Multiple sequence alignment - TraesCS1D01G419400

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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 TraesCS1D01G419400 chr1D 100.000 7589 0 0 422 8010 476443607 476436019 0.000000e+00 14015.0
1 TraesCS1D01G419400 chr1D 88.667 600 31 11 5127 5713 460611367 460611942 0.000000e+00 697.0
2 TraesCS1D01G419400 chr1D 79.691 842 86 39 6773 7569 476415579 476414778 5.500000e-146 529.0
3 TraesCS1D01G419400 chr1D 100.000 251 0 0 1 251 476444028 476443778 1.570000e-126 464.0
4 TraesCS1D01G419400 chr1D 91.228 285 19 4 6007 6286 460612477 460612760 4.540000e-102 383.0
5 TraesCS1D01G419400 chr1D 87.823 271 13 8 5752 6014 460611940 460612198 4.700000e-77 300.0
6 TraesCS1D01G419400 chr1D 82.000 300 47 5 7383 7681 476423563 476423270 1.730000e-61 248.0
7 TraesCS1D01G419400 chr1D 82.609 230 39 1 7769 7997 417992502 417992731 1.360000e-47 202.0
8 TraesCS1D01G419400 chr1D 81.702 235 39 4 7765 7997 457086259 457086491 8.200000e-45 193.0
9 TraesCS1D01G419400 chr1D 89.583 144 14 1 1158 1301 484399044 484399186 1.780000e-41 182.0
10 TraesCS1D01G419400 chr1B 94.520 5675 197 46 2387 8010 662670076 662664465 0.000000e+00 8652.0
11 TraesCS1D01G419400 chr1B 89.945 1273 73 34 436 1673 662672140 662670888 0.000000e+00 1591.0
12 TraesCS1D01G419400 chr1B 93.491 676 25 7 1673 2336 662670740 662670072 0.000000e+00 987.0
13 TraesCS1D01G419400 chr1B 90.398 427 24 7 5869 6286 683138234 683138652 5.470000e-151 545.0
14 TraesCS1D01G419400 chr1B 91.270 252 19 2 1 251 662673257 662673008 2.770000e-89 340.0
15 TraesCS1D01G419400 chr1B 90.995 211 18 1 5620 5830 662632227 662632018 4.730000e-72 283.0
16 TraesCS1D01G419400 chr1B 78.222 450 38 23 6929 7332 662619915 662619480 4.830000e-57 233.0
17 TraesCS1D01G419400 chr1B 87.629 194 23 1 5644 5837 662607409 662607217 2.910000e-54 224.0
18 TraesCS1D01G419400 chr1B 95.283 106 5 0 5765 5870 683137874 683137979 1.380000e-37 169.0
19 TraesCS1D01G419400 chr1A 95.434 5322 173 30 2387 7683 572211467 572206191 0.000000e+00 8418.0
20 TraesCS1D01G419400 chr1A 92.194 679 30 10 1673 2336 572212133 572211463 0.000000e+00 939.0
21 TraesCS1D01G419400 chr1A 87.677 779 32 29 929 1673 572213034 572212286 0.000000e+00 848.0
22 TraesCS1D01G419400 chr1A 81.300 1000 105 36 6707 7670 572075857 572074904 0.000000e+00 736.0
23 TraesCS1D01G419400 chr1A 92.829 251 18 0 1 251 572215163 572214913 1.640000e-96 364.0
24 TraesCS1D01G419400 chr1A 85.174 344 35 2 7683 8010 572205531 572205188 9.960000e-89 339.0
25 TraesCS1D01G419400 chr1A 83.978 362 35 16 560 914 572213901 572213556 7.750000e-85 326.0
