Multiple sequence alignment - TraesCS2A01G318700

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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 TraesCS2A01G318700 chr2A 100.000 7416 0 0 1 7416 543758176 543750761 0.000000e+00 13695.0
1 TraesCS2A01G318700 chr2A 100.000 34 0 0 1461 1494 598943635 598943668 6.210000e-06 63.9
2 TraesCS2A01G318700 chr2A 97.143 35 1 0 4215 4249 711885099 711885065 8.040000e-05 60.2
3 TraesCS2A01G318700 chr2B 94.931 2387 89 14 1767 4144 481146342 481143979 0.000000e+00 3709.0
4 TraesCS2A01G318700 chr2B 95.161 1612 49 9 5805 7416 481142036 481140454 0.000000e+00 2518.0
5 TraesCS2A01G318700 chr2B 95.633 1580 41 11 4248 5803 481143873 481142298 0.000000e+00 2510.0
6 TraesCS2A01G318700 chr2B 91.987 624 34 12 1088 1710 481147038 481146430 0.000000e+00 861.0
7 TraesCS2A01G318700 chr2B 93.519 108 6 1 4103 4209 481143976 481143869 7.700000e-35 159.0
8 TraesCS2A01G318700 chr2B 97.727 44 0 1 4208 4250 678078953 678078996 2.870000e-09 75.0
9 TraesCS2A01G318700 chr2B 97.222 36 1 0 4215 4250 510349010 510349045 2.230000e-05 62.1
10 TraesCS2A01G318700 chr5D 86.570 2621 260 49 1574 4138 98283487 98286071 0.000000e+00 2806.0
11 TraesCS2A01G318700 chr5D 86.834 957 98 10 523 1462 98282408 98283353 0.000000e+00 1044.0
12 TraesCS2A01G318700 chr5D 89.467 769 60 13 4942 5701 98287087 98287843 0.000000e+00 952.0
13 TraesCS2A01G318700 chr5D 85.633 703 75 13 4248 4928 98286166 98286864 0.000000e+00 715.0
14 TraesCS2A01G318700 chr5D 88.521 453 33 11 5981 6427 98288195 98288634 1.420000e-146 531.0
15 TraesCS2A01G318700 chr5D 92.246 374 24 4 6838 7211 98290050 98290418 6.590000e-145 525.0
16 TraesCS2A01G318700 chr5D 91.228 285 25 0 5697 5981 98287873 98288157 9.020000e-104 388.0
17 TraesCS2A01G318700 chr5D 96.800 125 4 0 1 125 98280979 98281103 7.540000e-50 209.0
18 TraesCS2A01G318700 chr5D 94.505 91 4 1 146 236 98281627 98281716 1.000000e-28 139.0
19 TraesCS2A01G318700 chr5D 92.857 42 3 0 6649 6690 90747175 90747134 2.230000e-05 62.1
20 TraesCS2A01G318700 chr5D 100.000 33 0 0 1461 1493 506225423 506225391 2.230000e-05 62.1
21 TraesCS2A01G318700 chr5D 91.111 45 3 1 4210 4253 461902399 461902443 8.040000e-05 60.2
22 TraesCS2A01G318700 chr5A 86.535 2629 254 47 1574 4138 104635045 104632453 0.000000e+00 2802.0
23 TraesCS2A01G318700 chr5A 87.252 957 92 11 523 1462 104636122 104635179 0.000000e+00 1064.0
24 TraesCS2A01G318700 chr5A 88.687 769 66 13 4942 5701 104626908 104626152 0.000000e+00 918.0
25 TraesCS2A01G318700 chr5A 92.513 374 23 4 6838 7211 104624015 104623647 1.420000e-146 531.0
26 TraesCS2A01G318700 chr5A 86.860 449 34 14 5981 6424 104625800 104625372 5.200000e-131 479.0
27 TraesCS2A01G318700 chr5A 86.076 395 42 10 4251 4638 104632367 104631979 5.350000e-111 412.0
28 TraesCS2A01G318700 chr5A 90.877 285 26 0 5697 5981 104626122 104625838 4.200000e-102 383.0
29 TraesCS2A01G318700 chr5A 86.817 311 30 2 4629 4928 104627441 104627131 3.310000e-88 337.0
30 TraesCS2A01G318700 chr5A 97.600 125 3 0 1 125 104637418 104637294 1.620000e-51 215.0
31 TraesCS2A01G318700 chr5A 95.349 86 3 1 149 234 104636768 104636684 1.300000e-27 135.0
32 TraesCS2A01G318700 chr5A 94.186 86 5 0 366 451 109193501 109193586 1.680000e-26 132.0
33 TraesCS2A01G318700 chr5B 86.421 2629 254 50 1574 4138 107723096 107725685 0.000000e+00 2782.0
34 TraesCS2A01G318700 chr5B 86.639 958 93 13 523 1462 107722022 107722962 0.000000e+00 1027.0
35 TraesCS2A01G318700 chr5B 88.947 769 64 13 4942 5701 107726685 107727441 0.000000e+00 929.0
36 TraesCS2A01G318700 chr5B 86.000 700 73 10 4248 4928 107725769 107726462 0.000000e+00 726.0
37 TraesCS2A01G318700 chr5B 88.521 453 33 11 5981 6427 107727793 107728232 1.420000e-146 531.0
38 TraesCS2A01G318700 chr5B 92.246 374 24 4 6838 7211 107729645 107730013 6.590000e-145 525.0
39 TraesCS2A01G318700 chr5B 90.526 285 27 0 5697 5981 107727471 107727755 1.950000e-100 377.0
40 TraesCS2A01G318700 chr5B 97.600 125 3 0 1 125 107720372 107720496 1.620000e-51 215.0
