Multiple sequence alignment - TraesCS7D01G193400

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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 TraesCS7D01G193400 chr7D 100.000 3694 0 0 1 3694 149851039 149847346 0.000000e+00 6822.0
1 TraesCS7D01G193400 chr7D 93.653 709 41 2 2989 3694 149754481 149753774 0.000000e+00 1057.0
2 TraesCS7D01G193400 chr7D 92.079 707 55 1 2989 3694 425427930 425427224 0.000000e+00 994.0
3 TraesCS7D01G193400 chr7D 93.861 505 25 2 1 504 3723214 3722715 0.000000e+00 756.0
4 TraesCS7D01G193400 chr7D 96.774 31 1 0 741 771 149850010 149850040 7.000000e-03 52.8
5 TraesCS7D01G193400 chr7D 100.000 28 0 0 1000 1027 149850269 149850296 7.000000e-03 52.8
6 TraesCS7D01G193400 chr7B 90.813 1698 97 26 1094 2758 112298125 112296454 0.000000e+00 2217.0
7 TraesCS7D01G193400 chr7B 92.532 1232 69 11 1405 2629 112113988 112112773 0.000000e+00 1744.0
8 TraesCS7D01G193400 chr7B 94.369 586 33 0 1658 2243 727232958 727232373 0.000000e+00 900.0
9 TraesCS7D01G193400 chr7B 86.747 415 42 8 508 915 112298750 112298342 2.020000e-122 449.0
10 TraesCS7D01G193400 chr7B 85.227 352 21 17 977 1297 112114357 112114006 2.130000e-87 333.0
11 TraesCS7D01G193400 chr7B 84.615 234 29 5 688 919 112114668 112114440 3.710000e-55 226.0
12 TraesCS7D01G193400 chr7B 71.186 1062 234 58 1414 2445 112338813 112337794 2.250000e-47 200.0
13 TraesCS7D01G193400 chr7B 90.805 87 8 0 549 635 112124768 112124682 2.330000e-22 117.0
14 TraesCS7D01G193400 chr7B 97.619 42 0 1 1005 1046 112298245 112298205 1.840000e-08 71.3
15 TraesCS7D01G193400 chr7B 100.000 30 0 0 744 773 112114307 112114336 5.150000e-04 56.5
16 TraesCS7D01G193400 chr4B 90.669 1704 100 19 1094 2758 402738680 402736997 0.000000e+00 2211.0
17 TraesCS7D01G193400 chr4B 86.988 415 41 8 508 915 402739304 402738896 4.350000e-124 455.0
18 TraesCS7D01G193400 chr4B 70.837 1063 236 59 1414 2445 402763389 402762370 1.050000e-40 178.0
19 TraesCS7D01G193400 chr4B 90.000 60 6 0 1101 1160 62871467 62871526 1.100000e-10 78.7
20 TraesCS7D01G193400 chr4B 97.436 39 0 1 1008 1046 402738796 402738759 8.560000e-07 65.8
21 TraesCS7D01G193400 chr7A 93.038 1264 55 13 1392 2648 150329527 150328290 0.000000e+00 1816.0
22 TraesCS7D01G193400 chr7A 86.549 565 40 20 508 1047 150330396 150329843 1.140000e-164 590.0
23 TraesCS7D01G193400 chr7A 94.118 204 12 0 1094 1297 150329741 150329538 9.960000e-81 311.0
24 TraesCS7D01G193400 chr5D 93.069 707 48 1 2989 3694 490408035 490407329 0.000000e+00 1033.0
25 TraesCS7D01G193400 chr5D 92.362 707 53 1 2989 3694 269712209 269711503 0.000000e+00 1005.0
26 TraesCS7D01G193400 chr5D 92.351 706 51 3 2989 3694 476991005 476991707 0.000000e+00 1002.0
27 TraesCS7D01G193400 chr5D 95.446 505 17 2 1 504 288554548 288554049 0.000000e+00 800.0
28 TraesCS7D01G193400 chr1D 93.059 706 49 0 2989 3694 373379547 373378842 0.000000e+00 1033.0
29 TraesCS7D01G193400 chr1D 92.826 697 49 1 2989 3685 310049212 310048517 0.000000e+00 1009.0
30 TraesCS7D01G193400 chr1D 92.939 694 48 1 2989 3682 341461278 341461970 0.000000e+00 1009.0
31 TraesCS7D01G193400 chr1D 93.529 170 11 0 2818 2987 485369487 485369656 1.700000e-63 254.0
32 TraesCS7D01G193400 chr6D 92.878 688 48 1 2993 3680 365809406 365808720 0.000000e+00 998.0
33 TraesCS7D01G193400 chr6D 95.464 507 15 4 1 504 377193201 377192700 0.000000e+00 802.0
34 TraesCS7D01G193400 chr6D 95.257 506 17 3 1 504 328336625 328336125 0.000000e+00 795.0
35 TraesCS7D01G193400 chr2D 95.248 505 17 3 1 504 31900136 31900634 0.000000e+00 793.0
36 TraesCS7D01G193400 chr2D 89.243 502 44 6 3 501 633441943 633442437 1.460000e-173 619.0
37 TraesCS7D01G193400 chr5A 90.220 501 39 6 3 500 545640626 545641119 0.000000e+00 645.0
38 TraesCS7D01G193400 chr1A 88.824 510 49 4 1 507 592557577 592557073 1.460000e-173 619.0
39 TraesCS7D01G193400 chr1A 87.945 506 54 3 1 504 265624662 265625162 1.140000e-164 590.0
40 TraesCS7D01G193400 chr1A 90.244 164 16 0 2824 2987 5097711 5097874 8.030000e-52 215.0
41 TraesCS7D01G193400 chr1A 93.617 141 8 1 2840 2979 50558125 50558265 3.740000e-50 209.0