26 TraesCS1D01G419400 chr1A 89.583 144 14 1 1158 1301 581580720 581580862 1.780000e-41 182.0
27 TraesCS1D01G419400 chr1A 90.476 63 6 0 5643 5705 572156670 572156608 5.150000e-12 84.2
28 TraesCS1D01G419400 chr7A 83.471 242 33 5 7767 8008 298635832 298635598 1.350000e-52 219.0
29 TraesCS1D01G419400 chr7A 92.683 41 2 1 2350 2389 183651592 183651632 3.120000e-04 58.4
30 TraesCS1D01G419400 chr7D 83.051 236 34 6 7765 7997 241992797 241993029 8.150000e-50 209.0
31 TraesCS1D01G419400 chr7B 82.589 224 36 3 7767 7989 465598525 465598746 2.280000e-45 195.0
32 TraesCS1D01G419400 chr7B 92.500 40 2 1 2351 2389 137526363 137526324 1.000000e-03 56.5
33 TraesCS1D01G419400 chr5B 81.301 246 38 7 7767 8008 658521690 658521931 8.200000e-45 193.0
34 TraesCS1D01G419400 chr2D 81.435 237 36 7 7765 7997 89390990 89390758 3.820000e-43 187.0
35 TraesCS1D01G419400 chr2D 93.333 45 2 1 2346 2389 11025358 11025402 1.870000e-06 65.8
36 TraesCS1D01G419400 chr3A 89.091 55 4 2 2346 2399 594490428 594490375 5.190000e-07 67.6
37 TraesCS1D01G419400 chr3A 93.333 45 2 1 2346 2389 681661064 681661108 1.870000e-06 65.8
38 TraesCS1D01G419400 chr3A 97.143 35 1 0 2352 2386 644918404 644918438 8.680000e-05 60.2
39 TraesCS1D01G419400 chr4B 91.489 47 3 1 2346 2391 12517296 12517342 6.710000e-06 63.9


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 TraesCS1D01G419400 chr1D 476436019 476444028 8009 True 7239.500000 14015 100.000000 1 8010 2 chr1D.!!$R3 8009
1 TraesCS1D01G419400 chr1D 476414778 476415579 801 True 529.000000 529 79.691000 6773 7569 1 chr1D.!!$R1 796
2 TraesCS1D01G419400 chr1D 460611367 460612760 1393 False 460.000000 697 89.239333 5127 6286 3 chr1D.!!$F4 1159
3 TraesCS1D01G419400 chr1B 662664465 662673257 8792 True 2892.500000 8652 92.306500 1 8010 4 chr1B.!!$R4 8009
4 TraesCS1D01G419400 chr1B 683137874 683138652 778 False 357.000000 545 92.840500 5765 6286 2 chr1B.!!$F1 521
5 TraesCS1D01G419400 chr1A 572205188 572215163 9975 True 1872.333333 8418 89.547667 1 8010 6 chr1A.!!$R3 8009
6 TraesCS1D01G419400 chr1A 572074904 572075857 953 True 736.000000 736 81.300000 6707 7670 1 chr1A.!!$R1 963

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
781 1519 0.390860 GATCAGATGTGGTCCTCCGG 59.609 60.000 0.00 0.00 36.30 5.14 F
1416 2704 0.249398 AAATAACGGCCGTCTGCTCT 59.751 50.000 34.29 17.90 40.92 4.09 F
2277 3763 0.672889 GGCGAGGTACCTAACTAGCC 59.327 60.000 16.29 19.51 35.76 3.93 F
2325 3812 1.813862 GCTGTGCCAAACCACTCTACA 60.814 52.381 0.00 0.00 36.68 2.74 F
3518 5042 2.029649 GCCAGCTGATGTTTGTGTCATT 60.030 45.455 17.39 0.00 0.00 2.57 F