41 TraesCS2A01G318700 chr5B 94.382 89 4 1 146 234 107721019 107721106 1.300000e-27 135.0
42 TraesCS2A01G318700 chr5B 92.857 42 3 0 6649 6690 511166343 511166302 2.230000e-05 62.1
43 TraesCS2A01G318700 chr5B 100.000 28 0 0 4222 4249 547643155 547643128 1.300000e-02 52.8
44 TraesCS2A01G318700 chr2D 96.208 1556 46 6 4248 5803 405619416 405617874 0.000000e+00 2534.0
45 TraesCS2A01G318700 chr2D 96.942 1439 32 3 5978 7416 405617591 405616165 0.000000e+00 2403.0
46 TraesCS2A01G318700 chr2D 96.800 1375 42 2 2837 4209 405620786 405619412 0.000000e+00 2294.0
47 TraesCS2A01G318700 chr2D 93.942 1073 51 6 509 1572 405627975 405626908 0.000000e+00 1609.0
48 TraesCS2A01G318700 chr2D 96.923 780 21 3 1669 2446 405626678 405625900 0.000000e+00 1304.0
49 TraesCS2A01G318700 chr2D 97.260 365 10 0 2443 2807 405621259 405620895 2.940000e-173 619.0
50 TraesCS2A01G318700 chr2D 92.381 210 6 7 149 348 405628282 405628073 2.620000e-74 291.0
51 TraesCS2A01G318700 chr2D 96.528 144 2 2 1 141 405628592 405628449 1.240000e-57 235.0
52 TraesCS2A01G318700 chr2D 96.460 113 3 1 1571 1683 405626805 405626694 1.270000e-42 185.0
53 TraesCS2A01G318700 chr2D 91.579 95 8 0 378 472 405628070 405627976 1.680000e-26 132.0
54 TraesCS2A01G318700 chr2D 92.857 42 3 0 6649 6690 623031578 623031619 2.230000e-05 62.1
55 TraesCS2A01G318700 chr4D 90.654 107 8 2 359 465 23320443 23320547 2.790000e-29 141.0
56 TraesCS2A01G318700 chrUn 97.468 79 2 0 6758 6836 425407642 425407720 1.300000e-27 135.0
57 TraesCS2A01G318700 chrUn 97.297 37 1 0 1461 1497 308778756 308778792 6.210000e-06 63.9
58 TraesCS2A01G318700 chr7D 97.468 79 2 0 6758 6836 231544008 231544086 1.300000e-27 135.0
59 TraesCS2A01G318700 chr7D 97.468 79 2 0 6758 6836 231604920 231604842 1.300000e-27 135.0
60 TraesCS2A01G318700 chr7B 97.468 79 2 0 6758 6836 663096427 663096349 1.300000e-27 135.0
61 TraesCS2A01G318700 chr7B 88.636 44 3 2 4206 4249 125599358 125599317 1.300000e-02 52.8
62 TraesCS2A01G318700 chr1D 97.468 79 2 0 6758 6836 254528604 254528682 1.300000e-27 135.0
63 TraesCS2A01G318700 chr1D 97.468 79 2 0 6758 6836 459901720 459901642 1.300000e-27 135.0
64 TraesCS2A01G318700 chr1D 96.970 33 0 1 1461 1492 408632199 408632231 4.000000e-03 54.7
65 TraesCS2A01G318700 chr3A 95.238 84 3 1 6758 6841 167573011 167573093 1.680000e-26 132.0
66 TraesCS2A01G318700 chr4A 93.182 88 6 0 367 454 738033384 738033471 6.040000e-26 130.0
67 TraesCS2A01G318700 chr4A 95.238 42 1 1 1458 1498 684510073 684510032 1.730000e-06 65.8
68 TraesCS2A01G318700 chr3D 90.625 96 9 0 356 451 27936560 27936655 2.170000e-25 128.0
69 TraesCS2A01G318700 chr3D 90.722 97 8 1 366 461 436676985 436676889 2.170000e-25 128.0
70 TraesCS2A01G318700 chr3D 89.796 98 10 0 367 464 22679144 22679047 7.810000e-25 126.0
71 TraesCS2A01G318700 chr3D 89.796 98 10 0 367 464 22767814 22767911 7.810000e-25 126.0
72 TraesCS2A01G318700 chr3D 86.441 118 11 5 357 471 610206674 610206559 2.810000e-24 124.0
73 TraesCS2A01G318700 chr3D 93.023 43 2 1 4208 4249 59418292 59418334 2.230000e-05 62.1
74 TraesCS2A01G318700 chr3B 96.000 50 1 1 4206 4254 221981398 221981447 6.170000e-11 80.5
75 TraesCS2A01G318700 chr6D 92.857 42 3 0 6649 6690 286203698 286203739 2.230000e-05 62.1
76 TraesCS2A01G318700 chr6A 92.857 42 3 0 6649 6690 381721307 381721266 2.230000e-05 62.1
77 TraesCS2A01G318700 chr1B 92.857 42 3 0 6649 6690 458650387 458650346 2.230000e-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 TraesCS2A01G318700 chr2A 543750761 543758176 7415 True 13695.000000 13695 100.000000 1 7416 1 chr2A.!!$R1 7415
1 TraesCS2A01G318700 chr2B 481140454 481147038 6584 True 1951.400000 3709 94.246200 1088 7416 5 chr2B.!!$R1 6328
2 TraesCS2A01G318700 chr5D 98280979 98290418 9439 False 812.111111 2806 90.200444 1 7211 9 chr5D.!!$F2 7210
3 TraesCS2A01G318700 chr5A 104631979 104637418 5439 True 925.600000 2802 90.562400 1 4638 5 chr5A.!!$R2 4637
4 TraesCS2A01G318700 chr5A 104623647 104627441 3794 True 529.600000 918 89.150800 4629 7211 5 chr5A.!!$R1 2582