42 TraesCS7D01G193400 chr3B 95.570 158 4 2 2833 2987 655019723 655019566 2.200000e-62 250.0
43 TraesCS7D01G193400 chr3D 95.484 155 7 0 2831 2985 69917147 69916993 7.920000e-62 248.0
44 TraesCS7D01G193400 chrUn 93.827 162 9 1 2827 2987 79965616 79965455 3.690000e-60 243.0
45 TraesCS7D01G193400 chr6B 92.857 154 11 0 2832 2985 12970635 12970482 1.340000e-54 224.0
46 TraesCS7D01G193400 chr6B 90.000 60 6 0 1101 1160 663786049 663785990 1.100000e-10 78.7
47 TraesCS7D01G193400 chr6B 87.500 64 8 0 1101 1164 45729772 45729835 1.420000e-09 75.0
48 TraesCS7D01G193400 chr1B 90.419 167 16 0 2821 2987 41705173 41705007 1.730000e-53 220.0
49 TraesCS7D01G193400 chr5B 87.952 166 17 1 2822 2987 470113538 470113700 3.760000e-45 193.0
50 TraesCS7D01G193400 chr2A 85.714 63 9 0 1101 1163 53332096 53332034 2.380000e-07 67.6


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 TraesCS7D01G193400 chr7D 149847346 149851039 3693 True 6822.000000 6822 100.000000 1 3694 1 chr7D.!!$R3 3693
1 TraesCS7D01G193400 chr7D 149753774 149754481 707 True 1057.000000 1057 93.653000 2989 3694 1 chr7D.!!$R2 705
2 TraesCS7D01G193400 chr7D 425427224 425427930 706 True 994.000000 994 92.079000 2989 3694 1 chr7D.!!$R4 705
3 TraesCS7D01G193400 chr7B 112296454 112298750 2296 True 912.433333 2217 91.726333 508 2758 3 chr7B.!!$R5 2250
4 TraesCS7D01G193400 chr7B 727232373 727232958 585 True 900.000000 900 94.369000 1658 2243 1 chr7B.!!$R3 585
5 TraesCS7D01G193400 chr7B 112112773 112114668 1895 True 767.666667 1744 87.458000 688 2629 3 chr7B.!!$R4 1941
6 TraesCS7D01G193400 chr4B 402736997 402739304 2307 True 910.600000 2211 91.697667 508 2758 3 chr4B.!!$R2 2250
7 TraesCS7D01G193400 chr7A 150328290 150330396 2106 True 905.666667 1816 91.235000 508 2648 3 chr7A.!!$R1 2140
8 TraesCS7D01G193400 chr5D 490407329 490408035 706 True 1033.000000 1033 93.069000 2989 3694 1 chr5D.!!$R3 705
9 TraesCS7D01G193400 chr5D 269711503 269712209 706 True 1005.000000 1005 92.362000 2989 3694 1 chr5D.!!$R1 705
10 TraesCS7D01G193400 chr5D 476991005 476991707 702 False 1002.000000 1002 92.351000 2989 3694 1 chr5D.!!$F1 705
11 TraesCS7D01G193400 chr1D 373378842 373379547 705 True 1033.000000 1033 93.059000 2989 3694 1 chr1D.!!$R2 705
12 TraesCS7D01G193400 chr1D 310048517 310049212 695 True 1009.000000 1009 92.826000 2989 3685 1 chr1D.!!$R1 696
13 TraesCS7D01G193400 chr1D 341461278 341461970 692 False 1009.000000 1009 92.939000 2989 3682 1 chr1D.!!$F1 693
14 TraesCS7D01G193400 chr6D 365808720 365809406 686 True 998.000000 998 92.878000 2993 3680 1 chr6D.!!$R2 687
15 TraesCS7D01G193400 chr6D 377192700 377193201 501 True 802.000000 802 95.464000 1 504 1 chr6D.!!$R3 503
16 TraesCS7D01G193400 chr6D 328336125 328336625 500 True 795.000000 795 95.257000 1 504 1 chr6D.!!$R1 503
17 TraesCS7D01G193400 chr1A 592557073 592557577 504 True 619.000000 619 88.824000 1 507 1 chr1A.!!$R1 506
18 TraesCS7D01G193400 chr1A 265624662 265625162 500 False 590.000000 590 87.945000 1 504 1 chr1A.!!$F3 503

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
747 759 0.108585 TCCAGCCACAAGACCAACTC 59.891 55.0 0.00 0.0 0.00 3.01 F
748 760 0.179020 CCAGCCACAAGACCAACTCA 60.179 55.0 0.00 0.0 0.00 3.41 F
1306 1440 0.179119 AGCGCCTACATTCACGGTAC 60.179 55.0 2.29 0.0 34.05 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1829 1963 0.902531 TGTAGGGCAGGCTGTAGTTC 59.097 55.0 17.16 5.39 0.00 3.01 R
2327 2464 1.137459 CGCGCTTCATGTACACGCTA 61.137 55.0 20.86 0.00 46.91 4.26 R
2881 3066 0.035915 GAGGGAGAGGTTGGTTGAGC 60.036 60.0 0.00 0.00 0.00 4.26 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
41 42 7.110216 CAGCATTAAAGTAAATATCGTTGCGAC 59.890 37.037 0.00 0.00 39.18 5.19
112 113 5.539955 AGTTTTGTTGTCATTTCTAGCCCAT 59.460 36.000 0.00 0.00 0.00 4.00
228 231 5.757850 AAAGATGATTAACCGATTCTGCC 57.242 39.130 0.00 0.00 0.00 4.85
324 327 2.951642 CCTCACAAGCAACCAGAGAAAA 59.048 45.455 0.00 0.00 0.00 2.29
325 328 3.004106 CCTCACAAGCAACCAGAGAAAAG 59.996 47.826 0.00 0.00 0.00 2.27
326 329 3.879295 CTCACAAGCAACCAGAGAAAAGA 59.121 43.478 0.00 0.00 0.00 2.52