4070 5596 0.249489 CTACCCAGCATAGTGTCCGC 60.249 60.000 0.00 0.00 0.00 5.54 F
4763 6290 0.804989 CTGAAATCTCCGGTTGGTGC 59.195 55.000 0.00 0.00 36.30 5.01 F
4970 6499 0.818040 AGTGTTCCTTGGCGTGGTTC 60.818 55.000 0.00 0.00 0.00 3.62 F
6414 8538 0.855349 GTACAGGATTGATCGCTGCG 59.145 55.000 17.25 17.25 32.10 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2301 3788 0.461135 AGTGGTTTGGCACAGCTTTG 59.539 50.000 4.34 0.0 42.39 2.77 R
2302 3789 0.746659 GAGTGGTTTGGCACAGCTTT 59.253 50.000 4.34 0.0 42.39 3.51 R
3425 4949 0.730265 TTTCATCGGTAATGTGCGGC 59.270 50.000 0.00 0.0 36.68 6.53 R
3594 5118 1.132262 ACTTGCAAACAACTGTGTCCG 59.868 47.619 0.00 0.0 36.80 4.79 R
4991 6522 1.826385 AGGGAGGTTGCAAGATTTCG 58.174 50.000 0.00 0.0 0.00 3.46 R
5794 7346 1.264288 GTGAAGAAGGCGTCAAAGGTG 59.736 52.381 2.69 0.0 34.35 4.00 R
6414 8538 0.099791 GCTCTAGCTGTCCAGACGAC 59.900 60.000 0.00 0.0 42.33 4.34 R
6417 8541 0.174617 GGTGCTCTAGCTGTCCAGAC 59.825 60.000 0.00 0.0 42.66 3.51 R
7388 9576 1.719529 ATGAGCTCAGATCAGGAGGG 58.280 55.000 22.96 0.0 32.96 4.30 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 94 2.285486 CGAGCGAAATCAGCTTGTGATC 60.285 50.000 0.00 0.00 45.89 2.92
125 127 5.279657 GGGAGAATGTGGAATTTTTCTTGCT 60.280 40.000 0.00 0.00 0.00 3.91
200 202 4.722220 CTGGATGGAATAGATTCTTGGCA 58.278 43.478 2.44 0.00 37.00 4.92
243 245 2.605818 CCGAAGTCGCGAATGGAATTTA 59.394 45.455 12.06 0.00 35.46 1.40
450 1183 8.440059 TGATAAGATTCACATAAACACGTGAAC 58.560 33.333 25.01 0.00 38.42 3.18
462 1195 2.039216 ACACGTGAACATGTATTCCCCA 59.961 45.455 25.01 0.00 0.00 4.96
468 1201 5.125417 CGTGAACATGTATTCCCCAAGATTT 59.875 40.000 0.00 0.00 0.00 2.17
471 1204 8.695456 GTGAACATGTATTCCCCAAGATTTTAT 58.305 33.333 0.00 0.00 0.00 1.40
514 1247 4.934989 GGCCGATTTCCGAAGAGT 57.065 55.556 0.00 0.00 41.76 3.24
518 1251 1.925185 GCCGATTTCCGAAGAGTACAC 59.075 52.381 0.00 0.00 41.76 2.90
558 1293 5.132897 TGCAAAACAACAAAGAAGAGTGT 57.867 34.783 0.00 0.00 0.00 3.55
575 1310 2.609299 TGGGCTCGATTCACCCCA 60.609 61.111 9.67 7.05 44.96 4.96
578 1313 2.577059 GCTCGATTCACCCCACGA 59.423 61.111 0.00 0.00 0.00 4.35
606 1342 2.348218 CGTGTTCGACTGGCAGTAAAAC 60.348 50.000 26.02 26.02 39.71 2.43
638 1375 2.490217 CGCCACTCGAACCGATCT 59.510 61.111 0.00 0.00 41.67 2.75
749 1486 7.244898 ACCGCAAACCTAAATTTTTGAAAAAC 58.755 30.769 5.08 0.00 35.13 2.43
780 1518 3.976339 GATCAGATGTGGTCCTCCG 57.024 57.895 0.00 0.00 36.30 4.63
781 1519 0.390860 GATCAGATGTGGTCCTCCGG 59.609 60.000 0.00 0.00 36.30 5.14
784 1522 4.176752 GATGTGGTCCTCCGGGGC 62.177 72.222 0.00 0.00 36.30 5.80