5 TraesCS2A01G318700 chr5B 107720372 107730013 9641 False 805.222222 2782 90.142444 1 7211 9 chr5B.!!$F1 7210
6 TraesCS2A01G318700 chr2D 405616165 405621259 5094 True 1962.500000 2534 96.802500 2443 7416 4 chr2D.!!$R1 4973
7 TraesCS2A01G318700 chr2D 405625900 405628592 2692 True 626.000000 1609 94.635500 1 2446 6 chr2D.!!$R2 2445

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
307 980 0.250234 GGCTCATGACACTAGGTGCA 59.750 55.0 0.00 0.00 36.98 4.57 F
665 1933 2.169832 TACTCTGTTCCTTGCTGTGC 57.830 50.0 0.00 0.00 0.00 4.57 F
1279 2565 0.182537 TGTTTCTGTGGGAGTGTGGG 59.817 55.0 0.00 0.00 0.00 4.61 F
2463 3960 2.416244 TTCAGGCTCACGTGTCGGTC 62.416 60.0 16.51 8.78 33.37 4.79 F
3878 5528 0.179056 ACATGTCCTATTTCGGCCCG 60.179 55.0 0.00 0.00 0.00 6.13 F
4678 6410 1.082117 GGTACGCTGGGACAATGACG 61.082 60.0 0.00 0.00 38.70 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1271 2557 0.036732 TTGACATCAGCCCCACACTC 59.963 55.000 0.00 0.0 0.00 3.51 R
2463 3960 1.056103 CTGAGTCTCGTTCGTGCTTG 58.944 55.000 0.00 0.0 0.00 4.01 R
2731 4229 1.726248 GCCAAACAAAAATAGGCAGCG 59.274 47.619 0.00 0.0 44.59 5.18 R
4233 5942 1.002069 TTACTACTCCCTCCGTCCCA 58.998 55.000 0.00 0.0 0.00 4.37 R
5850 8376 2.424956 GGATGAAACATTCTGTGGCCTC 59.575 50.000 3.32 0.0 0.00 4.70 R
6553 9337 2.021457 GTTTGGTCGGATAATGTGGGG 58.979 52.381 0.00 0.0 0.00 4.96 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
141 491 8.421784 CCAAGGTAATACAGCACTATCTTAAGA 58.578 37.037 7.82 7.82 0.00 2.10
143 493 9.988815 AAGGTAATACAGCACTATCTTAAGATG 57.011 33.333 25.22 17.38 36.05 2.90
147 656 7.847711 ATACAGCACTATCTTAAGATGGAGT 57.152 36.000 29.34 21.14 36.64 3.85
155 664 7.711339 CACTATCTTAAGATGGAGTTTACCCAC 59.289 40.741 29.34 0.00 36.64 4.61
161 670 0.250553 TGGAGTTTACCCACAAGGCG 60.251 55.000 0.00 0.00 40.58 5.52
292 965 6.425721 TGCCATAATGTACTTAAATACGGCTC 59.574 38.462 10.06 0.00 35.67 4.70
307 980 0.250234 GGCTCATGACACTAGGTGCA 59.750 55.000 0.00 0.00 36.98 4.57
311 984 3.681034 GCTCATGACACTAGGTGCAATCT 60.681 47.826 0.00 0.00 36.98 2.40
352 1253 2.891580 TGCTCCTGTTTCTAACTCGAGT 59.108 45.455 13.58 13.58 32.97 4.18
361 1262 9.751542 CCTGTTTCTAACTCGAGTATCATTAAT 57.248 33.333 20.39 2.61 33.17 1.40
441 1342 7.981142 TCTAAACACCCTTATATTTCTTTGCG 58.019 34.615 0.00 0.00 0.00 4.85
479 1380 3.073062 ACTGAACATACCAAGCACCTCTT 59.927 43.478 0.00 0.00 34.78 2.85
503 1404 7.119709 TGGCTATTGTAGTTGATACTTGCTA 57.880 36.000 0.00 0.00 35.78 3.49
507 1408 8.012241 GCTATTGTAGTTGATACTTGCTATTGC 58.988 37.037 0.00 0.00 35.78 3.56
515 1416 6.849588 TGATACTTGCTATTGCTGTACATG 57.150 37.500 0.00 0.00 40.48 3.21
531 1798 6.915300 GCTGTACATGTCTCTGTATACTGAAG 59.085 42.308 0.00 7.94 34.33 3.02
568 1835 7.660030 AATATTTTACCCCATTTGGACAGAG 57.340 36.000 0.00 0.00 37.39 3.35
660 1928 5.502544 GCATACGATTTACTCTGTTCCTTGC 60.503 44.000 0.00 0.00 0.00 4.01
665 1933 2.169832 TACTCTGTTCCTTGCTGTGC 57.830 50.000 0.00 0.00 0.00 4.57
676 1944 2.974698 GCTGTGCTTGCGTCTGGT 60.975 61.111 0.00 0.00 0.00 4.00
715 1983 6.456501 TCTAGAACACTCCTCTGCTTTTTAC 58.543 40.000 0.00 0.00 0.00 2.01
871 2139 3.515602 AGTGGTACCGGTATAGTAGGG 57.484 52.381 19.19 0.00 0.00 3.53
911 2179 6.810911 TCACTAGAAGGCTATCAGCTTTTAG 58.189 40.000 0.00 0.00 40.81 1.85
1190 2468 2.939103 CTCAGTAATTTGGAAGCTCCGG 59.061 50.000 0.00 0.00 40.17 5.14
1192 2470 2.420022 CAGTAATTTGGAAGCTCCGGTG 59.580 50.000 0.00 0.00 40.17 4.94
1220 2505 6.985645 GGCCATCTTATTTGATTGTTGCAATA 59.014 34.615 0.59 0.00 0.00 1.90
1270 2556 7.362920 CCTTTATGGAGGTTAATGTTTCTGTGG 60.363 40.741 0.00 0.00 38.35 4.17
1271 2557 3.761897 TGGAGGTTAATGTTTCTGTGGG 58.238 45.455 0.00 0.00 0.00 4.61
1279 2565 0.182537 TGTTTCTGTGGGAGTGTGGG 59.817 55.000 0.00 0.00 0.00 4.61
1298 2584 2.619074 GGGGCTGATGTCAAAACTAGCT 60.619 50.000 0.00 0.00 32.15 3.32
1318 2610 6.374417 AGCTTCTCACTACCTTAATTTCCA 57.626 37.500 0.00 0.00 0.00 3.53
1319 2611 6.779860 AGCTTCTCACTACCTTAATTTCCAA 58.220 36.000 0.00 0.00 0.00 3.53