327 330 4.269183 TCACAAGCAACCAGAGAAAAGAA 58.731 39.130 0.00 0.00 0.00 2.52
328 331 4.704540 TCACAAGCAACCAGAGAAAAGAAA 59.295 37.500 0.00 0.00 0.00 2.52
343 346 7.843760 AGAGAAAAGAAAGATCTGGATCCTCTA 59.156 37.037 14.23 0.00 38.58 2.43
362 365 6.012858 TCCTCTAAGGAACATTAGCTTTCCAA 60.013 38.462 15.61 4.34 42.51 3.53
403 406 6.012508 TCTGGAACCACTCCTCTAAAATTCAT 60.013 38.462 0.00 0.00 45.64 2.57
456 460 3.333680 ACCTTTAGGCTCCAGATCCAAAA 59.666 43.478 0.00 0.00 39.32 2.44
493 497 7.281774 TCACAATCATTTAAGCTCAGATCCTTC 59.718 37.037 0.00 0.00 0.00 3.46
504 508 5.046014 AGCTCAGATCCTTCACTACACAAAT 60.046 40.000 0.00 0.00 0.00 2.32
506 510 6.478344 GCTCAGATCCTTCACTACACAAATAG 59.522 42.308 0.00 0.00 0.00 1.73
510 514 3.512329 TCCTTCACTACACAAATAGGCGA 59.488 43.478 0.00 0.00 0.00 5.54
527 531 1.733389 GCGAATCGGAACTGTACGGAA 60.733 52.381 9.17 0.00 0.00 4.30
725 737 2.809861 ATCTGCAACCCACGCTGGAG 62.810 60.000 5.71 0.00 40.96 3.86
738 750 2.853542 TGGAGCCTCCAGCCACAA 60.854 61.111 10.05 0.00 42.67 3.33
742 754 2.360475 GCCTCCAGCCACAAGACC 60.360 66.667 0.00 0.00 34.35 3.85
744 756 1.455849 CCTCCAGCCACAAGACCAA 59.544 57.895 0.00 0.00 0.00 3.67
746 758 0.109342 CTCCAGCCACAAGACCAACT 59.891 55.000 0.00 0.00 0.00 3.16
747 759 0.108585 TCCAGCCACAAGACCAACTC 59.891 55.000 0.00 0.00 0.00 3.01
748 760 0.179020 CCAGCCACAAGACCAACTCA 60.179 55.000 0.00 0.00 0.00 3.41
749 761 1.546323 CCAGCCACAAGACCAACTCAT 60.546 52.381 0.00 0.00 0.00 2.90
758 770 4.421365 CCAACTCATGGTGGGTGG 57.579 61.111 0.00 0.00 44.85 4.61
759 771 1.978617 CCAACTCATGGTGGGTGGC 60.979 63.158 5.63 0.00 44.85 5.01
760 772 1.075482 CAACTCATGGTGGGTGGCT 59.925 57.895 0.00 0.00 26.99 4.75
761 773 0.540365 CAACTCATGGTGGGTGGCTT 60.540 55.000 0.00 0.00 26.99 4.35
762 774 0.188342 AACTCATGGTGGGTGGCTTT 59.812 50.000 0.00 0.00 26.99 3.51
763 775 0.540365 ACTCATGGTGGGTGGCTTTG 60.540 55.000 0.00 0.00 23.94 2.77
765 777 0.774276 TCATGGTGGGTGGCTTTGTA 59.226 50.000 0.00 0.00 0.00 2.41
766 778 0.887933 CATGGTGGGTGGCTTTGTAC 59.112 55.000 0.00 0.00 0.00 2.90
767 779 0.608035 ATGGTGGGTGGCTTTGTACG 60.608 55.000 0.00 0.00 0.00 3.67
768 780 1.969589 GGTGGGTGGCTTTGTACGG 60.970 63.158 0.00 0.00 0.00 4.02
769 781 1.071814 GTGGGTGGCTTTGTACGGA 59.928 57.895 0.00 0.00 0.00 4.69
770 782 0.953960 GTGGGTGGCTTTGTACGGAG 60.954 60.000 0.00 0.00 0.00 4.63
805 820 5.689383 TGAGTAAGAAAGCCATTGACAAC 57.311 39.130 0.00 0.00 0.00 3.32
824 839 1.434696 GGCCACTTGCATGGATTCG 59.565 57.895 10.63 0.00 43.02 3.34
848 867 4.704057 GTCTCTCTTTGCCCAAATCTCAAT 59.296 41.667 0.00 0.00 0.00 2.57
973 1052 7.062138 CGAAATAACGGTACACTAACAGCTTAA 59.938 37.037 0.00 0.00 0.00 1.85
998 1077 3.564455 GGGAACCGCTATCGTACTG 57.436 57.895 0.00 0.00 40.86 2.74
1042 1123 7.869937 CACCATGAGTTAGTTCCTGACTATATG 59.130 40.741 0.00 0.00 40.44 1.78
1043 1124 7.565398 ACCATGAGTTAGTTCCTGACTATATGT 59.435 37.037 0.00 0.00 40.44 2.29
1079 1180 2.234296 CCCTGGAAGCAACCTCCCT 61.234 63.158 0.00 0.00 0.00 4.20
1083 1184 1.153349 GGAAGCAACCTCCCTAGCG 60.153 63.158 0.00 0.00 0.00 4.26
1139 1273 2.986306 GCATCACCAGCACAGCCAC 61.986 63.158 0.00 0.00 0.00 5.01
1257 1391 1.641677 GCCGCACGCGAAAATATCT 59.358 52.632 15.93 0.00 42.83 1.98
1271 1405 5.751028 CGAAAATATCTTCTTCTCGCCTCTT 59.249 40.000 0.00 0.00 0.00 2.85
1299 1433 0.940126 CATCACCAGCGCCTACATTC 59.060 55.000 2.29 0.00 0.00 2.67
1301 1435 0.391130 TCACCAGCGCCTACATTCAC 60.391 55.000 2.29 0.00 0.00 3.18
1303 1437 2.173669 CCAGCGCCTACATTCACGG 61.174 63.158 2.29 0.00 0.00 4.94
1304 1438 1.447838 CAGCGCCTACATTCACGGT 60.448 57.895 2.29 0.00 36.58 4.83
1305 1439 0.179121 CAGCGCCTACATTCACGGTA 60.179 55.000 2.29 0.00 34.50 4.02
1306 1440 0.179119 AGCGCCTACATTCACGGTAC 60.179 55.000 2.29 0.00 34.05 3.34
1359 1493 3.975035 GCACTTTTGCTTTAGTAGTGTGC 59.025 43.478 0.00 0.00 46.17 4.57
1363 1497 5.524646 ACTTTTGCTTTAGTAGTGTGCGTTA 59.475 36.000 0.00 0.00 0.00 3.18
1364 1498 5.987777 TTTGCTTTAGTAGTGTGCGTTAA 57.012 34.783 0.00 0.00 0.00 2.01
1365 1499 6.548441 TTTGCTTTAGTAGTGTGCGTTAAT 57.452 33.333 0.00 0.00 0.00 1.40
1378 1512 3.664025 GTGCGTTAATGTCTTTTGTGCTC 59.336 43.478 0.00 0.00 0.00 4.26