866 1610 5.251700 AGAGAGAGAAAATGAAAGGGGCTAA 59.748 40.000 0.00 0.00 0.00 3.09
867 1611 5.257262 AGAGAGAAAATGAAAGGGGCTAAC 58.743 41.667 0.00 0.00 0.00 2.34
868 1612 4.010349 AGAGAAAATGAAAGGGGCTAACG 58.990 43.478 0.00 0.00 0.00 3.18
869 1613 2.492088 AGAAAATGAAAGGGGCTAACGC 59.508 45.455 0.00 0.00 0.00 4.84
901 1647 5.246203 TGAGGCTCTACACTTTCAGTTATGT 59.754 40.000 16.72 0.00 0.00 2.29
945 2198 0.766131 TTTTTGTCCCCGCCTCAGTA 59.234 50.000 0.00 0.00 0.00 2.74
1304 2577 4.467107 GCCTCCTCCTCCTCCCGT 62.467 72.222 0.00 0.00 0.00 5.28
1306 2579 1.306226 CCTCCTCCTCCTCCCGTTT 60.306 63.158 0.00 0.00 0.00 3.60
1372 2660 4.163078 ACCAGAAGAGAGAGAGAGAGAGAG 59.837 50.000 0.00 0.00 0.00 3.20
1373 2661 4.406972 CCAGAAGAGAGAGAGAGAGAGAGA 59.593 50.000 0.00 0.00 0.00 3.10
1416 2704 0.249398 AAATAACGGCCGTCTGCTCT 59.751 50.000 34.29 17.90 40.92 4.09
1454 2742 4.002506 TGGCCACGTGATCGCACT 62.003 61.111 19.30 0.00 42.93 4.40
1457 2745 2.815211 CCACGTGATCGCACTGGG 60.815 66.667 19.30 0.00 42.93 4.45
1556 2851 7.285172 GCTAGGTTAGTTAACTACCTCTAGCTT 59.715 40.741 32.69 18.46 40.52 3.74
1583 2885 8.481314 GCTAGTTAGGTTAGGTTAATTACTGGT 58.519 37.037 0.00 0.00 0.00 4.00
1621 2923 6.817765 TCCTAGATCACAAAATCAACCAAC 57.182 37.500 0.00 0.00 0.00 3.77
1622 2924 6.542821 TCCTAGATCACAAAATCAACCAACT 58.457 36.000 0.00 0.00 0.00 3.16
1623 2925 6.655003 TCCTAGATCACAAAATCAACCAACTC 59.345 38.462 0.00 0.00 0.00 3.01
1626 2928 6.742109 AGATCACAAAATCAACCAACTCTTG 58.258 36.000 0.00 0.00 0.00 3.02
1687 3148 4.023193 CAGGCTAGTTTTGACGGTTCATTT 60.023 41.667 0.00 0.00 0.00 2.32
1693 3154 7.222031 GCTAGTTTTGACGGTTCATTTTCTTTT 59.778 33.333 0.00 0.00 0.00 2.27
1694 3155 7.520119 AGTTTTGACGGTTCATTTTCTTTTC 57.480 32.000 0.00 0.00 0.00 2.29
1695 3156 6.252655 AGTTTTGACGGTTCATTTTCTTTTCG 59.747 34.615 0.00 0.00 0.00 3.46
1718 3179 3.599343 TGGTGATGTCTGTGTATGCTTC 58.401 45.455 0.00 0.00 0.00 3.86
1871 3342 4.127040 CCTCGTGCTCTGCTCGCT 62.127 66.667 8.80 0.00 43.69 4.93
1927 3398 8.541133 TCTTTTGTTTTTGAAAGGTTAACTGG 57.459 30.769 5.42 0.00 34.45 4.00
1995 3466 9.939802 TCTTGGGTCTACTTCTTTAATCTTTAC 57.060 33.333 0.00 0.00 0.00 2.01
2041 3513 4.382040 CCCTTGTCCTGTCATGTACTAGTG 60.382 50.000 5.39 0.00 0.00 2.74
2083 3555 8.194769 GGTCCAGTTCTTTAACAAATCTTTTCA 58.805 33.333 0.00 0.00 38.12 2.69
2277 3763 0.672889 GGCGAGGTACCTAACTAGCC 59.327 60.000 16.29 19.51 35.76 3.93
2301 3788 3.674997 TGCTTCACCATCAACCTCTTAC 58.325 45.455 0.00 0.00 0.00 2.34
2302 3789 3.072330 TGCTTCACCATCAACCTCTTACA 59.928 43.478 0.00 0.00 0.00 2.41
