.63 3.71
1351 1486 3.003480 GCTACACGAGAAAGAAATGCCT 58.997 45.455 0.00 0.00 0.00 4.75
1427 1575 9.582431 CATCTGAACAAGAATAGATTTGCAATT 57.418 29.630 0.00 0.00 38.79 2.32
1430 1578 6.405065 GCCATCTGAACAAGAATAGATTTGCA 60.405 38.462 0.00 0.00 38.79 4.08
1431 1579 5.975939 GCCATCTGAACAAGAATAGATTTGC 59.024 40.000 0.00 0.00 38.79 3.68
1432 1580 7.330900 AGCCATCTGAACAAGAATAGATTTG 57.669 36.000 0.00 0.00 38.79 2.32
1439 1611 2.012673 GCGAGCCATCTGAACAAGAAT 58.987 47.619 0.00 0.00 38.79 2.40
1440 1612 1.442769 GCGAGCCATCTGAACAAGAA 58.557 50.000 0.00 0.00 38.79 2.52
1592 1773 1.192428 GGGTGAGGAAGTGGTCGTAT 58.808 55.000 0.00 0.00 0.00 3.06
1653 1834 2.953466 TTCGCTATCTTTAGTGGCGT 57.047 45.000 0.00 0.00 45.01 5.68
1665 1846 7.413000 CACTGTTAGTGTTAAGCAATTCGCTAT 60.413 37.037 0.90 0.00 45.42 2.97
1692 1874 4.959723 AGCAACATGGCAGTGTTAAAAAT 58.040 34.783 12.68 0.00 40.17 1.82
1697 1879 4.331108 TCATTAGCAACATGGCAGTGTTA 58.669 39.130 12.68 2.59 40.17 2.41
1701 1883 3.881688 GAGATCATTAGCAACATGGCAGT 59.118 43.478 0.00 0.00 35.83 4.40
1775 1966 3.118112 AGTTGTCCCTCAGGATATGCTTG 60.118 47.826 0.00 0.00 46.41 4.01
1866 2303 2.283809 GAGGGCTAGAGGCTGGGA 59.716 66.667 0.00 0.00 41.46 4.37
1869 2306 1.409251 ATGCAGAGGGCTAGAGGCTG 61.409 60.000 0.00 0.00 45.15 4.85
1885 2322 0.512952 AGAAAGTTGTGCGTCGATGC 59.487 50.000 22.77 22.77 0.00 3.91
1893 2330 7.003939 ACTTTGCAATAAAAGAAAGTTGTGC 57.996 32.000 0.00 0.00 39.12 4.57
1970 2457 3.302675 CCGTGATCAAACATCATGCTACG 60.303 47.826 0.00 0.00 34.58 3.51
2097 2644 4.034975 GCTAGAACCTTCTGATGCAATGAC 59.965 45.833 0.00 0.00 38.19 3.06
2173 2775 9.605684 TGCCCAGCAGAATTCAAAAGTGAATAC 62.606 40.741 8.44 0.00 42.38 1.89
2252 2862 0.877743 GCTGCCTTGTCCAACTTCTC 59.122 55.000 0.00 0.00 0.00 2.87
2286 2896 5.251764 AGAACAAAGATTCCATCTCCACAG 58.748 41.667 0.00 0.00 39.08 3.66
2311 2921 4.035558 CCAATGACATCCAATGTTAGTCGG 59.964 45.833 0.00 0.00 45.03 4.79
2465 3079 6.040054 AGCCAACAAACCGAATACTAAACTTT 59.960 34.615 0.00 0.00 0.00 2.66
2468 3082 5.049267 TGAGCCAACAAACCGAATACTAAAC 60.049 40.000 0.00 0.00 0.00 2.01
2473 3087 3.438781 TCATGAGCCAACAAACCGAATAC 59.561 43.478 0.00 0.00 0.00 1.89
2489 3104 4.069300 ACATACACAGCCTGATCATGAG 57.931 45.455 0.00 0.00 0.00 2.90
2592 3207 3.308473 GGGCTTCATTAACCTTCCTCTGT 60.308 47.826 0.00 0.00 0.00 3.41
2670 3285 9.994432 CAATTGCTAACCTCAAAGTATAAGAAG 57.006 33.333 0.00 0.00 0.00 2.85