1389 1523 3.066621 TCTTTTGTGCTCGTTTCTTGCAT 59.933 39.130 0.00 0.00 39.00 3.96
1398 1532 1.202031 CGTTTCTTGCATAAGGGTCGC 60.202 52.381 0.00 0.00 34.59 5.19
1410 1544 2.747686 GGTCGCCTTCCACTTCCA 59.252 61.111 0.00 0.00 0.00 3.53
1716 1850 1.097232 CCCGTACCATCTCGTGTACA 58.903 55.000 0.00 0.00 37.73 2.90
1919 2053 4.697756 ATGGACGTGGCGGTGGTG 62.698 66.667 0.00 0.00 0.00 4.17
2192 2326 2.284151 GAGGGGGAGAGGGAGGTC 59.716 72.222 0.00 0.00 0.00 3.85
2454 2591 1.685077 CTGCTCCAGCTCCTCCTCA 60.685 63.158 0.00 0.00 42.66 3.86
2469 2606 2.428569 TCACGAAGCGCGAGTGAC 60.429 61.111 24.14 0.00 44.57 3.67
2566 2720 8.628280 TGTGTCAATCAAGAAAAATACACATGA 58.372 29.630 0.00 0.00 40.55 3.07
2588 2746 3.056107 ACATGCACGTACTACCTGATTGT 60.056 43.478 0.00 0.00 0.00 2.71
2625 2787 5.221382 GGACGAAGCTAGTATGGAAACCATA 60.221 44.000 6.42 6.42 43.19 2.74
2629 2791 4.822026 AGCTAGTATGGAAACCATATCGC 58.178 43.478 12.63 13.86 46.48 4.58
2630 2792 3.933332 GCTAGTATGGAAACCATATCGCC 59.067 47.826 12.63 2.00 46.48 5.54
2666 2843 8.430063 GTGCTCTTCAAAACAAATATGAATGTG 58.570 33.333 0.00 0.00 33.03 3.21
2708 2893 9.846248 TGATGTAATACGAATGTCATCTCATAG 57.154 33.333 0.00 0.00 34.63 2.23
2709 2894 9.295214 GATGTAATACGAATGTCATCTCATAGG 57.705 37.037 0.00 0.00 31.99 2.57
2733 2918 2.677836 TGCTGATCAAATGTTAGCCGAC 59.322 45.455 0.00 0.00 33.60 4.79
2736 2921 3.006940 TGATCAAATGTTAGCCGACACC 58.993 45.455 0.00 0.00 31.30 4.16
2742 2927 2.502213 TGTTAGCCGACACCGATATG 57.498 50.000 0.00 0.00 38.22 1.78
2747 2932 5.047590 TGTTAGCCGACACCGATATGAATAT 60.048 40.000 0.00 0.00 38.22 1.28
2751 2936 4.091509 GCCGACACCGATATGAATATGAAC 59.908 45.833 0.00 0.00 38.22 3.18
2776 2961 9.880064 ACATATATCGGATATTTACTCGATTCG 57.120 33.333 15.22 0.00 41.66 3.34
2777 2962 9.331106 CATATATCGGATATTTACTCGATTCGG 57.669 37.037 15.22 0.00 41.66 4.30
2778 2963 5.892160 ATCGGATATTTACTCGATTCGGA 57.108 39.130 6.18 0.00 38.96 4.55
2779 2964 5.694231 TCGGATATTTACTCGATTCGGAA 57.306 39.130 6.18 0.00 0.00 4.30
2780 2965 5.455392 TCGGATATTTACTCGATTCGGAAC 58.545 41.667 6.18 0.00 0.00 3.62
2781 2966 5.008911 TCGGATATTTACTCGATTCGGAACA 59.991 40.000 6.18 0.00 0.00 3.18
2782 2967 5.342525 CGGATATTTACTCGATTCGGAACAG 59.657 44.000 6.18 0.00 0.00 3.16
2783 2968 6.444633 GGATATTTACTCGATTCGGAACAGA 58.555 40.000 6.18 0.00 0.00 3.41
2784 2969 6.362820 GGATATTTACTCGATTCGGAACAGAC 59.637 42.308 6.18 0.00 0.00 3.51
2785 2970 4.508461 TTTACTCGATTCGGAACAGACA 57.492 40.909 6.18 0.00 0.00 3.41
2786 2971 4.713824 TTACTCGATTCGGAACAGACAT 57.286 40.909 6.18 0.00 0.00 3.06
2787 2972 2.881074 ACTCGATTCGGAACAGACATG 58.119 47.619 6.18 0.00 0.00 3.21
2788 2973 2.492088 ACTCGATTCGGAACAGACATGA 59.508 45.455 6.18 0.00 0.00 3.07
2789 2974 3.056821 ACTCGATTCGGAACAGACATGAA 60.057 43.478 6.18 0.00 0.00 2.57
2790 2975 4.115516 CTCGATTCGGAACAGACATGAAT 58.884 43.478 6.18 0.00 32.30 2.57
2791 2976 5.163550 ACTCGATTCGGAACAGACATGAATA 60.164 40.000 6.18 0.00 29.93 1.75
2792 2977 5.656480 TCGATTCGGAACAGACATGAATAA 58.344 37.500 6.18 0.00 29.93 1.40
2793 2978 6.280643 TCGATTCGGAACAGACATGAATAAT 58.719 36.000 6.18 0.00 29.93 1.28
2794 2979 7.430441 TCGATTCGGAACAGACATGAATAATA 58.570 34.615 6.18 0.00 29.93 0.98
2795 2980 7.923878 TCGATTCGGAACAGACATGAATAATAA 59.076 33.333 6.18 0.00 29.93 1.40
2796 2981 8.004344 CGATTCGGAACAGACATGAATAATAAC 58.996 37.037 0.00 0.00 29.93 1.89
2797 2982 6.822073 TCGGAACAGACATGAATAATAACG 57.178 37.500 0.00 0.00 0.00 3.18
2798 2983 6.566141 TCGGAACAGACATGAATAATAACGA 58.434 36.000 0.00 0.00 0.00 3.85
2799 2984 6.474427 TCGGAACAGACATGAATAATAACGAC 59.526 38.462 0.00 0.00 0.00 4.34
2800 2985 6.254804 CGGAACAGACATGAATAATAACGACA 59.745 38.462 0.00 0.00 0.00 4.35
2801 2986 7.042725 CGGAACAGACATGAATAATAACGACAT 60.043 37.037 0.00 0.00 0.00 3.06
2802 2987 9.256477 GGAACAGACATGAATAATAACGACATA 57.744 33.333 0.00 0.00 0.00 2.29
2819 3004 8.492920 AACGACATATATGAATCATTTTTGCG 57.507 30.769 19.63 9.38 0.00 4.85
2820 3005 7.639039 ACGACATATATGAATCATTTTTGCGT 58.361 30.769 19.63 9.91 0.00 5.24
2821 3006 7.798516 ACGACATATATGAATCATTTTTGCGTC 59.201 33.333 19.63 1.30 0.00 5.19
