Multiple sequence alignment - TraesCS5A01G330700

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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 TraesCS5A01G330700 chr5A 100.000 5629 0 0 1 5629 540065077 540059449 0.000000e+00 10395
1 TraesCS5A01G330700 chr5B 87.600 2258 215 40 686 2900 515198449 515196214 0.000000e+00 2558
2 TraesCS5A01G330700 chr5B 89.350 892 67 15 3838 4723 515194253 515193384 0.000000e+00 1096
3 TraesCS5A01G330700 chr5B 80.242 744 91 21 4845 5567 112553185 112553893 5.030000e-140 508
4 TraesCS5A01G330700 chr5B 82.842 577 71 12 1 551 515199110 515198536 5.070000e-135 492
5 TraesCS5A01G330700 chr5B 85.437 309 36 7 4838 5139 120044241 120043935 4.230000e-81 313
6 TraesCS5A01G330700 chr5B 83.557 298 26 14 2995 3271 515195272 515194977 2.010000e-64 257
7 TraesCS5A01G330700 chr5B 94.574 129 2 5 3276 3404 378093187 378093064 1.600000e-45 195
8 TraesCS5A01G330700 chr5B 95.763 118 3 2 3277 3393 13181549 13181433 7.440000e-44 189
9 TraesCS5A01G330700 chr5B 96.522 115 2 2 3272 3386 380817575 380817463 7.440000e-44 189
10 TraesCS5A01G330700 chr5B 96.522 115 2 2 3272 3386 592070401 592070513 7.440000e-44 189
11 TraesCS5A01G330700 chr5D 90.900 1901 130 26 639 2529 425851847 425849980 0.000000e+00 2512
12 TraesCS5A01G330700 chr5D 91.130 1319 89 17 3411 4723 425848830 425847534 0.000000e+00 1762
13 TraesCS5A01G330700 chr5D 93.907 755 36 6 2574 3322 425849617 425848867 0.000000e+00 1131
14 TraesCS5A01G330700 chr5D 94.803 635 33 0 1 635 425853550 425852916 0.000000e+00 990
15 TraesCS5A01G330700 chr5D 90.753 757 35 8 4838 5583 507875305 507876037 0.000000e+00 977
16 TraesCS5A01G330700 chr5D 84.743 721 69 24 2597 3281 47308442 47307727 0.000000e+00 684
17 TraesCS5A01G330700 chr5D 84.874 357 22 5 2221 2575 425849981 425849655 1.170000e-86 331
18 TraesCS5A01G330700 chr5D 78.131 535 90 14 124 635 520111162 520111692 1.180000e-81 315
19 TraesCS5A01G330700 chr5D 85.050 301 30 6 2984 3281 57569365 57569653 5.520000e-75 292
20 TraesCS5A01G330700 chr5D 84.018 219 26 6 2574 2785 57443779 57443995 9.560000e-48 202
21 TraesCS5A01G330700 chr5D 90.083 121 12 0 4724 4844 371018616 371018496 2.100000e-34 158
22 TraesCS5A01G330700 chr5D 90.083 121 12 0 4724 4844 371273581 371273701 2.100000e-34 158
23 TraesCS5A01G330700 chr5D 89.256 121 13 0 4724 4844 507877309 507877189 9.770000e-33 152
24 TraesCS5A01G330700 chr2A 96.958 789 21 3 4838 5626 342643831 342644616 0.000000e+00 1321
25 TraesCS5A01G330700 chr2A 96.356 686 22 3 4838 5523 678999693 679000375 0.000000e+00 1125
26 TraesCS5A01G330700 chr2A 86.111 360 41 5 2930 3281 306003939 306003581 4.120000e-101 379
27 TraesCS5A01G330700 chr2A 95.000 120 6 0 4725 4844 342643562 342643681 7.440000e-44 189
28 TraesCS5A01G330700 chr2A 94.262 122 7 0 4723 4844 679001254 679001133 2.680000e-43 187
29 TraesCS5A01G330700 chr2A 91.667 120 10 0 4723 4842 773233040 773233159 3.490000e-37 167
30 TraesCS5A01G330700 chr2A 90.476 84 8 0 4761 4844 342645464 342645381 1.660000e-20 111
31 TraesCS5A01G330700 chr3A 94.945 811 17 7 4838 5626 747184415 747185223 0.000000e+00 1249
32 TraesCS5A01G330700 chr3A 94.215 121 7 0 4724 4844 747184144 747184264 9.630000e-43 185
33 TraesCS5A01G330700 chr7D 90.621 757 36 11 4838 5583 171751199 171751931 0.000000e+00 972
34 TraesCS5A01G330700 chr7D 84.545 220 27 2 3384 3596 75803520 75803739 1.590000e-50 211
35 TraesCS5A01G330700 chr7D 88.800 125 13 1 4721 4844 171753783 171753659 9.770000e-33 152
36 TraesCS5A01G330700 chr2B 89.605 760 42 10 4833 5579 96968193 96968928 0.000000e+00 931
37 TraesCS5A01G330700 chr2B 79.861 432 78 8 124 549 134253184 134253612 1.970000e-79 307
38 TraesCS5A01G330700 chr2B 72.538 528 110 21 138 636 563313690 563314211 7.600000e-29 139
39 TraesCS5A01G330700 chr6A 83.150 635 68 15 2666 3279 254962777 254962161 1.380000e-150 544
40 TraesCS5A01G330700 chr6A 80.465 430 75 8 126 549 591940844 591940418 2.530000e-83 320
41 TraesCS5A01G330700 chrUn 91.892 370 15 4 5223 5583 479497441 479497078 2.340000e-138 503
42 TraesCS5A01G330700 chrUn 93.529 340 19 2 4838 5175 480424943 480425281 2.340000e-138 503
43 TraesCS5A01G330700 chrUn 84.633 436 34 3 2724 3127 134113682 134114116 2.440000e-108 403