1320 2612 7.231467 AGCTTCTCACTACCTTAATTTCCAAA 58.769 34.615 0.00 0.00 0.00 3.28
1321 2613 7.890655 AGCTTCTCACTACCTTAATTTCCAAAT 59.109 33.333 0.00 0.00 0.00 2.32
1322 2614 8.184848 GCTTCTCACTACCTTAATTTCCAAATC 58.815 37.037 0.00 0.00 0.00 2.17
1369 2661 7.411372 GCTCTCGAAGTCATAAAGAAACTTCAG 60.411 40.741 13.15 9.84 45.87 3.02
1620 3050 5.753438 TCATAAGGTGACAGCGATTCATTAC 59.247 40.000 0.00 0.00 0.00 1.89
2137 3629 5.684704 CCAGTAATTCTAATGGCTCCTTCA 58.315 41.667 0.00 0.00 36.52 3.02
2378 3875 5.163426 TGCTGCAATCCTTTTCTTTTCTGAA 60.163 36.000 0.00 0.00 0.00 3.02
2431 3928 4.565564 GCACTGTGGTACGAGGTTAAATAG 59.434 45.833 10.21 0.00 0.00 1.73
2463 3960 2.416244 TTCAGGCTCACGTGTCGGTC 62.416 60.000 16.51 8.78 33.37 4.79
2553 4050 8.930846 ATGCTCCTTTTACTAATGATATTGCT 57.069 30.769 0.00 0.00 0.00 3.91
2639 4136 9.920946 AAAGAAGGTTATAATGCCTATTCTTCA 57.079 29.630 8.47 0.00 33.32 3.02
2731 4229 7.039714 ACCAAACATTTTCTAGGGAGTCATTTC 60.040 37.037 0.00 0.00 0.00 2.17
2807 4305 2.070262 CAAGGTTGCTTGCTTTAGCC 57.930 50.000 0.00 0.00 40.49 3.93
2817 4323 6.284891 TGCTTGCTTTAGCCTTTATTCAAT 57.715 33.333 0.00 0.00 40.49 2.57
2837 4343 3.903876 CATCCGTGCAAGTACATGC 57.096 52.632 15.94 15.94 46.58 4.06
2869 4446 4.083110 AGGAATGAGTCAATGCTGAAAACG 60.083 41.667 0.80 0.00 31.88 3.60
3134 4720 3.262405 TCCAGATAGGTGTTTTAAGGCGT 59.738 43.478 0.00 0.00 39.02 5.68
3232 4818 6.867662 AAGAGATCGGCATTTGGTATTTAG 57.132 37.500 0.00 0.00 0.00 1.85
3828 5478 6.483307 TCACAGTGCCTTATTGATATGCTTAC 59.517 38.462 0.00 0.00 0.00 2.34
3835 5485 6.647067 GCCTTATTGATATGCTTACTCGTCTT 59.353 38.462 0.00 0.00 0.00 3.01
3878 5528 0.179056 ACATGTCCTATTTCGGCCCG 60.179 55.000 0.00 0.00 0.00 6.13
4058 5711 4.217550 TCCAGTTTAAGCATACAGGTTTGC 59.782 41.667 6.73 6.73 39.08 3.68
4164 5863 1.699634 CCATCCTGATACGGGGAACAT 59.300 52.381 0.00 0.00 35.08 2.71
4205 5914 2.612972 CGACACACCCAACTAGCAATCT 60.613 50.000 0.00 0.00 0.00 2.40
4206 5915 2.744202 GACACACCCAACTAGCAATCTG 59.256 50.000 0.00 0.00 0.00 2.90
4207 5916 2.106511 ACACACCCAACTAGCAATCTGT 59.893 45.455 0.00 0.00 0.00 3.41
4208 5917 3.326588 ACACACCCAACTAGCAATCTGTA 59.673 43.478 0.00 0.00 0.00 2.74
4209 5918 3.935203 CACACCCAACTAGCAATCTGTAG 59.065 47.826 0.00 0.00 0.00 2.74
4210 5919 3.583086 ACACCCAACTAGCAATCTGTAGT 59.417 43.478 0.00 0.00 0.00 2.73
4211 5920 3.935203 CACCCAACTAGCAATCTGTAGTG 59.065 47.826 0.00 0.00 29.71 2.74
4212 5921 3.583086 ACCCAACTAGCAATCTGTAGTGT 59.417 43.478 0.00 0.00 29.71 3.55
4213 5922 4.184629 CCCAACTAGCAATCTGTAGTGTC 58.815 47.826 0.00 0.00 29.71 3.67
4214 5923 4.322725 CCCAACTAGCAATCTGTAGTGTCA 60.323 45.833 0.00 0.00 29.71 3.58
4215 5924 5.237815 CCAACTAGCAATCTGTAGTGTCAA 58.762 41.667 0.00 0.00 29.71 3.18
4216 5925 5.700832 CCAACTAGCAATCTGTAGTGTCAAA 59.299 40.000 0.00 0.00 29.71 2.69
4217 5926 6.204688 CCAACTAGCAATCTGTAGTGTCAAAA 59.795 38.462 0.00 0.00 29.71 2.44
4218 5927 6.787085 ACTAGCAATCTGTAGTGTCAAAAC 57.213 37.500 0.00 0.00 0.00 2.43
4219 5928 4.732285 AGCAATCTGTAGTGTCAAAACG 57.268 40.909 0.00 0.00 0.00 3.60
4220 5929 3.058914 AGCAATCTGTAGTGTCAAAACGC 60.059 43.478 0.00 0.00 36.09 4.84
4222 5931 4.702392 CAATCTGTAGTGTCAAAACGCTC 58.298 43.478 0.00 0.00 42.59 5.03
4223 5932 3.728076 TCTGTAGTGTCAAAACGCTCT 57.272 42.857 0.00 0.00 42.59 4.09
4224 5933 4.054780 TCTGTAGTGTCAAAACGCTCTT 57.945 40.909 0.00 0.00 42.59 2.85
4225 5934 5.190992 TCTGTAGTGTCAAAACGCTCTTA 57.809 39.130 0.00 0.00 42.59 2.10
4226 5935 5.779922 TCTGTAGTGTCAAAACGCTCTTAT 58.220 37.500 0.00 0.00 42.59 1.73
4227 5936 6.916440 TCTGTAGTGTCAAAACGCTCTTATA 58.084 36.000 0.00 0.00 42.59 0.98
4228 5937 7.544622 TCTGTAGTGTCAAAACGCTCTTATAT 58.455 34.615 0.00 0.00 42.59 0.86
4229 5938 8.033038 TCTGTAGTGTCAAAACGCTCTTATATT 58.967 33.333 0.00 0.00 42.59 1.28
4230 5939 9.297586 CTGTAGTGTCAAAACGCTCTTATATTA 57.702 33.333 0.00 0.00 42.59 0.98
4231 5940 9.811995 TGTAGTGTCAAAACGCTCTTATATTAT 57.188 29.630 0.00 0.00 42.59 1.28
4236 5945 9.214957 TGTCAAAACGCTCTTATATTATATGGG 57.785 33.333 0.00 0.00 0.00 4.00