2325 3812 1.813862 GCTGTGCCAAACCACTCTACA 60.814 52.381 0.00 0.00 36.68 2.74
2336 3823 6.018180 CCAAACCACTCTACAAAACTGTACTC 60.018 42.308 0.00 0.00 0.00 2.59
2337 3824 5.211174 ACCACTCTACAAAACTGTACTCC 57.789 43.478 0.00 0.00 0.00 3.85
2338 3825 4.040095 ACCACTCTACAAAACTGTACTCCC 59.960 45.833 0.00 0.00 0.00 4.30
2339 3826 4.283722 CCACTCTACAAAACTGTACTCCCT 59.716 45.833 0.00 0.00 0.00 4.20
2340 3827 5.471257 CACTCTACAAAACTGTACTCCCTC 58.529 45.833 0.00 0.00 0.00 4.30
2341 3828 5.244178 CACTCTACAAAACTGTACTCCCTCT 59.756 44.000 0.00 0.00 0.00 3.69
2342 3829 5.244178 ACTCTACAAAACTGTACTCCCTCTG 59.756 44.000 0.00 0.00 0.00 3.35
2343 3830 5.145564 TCTACAAAACTGTACTCCCTCTGT 58.854 41.667 0.00 0.00 0.00 3.41
2344 3831 6.309357 TCTACAAAACTGTACTCCCTCTGTA 58.691 40.000 0.00 0.00 0.00 2.74
2345 3832 5.881923 ACAAAACTGTACTCCCTCTGTAA 57.118 39.130 0.00 0.00 0.00 2.41
2346 3833 6.243216 ACAAAACTGTACTCCCTCTGTAAA 57.757 37.500 0.00 0.00 0.00 2.01
2347 3834 6.655930 ACAAAACTGTACTCCCTCTGTAAAA 58.344 36.000 0.00 0.00 0.00 1.52
2348 3835 6.766467 ACAAAACTGTACTCCCTCTGTAAAAG 59.234 38.462 0.00 0.00 0.00 2.27
2349 3836 6.496144 AAACTGTACTCCCTCTGTAAAAGT 57.504 37.500 0.00 0.00 0.00 2.66
2350 3837 7.607615 AAACTGTACTCCCTCTGTAAAAGTA 57.392 36.000 0.00 0.00 0.00 2.24
2351 3838 6.837471 ACTGTACTCCCTCTGTAAAAGTAG 57.163 41.667 0.00 0.00 0.00 2.57
2352 3839 6.313324 ACTGTACTCCCTCTGTAAAAGTAGT 58.687 40.000 0.00 0.00 0.00 2.73
2353 3840 6.208994 ACTGTACTCCCTCTGTAAAAGTAGTG 59.791 42.308 0.00 0.00 0.00 2.74
2354 3841 5.479375 TGTACTCCCTCTGTAAAAGTAGTGG 59.521 44.000 0.00 0.00 0.00 4.00
2355 3842 4.490706 ACTCCCTCTGTAAAAGTAGTGGT 58.509 43.478 0.00 0.00 0.00 4.16
2356 3843 4.527427 ACTCCCTCTGTAAAAGTAGTGGTC 59.473 45.833 0.00 0.00 0.00 4.02
2357 3844 4.748701 TCCCTCTGTAAAAGTAGTGGTCT 58.251 43.478 0.00 0.00 0.00 3.85
2358 3845 5.895807 TCCCTCTGTAAAAGTAGTGGTCTA 58.104 41.667 0.00 0.00 0.00 2.59
2359 3846 6.317312 TCCCTCTGTAAAAGTAGTGGTCTAA 58.683 40.000 0.00 0.00 0.00 2.10
2360 3847 6.783977 TCCCTCTGTAAAAGTAGTGGTCTAAA 59.216 38.462 0.00 0.00 0.00 1.85
2361 3848 6.872547 CCCTCTGTAAAAGTAGTGGTCTAAAC 59.127 42.308 0.00 0.00 0.00 2.01
2362 3849 6.585322 CCTCTGTAAAAGTAGTGGTCTAAACG 59.415 42.308 0.00 0.00 0.00 3.60
2363 3850 5.922544 TCTGTAAAAGTAGTGGTCTAAACGC 59.077 40.000 0.00 0.00 0.00 4.84
2364 3851 5.846203 TGTAAAAGTAGTGGTCTAAACGCT 58.154 37.500 0.00 0.00 0.00 5.07
2365 3852 6.282930 TGTAAAAGTAGTGGTCTAAACGCTT 58.717 36.000 0.00 0.00 0.00 4.68
2366 3853 6.762661 TGTAAAAGTAGTGGTCTAAACGCTTT 59.237 34.615 0.00 0.00 32.82 3.51
2367 3854 6.688637 AAAAGTAGTGGTCTAAACGCTTTT 57.311 33.333 0.00 0.00 35.19 2.27