44 TraesCS5A01G330700 chrUn 82.692 364 37 9 2574 2924 47862162 47862512 3.300000e-77 300
45 TraesCS5A01G330700 chr1D 88.592 412 34 7 5199 5598 7706534 7706944 6.550000e-134 488
46 TraesCS5A01G330700 chr4A 89.106 358 35 4 2925 3281 122734076 122734430 5.180000e-120 442
47 TraesCS5A01G330700 chr4A 84.633 436 34 3 2724 3127 596709961 596710395 2.440000e-108 403
48 TraesCS5A01G330700 chr4A 84.450 373 40 10 2574 2931 478073879 478074248 8.970000e-93 351
49 TraesCS5A01G330700 chr4A 84.110 365 43 7 2574 2924 602905165 602904802 6.990000e-89 339
50 TraesCS5A01G330700 chr4A 93.600 125 7 1 3263 3387 542445907 542446030 9.630000e-43 185
51 TraesCS5A01G330700 chr4D 88.235 357 34 5 2926 3281 340400986 340401335 2.430000e-113 420
52 TraesCS5A01G330700 chr1B 89.789 284 25 4 4841 5122 452765472 452765753 1.490000e-95 361
53 TraesCS5A01G330700 chr1B 88.350 206 19 1 2724 2924 31365773 31365568 5.630000e-60 243
54 TraesCS5A01G330700 chr1B 95.833 120 4 1 3266 3385 395249033 395248915 5.760000e-45 193
55 TraesCS5A01G330700 chr3D 80.278 431 78 7 126 551 24569170 24569598 9.100000e-83 318
56 TraesCS5A01G330700 chr3D 84.475 219 28 3 3384 3596 583317749 583317967 1.590000e-50 211
57 TraesCS5A01G330700 chr3D 90.370 135 12 1 5474 5607 565689588 565689454 5.800000e-40 176
58 TraesCS5A01G330700 chr3B 80.233 430 76 8 126 549 463483630 463484056 1.180000e-81 315
59 TraesCS5A01G330700 chr3B 80.000 430 76 9 126 549 778000400 778000825 5.480000e-80 309
60 TraesCS5A01G330700 chr3B 95.082 122 4 2 3278 3399 636249709 636249590 2.070000e-44 191
61 TraesCS5A01G330700 chr3B 81.279 219 31 7 3386 3596 758394474 758394690 9.700000e-38 169
62 TraesCS5A01G330700 chr7B 80.000 430 77 8 126 549 380072774 380073200 5.480000e-80 309
63 TraesCS5A01G330700 chr7A 89.806 206 16 1 2724 2924 105216862 105217067 5.590000e-65 259
64 TraesCS5A01G330700 chr7A 90.210 143 7 4 3249 3386 403363354 403363494 4.480000e-41 180
65 TraesCS5A01G330700 chr6D 89.320 206 17 1 2724 2924 159231525 159231320 2.600000e-63 254
66 TraesCS5A01G330700 chr6B 92.969 128 6 3 3261 3387 120355520 120355395 3.460000e-42 183


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 TraesCS5A01G330700 chr5A 540059449 540065077 5628 True 10395.00 10395 100.00000 1 5629 1 chr5A.!!$R1 5628
1 TraesCS5A01G330700 chr5B 515193384 515199110 5726 True 1100.75 2558 85.83725 1 4723 4 chr5B.!!$R5 4722
2 TraesCS5A01G330700 chr5B 112553185 112553893 708 False 508.00 508 80.24200 4845 5567 1 chr5B.!!$F1 722
3 TraesCS5A01G330700 chr5D 425847534 425853550 6016 True 1345.20 2512 91.12280 1 4723 5 chr5D.!!$R4 4722
4 TraesCS5A01G330700 chr5D 507875305 507876037 732 False 977.00 977 90.75300 4838 5583 1 chr5D.!!$F4 745
5 TraesCS5A01G330700 chr5D 47307727 47308442 715 True 684.00 684 84.74300 2597 3281 1 chr5D.!!$R1 684
6 TraesCS5A01G330700 chr5D 520111162 520111692 530 False 315.00 315 78.13100 124 635 1 chr5D.!!$F5 511
7 TraesCS5A01G330700 chr2A 678999693 679000375 682 False 1125.00 1125 96.35600 4838 5523 1 chr2A.!!$F1 685
8 TraesCS5A01G330700 chr2A 342643562 342644616 1054 False 755.00 1321 95.97900 4725 5626 2 chr2A.!!$F3 901
9 TraesCS5A01G330700 chr3A 747184144 747185223 1079 False 717.00 1249 94.58000 4724 5626 2 chr3A.!!$F1 902
10 TraesCS5A01G330700 chr7D 171751199 171751931 732 False 972.00 972 90.62100 4838 5583 1 chr7D.!!$F2 745
11 TraesCS5A01G330700 chr2B 96968193 96968928 735 False 931.00 931 89.60500 4833 5579 1 chr2B.!!$F1 746
12 TraesCS5A01G330700 chr6A 254962161 254962777 616 True 544.00 544 83.15000 2666 3279 1 chr6A.!!$R1 613

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
294 321 0.394565 GTGAAGGTGTGTCTCTGGCT 59.605 55.000 0.0 0.00 0.00 4.75 F
1238 2367 0.460987 CCTCTCGCACATCCTTCACC 60.461 60.000 0.0 0.00 0.00 4.02 F
1898 3027 0.038744 CAACTCTGATGGCCCAGGTT 59.961 55.000 0.0 5.28 34.99 3.50 F
2582 4037 1.197721 GATGTTTCCTGTTGAGTGCCG 59.802 52.381 0.0 0.00 0.00 5.69 F
4012 6675 0.034337 TGCTGGAACGGTAAGACCAC 59.966 55.000 0.0 0.00 38.47 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 2596 0.179018 AGATATCAGGGCCGCCAAAC 60.179 55.00 12.58 0.0 0.00 2.93 R
2321 3452 0.037590 AAACCTGAATGGGTAGCGCA 59.962 50.00 11.47 0.0 38.87 6.09 R