4237 5946 9.431887 GTCAAAACGCTCTTATATTATATGGGA 57.568 33.333 0.00 0.00 0.00 4.37
4238 5947 9.431887 TCAAAACGCTCTTATATTATATGGGAC 57.568 33.333 0.00 0.00 0.00 4.46
4239 5948 8.380644 CAAAACGCTCTTATATTATATGGGACG 58.619 37.037 0.00 6.33 0.00 4.79
4240 5949 6.145338 ACGCTCTTATATTATATGGGACGG 57.855 41.667 12.94 2.41 0.00 4.79
4241 5950 5.889853 ACGCTCTTATATTATATGGGACGGA 59.110 40.000 12.94 0.00 0.00 4.69
4242 5951 6.039493 ACGCTCTTATATTATATGGGACGGAG 59.961 42.308 12.94 0.00 0.00 4.63
4243 5952 6.515200 CGCTCTTATATTATATGGGACGGAGG 60.515 46.154 0.00 0.00 0.00 4.30
4244 5953 6.239345 GCTCTTATATTATATGGGACGGAGGG 60.239 46.154 0.00 0.00 0.00 4.30
4245 5954 6.988725 TCTTATATTATATGGGACGGAGGGA 58.011 40.000 0.00 0.00 0.00 4.20
4246 5955 7.067421 TCTTATATTATATGGGACGGAGGGAG 58.933 42.308 0.00 0.00 0.00 4.30
4496 6206 7.329588 AGATTTGGACGGTAAATTTGGATAC 57.670 36.000 0.00 0.00 0.00 2.24
4512 6222 1.133025 GATACAACCGCTGCATGCTTT 59.867 47.619 20.33 1.38 40.11 3.51
4615 6346 3.565902 TGAGAGGTGCACACTATATCTCG 59.434 47.826 20.43 0.00 0.00 4.04
4665 6397 3.438781 TCCATCATTTTGAGTTGGTACGC 59.561 43.478 0.00 0.00 30.53 4.42
4678 6410 1.082117 GGTACGCTGGGACAATGACG 61.082 60.000 0.00 0.00 38.70 4.35
4680 6412 2.233605 TACGCTGGGACAATGACGGG 62.234 60.000 0.00 0.00 38.70 5.28
4870 6617 3.863424 GGCATGCTTGATTTTGTCTCATG 59.137 43.478 18.92 0.00 35.20 3.07
4881 6628 6.823182 TGATTTTGTCTCATGGTGTAGTATGG 59.177 38.462 0.00 0.00 0.00 2.74
4903 6650 5.011738 TGGACCTTCTAGTTGTTCCAACTAG 59.988 44.000 26.88 26.88 46.82 2.57
4956 6912 9.527157 TCTGAATTCCATAAATGTTACCTTTCA 57.473 29.630 2.27 0.00 0.00 2.69
4981 6937 4.992951 GCAGCAAAAAGAAACCATCTGAAT 59.007 37.500 0.00 0.00 38.79 2.57
5139 7101 3.684908 TCTTTCGATGCCCAGATTCAAA 58.315 40.909 0.00 0.00 0.00 2.69
5313 7280 7.950684 AGGTGGATGATCTAGTAAACATAGCTA 59.049 37.037 0.00 0.00 0.00 3.32
5463 7434 7.113124 GCAATCGAATTATCAAATGCTGAAGAG 59.887 37.037 0.00 0.00 37.67 2.85
5470 7441 8.679288 ATTATCAAATGCTGAAGAGTTTTTCG 57.321 30.769 0.00 0.00 37.67 3.46
5739 7746 6.099845 TGTCCTAATAAAGATTCTCCACTCCC 59.900 42.308 0.00 0.00 0.00 4.30
5764 7771 6.544197 CGAGGCATAATTCTAGCTATCCTCTA 59.456 42.308 0.00 0.00 36.38 2.43
5819 8345 7.648908 TCGGTTTATAATACGGATGTACAAGTG 59.351 37.037 0.00 0.00 32.26 3.16
5850 8376 7.933577 TGTGTAGATATTATGCTCTTTGGGAAG 59.066 37.037 0.00 0.00 0.00 3.46
5858 8384 2.550787 TCTTTGGGAAGAGGCCACA 58.449 52.632 5.01 0.00 36.99 4.17
5969 8495 2.789409 AAGCTTAAGCCCTTCGACAT 57.211 45.000 23.71 0.00 43.38 3.06
6095 8665 5.221601 GCTGTCTCCTGAGAAATCATGGATA 60.222 44.000 0.00 0.00 39.48 2.59
6127 8697 8.851541 TTTAGTTACCCAACAGTAAATGTAGG 57.148 34.615 0.00 0.00 43.00 3.18
6172 8742 9.817809 TTTATGACGTATTCTCTATTTTGCTCT 57.182 29.630 0.00 0.00 0.00 4.09
6173 8743 7.706281 ATGACGTATTCTCTATTTTGCTCTG 57.294 36.000 0.00 0.00 0.00 3.35
6174 8744 5.520288 TGACGTATTCTCTATTTTGCTCTGC 59.480 40.000 0.00 0.00 0.00 4.26
6175 8745 5.665459 ACGTATTCTCTATTTTGCTCTGCT 58.335 37.500 0.00 0.00 0.00 4.24
6176 8746 5.521735 ACGTATTCTCTATTTTGCTCTGCTG 59.478 40.000 0.00 0.00 0.00 4.41
6331 8906 5.762218 AGAACCACAAGTCAAAGATCTTGAG 59.238 40.000 9.17 5.28 42.22 3.02
6481 9092 8.163408 TGGGAATTGAGAAAATAGTTCTTCAGA 58.837 33.333 0.00 0.00 0.00 3.27
6553 9337 1.696063 CCATGATCCATCCCAACCAC 58.304 55.000 0.00 0.00 0.00 4.16
6566 9359 1.388547 CAACCACCCCACATTATCCG 58.611 55.000 0.00 0.00 0.00 4.18
6686 10372 6.183360 GAACTAGAGTTGGCTAAAGAGCATTG 60.183 42.308 0.00 0.00 43.90 2.82
6687 10373 9.008683 GAACTAGAGTTGGCTAAAGAGCATTGG 62.009 44.444 0.00 0.00 43.90 3.16
6730 10416 1.022735 CTATGCAAGCCAGAGCCAAG 58.977 55.000 0.00 0.00 41.25 3.61
7211 10897 7.825681 ACTGATCATAGATCAGAAGGTATTCG 58.174 38.462 32.29 11.97 46.25 3.34
7219 10905 6.276847 AGATCAGAAGGTATTCGTCATTCAC 58.723 40.000 0.00 0.00 40.58 3.18
7225 10911 5.407407 AGGTATTCGTCATTCACTGAACT 57.593 39.130 0.00 0.00 35.07 3.01
7272 10958 5.821470 TCTCTACTGAAATACTGTACCGGAG 59.179 44.000 9.46 0.00 31.07 4.63