2822 3007 7.269084 CGACATATATGAATCATTTTTGCGTCC 59.731 37.037 19.63 0.00 0.00 4.79
2823 3008 7.370383 ACATATATGAATCATTTTTGCGTCCC 58.630 34.615 19.63 0.00 0.00 4.46
2824 3009 3.525268 ATGAATCATTTTTGCGTCCCC 57.475 42.857 0.00 0.00 0.00 4.81
2825 3010 1.548269 TGAATCATTTTTGCGTCCCCC 59.452 47.619 0.00 0.00 0.00 5.40
2826 3011 0.530288 AATCATTTTTGCGTCCCCCG 59.470 50.000 0.00 0.00 40.40 5.73
2869 3054 4.119363 GGCGGAACCCTAACCCCC 62.119 72.222 0.00 0.00 0.00 5.40
2870 3055 3.332385 GCGGAACCCTAACCCCCA 61.332 66.667 0.00 0.00 0.00 4.96
2871 3056 2.672908 CGGAACCCTAACCCCCAC 59.327 66.667 0.00 0.00 0.00 4.61
2872 3057 2.975265 CGGAACCCTAACCCCCACC 61.975 68.421 0.00 0.00 0.00 4.61
2873 3058 2.672908 GAACCCTAACCCCCACCG 59.327 66.667 0.00 0.00 0.00 4.94
2874 3059 3.633609 GAACCCTAACCCCCACCGC 62.634 68.421 0.00 0.00 0.00 5.68
2893 3078 4.660938 GCCGGGCTCAACCAACCT 62.661 66.667 12.87 0.00 42.05 3.50
2894 3079 2.359975 CCGGGCTCAACCAACCTC 60.360 66.667 0.00 0.00 42.05 3.85
2895 3080 2.750350 CGGGCTCAACCAACCTCT 59.250 61.111 0.00 0.00 42.05 3.69
2896 3081 1.376037 CGGGCTCAACCAACCTCTC 60.376 63.158 0.00 0.00 42.05 3.20
2897 3082 1.002011 GGGCTCAACCAACCTCTCC 60.002 63.158 0.00 0.00 42.05 3.71
2898 3083 1.002011 GGCTCAACCAACCTCTCCC 60.002 63.158 0.00 0.00 38.86 4.30
2899 3084 1.492993 GGCTCAACCAACCTCTCCCT 61.493 60.000 0.00 0.00 38.86 4.20
2900 3085 0.035915 GCTCAACCAACCTCTCCCTC 60.036 60.000 0.00 0.00 0.00 4.30
2901 3086 0.615850 CTCAACCAACCTCTCCCTCC 59.384 60.000 0.00 0.00 0.00 4.30
2902 3087 0.840722 TCAACCAACCTCTCCCTCCC 60.841 60.000 0.00 0.00 0.00 4.30
2903 3088 1.541620 AACCAACCTCTCCCTCCCC 60.542 63.158 0.00 0.00 0.00 4.81
2904 3089 3.083997 CCAACCTCTCCCTCCCCG 61.084 72.222 0.00 0.00 0.00 5.73
2905 3090 2.038975 CAACCTCTCCCTCCCCGA 59.961 66.667 0.00 0.00 0.00 5.14
2906 3091 2.039137 AACCTCTCCCTCCCCGAC 59.961 66.667 0.00 0.00 0.00 4.79
2907 3092 3.959329 AACCTCTCCCTCCCCGACG 62.959 68.421 0.00 0.00 0.00 5.12
2925 3110 4.452733 CCGCCGTTGGAGGAGGTC 62.453 72.222 0.00 0.00 45.77 3.85
2926 3111 4.796231 CGCCGTTGGAGGAGGTCG 62.796 72.222 0.00 0.00 0.00 4.79
2928 3113 4.452733 CCGTTGGAGGAGGTCGCC 62.453 72.222 0.00 0.00 35.75 5.54
2929 3114 4.796231 CGTTGGAGGAGGTCGCCG 62.796 72.222 0.00 0.00 38.24 6.46
2930 3115 4.452733 GTTGGAGGAGGTCGCCGG 62.453 72.222 0.00 0.00 38.24 6.13
2979 3164 4.439901 GAGGCCCCCTTCCCTCCT 62.440 72.222 0.00 0.00 41.42 3.69
2980 3165 4.767892 AGGCCCCCTTCCCTCCTG 62.768 72.222 0.00 0.00 0.00 3.86
2984 3169 3.330720 CCCCTTCCCTCCTGCGTT 61.331 66.667 0.00 0.00 0.00 4.84
2985 3170 2.045926 CCCTTCCCTCCTGCGTTG 60.046 66.667 0.00 0.00 0.00 4.10
2986 3171 2.747855 CCTTCCCTCCTGCGTTGC 60.748 66.667 0.00 0.00 0.00 4.17
2987 3172 2.747855 CTTCCCTCCTGCGTTGCC 60.748 66.667 0.00 0.00 0.00 4.52
2991 3176 2.813908 CCTCCTGCGTTGCCGTAC 60.814 66.667 0.00 0.00 36.15 3.67
3035 3220 5.070180 TGGTTTTGGTGATTGATGACAATGT 59.930 36.000 0.00 0.00 45.30 2.71
3114 3299 1.000019 ATTCGGTGTCCCTCGGAGA 60.000 57.895 6.58 0.00 29.39 3.71
3230 3415 1.458064 GGTGGAATCAACACGTACACG 59.542 52.381 0.00 0.00 46.33 4.49
3265 3451 2.893489 ACCACCTTTCCTTGCTTCATTC 59.107 45.455 0.00 0.00 0.00 2.67
3484 3673 2.049767 TGGCGTCAGCGGATGTAGA 61.050 57.895 7.91 0.00 46.35 2.59
3558 3749 0.179134 GCTGTAGTACCGTGCCAGAG 60.179 60.000 0.00 0.00 0.00 3.35
3604 3795 4.500205 CGGAAGTAGCCACGGATGTAATTA 60.500 45.833 0.00 0.00 0.00 1.40
3608 3799 7.277981 GGAAGTAGCCACGGATGTAATTATATG 59.722 40.741 0.00 0.00 0.00 1.78
3612 3803 6.769512 AGCCACGGATGTAATTATATGAGTT 58.230 36.000 0.00 0.00 0.00 3.01
3652 3844 1.378762 GAGCCCTGCCTTGTGGTAA 59.621 57.895 0.00 0.00 35.27 2.85
3657 3849 1.564348 CCCTGCCTTGTGGTAATACCT 59.436 52.381 11.16 0.00 39.58 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 1.500474 TTATGGGCTCTCTGGAGGTG 58.500 55.000 0.00 0.00 39.80 4.00
112 113 1.300963 GCATGGGCTCCTTGAGTGA 59.699 57.895 10.15 0.00 36.96 3.41
228 231 5.540337 TCCTACCTGCCTATTCTGTAATGAG 59.460 44.000 0.00 0.00 0.00 2.90
324 327 6.036926 TCCTTAGAGGATCCAGATCTTTCT 57.963 41.667 15.82 8.56 40.06 2.52