3371 5724 1.264295 ACCAAGTACTCCCTCCGTTC 58.736 55.00 0.00 0.0 0.00 3.95 R
4259 6922 0.250209 ATATCAGCCTGCTTCTGCCG 60.250 55.00 0.00 0.0 38.71 5.69 R
5237 8088 4.776349 ACAACCAGTTCACATCAGTTACA 58.224 39.13 0.00 0.0 0.00 2.41 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
182 209 2.372172 AGGTTTTGTGTCCTACTCAGGG 59.628 50.000 0.00 0.00 42.87 4.45
210 237 1.291877 CGACAACGGCTCCTTGAAGG 61.292 60.000 4.45 4.45 34.47 3.46
230 257 6.436532 TGAAGGTAGAATAAGGTTCTTCTCGT 59.563 38.462 0.00 0.00 33.83 4.18
294 321 0.394565 GTGAAGGTGTGTCTCTGGCT 59.605 55.000 0.00 0.00 0.00 4.75
356 383 1.404315 GCTCGGATCCAGTCTTCGTTT 60.404 52.381 13.41 0.00 0.00 3.60
390 417 2.764010 GTGTTTTCAGGTTGGACCCTTT 59.236 45.455 0.00 0.00 39.75 3.11
470 497 2.158696 GCCTTAGCATGATGACTTCCCT 60.159 50.000 0.00 0.00 39.53 4.20
564 610 4.082408 CACTTCAGTGGTGGTCTACGAATA 60.082 45.833 0.00 0.00 42.10 1.75
575 621 7.452189 TGGTGGTCTACGAATATGGATGTAATA 59.548 37.037 0.00 0.00 0.00 0.98
767 1880 7.629866 GCCCACTAAAGGTATATTGGTTCAAAC 60.630 40.741 0.00 0.00 0.00 2.93
848 1976 2.010582 GAGACTCGAAGCCGCCATCT 62.011 60.000 0.00 0.00 35.37 2.90
1227 2356 3.360423 ATCCCCTCGTCCTCTCGCA 62.360 63.158 0.00 0.00 0.00 5.10
1238 2367 0.460987 CCTCTCGCACATCCTTCACC 60.461 60.000 0.00 0.00 0.00 4.02
1464 2593 2.970974 GAGTGGCTGCTCCGTTTGC 61.971 63.158 0.00 0.00 37.80 3.68
1484 2613 1.525995 CGTTTGGCGGCCCTGATAT 60.526 57.895 17.97 0.00 36.85 1.63
1491 2620 1.134371 GGCGGCCCTGATATCTAATCC 60.134 57.143 8.12 0.08 0.00 3.01
1492 2621 1.471676 GCGGCCCTGATATCTAATCCG 60.472 57.143 16.87 16.87 38.72 4.18
1493 2622 1.471676 CGGCCCTGATATCTAATCCGC 60.472 57.143 3.98 0.00 0.00 5.54
1603 2732 2.029380 GCACCAAAACCCTAATGTGTCC 60.029 50.000 0.00 0.00 0.00 4.02
1835 2964 1.112315 GGGACATGTGTGGGTTTGCA 61.112 55.000 1.15 0.00 0.00 4.08
1871 3000 4.390264 TCCGTGGTGTCAATTTCATACAA 58.610 39.130 0.00 0.00 0.00 2.41
1880 3009 7.309499 GGTGTCAATTTCATACAAATACCCACA 60.309 37.037 0.00 0.00 0.00 4.17
1898 3027 0.038744 CAACTCTGATGGCCCAGGTT 59.961 55.000 0.00 5.28 34.99 3.50
1910 3039 2.621668 GGCCCAGGTTCTAAGCTTGATT 60.622 50.000 9.86 0.00 33.87 2.57
1912 3041 3.119352 GCCCAGGTTCTAAGCTTGATTTG 60.119 47.826 9.86 0.15 33.87 2.32
1919 3048 9.565213 CAGGTTCTAAGCTTGATTTGAATTTAG 57.435 33.333 9.86 0.00 33.87 1.85
1924 3053 9.396022 TCTAAGCTTGATTTGAATTTAGTAGGG 57.604 33.333 9.86 0.00 0.00 3.53
1929 3058 8.094548 GCTTGATTTGAATTTAGTAGGGGTTTT 58.905 33.333 0.00 0.00 0.00 2.43
1940 3069 9.816787 ATTTAGTAGGGGTTTTAAGACATTTGA 57.183 29.630 0.00 0.00 0.00 2.69
1958 3087 3.168035 TGATTTGGTGCTAATGTGGGT 57.832 42.857 0.00 0.00 0.00 4.51
1985 3114 5.595952 GGATGAATTGCTTTAGGTGGATTCT 59.404 40.000 0.00 0.00 0.00 2.40
2082 3211 4.681942 GTGTACTCATTGACACAGAGACAC 59.318 45.833 9.65 13.06 44.38 3.67
2177 3306 2.091885 ACCCTTCTTTGAGTGGCAAGAA 60.092 45.455 0.00 0.00 37.87 2.52
2195 3324 5.233689 GCAAGAAAAGAATATGGCAGCAATC 59.766 40.000 0.00 0.00 0.00 2.67
2209 3338 3.119291 CAGCAATCTTAGCGAGGTACTG 58.881 50.000 0.00 0.00 41.55 2.74
2219 3348 2.561419 AGCGAGGTACTGAGCAAGTTTA 59.439 45.455 9.00 0.00 41.55 2.01
2220 3349 3.006537 AGCGAGGTACTGAGCAAGTTTAA 59.993 43.478 9.00 0.00 41.55 1.52
2266 3397 9.783256 GTACCACCAATTTTACTTTGATATGAC 57.217 33.333 0.00 0.00 0.00 3.06
2289 3420 6.496571 ACGAGATATTTGAGAGGTAAAGACG 58.503 40.000 0.00 0.00 0.00 4.18
2297 3428 4.385825 TGAGAGGTAAAGACGTGCAATTT 58.614 39.130 0.00 0.00 0.00 1.82
2317 3448 7.278424 GCAATTTCATTACATATGTGGTTGCTT 59.722 33.333 18.81 1.68 35.49 3.91
2321 3452 8.574251 TTCATTACATATGTGGTTGCTTTAGT 57.426 30.769 18.81 0.00 0.00 2.24
2334 3747 1.330829 GCTTTAGTGCGCTACCCATTC 59.669 52.381 9.73 0.00 0.00 2.67
2345 3758 3.871594 CGCTACCCATTCAGGTTTAAGAG 59.128 47.826 0.00 0.00 41.58 2.85
2357 3770 6.601332 TCAGGTTTAAGAGTTGTGGATTCTT 58.399 36.000 0.00 0.00 37.92 2.52
2358 3771 7.060421 TCAGGTTTAAGAGTTGTGGATTCTTT 58.940 34.615 0.00 0.00 36.02 2.52
2374 3787 6.070824 TGGATTCTTTGTAGATGTGCAGTCTA 60.071 38.462 4.97 4.97 0.00 2.59
2381 3794 6.286240 TGTAGATGTGCAGTCTAATCTTGT 57.714 37.500 9.65 0.00 31.90 3.16
2382 3795 6.701340 TGTAGATGTGCAGTCTAATCTTGTT 58.299 36.000 9.65 0.00 31.90 2.83
2383 3796 7.161404 TGTAGATGTGCAGTCTAATCTTGTTT 58.839 34.615 9.65 0.00 31.90 2.83