2685 3300 6.975772 TGTTCTAAACACAACAATTGCTAACC 59.024 34.615 5.05 0.00 36.25 2.85
2686 3301 7.979115 TGTTCTAAACACAACAATTGCTAAC 57.021 32.000 5.05 0.00 36.25 2.34
2709 3331 6.678568 ATAGGAGTCTTAGGGTCATGATTG 57.321 41.667 0.00 0.00 0.00 2.67
2732 3354 4.033009 TCTTCATCTACCATCCTCTGCAA 58.967 43.478 0.00 0.00 0.00 4.08
2789 3411 7.430441 AGAAAGCGAAGAATACTAGGATCTTC 58.570 38.462 17.67 17.67 43.50 2.87
3024 3646 6.823182 TGAGTCATTAACCATATCACACCTTG 59.177 38.462 0.00 0.00 0.00 3.61
3762 4412 3.469008 TCTGCAAAAGACCGAGAAAGA 57.531 42.857 0.00 0.00 0.00 2.52
3871 4523 9.820229 ACTAAAATAAACAACATCACACATACG 57.180 29.630 0.00 0.00 0.00 3.06
4333 5579 8.184848 TGAATATTTTTCACGACACTCACAAAA 58.815 29.630 0.00 0.00 0.00 2.44
4367 5613 7.490657 AGTATGTAATGGTTACTGTGAAGGA 57.509 36.000 0.00 0.00 37.06 3.36
4497 5745 4.163649 CCTTCCTACGTCCTAAAAAGGGAT 59.836 45.833 0.00 0.00 35.15 3.85
4498 5746 3.516700 CCTTCCTACGTCCTAAAAAGGGA 59.483 47.826 0.00 0.00 0.00 4.20
4557 5805 6.449448 GTACAGTTGTACTAAAGCAGTGAC 57.551 41.667 13.72 0.00 45.47 3.67
4786 6066 7.373493 CCTGTAGTTCGTACTCCTTTAGAAAA 58.627 38.462 0.00 0.00 35.78 2.29
4803 6084 3.883489 GCAACTGAAGAAACCCTGTAGTT 59.117 43.478 0.00 0.00 34.30 2.24
4808 6089 3.318839 TCATTGCAACTGAAGAAACCCTG 59.681 43.478 0.00 0.00 0.00 4.45
4809 6090 3.565307 TCATTGCAACTGAAGAAACCCT 58.435 40.909 0.00 0.00 0.00 4.34
4853 6134 7.725251 TCTGCAATAGTTCAAATTGTTCCTTT 58.275 30.769 0.00 0.00 36.82 3.11
4869 6150 4.458989 TGTTGCTTTAACCCTCTGCAATAG 59.541 41.667 0.00 0.00 43.87 1.73
5493 6874 5.221322 GGAAAGCCACAAATCTCTGTTTTCT 60.221 40.000 0.00 0.00 29.95 2.52
6153 8009 1.377725 CCTGGTGGCACCTCATCAC 60.378 63.158 34.69 9.45 39.58 3.06
6287 8146 4.661222 TCCAGTAGCCACATTTCATTTCA 58.339 39.130 0.00 0.00 0.00 2.69
6344 8203 7.689446 TCGTTTTGGAAATACATAATCACCA 57.311 32.000 0.00 0.00 0.00 4.17
6443 8303 1.028905 TCCACAAACCGCTTTCAAGG 58.971 50.000 0.00 0.00 0.00 3.61
6504 8364 8.584157 ACCATTGTCATGAAAGCTAAATTACAA 58.416 29.630 0.00 0.00 31.07 2.41
6533 8393 5.414765 TCTCTCTATGTTGCTACGAGAACAA 59.585 40.000 6.04 0.00 35.76 2.83
6586 8446 8.348507 GTTCAGAATTTTTCTAGCCATAGGATG 58.651 37.037 0.00 0.00 38.11 3.51
6690 8550 6.234177 CCAGACAAGAACTATGAGGAAAGTT 58.766 40.000 0.00 0.00 38.62 2.66
6865 8729 6.150976 GGTGGTCTCATTGATGTCAACAAATA 59.849 38.462 0.00 0.00 38.86 1.40
6875 8739 3.381590 TCGACTAGGTGGTCTCATTGATG 59.618 47.826 0.00 0.00 34.38 3.07