325 328 6.098982 TGTTCCTTAGAGGATCCAGATCTTTC 59.901 42.308 15.82 0.07 45.34 2.62
326 329 5.966935 TGTTCCTTAGAGGATCCAGATCTTT 59.033 40.000 15.82 0.00 45.34 2.52
327 330 5.533112 TGTTCCTTAGAGGATCCAGATCTT 58.467 41.667 15.82 0.00 45.34 2.40
328 331 5.149584 TGTTCCTTAGAGGATCCAGATCT 57.850 43.478 15.82 10.85 45.34 2.75
343 346 6.916360 TGATTTGGAAAGCTAATGTTCCTT 57.084 33.333 14.50 2.07 43.24 3.36
362 365 8.686334 GTGGTTCCAGACAACATTATATTGATT 58.314 33.333 1.71 0.00 32.05 2.57
456 460 8.462016 GCTTAAATGATTGTGAGGACACTATTT 58.538 33.333 0.00 0.00 46.07 1.40
493 497 3.245284 CCGATTCGCCTATTTGTGTAGTG 59.755 47.826 0.00 0.00 0.00 2.74
504 508 1.064505 CGTACAGTTCCGATTCGCCTA 59.935 52.381 0.00 0.00 0.00 3.93
506 510 1.143969 CCGTACAGTTCCGATTCGCC 61.144 60.000 0.00 0.00 0.00 5.54
510 514 2.036217 TGTGTTCCGTACAGTTCCGATT 59.964 45.455 0.00 0.00 37.45 3.34
537 541 1.702491 GCATCGTAAACCCACTCGGC 61.702 60.000 0.00 0.00 33.26 5.54
542 546 1.467342 GTCCAAGCATCGTAAACCCAC 59.533 52.381 0.00 0.00 0.00 4.61
569 573 6.183360 GGATTCTCGTTTACCAATGTTGCATA 60.183 38.462 0.00 0.00 0.00 3.14
570 574 5.393027 GGATTCTCGTTTACCAATGTTGCAT 60.393 40.000 0.00 0.00 0.00 3.96
725 737 2.360475 GGTCTTGTGGCTGGAGGC 60.360 66.667 0.00 0.00 41.50 4.70
731 743 1.546323 CCATGAGTTGGTCTTGTGGCT 60.546 52.381 0.00 0.00 40.99 4.75
742 754 0.540365 AAGCCACCCACCATGAGTTG 60.540 55.000 0.00 0.00 0.00 3.16
744 756 0.540365 CAAAGCCACCCACCATGAGT 60.540 55.000 0.00 0.00 0.00 3.41
746 758 0.774276 TACAAAGCCACCCACCATGA 59.226 50.000 0.00 0.00 0.00 3.07
747 759 0.887933 GTACAAAGCCACCCACCATG 59.112 55.000 0.00 0.00 0.00 3.66
748 760 0.608035 CGTACAAAGCCACCCACCAT 60.608 55.000 0.00 0.00 0.00 3.55
749 761 1.228003 CGTACAAAGCCACCCACCA 60.228 57.895 0.00 0.00 0.00 4.17
751 763 0.953960 CTCCGTACAAAGCCACCCAC 60.954 60.000 0.00 0.00 0.00 4.61
753 765 0.609662 TACTCCGTACAAAGCCACCC 59.390 55.000 0.00 0.00 0.00 4.61
754 766 1.718396 GTACTCCGTACAAAGCCACC 58.282 55.000 0.00 0.00 38.71 4.61
755 767 1.343506 CGTACTCCGTACAAAGCCAC 58.656 55.000 5.18 0.00 38.77 5.01
775 787 5.710513 TGGCTTTCTTACTCAACGTACTA 57.289 39.130 0.00 0.00 0.00 1.82
805 820 1.434696 GAATCCATGCAAGTGGCCG 59.565 57.895 1.12 0.00 43.89 6.13
824 839 3.013219 GAGATTTGGGCAAAGAGAGACC 58.987 50.000 0.00 0.00 33.32 3.85
964 1043 5.830000 GGTTCCCGATTAATTAAGCTGTT 57.170 39.130 11.41 0.00 0.00 3.16
973 1052 2.298163 ACGATAGCGGTTCCCGATTAAT 59.702 45.455 4.97 0.00 45.97 1.40
998 1077 2.038837 GGGTGGCTTTGTACGGAGC 61.039 63.158 10.82 10.82 38.17 4.70
1042 1123 5.163332 CCAGGGGAGTTCTACCTTACATTAC 60.163 48.000 0.80 0.00 30.66 1.89
1043 1124 4.966805 CCAGGGGAGTTCTACCTTACATTA 59.033 45.833 0.80 0.00 30.66 1.90
1048 1143 3.721021 CTTCCAGGGGAGTTCTACCTTA 58.279 50.000 0.80 0.00 31.21 2.69
1079 1180 0.392060 TCACTACTCGGACTGCGCTA 60.392 55.000 9.73 0.00 0.00 4.26
1083 1184 2.544694 CCATGATCACTACTCGGACTGC 60.545 54.545 0.00 0.00 0.00 4.40
1254 1388 2.693074 GGAGAAGAGGCGAGAAGAAGAT 59.307 50.000 0.00 0.00 0.00 2.40
1257 1391 1.821753 CTGGAGAAGAGGCGAGAAGAA 59.178 52.381 0.00 0.00 0.00 2.52
1271 1405 0.817654 CGCTGGTGATGTACTGGAGA 59.182 55.000 0.00 0.00 0.00 3.71
1299 1433 0.584054 GACGCGTAGTACGTACCGTG 60.584 60.000 25.32 25.60 45.24 4.94
1301 1435 0.314578 CAGACGCGTAGTACGTACCG 60.315 60.000 21.80 19.00 45.24 4.02
1303 1437 1.126846 ACACAGACGCGTAGTACGTAC 59.873 52.381 22.81 18.10 45.24 3.67
1304 1438 1.126662 CACACAGACGCGTAGTACGTA 59.873 52.381 22.81 0.00 45.24 3.57
1306 1440 0.110509 ACACACAGACGCGTAGTACG 60.111 55.000 13.97 18.37 45.88 3.67
1321 1455 0.169230 GTGCAAAACCACACGACACA 59.831 50.000 0.00 0.00 35.80 3.72
1323 1457 1.169577 AAGTGCAAAACCACACGACA 58.830 45.000 0.00 0.00 41.72 4.35
1348 1482 7.225145 ACAAAAGACATTAACGCACACTACTAA 59.775 33.333 0.00 0.00 0.00 2.24
1349 1483 6.702723 ACAAAAGACATTAACGCACACTACTA 59.297 34.615 0.00 0.00 0.00 1.82
1353 1487 4.597079 CACAAAAGACATTAACGCACACT 58.403 39.130 0.00 0.00 0.00 3.55
1359 1493 4.128554 ACGAGCACAAAAGACATTAACG 57.871 40.909 0.00 0.00 0.00 3.18
1363 1497 4.900635 AGAAACGAGCACAAAAGACATT 57.099 36.364 0.00 0.00 0.00 2.71
1364 1498 4.601019 CAAGAAACGAGCACAAAAGACAT 58.399 39.130 0.00 0.00 0.00 3.06