2384 3797 6.492007 AGATGTGCAGTCTAATCTTGTTTG 57.508 37.500 0.00 0.00 0.00 2.93
2385 3798 5.413833 AGATGTGCAGTCTAATCTTGTTTGG 59.586 40.000 0.00 0.00 0.00 3.28
2386 3799 4.460263 TGTGCAGTCTAATCTTGTTTGGT 58.540 39.130 0.00 0.00 0.00 3.67
2432 3845 5.953571 ACTGGTTAAGTTTCCTCTTCCATT 58.046 37.500 0.00 0.00 34.57 3.16
2435 3848 5.074515 TGGTTAAGTTTCCTCTTCCATTCCT 59.925 40.000 0.00 0.00 0.00 3.36
2436 3849 5.416013 GGTTAAGTTTCCTCTTCCATTCCTG 59.584 44.000 0.00 0.00 0.00 3.86
2477 3891 7.041721 GGAGATATATGTTGTCAACACTGTCA 58.958 38.462 20.41 5.34 45.50 3.58
2482 3896 7.750229 ATATGTTGTCAACACTGTCATTTCT 57.250 32.000 20.41 3.69 45.50 2.52
2582 4037 1.197721 GATGTTTCCTGTTGAGTGCCG 59.802 52.381 0.00 0.00 0.00 5.69
2640 4095 7.986320 TGGTTGTTTGAATCATGATCTGTTTTT 59.014 29.630 9.06 0.00 0.00 1.94
2699 4154 7.039313 ACAGTAGTCATATGAATAGCACGAA 57.961 36.000 12.93 0.00 0.00 3.85
2747 4209 8.665643 TTTTCTGAATTGCATTGTCTGAAATT 57.334 26.923 18.71 2.16 44.45 1.82
2846 4316 4.517285 TGTCATTCTTAACTCTCCATGGC 58.483 43.478 6.96 0.00 0.00 4.40
2866 4336 1.952296 CTTGCTTTGCTGTCCTGTTCT 59.048 47.619 0.00 0.00 0.00 3.01
3209 5562 8.523915 TTTATCTGTCTTGCATTATGATGGTT 57.476 30.769 0.00 0.00 33.72 3.67
3300 5653 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
3304 5657 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
3305 5658 3.841643 TCCGTTCGGAATTACTTGTCTC 58.158 45.455 11.66 0.00 0.00 3.36
3306 5659 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
3307 5660 3.495193 CGTTCGGAATTACTTGTCTCGA 58.505 45.455 0.00 0.00 0.00 4.04
3313 5666 5.350365 TCGGAATTACTTGTCTCGAAAATGG 59.650 40.000 0.00 0.00 0.00 3.16
3316 5669 7.414098 CGGAATTACTTGTCTCGAAAATGGATT 60.414 37.037 0.00 0.00 0.00 3.01
3317 5670 7.698130 GGAATTACTTGTCTCGAAAATGGATTG 59.302 37.037 0.00 0.00 0.00 2.67
3318 5671 7.687941 ATTACTTGTCTCGAAAATGGATTGT 57.312 32.000 0.00 0.00 0.00 2.71
3319 5672 8.786826 ATTACTTGTCTCGAAAATGGATTGTA 57.213 30.769 0.00 0.00 0.00 2.41
3320 5673 8.786826 TTACTTGTCTCGAAAATGGATTGTAT 57.213 30.769 0.00 0.00 0.00 2.29
3321 5674 7.308782 ACTTGTCTCGAAAATGGATTGTATC 57.691 36.000 0.00 0.00 0.00 2.24
3323 5676 8.258007 ACTTGTCTCGAAAATGGATTGTATCTA 58.742 33.333 0.00 0.00 0.00 1.98
3324 5677 8.648557 TTGTCTCGAAAATGGATTGTATCTAG 57.351 34.615 0.00 0.00 0.00 2.43
3325 5678 8.007405 TGTCTCGAAAATGGATTGTATCTAGA 57.993 34.615 0.00 0.00 0.00 2.43
3327 5680 8.920665 GTCTCGAAAATGGATTGTATCTAGATG 58.079 37.037 15.79 0.00 0.00 2.90
3328 5681 8.642432 TCTCGAAAATGGATTGTATCTAGATGT 58.358 33.333 15.79 0.00 0.00 3.06
3329 5682 9.914131 CTCGAAAATGGATTGTATCTAGATGTA 57.086 33.333 15.79 1.12 0.00 2.29
3357 5710 6.978674 AGTTCTAGATACATCCATTTCCGA 57.021 37.500 0.00 0.00 0.00 4.55
3371 5724 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
3378 5731 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
3379 5732 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
3380 5733 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
3381 5734 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
3384 5737 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
3388 5741 0.172803 CCGAACGGAGGGAGTACTTG 59.827 60.000 7.53 0.00 37.50 3.16
3401 5754 4.321230 GGGAGTACTTGGTTGAAGCATTTG 60.321 45.833 0.00 0.00 34.68 2.32
3402 5755 4.518970 GGAGTACTTGGTTGAAGCATTTGA 59.481 41.667 0.00 0.00 34.68 2.69
3403 5756 5.183904 GGAGTACTTGGTTGAAGCATTTGAT 59.816 40.000 0.00 0.00 34.68 2.57
3404 5757 6.017400 AGTACTTGGTTGAAGCATTTGATG 57.983 37.500 0.00 0.00 34.68 3.07
3406 5759 3.007182 ACTTGGTTGAAGCATTTGATGGG 59.993 43.478 0.00 0.00 34.68 4.00
3407 5760 2.886913 TGGTTGAAGCATTTGATGGGA 58.113 42.857 0.00 0.00 0.00 4.37
3408 5761 3.237746 TGGTTGAAGCATTTGATGGGAA 58.762 40.909 0.00 0.00 0.00 3.97
3409 5762 3.839490 TGGTTGAAGCATTTGATGGGAAT 59.161 39.130 0.00 0.00 0.00 3.01
3410 5763 4.186159 GGTTGAAGCATTTGATGGGAATG 58.814 43.478 0.00 0.00 37.51 2.67
3415 5769 3.972133 AGCATTTGATGGGAATGACTCA 58.028 40.909 1.32 0.00 36.78 3.41
3548 6071 3.857157 TGAGTTGGGGTAGCATTATCC 57.143 47.619 0.00 0.00 0.00 2.59
3555 6078 7.004691 AGTTGGGGTAGCATTATCCTTTTATC 58.995 38.462 0.00 0.00 30.20 1.75
3683 6208 6.615264 TGACTATATGGTACGTTGACTCTC 57.385 41.667 0.00 0.00 0.00 3.20
3689 6214 1.884579 GGTACGTTGACTCTCCAGACA 59.115 52.381 0.00 0.00 0.00 3.41