6889 8753 5.238583 AGAATTCAAACTGGTTCGACTAGG 58.761 41.667 8.44 0.00 30.19 3.02
7010 8874 5.746990 ATTGGCCTATGAGTATGAGTACC 57.253 43.478 3.32 0.00 0.00 3.34
7026 8890 1.270893 GGGCTGTAGCTAGTATTGGCC 60.271 57.143 0.00 0.00 41.70 5.36
7101 8965 9.601971 CATCTTTTGTTTTTATTTCATGCCTTG 57.398 29.630 0.00 0.00 0.00 3.61
7118 8982 7.090173 CCGAAATCCAATTACACATCTTTTGT 58.910 34.615 0.00 0.00 39.91 2.83
7119 8983 7.090173 ACCGAAATCCAATTACACATCTTTTG 58.910 34.615 0.00 0.00 0.00 2.44
7124 8988 6.920569 ACTACCGAAATCCAATTACACATC 57.079 37.500 0.00 0.00 0.00 3.06
7126 8990 6.072397 CCAAACTACCGAAATCCAATTACACA 60.072 38.462 0.00 0.00 0.00 3.72
7141 9005 0.953960 GGTCCTGTGCCAAACTACCG 60.954 60.000 0.00 0.00 0.00 4.02
7171 9035 0.462047 AATCATGTCCGGTCGCCTTC 60.462 55.000 0.00 0.00 0.00 3.46
7185 9049 1.338337 CCTCTAGCACGACGGAATCAT 59.662 52.381 0.00 0.00 0.00 2.45
7232 9096 4.767409 TCACATTAGGCGATACATAGCTCT 59.233 41.667 0.00 0.00 0.00 4.09
7258 9122 2.032550 CCAGTGGCAAAATGAGCTATCG 59.967 50.000 0.00 0.00 0.00 2.92
7282 9146 1.612950 TGACCGGTTTACTAGCGTTCA 59.387 47.619 9.42 0.00 45.02 3.18
7302 9166 2.736347 ACCACTCCGTAGAAGCTACAT 58.264 47.619 5.55 0.00 0.00 2.29
7460 9326 9.620660 AGAATATTCAACGTGTATTTGGAAAAC 57.379 29.630 17.56 0.00 0.00 2.43
7756 9622 2.877786 TGTTCATGCAATGTTCACGTCT 59.122 40.909 0.00 0.00 46.80 4.18
7836 9712 8.514594 CACTGCATACTATAAAAATGTATGGGG 58.485 37.037 12.34 0.00 41.99 4.96
7842 9718 9.632638 AAGGATCACTGCATACTATAAAAATGT 57.367 29.630 0.00 0.00 0.00 2.71
7999 9876 7.928167 CCATAGCCTTTTTGTTTTCTCTTTCTT 59.072 33.333 0.00 0.00 0.00 2.52
8021 9898 0.834612 CTTTAGTGGTCCGGCCCATA 59.165 55.000 7.86 0.00 36.74 2.74
8043 9920 2.158813 GGAATCCCTCGCCTCAACAATA 60.159 50.000 0.00 0.00 0.00 1.90
8054 9931 3.201290 CATGAGACAAAGGAATCCCTCG 58.799 50.000 0.00 0.00 43.48 4.63
8128 10005 1.005294 GCTTCCATGTGTGCGCAAAG 61.005 55.000 14.00 11.84 0.00 2.77
8130 10007 2.644418 GCTTCCATGTGTGCGCAA 59.356 55.556 14.00 0.00 0.00 4.85
8152 10029 2.806856 CGGCTCACATGCTTCGCTC 61.807 63.158 0.00 0.00 0.00 5.03
8164 10041 1.077787 CATTAACTGGGCCGGCTCA 60.078 57.895 30.84 30.84 0.00 4.26
8168 10045 1.094785 CAAGACATTAACTGGGCCGG 58.905 55.000 11.83 11.83 0.00 6.13
8181 10058 3.297134 AAACCAGAAAGAGGCAAGACA 57.703 42.857 0.00 0.00 0.00 3.41
8184 10061 2.036346 CCCAAAACCAGAAAGAGGCAAG 59.964 50.000 0.00 0.00 0.00 4.01