1365 1499 3.730662 GCAAGAAACGAGCACAAAAGACA 60.731 43.478 0.00 0.00 0.00 3.41
1378 1512 1.202031 GCGACCCTTATGCAAGAAACG 60.202 52.381 0.00 0.00 33.20 3.60
1398 1532 2.037136 CGCAGCTGGAAGTGGAAGG 61.037 63.158 17.12 0.00 35.30 3.46
1410 1544 2.115911 CCTCCGAGTAGTCGCAGCT 61.116 63.158 14.65 0.00 45.41 4.24
1530 1664 3.141488 CCGCCAGTCGAGGTAGCT 61.141 66.667 0.00 0.00 41.67 3.32
1829 1963 0.902531 TGTAGGGCAGGCTGTAGTTC 59.097 55.000 17.16 5.39 0.00 3.01
1919 2053 4.643387 AACCAGTGGCCGGTGCTC 62.643 66.667 9.78 0.00 36.67 4.26
2327 2464 1.137459 CGCGCTTCATGTACACGCTA 61.137 55.000 20.86 0.00 46.91 4.26
2328 2465 2.444624 CGCGCTTCATGTACACGCT 61.445 57.895 20.86 0.00 46.91 5.07
2454 2591 2.729862 GTGTCACTCGCGCTTCGT 60.730 61.111 5.56 0.00 39.67 3.85
2480 2619 7.166142 GTGTAAGTAAGCAATACTCGATCAGTC 59.834 40.741 3.05 0.00 44.22 3.51
2566 2720 3.056107 ACAATCAGGTAGTACGTGCATGT 60.056 43.478 17.19 17.19 34.28 3.21
2588 2746 1.846712 TTCGTCCACCATGCATCCCA 61.847 55.000 0.00 0.00 0.00 4.37
2625 2787 1.213013 GCACTATCCGATCGGCGAT 59.787 57.895 29.62 24.26 44.57 4.58
2629 2791 1.609072 TGAAGAGCACTATCCGATCGG 59.391 52.381 28.62 28.62 0.00 4.18
2630 2792 3.355626 TTGAAGAGCACTATCCGATCG 57.644 47.619 8.51 8.51 0.00 3.69
2699 2884 7.175119 ACATTTGATCAGCATTCCTATGAGATG 59.825 37.037 0.00 0.00 31.99 2.90
2703 2888 7.040892 GCTAACATTTGATCAGCATTCCTATGA 60.041 37.037 0.00 0.00 33.37 2.15
2708 2893 4.614946 GGCTAACATTTGATCAGCATTCC 58.385 43.478 0.00 0.00 33.86 3.01
2709 2894 4.035558 TCGGCTAACATTTGATCAGCATTC 59.964 41.667 0.00 0.00 33.86 2.67
2751 2936 9.331106 CCGAATCGAGTAAATATCCGATATATG 57.669 37.037 3.36 0.00 40.35 1.78
2758 2943 5.217393 TGTTCCGAATCGAGTAAATATCCG 58.783 41.667 3.36 0.00 0.00 4.18
2759 2944 6.362820 GTCTGTTCCGAATCGAGTAAATATCC 59.637 42.308 3.36 0.00 0.00 2.59
2760 2945 6.916387 TGTCTGTTCCGAATCGAGTAAATATC 59.084 38.462 3.36 0.00 0.00 1.63
2761 2946 6.802608 TGTCTGTTCCGAATCGAGTAAATAT 58.197 36.000 3.36 0.00 0.00 1.28
2762 2947 6.198650 TGTCTGTTCCGAATCGAGTAAATA 57.801 37.500 3.36 0.00 0.00 1.40
2763 2948 5.068234 TGTCTGTTCCGAATCGAGTAAAT 57.932 39.130 3.36 0.00 0.00 1.40
2764 2949 4.508461 TGTCTGTTCCGAATCGAGTAAA 57.492 40.909 3.36 0.00 0.00 2.01
2765 2950 4.157105 TCATGTCTGTTCCGAATCGAGTAA 59.843 41.667 3.36 0.00 0.00 2.24
2766 2951 3.692593 TCATGTCTGTTCCGAATCGAGTA 59.307 43.478 3.36 0.00 0.00 2.59
2767 2952 2.492088 TCATGTCTGTTCCGAATCGAGT 59.508 45.455 3.36 0.00 0.00 4.18
2768 2953 3.150848 TCATGTCTGTTCCGAATCGAG 57.849 47.619 3.36 0.00 0.00 4.04
2769 2954 3.586100 TTCATGTCTGTTCCGAATCGA 57.414 42.857 3.36 0.00 0.00 3.59
2770 2955 5.966636 TTATTCATGTCTGTTCCGAATCG 57.033 39.130 0.00 0.00 0.00 3.34
2771 2956 8.004344 CGTTATTATTCATGTCTGTTCCGAATC 58.996 37.037 0.00 0.00 0.00 2.52
2772 2957 7.709182 TCGTTATTATTCATGTCTGTTCCGAAT 59.291 33.333 0.00 0.00 0.00 3.34
2773 2958 7.009815 GTCGTTATTATTCATGTCTGTTCCGAA 59.990 37.037 0.00 0.00 0.00 4.30
2774 2959 6.474427 GTCGTTATTATTCATGTCTGTTCCGA 59.526 38.462 0.00 0.00 0.00 4.55
2775 2960 6.254804 TGTCGTTATTATTCATGTCTGTTCCG 59.745 38.462 0.00 0.00 0.00 4.30
2776 2961 7.534085 TGTCGTTATTATTCATGTCTGTTCC 57.466 36.000 0.00 0.00 0.00 3.62
2793 2978 9.592720 CGCAAAAATGATTCATATATGTCGTTA 57.407 29.630 12.42 0.00 0.00 3.18
2794 2979 8.128582 ACGCAAAAATGATTCATATATGTCGTT 58.871 29.630 12.42 8.43 0.00 3.85
2795 2980 7.639039 ACGCAAAAATGATTCATATATGTCGT 58.361 30.769 12.42 9.62 0.00 4.34
2796 2981 7.269084 GGACGCAAAAATGATTCATATATGTCG 59.731 37.037 12.42 9.13 0.00 4.35
2797 2982 7.538678 GGGACGCAAAAATGATTCATATATGTC 59.461 37.037 12.42 4.69 0.00 3.06
2798 2983 7.370383 GGGACGCAAAAATGATTCATATATGT 58.630 34.615 12.42 0.00 0.00 2.29
2799 2984 6.808212 GGGGACGCAAAAATGATTCATATATG 59.192 38.462 6.36 6.36 0.00 1.78
2800 2985 6.071391 GGGGGACGCAAAAATGATTCATATAT 60.071 38.462 0.00 0.00 42.57 0.86
2801 2986 5.242838 GGGGGACGCAAAAATGATTCATATA 59.757 40.000 0.00 0.00 42.57 0.86
2802 2987 4.039124 GGGGGACGCAAAAATGATTCATAT 59.961 41.667 0.00 0.00 42.57 1.78
2803 2988 3.383185 GGGGGACGCAAAAATGATTCATA 59.617 43.478 0.00 0.00 42.57 2.15