3734 6263 3.761897 TGCTATATTTGTGGTATGGGGC 58.238 45.455 0.00 0.00 0.00 5.80
3792 6321 2.043652 ATGCACCATCCCACCAGC 60.044 61.111 0.00 0.00 0.00 4.85
3850 6511 3.744660 AGGAACTAAGCAACCTGAACTG 58.255 45.455 0.00 0.00 36.02 3.16
3856 6517 2.435372 AGCAACCTGAACTGACCAAA 57.565 45.000 0.00 0.00 0.00 3.28
3857 6518 2.024414 AGCAACCTGAACTGACCAAAC 58.976 47.619 0.00 0.00 0.00 2.93
3888 6549 6.044682 GGAATTTAATGGCATCCTTCTGTTG 58.955 40.000 0.00 0.00 0.00 3.33
3921 6582 7.389884 GCATCCATGTTACTCACTGATCATTAT 59.610 37.037 0.00 0.00 0.00 1.28
4012 6675 0.034337 TGCTGGAACGGTAAGACCAC 59.966 55.000 0.00 0.00 38.47 4.16
4013 6676 0.672711 GCTGGAACGGTAAGACCACC 60.673 60.000 0.00 0.00 38.47 4.61
4018 6681 2.410939 GAACGGTAAGACCACCTGAAC 58.589 52.381 0.00 0.00 38.47 3.18
4028 6691 4.589908 AGACCACCTGAACATTTGATACC 58.410 43.478 0.00 0.00 0.00 2.73
4044 6707 9.293404 CATTTGATACCACCTCTTAATCATGAT 57.707 33.333 1.18 1.18 0.00 2.45
4048 6711 9.342308 TGATACCACCTCTTAATCATGATTTTC 57.658 33.333 25.26 3.69 32.50 2.29
4052 6715 8.112183 ACCACCTCTTAATCATGATTTTCTCTT 58.888 33.333 25.26 3.49 32.50 2.85
4063 6726 8.924511 TCATGATTTTCTCTTGTTTCCTTACT 57.075 30.769 0.00 0.00 32.30 2.24
4065 6728 7.510549 TGATTTTCTCTTGTTTCCTTACTGG 57.489 36.000 0.00 0.00 37.10 4.00
4081 6744 1.291877 CTGGCGTCTTCTGTTTCCGG 61.292 60.000 0.00 0.00 0.00 5.14
4083 6746 1.005394 GCGTCTTCTGTTTCCGGGA 60.005 57.895 0.00 0.00 0.00 5.14
4093 6756 0.746923 GTTTCCGGGATGGCACTACC 60.747 60.000 0.00 0.00 37.80 3.18
4197 6860 1.675641 GCCAAGCTTCCCGTGACAT 60.676 57.895 0.00 0.00 0.00 3.06
4217 6880 0.322098 CACCAAAGGGCATGACGGTA 60.322 55.000 0.00 0.00 37.90 4.02
4228 6891 3.182967 GCATGACGGTAGAGAAGTTCAG 58.817 50.000 5.50 0.00 0.00 3.02
4241 6904 3.438087 AGAAGTTCAGAAACATCATGGCG 59.562 43.478 5.50 0.00 35.94 5.69
4253 6916 3.707611 ACATCATGGCGGTAAGTACCTTA 59.292 43.478 5.97 0.00 44.25 2.69
4259 6922 7.156673 TCATGGCGGTAAGTACCTTAAATATC 58.843 38.462 5.97 0.00 44.25 1.63
4293 6956 4.325119 GCTGATATGCTTGGACATCTCAT 58.675 43.478 0.00 0.00 34.03 2.90
4294 6957 4.154375 GCTGATATGCTTGGACATCTCATG 59.846 45.833 0.00 0.00 34.03 3.07
4295 6958 4.070009 TGATATGCTTGGACATCTCATGC 58.930 43.478 0.00 0.00 30.71 4.06
4296 6959 2.430248 ATGCTTGGACATCTCATGCA 57.570 45.000 7.01 7.01 45.05 3.96
4299 6962 3.093814 TGCTTGGACATCTCATGCATTT 58.906 40.909 0.00 0.00 39.34 2.32
4300 6963 3.129813 TGCTTGGACATCTCATGCATTTC 59.870 43.478 0.00 0.00 39.34 2.17
4301 6964 3.380637 GCTTGGACATCTCATGCATTTCT 59.619 43.478 0.00 0.00 35.97 2.52
4309 6972 8.246180 GGACATCTCATGCATTTCTCTTTTTAA 58.754 33.333 0.00 0.00 0.00 1.52
4310 6973 9.798994 GACATCTCATGCATTTCTCTTTTTAAT 57.201 29.630 0.00 0.00 0.00 1.40
4383 7052 2.830704 GAAGGTCGCGGACGGATTGT 62.831 60.000 6.13 0.00 40.63 2.71
4472 7141 4.736896 GACGAAACCCTCCGCGCT 62.737 66.667 5.56 0.00 0.00 5.92
4505 7174 0.723981 GATCGTTGTCAAGCTGGAGC 59.276 55.000 0.00 0.00 42.49 4.70
4650 7322 2.353109 GGTTGGTTCCAGGTCGTAGTAC 60.353 54.545 0.00 0.00 0.00 2.73
4651 7323 2.560105 GTTGGTTCCAGGTCGTAGTACT 59.440 50.000 0.00 0.00 0.00 2.73
4652 7324 3.719268 TGGTTCCAGGTCGTAGTACTA 57.281 47.619 0.00 0.00 0.00 1.82
4653 7325 3.347216 TGGTTCCAGGTCGTAGTACTAC 58.653 50.000 21.06 21.06 0.00 2.73
4693 7365 4.371786 TCATGCCTCAGTAATCGTGAATC 58.628 43.478 0.00 0.00 0.00 2.52
4694 7366 4.100035 TCATGCCTCAGTAATCGTGAATCT 59.900 41.667 0.00 0.00 0.00 2.40
4711 7383 6.959871 CGTGAATCTTGATCAGTCATTTTGAG 59.040 38.462 0.00 0.00 33.56 3.02
4717 7389 7.642669 TCTTGATCAGTCATTTTGAGAAACAC 58.357 34.615 0.00 0.00 33.56 3.32
4765 7437 1.757699 GAAGTTCTACTGCCGAGGGAT 59.242 52.381 0.00 0.00 0.00 3.85
4778 7450 0.454600 GAGGGATGTCGTTCACGCTA 59.545 55.000 0.00 0.00 39.60 4.26
4808 7480 2.107366 TCAGGCATCCAACGATACTCA 58.893 47.619 0.00 0.00 0.00 3.41
4815 7487 3.587797 TCCAACGATACTCACAGGAAC 57.412 47.619 0.00 0.00 0.00 3.62
5237 8088 3.446516 GGAGAAATGCCAGATTGAGCTTT 59.553 43.478 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.109723 AAGGGGTAAGTCGCAAGCAA 59.890 50.000 0.00 0.00 37.18 3.91
182 209 0.938168 AGCCGTTGTCGTCTCGTTTC 60.938 55.000 0.00 0.00 35.01 2.78
210 237 7.134163 GCTAGACGAGAAGAACCTTATTCTAC 58.866 42.308 0.00 0.00 38.71 2.59