8196 10073 4.466827 GAACTAGAAGGTTCCCAAAACCA 58.533 43.478 9.45 0.00 42.69 3.67
8326 10203 3.055385 AGAGCCGCTTAAATAGGTGTCAA 60.055 43.478 0.00 0.00 0.00 3.18
8397 10274 1.340248 CGACGGGTTCTGTAGCCATAT 59.660 52.381 3.45 0.00 45.03 1.78
8403 10280 1.743958 AGACATCGACGGGTTCTGTAG 59.256 52.381 0.00 0.00 0.00 2.74
8405 10282 0.526662 GAGACATCGACGGGTTCTGT 59.473 55.000 0.00 0.00 0.00 3.41
8422 10299 1.360551 CTCCCGTATCACAGCCGAG 59.639 63.158 0.00 0.00 0.00 4.63
8436 10313 1.137282 CCGACTTCTCTAAAGCCTCCC 59.863 57.143 0.00 0.00 0.00 4.30
8444 10321 4.164413 TGATCTCTCCTCCGACTTCTCTAA 59.836 45.833 0.00 0.00 0.00 2.10
8470 10347 4.843220 ACTCTGTTTCTCTTTGCCAATG 57.157 40.909 0.00 0.00 0.00 2.82
8528 10405 1.710013 AACGGTTACATCACTGCTCG 58.290 50.000 0.00 0.00 0.00 5.03
8634 10511 9.722056 CTTTCTTCCTTAATTCATTATTCCGTG 57.278 33.333 0.00 0.00 0.00 4.94
8662 10539 6.381481 TTCTCGTAAGCGGTAGATTCATAA 57.619 37.500 0.00 0.00 38.89 1.90
8713 10590 3.512329 ACCATGCATTGATGTGTGTTCAT 59.488 39.130 4.52 0.00 0.00 2.57
8714 10591 2.892215 ACCATGCATTGATGTGTGTTCA 59.108 40.909 4.52 0.00 0.00 3.18
8740 10617 5.391736 CCTTCGAGAGTAACGTACAGTTGAT 60.392 44.000 11.63 2.67 44.01 2.57
8821 10698 8.997621 TGTATAATAGTTCGTTTTTCTGCTCT 57.002 30.769 0.00 0.00 0.00 4.09
8913 10790 8.386264 ACCTTATGGTTATTTATGGATCCTCTG 58.614 37.037 14.23 0.00 46.05 3.35
8955 10832 6.238648 CCGAACATTTTGAGATAATGTACCCC 60.239 42.308 0.00 0.00 43.44 4.95
8961 10838 8.970691 AAAGAACCGAACATTTTGAGATAATG 57.029 30.769 0.00 0.00 38.61 1.90
9038 10916 9.487790 GGAACAATTTTGGAAATCTGAACAATA 57.512 29.630 0.00 0.00 0.00 1.90
9088 10966 7.310072 TCGAATTAGTGAACAGTTTTCAACA 57.690 32.000 0.00 0.00 0.00 3.33
9138 11016 7.336161 TCCTTAGAAATTTTCGAAAACCACA 57.664 32.000 24.68 3.43 34.02 4.17
9210 11088 7.497595 ACAACTTTGAGAAATCCCCTAAAAAC 58.502 34.615 0.00 0.00 0.00 2.43
9292 11170 9.143155 AGGAATAATTTTTACACACCTGAACTT 57.857 29.630 0.00 0.00 0.00 2.66
9500 11385 6.061022 TGGTGGTCACATGTTATATGAACT 57.939 37.500 0.00 0.00 31.05 3.01
9525 11410 3.386078 ACCGCAGATCTCACACTCATTAT 59.614 43.478 0.00 0.00 0.00 1.28
9533 11418 2.621338 GATCAAACCGCAGATCTCACA 58.379 47.619 0.00 0.00 0.00 3.58
9583 11468 3.493503 CACCTCGTTGGAGTGAAGTAAAC 59.506 47.826 4.38 0.00 38.70 2.01
9610 11497 2.592861 GCCCATTGCGGCTCTAGG 60.593 66.667 0.00 0.00 46.10 3.02


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

AutoCloner maintained by Alex Coulton.