7286 10972 2.659800 CGGAGTGAAGTCTCTGGGT 58.340 57.895 0.00 0.00 37.23 4.51
7302 10988 0.035056 GGGTCTGTCTGGATGTTGGG 60.035 60.000 0.00 0.00 0.00 4.12
7314 11000 3.591527 TGGATGTTGGGACTGAATTAGGT 59.408 43.478 0.00 0.00 0.00 3.08
7403 11089 4.039004 TGTTTGGATGACTTGTGAATTGGG 59.961 41.667 0.00 0.00 0.00 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
125 126 6.552445 AACTCCATCTTAAGATAGTGCTGT 57.448 37.500 17.53 8.32 32.63 4.40
127 128 7.419172 GGGTAAACTCCATCTTAAGATAGTGCT 60.419 40.741 17.53 11.44 32.63 4.40
128 129 6.706716 GGGTAAACTCCATCTTAAGATAGTGC 59.293 42.308 17.53 11.56 32.63 4.40
141 491 1.613255 CGCCTTGTGGGTAAACTCCAT 60.613 52.381 0.00 0.00 36.58 3.41
143 493 0.250597 ACGCCTTGTGGGTAAACTCC 60.251 55.000 0.00 0.00 38.56 3.85
147 656 1.950909 CTTTGACGCCTTGTGGGTAAA 59.049 47.619 0.00 0.00 40.77 2.01
155 664 1.813513 ACTCCATCTTTGACGCCTTG 58.186 50.000 0.00 0.00 0.00 3.61
161 670 5.705609 TTGCCTTAAACTCCATCTTTGAC 57.294 39.130 0.00 0.00 0.00 3.18
292 965 6.741992 TTTTAGATTGCACCTAGTGTCATG 57.258 37.500 0.00 0.00 35.75 3.07
319 992 3.920231 ACAGGAGCAGATGCAAGATTA 57.080 42.857 7.68 0.00 45.16 1.75
423 1324 4.461198 CCTCCGCAAAGAAATATAAGGGT 58.539 43.478 0.00 0.00 0.00 4.34
425 1326 4.714632 TCCCTCCGCAAAGAAATATAAGG 58.285 43.478 0.00 0.00 0.00 2.69
434 1335 1.757118 CTCATACTCCCTCCGCAAAGA 59.243 52.381 0.00 0.00 0.00 2.52
439 1340 2.034812 CAGTAACTCATACTCCCTCCGC 59.965 54.545 0.00 0.00 43.12 5.54
441 1342 4.710375 TGTTCAGTAACTCATACTCCCTCC 59.290 45.833 0.00 0.00 43.12 4.30
479 1380 5.989477 AGCAAGTATCAACTACAATAGCCA 58.011 37.500 0.00 0.00 33.75 4.75
484 1385 7.554118 ACAGCAATAGCAAGTATCAACTACAAT 59.446 33.333 0.00 0.00 45.49 2.71
486 1387 6.406370 ACAGCAATAGCAAGTATCAACTACA 58.594 36.000 0.00 0.00 45.49 2.74
503 1404 7.068716 TCAGTATACAGAGACATGTACAGCAAT 59.931 37.037 5.50 0.00 38.43 3.56
507 1408 7.283354 TCCTTCAGTATACAGAGACATGTACAG 59.717 40.741 5.50 0.00 38.43 2.74
515 1416 7.399245 AGTTTCTCCTTCAGTATACAGAGAC 57.601 40.000 5.50 3.80 30.47 3.36
568 1835 9.793259 TCAATGGTCTAATCCTTTTGATATACC 57.207 33.333 0.00 0.00 33.42 2.73
641 1909 3.997021 ACAGCAAGGAACAGAGTAAATCG 59.003 43.478 0.00 0.00 0.00 3.34
660 1928 0.952497 ATGACCAGACGCAAGCACAG 60.952 55.000 0.00 0.00 45.62 3.66
665 1933 9.862060 AGAAGACTTTCTATGACCAGACGCAAG 62.862 44.444 0.00 0.00 41.82 4.01
715 1983 9.726232 CTTGAAGTTGTGGATGAATATAATGTG 57.274 33.333 0.00 0.00 0.00 3.21
729 1997 6.925211 TCTATCAGTCTACTTGAAGTTGTGG 58.075 40.000 1.97 0.00 0.00 4.17
792 2060 4.981674 TGTGCAGATTCAAAATTTCCGTTC 59.018 37.500 0.00 0.00 0.00 3.95
795 2063 7.028962 TCTATTGTGCAGATTCAAAATTTCCG 58.971 34.615 0.00 0.00 0.00 4.30
871 2139 9.570488 CCTTCTAGTGATACACAACTTAAGTAC 57.430 37.037 8.92 0.53 36.74 2.73
1171 2449 2.420022 CACCGGAGCTTCCAAATTACTG 59.580 50.000 9.46 0.00 35.91 2.74
1173 2451 2.706890 TCACCGGAGCTTCCAAATTAC 58.293 47.619 9.46 0.00 35.91 1.89
1180 2458 2.436824 GCCTTCACCGGAGCTTCC 60.437 66.667 9.46 0.00 0.00 3.46
1190 2468 6.212888 ACAATCAAATAAGATGGCCTTCAC 57.787 37.500 19.98 1.49 36.34 3.18
1192 2470 5.521372 GCAACAATCAAATAAGATGGCCTTC 59.479 40.000 10.66 10.66 36.34 3.46
1220 2505 6.407202 GTGGAGACTACACCATCTTAAACAT 58.593 40.000 6.55 0.00 38.83 2.71
1245 2530 7.362920 CCCACAGAAACATTAACCTCCATAAAG 60.363 40.741 0.00 0.00 0.00 1.85
1247 2532 5.949354 CCCACAGAAACATTAACCTCCATAA 59.051 40.000 0.00 0.00 0.00 1.90
1249 2534 4.044065 TCCCACAGAAACATTAACCTCCAT 59.956 41.667 0.00 0.00 0.00 3.41
1261 2547 0.537371 CCCCACACTCCCACAGAAAC 60.537 60.000 0.00 0.00 0.00 2.78
1270 2556 1.078143 GACATCAGCCCCACACTCC 60.078 63.158 0.00 0.00 0.00 3.85
1271 2557 0.036732 TTGACATCAGCCCCACACTC 59.963 55.000 0.00 0.00 0.00 3.51
1279 2565 4.006319 AGAAGCTAGTTTTGACATCAGCC 58.994 43.478 0.00 0.00 0.00 4.85
1318 2610 9.057089 GCTTTGGTATAGCTGTACATTAGATTT 57.943 33.333 20.57 0.00 35.74 2.17
1319 2611 8.432805 AGCTTTGGTATAGCTGTACATTAGATT 58.567 33.333 20.57 5.35 46.71 2.40
1320 2612 7.967908 AGCTTTGGTATAGCTGTACATTAGAT 58.032 34.615 20.57 10.45 46.71 1.98