249 276 3.389329 ACCTTCAACGATGCTAGATGGAT 59.611 43.478 0.00 0.00 0.00 3.41
294 321 1.066152 CGACTGAATCCTGCGAGATCA 59.934 52.381 0.00 0.00 0.00 2.92
390 417 5.536260 CCGATGAAGAGAAGCATAGATCAA 58.464 41.667 0.00 0.00 0.00 2.57
470 497 6.073980 GCAAAACTTATTGTAGACGACAGTCA 60.074 38.462 0.41 0.00 39.88 3.41
575 621 6.601613 TGCAACGAATACCCAGAAGAATAAAT 59.398 34.615 0.00 0.00 0.00 1.40
586 632 0.958382 GGCAGTGCAACGAATACCCA 60.958 55.000 18.61 0.00 45.86 4.51
587 633 0.958382 TGGCAGTGCAACGAATACCC 60.958 55.000 18.61 0.00 45.86 3.69
678 1791 0.613260 CCGACTCATTCTTCCCACCA 59.387 55.000 0.00 0.00 0.00 4.17
853 1981 3.645660 TTGGTGGAGATGCGGGCA 61.646 61.111 0.00 0.00 0.00 5.36
892 2020 0.611896 GGGTTGGTGGATGGGTTCAG 60.612 60.000 0.00 0.00 0.00 3.02
1227 2356 2.670148 GGAGCGGGGTGAAGGATGT 61.670 63.158 0.00 0.00 0.00 3.06
1311 2440 3.112709 GACTCTTGACACCGCCGC 61.113 66.667 0.00 0.00 0.00 6.53
1466 2595 1.507141 GATATCAGGGCCGCCAAACG 61.507 60.000 12.58 0.00 43.15 3.60
1467 2596 0.179018 AGATATCAGGGCCGCCAAAC 60.179 55.000 12.58 0.00 0.00 2.93
1473 2602 1.471676 GCGGATTAGATATCAGGGCCG 60.472 57.143 17.41 17.41 40.38 6.13
1475 2604 1.927895 CGCGGATTAGATATCAGGGC 58.072 55.000 5.32 0.00 0.00 5.19
1476 2605 1.204704 TGCGCGGATTAGATATCAGGG 59.795 52.381 8.83 0.00 0.00 4.45
1478 2607 2.534298 CCTGCGCGGATTAGATATCAG 58.466 52.381 20.25 1.83 33.16 2.90
1481 2610 0.608130 TGCCTGCGCGGATTAGATAT 59.392 50.000 20.25 0.00 38.08 1.63
1484 2613 1.595109 CATGCCTGCGCGGATTAGA 60.595 57.895 20.25 0.00 38.08 2.10
1491 2620 4.289379 CGATCACATGCCTGCGCG 62.289 66.667 0.00 0.00 38.08 6.86
1492 2621 3.945434 CCGATCACATGCCTGCGC 61.945 66.667 0.00 0.00 0.00 6.09
1493 2622 3.274586 CCCGATCACATGCCTGCG 61.275 66.667 0.00 0.00 0.00 5.18
1603 2732 1.297967 CAGGATCACGCTCTCGACG 60.298 63.158 0.00 0.00 39.41 5.12
1835 2964 2.124819 CGGAGGAATGCAGCAGCT 60.125 61.111 0.00 0.00 42.74 4.24
1871 3000 2.357154 GGCCATCAGAGTTGTGGGTATT 60.357 50.000 0.00 0.00 33.58 1.89
1880 3009 0.329596 GAACCTGGGCCATCAGAGTT 59.670 55.000 6.72 9.93 36.93 3.01
1898 3027 9.396022 CCCTACTAAATTCAAATCAAGCTTAGA 57.604 33.333 0.00 0.00 0.00 2.10
1910 3039 9.816787 ATGTCTTAAAACCCCTACTAAATTCAA 57.183 29.630 0.00 0.00 0.00 2.69
1919 3048 7.817478 CCAAATCAAATGTCTTAAAACCCCTAC 59.183 37.037 0.00 0.00 0.00 3.18
1923 3052 6.073276 GCACCAAATCAAATGTCTTAAAACCC 60.073 38.462 0.00 0.00 0.00 4.11
1924 3053 6.705825 AGCACCAAATCAAATGTCTTAAAACC 59.294 34.615 0.00 0.00 0.00 3.27
1929 3058 8.028354 CACATTAGCACCAAATCAAATGTCTTA 58.972 33.333 0.00 0.00 35.87 2.10
1931 3060 6.392354 CACATTAGCACCAAATCAAATGTCT 58.608 36.000 0.00 0.00 35.87 3.41
1940 3069 3.091545 CAGACCCACATTAGCACCAAAT 58.908 45.455 0.00 0.00 0.00 2.32
1958 3087 4.018506 TCCACCTAAAGCAATTCATCCAGA 60.019 41.667 0.00 0.00 0.00 3.86
1985 3114 1.699634 CCAGTCTTCCCTCCAACAGAA 59.300 52.381 0.00 0.00 0.00 3.02
2082 3211 4.763073 TCTCTGTCAGGCAATGTATTCAG 58.237 43.478 0.00 0.00 0.00 3.02
2153 3282 0.823356 GCCACTCAAAGAAGGGTGCA 60.823 55.000 0.00 0.00 0.00 4.57
2177 3306 5.278169 CGCTAAGATTGCTGCCATATTCTTT 60.278 40.000 0.00 0.00 0.00 2.52
2195 3324 2.164624 ACTTGCTCAGTACCTCGCTAAG 59.835 50.000 0.00 0.13 31.97 2.18
2235 3364 8.749026 TCAAAGTAAAATTGGTGGTACTAACA 57.251 30.769 0.00 0.00 0.00 2.41
2240 3369 9.783256 GTCATATCAAAGTAAAATTGGTGGTAC 57.217 33.333 0.00 0.00 0.00 3.34
2241 3370 8.670135 CGTCATATCAAAGTAAAATTGGTGGTA 58.330 33.333 0.00 0.00 0.00 3.25
2242 3371 7.392113 TCGTCATATCAAAGTAAAATTGGTGGT 59.608 33.333 0.00 0.00 0.00 4.16
2243 3372 7.757526 TCGTCATATCAAAGTAAAATTGGTGG 58.242 34.615 0.00 0.00 0.00 4.61
2245 3374 8.786826 TCTCGTCATATCAAAGTAAAATTGGT 57.213 30.769 0.00 0.00 0.00 3.67
2262 3393 8.138712 GTCTTTACCTCTCAAATATCTCGTCAT 58.861 37.037 0.00 0.00 0.00 3.06
2266 3397 6.415280 CACGTCTTTACCTCTCAAATATCTCG 59.585 42.308 0.00 0.00 0.00 4.04
2277 3408 4.385825 TGAAATTGCACGTCTTTACCTCT 58.614 39.130 0.00 0.00 0.00 3.69
2297 3428 7.415095 GCACTAAAGCAACCACATATGTAATGA 60.415 37.037 8.32 0.00 0.00 2.57
2317 3448 1.134521 CCTGAATGGGTAGCGCACTAA 60.135 52.381 11.47 0.00 0.00 2.24
2321 3452 0.037590 AAACCTGAATGGGTAGCGCA 59.962 50.000 11.47 0.00 38.87 6.09
2334 3747 6.884280 AAGAATCCACAACTCTTAAACCTG 57.116 37.500 0.00 0.00 0.00 4.00