2804 2989 2.168313 GGGGGACGCAAAAATGATTCAT 59.832 45.455 0.00 0.00 42.57 2.57
2805 2990 1.548269 GGGGGACGCAAAAATGATTCA 59.452 47.619 0.00 0.00 42.57 2.57
2806 2991 1.469079 CGGGGGACGCAAAAATGATTC 60.469 52.381 0.00 0.00 43.53 2.52
2807 2992 0.530288 CGGGGGACGCAAAAATGATT 59.470 50.000 0.00 0.00 43.53 2.57
2808 2993 2.188912 CGGGGGACGCAAAAATGAT 58.811 52.632 0.00 0.00 43.53 2.45
2809 2994 3.674906 CGGGGGACGCAAAAATGA 58.325 55.556 0.00 0.00 43.53 2.57
2852 3037 4.119363 GGGGGTTAGGGTTCCGCC 62.119 72.222 1.80 1.80 46.54 6.13
2853 3038 3.332385 TGGGGGTTAGGGTTCCGC 61.332 66.667 0.00 0.00 36.19 5.54
2854 3039 2.672908 GTGGGGGTTAGGGTTCCG 59.327 66.667 0.00 0.00 0.00 4.30
2855 3040 2.975265 CGGTGGGGGTTAGGGTTCC 61.975 68.421 0.00 0.00 0.00 3.62
2856 3041 2.672908 CGGTGGGGGTTAGGGTTC 59.327 66.667 0.00 0.00 0.00 3.62
2857 3042 3.654143 GCGGTGGGGGTTAGGGTT 61.654 66.667 0.00 0.00 0.00 4.11
2876 3061 4.660938 AGGTTGGTTGAGCCCGGC 62.661 66.667 0.00 0.00 36.04 6.13
2877 3062 2.359975 GAGGTTGGTTGAGCCCGG 60.360 66.667 0.00 0.00 36.04 5.73
2878 3063 1.376037 GAGAGGTTGGTTGAGCCCG 60.376 63.158 0.00 0.00 36.04 6.13
2879 3064 1.002011 GGAGAGGTTGGTTGAGCCC 60.002 63.158 0.00 0.00 36.04 5.19
2880 3065 1.002011 GGGAGAGGTTGGTTGAGCC 60.002 63.158 0.00 0.00 37.90 4.70
2881 3066 0.035915 GAGGGAGAGGTTGGTTGAGC 60.036 60.000 0.00 0.00 0.00 4.26
2882 3067 0.615850 GGAGGGAGAGGTTGGTTGAG 59.384 60.000 0.00 0.00 0.00 3.02
2883 3068 0.840722 GGGAGGGAGAGGTTGGTTGA 60.841 60.000 0.00 0.00 0.00 3.18
2884 3069 1.685820 GGGAGGGAGAGGTTGGTTG 59.314 63.158 0.00 0.00 0.00 3.77
2885 3070 1.541620 GGGGAGGGAGAGGTTGGTT 60.542 63.158 0.00 0.00 0.00 3.67
2886 3071 2.125225 GGGGAGGGAGAGGTTGGT 59.875 66.667 0.00 0.00 0.00 3.67
2887 3072 3.083997 CGGGGAGGGAGAGGTTGG 61.084 72.222 0.00 0.00 0.00 3.77
2888 3073 2.038975 TCGGGGAGGGAGAGGTTG 59.961 66.667 0.00 0.00 0.00 3.77
2889 3074 2.039137 GTCGGGGAGGGAGAGGTT 59.961 66.667 0.00 0.00 0.00 3.50
2890 3075 4.444081 CGTCGGGGAGGGAGAGGT 62.444 72.222 0.00 0.00 0.00 3.85
2908 3093 4.452733 GACCTCCTCCAACGGCGG 62.453 72.222 13.24 0.00 35.02 6.13
2909 3094 4.796231 CGACCTCCTCCAACGGCG 62.796 72.222 4.80 4.80 0.00 6.46
2911 3096 4.452733 GGCGACCTCCTCCAACGG 62.453 72.222 0.00 0.00 0.00 4.44
2912 3097 4.796231 CGGCGACCTCCTCCAACG 62.796 72.222 0.00 0.00 0.00 4.10
2913 3098 4.452733 CCGGCGACCTCCTCCAAC 62.453 72.222 9.30 0.00 0.00 3.77
2962 3147 4.439901 AGGAGGGAAGGGGGCCTC 62.440 72.222 0.84 0.00 30.89 4.70
2963 3148 4.767892 CAGGAGGGAAGGGGGCCT 62.768 72.222 0.84 0.00 33.87 5.19
2967 3152 3.330720 AACGCAGGAGGGAAGGGG 61.331 66.667 0.00 0.00 0.00 4.79
2968 3153 2.045926 CAACGCAGGAGGGAAGGG 60.046 66.667 0.00 0.00 0.00 3.95
2969 3154 2.747855 GCAACGCAGGAGGGAAGG 60.748 66.667 0.00 0.00 0.00 3.46
2970 3155 2.747855 GGCAACGCAGGAGGGAAG 60.748 66.667 0.00 0.00 0.00 3.46
2986 3171 1.607251 GGGAGAAATATGCCCGTACGG 60.607 57.143 27.68 27.68 31.06 4.02
2987 3172 1.343465 AGGGAGAAATATGCCCGTACG 59.657 52.381 8.69 8.69 46.68 3.67
2991 3176 3.403038 CACTTAGGGAGAAATATGCCCG 58.597 50.000 0.00 0.00 46.68 6.13
3035 3220 2.605818 GCACACGATTAGTCCGCAAATA 59.394 45.455 0.00 0.00 0.00 1.40
3114 3299 0.248539 GAAGCGCCGTCTTCGATAGT 60.249 55.000 2.29 0.00 39.71 2.12
3230 3415 2.024414 AGGTGGTGCAAAGAAACAGAC 58.976 47.619 0.00 0.00 0.00 3.51
3237 3422 2.031120 CAAGGAAAGGTGGTGCAAAGA 58.969 47.619 0.00 0.00 0.00 2.52
3265 3451 3.047877 GGGAACAACCGGTGCTCG 61.048 66.667 8.52 0.00 40.11 5.03
3355 3544 2.202892 GCCAGCTGCGGTACTACC 60.203 66.667 8.66 0.00 34.05 3.18
3417 3606 2.412112 CGTGCTAGGAGCGGTACC 59.588 66.667 0.16 0.16 46.26 3.34
3472 3661 2.016393 TTCCGCCTCTACATCCGCTG 62.016 60.000 0.00 0.00 0.00 5.18
3558 3749 2.096819 TGAGTTTCGGTCAGTGCAAAAC 59.903 45.455 0.00 0.00 0.00 2.43
3604 3795 1.837439 TGGGAAGGCACGAACTCATAT 59.163 47.619 0.00 0.00 0.00 1.78
3608 3799 2.035442 GCTGGGAAGGCACGAACTC 61.035 63.158 0.00 0.00 0.00 3.01
3652 3844 4.891727 CGCGCGCCCTTGAGGTAT 62.892 66.667 27.72 0.00 38.26 2.73


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

AutoCloner maintained by Alex Coulton.