1321 2613 7.361457 AGCTTTGGTATAGCTGTACATTAGA 57.639 36.000 20.57 3.23 46.71 2.10
1369 2661 3.569701 TGATTTCTTGTGCTTGGTCCTTC 59.430 43.478 0.00 0.00 0.00 3.46
1620 3050 5.920273 GGGTAATGTGAATTGTGAAGTGTTG 59.080 40.000 0.00 0.00 0.00 3.33
2137 3629 2.233922 AGGTAAACTGTCGCTATGCTGT 59.766 45.455 0.00 0.00 0.00 4.40
2221 3713 6.064846 ACCGATTTTCGTATACAGTATCGT 57.935 37.500 17.71 9.07 38.40 3.73
2230 3722 7.540400 TCGTTCAAGTTTACCGATTTTCGTATA 59.460 33.333 0.00 0.00 38.40 1.47
2396 3893 5.452216 CGTACCACAGTGCCCACTATTATTA 60.452 44.000 0.00 0.00 40.20 0.98
2431 3928 5.569059 CGTGAGCCTGAAAACAACATATTTC 59.431 40.000 0.00 0.00 36.35 2.17
2463 3960 1.056103 CTGAGTCTCGTTCGTGCTTG 58.944 55.000 0.00 0.00 0.00 4.01
2506 4003 3.907474 TCAGGAATTGGCCCGAGATTATA 59.093 43.478 0.00 0.00 0.00 0.98
2553 4050 2.829720 AGTCCTGTATGTAAGGTTCGCA 59.170 45.455 0.00 0.00 36.14 5.10
2708 4205 6.349363 GCGAAATGACTCCCTAGAAAATGTTT 60.349 38.462 0.00 0.00 0.00 2.83
2731 4229 1.726248 GCCAAACAAAAATAGGCAGCG 59.274 47.619 0.00 0.00 44.59 5.18
2837 4343 9.459640 CAGCATTGACTCATTCCTAATTAATTG 57.540 33.333 11.05 1.40 0.00 2.32
2841 4418 8.806429 TTTCAGCATTGACTCATTCCTAATTA 57.194 30.769 0.00 0.00 31.71 1.40
2869 4446 6.058183 AGGGACATACTTGATAAGAATGCAC 58.942 40.000 0.00 0.00 0.00 4.57
3134 4720 8.957466 TCTCGTTCAGTCTCTTTATCTTTCATA 58.043 33.333 0.00 0.00 0.00 2.15
3386 5034 2.393271 AGGCAATTGTCCTCTTCTCG 57.607 50.000 6.39 0.00 0.00 4.04
3828 5478 4.815269 AGGAAATCACTGAGAAAGACGAG 58.185 43.478 0.00 0.00 0.00 4.18
3835 5485 7.178451 TGTCATGTACTAGGAAATCACTGAGAA 59.822 37.037 0.00 0.00 0.00 2.87
3930 5580 6.983984 TGAACAGAAAAGATCAATTGCATCA 58.016 32.000 15.62 0.00 0.00 3.07
4123 5778 3.379688 GGAGTCTTGAAAGAATGGGATGC 59.620 47.826 0.00 0.00 36.68 3.91
4164 5863 6.416455 GTGTCGAGTCAAATGCAACATTTTTA 59.584 34.615 2.88 0.00 0.00 1.52
4205 5914 9.811995 ATAATATAAGAGCGTTTTGACACTACA 57.188 29.630 0.00 0.00 0.00 2.74
4210 5919 9.214957 CCCATATAATATAAGAGCGTTTTGACA 57.785 33.333 0.00 0.00 0.00 3.58
4211 5920 9.431887 TCCCATATAATATAAGAGCGTTTTGAC 57.568 33.333 0.00 0.00 0.00 3.18
4212 5921 9.431887 GTCCCATATAATATAAGAGCGTTTTGA 57.568 33.333 0.00 0.00 0.00 2.69
4213 5922 8.380644 CGTCCCATATAATATAAGAGCGTTTTG 58.619 37.037 0.00 0.00 0.00 2.44
4214 5923 7.548075 CCGTCCCATATAATATAAGAGCGTTTT 59.452 37.037 0.00 0.00 0.00 2.43
4215 5924 7.039882 CCGTCCCATATAATATAAGAGCGTTT 58.960 38.462 0.00 0.00 0.00 3.60
4216 5925 6.379133 TCCGTCCCATATAATATAAGAGCGTT 59.621 38.462 0.00 0.00 0.00 4.84
4217 5926 5.889853 TCCGTCCCATATAATATAAGAGCGT 59.110 40.000 0.00 0.00 0.00 5.07
4218 5927 6.387041 TCCGTCCCATATAATATAAGAGCG 57.613 41.667 0.00 0.00 0.00 5.03
4219 5928 6.239345 CCCTCCGTCCCATATAATATAAGAGC 60.239 46.154 0.00 0.00 0.00 4.09
4220 5929 7.067421 TCCCTCCGTCCCATATAATATAAGAG 58.933 42.308 0.00 0.00 0.00 2.85
4221 5930 6.988725 TCCCTCCGTCCCATATAATATAAGA 58.011 40.000 0.00 0.00 0.00 2.10
4222 5931 6.839657 ACTCCCTCCGTCCCATATAATATAAG 59.160 42.308 0.00 0.00 0.00 1.73
4223 5932 6.748969 ACTCCCTCCGTCCCATATAATATAA 58.251 40.000 0.00 0.00 0.00 0.98
4224 5933 6.351317 ACTCCCTCCGTCCCATATAATATA 57.649 41.667 0.00 0.00 0.00 0.86
4225 5934 5.222278 ACTCCCTCCGTCCCATATAATAT 57.778 43.478 0.00 0.00 0.00 1.28
4226 5935 4.687262 ACTCCCTCCGTCCCATATAATA 57.313 45.455 0.00 0.00 0.00 0.98
4227 5936 3.562108 ACTCCCTCCGTCCCATATAAT 57.438 47.619 0.00 0.00 0.00 1.28
4228 5937 3.400322 ACTACTCCCTCCGTCCCATATAA 59.600 47.826 0.00 0.00 0.00 0.98
4229 5938 2.991713 ACTACTCCCTCCGTCCCATATA 59.008 50.000 0.00 0.00 0.00 0.86
4230 5939 1.787676 ACTACTCCCTCCGTCCCATAT 59.212 52.381 0.00 0.00 0.00 1.78
4231 5940 1.229131 ACTACTCCCTCCGTCCCATA 58.771 55.000 0.00 0.00 0.00 2.74
4232 5941 1.229131 TACTACTCCCTCCGTCCCAT 58.771 55.000 0.00 0.00 0.00 4.00
4233 5942 1.002069 TTACTACTCCCTCCGTCCCA 58.998 55.000 0.00 0.00 0.00 4.37
4234 5943 2.378378 ATTACTACTCCCTCCGTCCC 57.622 55.000 0.00 0.00 0.00 4.46
4235 5944 3.450096 ACAAATTACTACTCCCTCCGTCC 59.550 47.826 0.00 0.00 0.00 4.79