2345 3758 5.048782 TGCACATCTACAAAGAATCCACAAC 60.049 40.000 0.00 0.00 34.73 3.32
2357 3770 6.701340 ACAAGATTAGACTGCACATCTACAA 58.299 36.000 2.95 0.00 0.00 2.41
2358 3771 6.286240 ACAAGATTAGACTGCACATCTACA 57.714 37.500 2.95 0.00 0.00 2.74
2451 3864 6.946340 ACAGTGTTGACAACATATATCTCCA 58.054 36.000 23.14 0.00 44.35 3.86
2453 3866 8.654230 ATGACAGTGTTGACAACATATATCTC 57.346 34.615 23.14 9.19 44.35 2.75
2454 3867 9.453572 AAATGACAGTGTTGACAACATATATCT 57.546 29.630 23.14 12.59 44.35 1.98
2455 3868 9.708222 GAAATGACAGTGTTGACAACATATATC 57.292 33.333 23.14 17.41 44.35 1.63
2477 3891 4.307032 AGGCTGACATACACCAAGAAAT 57.693 40.909 0.00 0.00 0.00 2.17
2482 3896 2.355716 GCCTAAGGCTGACATACACCAA 60.356 50.000 0.00 0.00 46.69 3.67
2539 3953 4.959596 ACATCATGATCAAACAGCAGAC 57.040 40.909 4.86 0.00 0.00 3.51
2582 4037 4.333926 AGAACTTCTATTCGATGCAAAGGC 59.666 41.667 0.00 0.00 35.57 4.35
2720 4175 9.932207 ATTTCAGACAATGCAATTCAGAAAATA 57.068 25.926 13.45 0.00 31.22 1.40
2721 4176 8.842358 ATTTCAGACAATGCAATTCAGAAAAT 57.158 26.923 13.45 4.51 31.22 1.82
2732 4194 5.393352 GCAGTATGGAATTTCAGACAATGCA 60.393 40.000 16.70 0.00 33.31 3.96
2747 4209 5.738619 TCTGTCAAACTAAGCAGTATGGA 57.261 39.130 0.00 0.00 35.86 3.41
2835 4305 1.542492 CAAAGCAAGCCATGGAGAGT 58.458 50.000 18.40 0.00 0.00 3.24
2846 4316 1.952296 AGAACAGGACAGCAAAGCAAG 59.048 47.619 0.00 0.00 0.00 4.01
2866 4336 4.202461 GGCTCTATGTAAATCCACCCATGA 60.202 45.833 0.00 0.00 0.00 3.07
3209 5562 8.190122 GCAACTCATCCAATTATGTTTACATGA 58.810 33.333 0.00 0.00 37.15 3.07
3240 5593 8.817100 ACAAAAATAAAGCAAACTTCTTACTGC 58.183 29.630 0.00 0.00 34.05 4.40
3300 5653 8.007405 TCTAGATACAATCCATTTTCGAGACA 57.993 34.615 0.00 0.00 0.00 3.41
3330 5683 9.542462 CGGAAATGGATGTATCTAGAACTAAAA 57.458 33.333 0.00 0.00 0.00 1.52
3331 5684 8.920174 TCGGAAATGGATGTATCTAGAACTAAA 58.080 33.333 0.00 0.00 0.00 1.85
3332 5685 8.473358 TCGGAAATGGATGTATCTAGAACTAA 57.527 34.615 0.00 0.00 0.00 2.24
3333 5686 7.942894 TCTCGGAAATGGATGTATCTAGAACTA 59.057 37.037 0.00 0.00 0.00 2.24
3334 5687 6.778069 TCTCGGAAATGGATGTATCTAGAACT 59.222 38.462 0.00 0.00 0.00 3.01
3335 5688 6.864165 GTCTCGGAAATGGATGTATCTAGAAC 59.136 42.308 0.00 0.00 0.00 3.01
3336 5689 6.549736 TGTCTCGGAAATGGATGTATCTAGAA 59.450 38.462 0.00 0.00 0.00 2.10
3337 5690 6.068670 TGTCTCGGAAATGGATGTATCTAGA 58.931 40.000 0.00 0.00 0.00 2.43
3338 5691 6.332735 TGTCTCGGAAATGGATGTATCTAG 57.667 41.667 0.00 0.00 0.00 2.43
3339 5692 6.323996 ACTTGTCTCGGAAATGGATGTATCTA 59.676 38.462 0.00 0.00 0.00 1.98
3340 5693 5.129485 ACTTGTCTCGGAAATGGATGTATCT 59.871 40.000 0.00 0.00 0.00 1.98
3341 5694 5.360591 ACTTGTCTCGGAAATGGATGTATC 58.639 41.667 0.00 0.00 0.00 2.24
3342 5695 5.359194 ACTTGTCTCGGAAATGGATGTAT 57.641 39.130 0.00 0.00 0.00 2.29
3343 5696 4.819105 ACTTGTCTCGGAAATGGATGTA 57.181 40.909 0.00 0.00 0.00 2.29
3344 5697 3.703001 ACTTGTCTCGGAAATGGATGT 57.297 42.857 0.00 0.00 0.00 3.06
3345 5698 6.238484 GGAATTACTTGTCTCGGAAATGGATG 60.238 42.308 0.00 0.00 0.00 3.51
3354 5707 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
3355 5708 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
3357 5710 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
3371 5724 1.264295 ACCAAGTACTCCCTCCGTTC 58.736 55.000 0.00 0.00 0.00 3.95
3378 5731 2.561478 TGCTTCAACCAAGTACTCCC 57.439 50.000 0.00 0.00 34.13 4.30
3379 5732 4.518970 TCAAATGCTTCAACCAAGTACTCC 59.481 41.667 0.00 0.00 34.13 3.85
3380 5733 5.689383 TCAAATGCTTCAACCAAGTACTC 57.311 39.130 0.00 0.00 34.13 2.59
3381 5734 5.047802 CCATCAAATGCTTCAACCAAGTACT 60.048 40.000 0.00 0.00 34.13 2.73
3384 5737 3.007182 CCCATCAAATGCTTCAACCAAGT 59.993 43.478 0.00 0.00 34.13 3.16
3388 5741 3.959535 TTCCCATCAAATGCTTCAACC 57.040 42.857 0.00 0.00 0.00 3.77
3401 5754 5.282055 TGAGTACATGAGTCATTCCCATC 57.718 43.478 1.86 0.00 32.22 3.51
3402 5755 5.901413 ATGAGTACATGAGTCATTCCCAT 57.099 39.130 1.86 0.77 44.49 4.00
3409 5762 6.262944 AGCAACAAAAATGAGTACATGAGTCA 59.737 34.615 0.00 0.00 41.84 3.41
3410 5763 6.672147 AGCAACAAAAATGAGTACATGAGTC 58.328 36.000 0.00 0.00 36.79 3.36
3415 5769 5.846203 AGCAAGCAACAAAAATGAGTACAT 58.154 33.333 0.00 0.00 38.50 2.29
3486 6001 8.299570 ACAGATCACAATGAAAAGTATTTGACC 58.700 33.333 0.00 0.00 39.02 4.02
3533 6056 6.780198 AGATAAAAGGATAATGCTACCCCA 57.220 37.500 0.00 0.00 0.00 4.96
3662 6187 5.443283 TGGAGAGTCAACGTACCATATAGT 58.557 41.667 0.00 0.00 0.00 2.12
3663 6188 5.763698 TCTGGAGAGTCAACGTACCATATAG 59.236 44.000 0.00 0.00 0.00 1.31
3664 6189 5.530171 GTCTGGAGAGTCAACGTACCATATA 59.470 44.000 0.00 0.00 0.00 0.86
3665 6190 4.338682 GTCTGGAGAGTCAACGTACCATAT 59.661 45.833 0.00 0.00 0.00 1.78
3666 6191 3.693085 GTCTGGAGAGTCAACGTACCATA 59.307 47.826 0.00 0.00 0.00 2.74
3667 6192 2.492484 GTCTGGAGAGTCAACGTACCAT 59.508 50.000 0.00 0.00 0.00 3.55
3668 6193 1.884579 GTCTGGAGAGTCAACGTACCA 59.115 52.381 0.00 0.00 0.00 3.25
3669 6194 1.884579 TGTCTGGAGAGTCAACGTACC 59.115 52.381 0.00 0.00 0.00 3.34
3711 6236 4.158394 GCCCCATACCACAAATATAGCATG 59.842 45.833 0.00 0.00 0.00 4.06
3715 6240 6.267471 ACAAATGCCCCATACCACAAATATAG 59.733 38.462 0.00 0.00 0.00 1.31
3827 6488 2.814336 GTTCAGGTTGCTTAGTTCCTGG 59.186 50.000 14.97 0.00 45.07 4.45
3834 6495 3.126001 TGGTCAGTTCAGGTTGCTTAG 57.874 47.619 0.00 0.00 0.00 2.18
3863 6524 5.271598 ACAGAAGGATGCCATTAAATTCCA 58.728 37.500 0.00 0.00 0.00 3.53
3870 6531 3.758023 CACACAACAGAAGGATGCCATTA 59.242 43.478 0.00 0.00 0.00 1.90
3871 6532 2.559668 CACACAACAGAAGGATGCCATT 59.440 45.455 0.00 0.00 0.00 3.16
3874 6535 1.896220 TCACACAACAGAAGGATGCC 58.104 50.000 0.00 0.00 0.00 4.40
3878 6539 2.708216 TGCTTCACACAACAGAAGGA 57.292 45.000 0.00 0.00 41.13 3.36
3888 6549 4.002982 TGAGTAACATGGATGCTTCACAC 58.997 43.478 0.00 0.00 0.00 3.82
3921 6582 4.888326 AGCCTGGCAATTAAATGAAACA 57.112 36.364 22.65 0.00 0.00 2.83
3984 6647 2.647297 GTTCCAGCAGCAACAGCC 59.353 61.111 0.00 0.00 0.00 4.85
4012 6675 4.848357 AGAGGTGGTATCAAATGTTCAGG 58.152 43.478 0.00 0.00 0.00 3.86
4013 6676 7.921786 TTAAGAGGTGGTATCAAATGTTCAG 57.078 36.000 0.00 0.00 0.00 3.02
4018 6681 8.681486 TCATGATTAAGAGGTGGTATCAAATG 57.319 34.615 0.00 0.00 0.00 2.32
4028 6691 8.954350 ACAAGAGAAAATCATGATTAAGAGGTG 58.046 33.333 21.00 16.33 31.02 4.00
4044 6707 4.274950 CGCCAGTAAGGAAACAAGAGAAAA 59.725 41.667 0.00 0.00 41.22 2.29
4048 6711 2.737252 GACGCCAGTAAGGAAACAAGAG 59.263 50.000 0.00 0.00 41.22 2.85
4052 6715 2.367567 AGAAGACGCCAGTAAGGAAACA 59.632 45.455 0.00 0.00 41.22 2.83
4062 6725 1.291877 CCGGAAACAGAAGACGCCAG 61.292 60.000 0.00 0.00 0.00 4.85
4063 6726 1.301401 CCGGAAACAGAAGACGCCA 60.301 57.895 0.00 0.00 0.00 5.69
4065 6728 0.391263 ATCCCGGAAACAGAAGACGC 60.391 55.000 0.73 0.00 0.00 5.19
4093 6756 3.198409 TGTCAGCTGCCATAACCTATG 57.802 47.619 9.47 0.00 35.94 2.23
4197 6860 1.303236 CCGTCATGCCCTTTGGTGA 60.303 57.895 0.00 0.00 0.00 4.02
4217 6880 4.699257 GCCATGATGTTTCTGAACTTCTCT 59.301 41.667 0.00 0.00 39.44 3.10
4228 6891 3.311596 GGTACTTACCGCCATGATGTTTC 59.688 47.826 0.00 0.00 36.50 2.78
4253 6916 1.133976 AGCCTGCTTCTGCCGATATTT 60.134 47.619 0.00 0.00 38.71 1.40
4259 6922 0.250209 ATATCAGCCTGCTTCTGCCG 60.250 55.000 0.00 0.00 38.71 5.69
4328 6994 1.520494 CCATGCGAGGGATCAATCAG 58.480 55.000 0.00 0.00 0.00 2.90
4472 7141 2.148916 ACGATCAGTTGTCGCAGAAA 57.851 45.000 0.00 0.00 42.56 2.52
4549 7218 3.266510 TGCACTCTCTCTCTCTCTCTC 57.733 52.381 0.00 0.00 0.00 3.20
4650 7322 5.132502 TGATGCCCTACAATGAATTGGTAG 58.867 41.667 7.87 6.77 41.96 3.18
4651 7323 5.122707 TGATGCCCTACAATGAATTGGTA 57.877 39.130 7.87 0.00 41.96 3.25
4652 7324 3.979911 TGATGCCCTACAATGAATTGGT 58.020 40.909 7.87 0.00 41.96 3.67
4653 7325 4.798263 GCATGATGCCCTACAATGAATTGG 60.798 45.833 6.04 0.00 38.59 3.16
4686 7358 6.834876 TCAAAATGACTGATCAAGATTCACG 58.165 36.000 0.00 0.00 38.69 4.35
4693 7365 7.420002 TGTGTTTCTCAAAATGACTGATCAAG 58.580 34.615 0.00 0.00 38.69 3.02
4694 7366 7.332213 TGTGTTTCTCAAAATGACTGATCAA 57.668 32.000 0.00 0.00 38.69 2.57
4711 7383 4.435651 GGATCTCGTTCCGAATTGTGTTTC 60.436 45.833 0.00 0.00 34.74 2.78
4765 7437 1.370778 CGGTGTAGCGTGAACGACA 60.371 57.895 7.10 0.00 43.02 4.35
4778 7450 0.392998 GGATGCCTGATGAACGGTGT 60.393 55.000 0.00 0.00 0.00 4.16
5237 8088 4.776349 ACAACCAGTTCACATCAGTTACA 58.224 39.130 0.00 0.00 0.00 2.41
5314 8169 5.495926 AATTCACTCAACTCCACTCTCAT 57.504 39.130 0.00 0.00 0.00 2.90
5505 8372 6.867816 CCAAAGCAAGCATTATGACTTTGTAA 59.132 34.615 19.09 0.00 38.62 2.41


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

AutoCloner maintained by Alex Coulton.