4236 5945 4.159135 TGACAAATTACTACTCCCTCCGTC 59.841 45.833 0.00 0.00 0.00 4.79
4237 5946 4.091549 TGACAAATTACTACTCCCTCCGT 58.908 43.478 0.00 0.00 0.00 4.69
4238 5947 4.730949 TGACAAATTACTACTCCCTCCG 57.269 45.455 0.00 0.00 0.00 4.63
4239 5948 4.816925 GCATGACAAATTACTACTCCCTCC 59.183 45.833 0.00 0.00 0.00 4.30
4240 5949 5.675538 AGCATGACAAATTACTACTCCCTC 58.324 41.667 0.00 0.00 0.00 4.30
4241 5950 5.700402 AGCATGACAAATTACTACTCCCT 57.300 39.130 0.00 0.00 0.00 4.20
4242 5951 6.374333 TGAAAGCATGACAAATTACTACTCCC 59.626 38.462 0.00 0.00 0.00 4.30
4243 5952 7.377766 TGAAAGCATGACAAATTACTACTCC 57.622 36.000 0.00 0.00 0.00 3.85
4543 6257 7.230510 ACATAGTGGAGCTTTTACATGTCAAAA 59.769 33.333 0.00 7.26 0.00 2.44
4665 6397 0.036164 TGAACCCGTCATTGTCCCAG 59.964 55.000 0.00 0.00 0.00 4.45
4678 6410 2.271944 ACTTAGTTGGCAGTGAACCC 57.728 50.000 0.00 0.00 0.00 4.11
4680 6412 4.686554 CACTCTACTTAGTTGGCAGTGAAC 59.313 45.833 8.96 0.00 33.10 3.18
4782 6518 8.859090 TCAAAATGGATCTTTCACATACTTTGT 58.141 29.630 0.00 0.00 39.91 2.83
4870 6617 5.421374 ACAACTAGAAGGTCCATACTACACC 59.579 44.000 0.00 0.00 0.00 4.16
4903 6650 2.706190 ACCCTTGATCCCTATGTAGTGC 59.294 50.000 0.00 0.00 0.00 4.40
4956 6912 4.039488 TCAGATGGTTTCTTTTTGCTGCAT 59.961 37.500 1.84 0.00 29.93 3.96
4981 6937 6.428771 CCTTAGTAATGGGTTGAAGTTTCGAA 59.571 38.462 0.00 0.00 0.00 3.71
5139 7101 4.631813 CGTACTGCAAATAGGAAGAAAGCT 59.368 41.667 0.00 0.00 0.00 3.74
5313 7280 9.117183 AGTAACTCTAAATCAAACGAAAAAGGT 57.883 29.630 0.00 0.00 0.00 3.50
5739 7746 5.359576 AGAGGATAGCTAGAATTATGCCTCG 59.640 44.000 0.00 0.00 43.08 4.63
5764 7771 4.945246 ACAACTTGACACTTGACGTAGAT 58.055 39.130 0.00 0.00 0.00 1.98
5819 8345 7.721286 AAGAGCATAATATCTACACAAGTGC 57.279 36.000 0.00 0.00 0.00 4.40
5850 8376 2.424956 GGATGAAACATTCTGTGGCCTC 59.575 50.000 3.32 0.00 0.00 4.70
5969 8495 7.285629 TCAATTACCCAAAGTAACATCACACAA 59.714 33.333 0.00 0.00 43.66 3.33
6172 8742 5.519927 CGTATCAATCATACAAGTCACAGCA 59.480 40.000 0.00 0.00 37.80 4.41
6173 8743 5.520288 ACGTATCAATCATACAAGTCACAGC 59.480 40.000 0.00 0.00 37.80 4.40
6174 8744 7.394099 CAACGTATCAATCATACAAGTCACAG 58.606 38.462 0.00 0.00 37.80 3.66
6175 8745 6.183360 GCAACGTATCAATCATACAAGTCACA 60.183 38.462 0.00 0.00 37.80 3.58
6176 8746 6.183360 TGCAACGTATCAATCATACAAGTCAC 60.183 38.462 0.00 0.00 37.80 3.67
6331 8906 3.495001 GGCCACGAGAATCAAGCTTATAC 59.505 47.826 0.00 0.00 33.17 1.47
6481 9092 9.856162 TTCCAAAGGTTACTAGAATTAAGTTGT 57.144 29.630 0.00 0.00 0.00 3.32
6553 9337 2.021457 GTTTGGTCGGATAATGTGGGG 58.979 52.381 0.00 0.00 0.00 4.96
6566 9359 2.884639 ACACTACATGGCAAGTTTGGTC 59.115 45.455 0.00 0.00 0.00 4.02
6686 10372 4.093261 GTCAAACATACATGCCAAATTGCC 59.907 41.667 0.00 0.00 0.00 4.52
6687 10373 4.689812 TGTCAAACATACATGCCAAATTGC 59.310 37.500 0.00 0.00 0.00 3.56
6688 10374 5.927689 AGTGTCAAACATACATGCCAAATTG 59.072 36.000 0.00 0.00 0.00 2.32
6689 10375 6.100404 AGTGTCAAACATACATGCCAAATT 57.900 33.333 0.00 0.00 0.00 1.82
6690 10376 5.726980 AGTGTCAAACATACATGCCAAAT 57.273 34.783 0.00 0.00 0.00 2.32
6691 10377 6.619744 CATAGTGTCAAACATACATGCCAAA 58.380 36.000 0.00 0.00 0.00 3.28
6692 10378 5.392919 GCATAGTGTCAAACATACATGCCAA 60.393 40.000 0.00 0.00 35.36 4.52
6693 10379 4.096231 GCATAGTGTCAAACATACATGCCA 59.904 41.667 0.00 0.00 35.36 4.92
6730 10416 6.692681 CCAATATTTCGTCAATGACCAATGTC 59.307 38.462 7.91 0.00 42.12 3.06
7211 10897 6.429385 AGAGAAATGGAAGTTCAGTGAATGAC 59.571 38.462 9.18 0.00 44.66 3.06
7219 10905 7.693969 ATTAACCAGAGAAATGGAAGTTCAG 57.306 36.000 5.01 0.00 44.66 3.02
7225 10911 9.449719 GAGAAACTATTAACCAGAGAAATGGAA 57.550 33.333 0.00 0.00 43.57 3.53
7272 10958 2.029470 CAGACAGACCCAGAGACTTCAC 60.029 54.545 0.00 0.00 0.00 3.18
7286 10972 1.625315 CAGTCCCAACATCCAGACAGA 59.375 52.381 0.00 0.00 0.00 3.41
7302 10988 6.263168 CCCAATACCATTGACCTAATTCAGTC 59.737 42.308 0.46 1.69 0.00 3.51


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

AutoCloner maintained by Alex Coulton.