2368 3855 7.790823 AAAAGTAGTGGTCTAAACGCTTTTA 57.209 32.000 0.00 0.00 36.65 1.52
2369 3856 7.974482 AAAGTAGTGGTCTAAACGCTTTTAT 57.026 32.000 0.00 0.00 29.69 1.40
2370 3857 9.492973 AAAAGTAGTGGTCTAAACGCTTTTATA 57.507 29.630 0.00 0.00 36.65 0.98
2371 3858 9.662947 AAAGTAGTGGTCTAAACGCTTTTATAT 57.337 29.630 0.00 0.00 29.69 0.86
2372 3859 9.662947 AAGTAGTGGTCTAAACGCTTTTATATT 57.337 29.630 0.00 0.00 0.00 1.28
2373 3860 9.662947 AGTAGTGGTCTAAACGCTTTTATATTT 57.337 29.630 0.00 0.00 0.00 1.40
2384 3871 9.940166 AAACGCTTTTATATTTATTTACGGAGG 57.060 29.630 0.00 0.00 0.00 4.30
2385 3872 8.891671 ACGCTTTTATATTTATTTACGGAGGA 57.108 30.769 0.00 0.00 0.00 3.71
2386 3873 8.985805 ACGCTTTTATATTTATTTACGGAGGAG 58.014 33.333 0.00 0.00 0.00 3.69
2387 3874 8.985805 CGCTTTTATATTTATTTACGGAGGAGT 58.014 33.333 0.00 0.00 0.00 3.85
2450 3937 6.303839 ACCACTTCTTACAAGCTTATTTGGA 58.696 36.000 0.00 0.00 32.32 3.53
2468 3955 4.188247 TGGAGGTTCAGTCTGAAATACG 57.812 45.455 16.86 0.00 38.22 3.06
2657 4144 3.973425 AGCATTCCTACAAAATGAGCCT 58.027 40.909 0.25 0.00 36.43 4.58
2674 4161 4.184629 GAGCCTAGTATGGGATAATTGCG 58.815 47.826 0.00 0.00 32.94 4.85
2676 4163 4.471386 AGCCTAGTATGGGATAATTGCGAT 59.529 41.667 0.00 0.00 40.53 4.58
2905 4400 4.985538 ACTTCAGGCTATCCAGTGAAAAA 58.014 39.130 0.00 0.00 29.49 1.94
3180 4675 7.437713 TGATATCCTCCTTACAAGACATGTT 57.562 36.000 0.00 0.00 43.63 2.71
3181 4676 7.861629 TGATATCCTCCTTACAAGACATGTTT 58.138 34.615 0.00 0.00 43.63 2.83
3182 4677 7.987458 TGATATCCTCCTTACAAGACATGTTTC 59.013 37.037 0.00 0.00 43.63 2.78
3183 4678 5.825593 TCCTCCTTACAAGACATGTTTCT 57.174 39.130 0.00 0.00 43.63 2.52
3243 4767 8.766000 TCGTGCTTTTATCATCTAACTAACAA 57.234 30.769 0.00 0.00 0.00 2.83
3325 4849 2.038387 AAACTGTTCAGGTGCGAGTT 57.962 45.000 4.82 0.00 0.00 3.01
3364 4888 6.863275 AGTTCCCTGTTTTTGTAAGTTCTTG 58.137 36.000 0.00 0.00 0.00 3.02
3425 4949 5.567138 AAGTCTTCTTTTGTCAGGTTGTG 57.433 39.130 0.00 0.00 0.00 3.33
3518 5042 2.029649 GCCAGCTGATGTTTGTGTCATT 60.030 45.455 17.39 0.00 0.00 2.57
3594 5118 4.634349 TCGCACTTGTTAATAACACGAC 57.366 40.909 15.16 6.90 41.97 4.34
3777 5302 8.744652 TCAGTGTTTTCTTTATTTCTTTGACCA 58.255 29.630 0.00 0.00 0.00 4.02
3865 5391 7.792374 TCTTACTCAATATGCATTTCAGGAC 57.208 36.000 3.54 0.00 0.00 3.85
3906 5432 5.638234 GGTTCATGTTAGTCTTGTACCAGTC 59.362 44.000 0.00 0.00 39.58 3.51
3912 5438 6.073314 TGTTAGTCTTGTACCAGTCCTAACT 58.927 40.000 23.42 12.18 34.23 2.24
4070 5596 0.249489 CTACCCAGCATAGTGTCCGC 60.249 60.000 0.00 0.00 0.00 5.54
4181 5707 1.143073 CATAGCCCTACCCCCTGTTTC 59.857 57.143 0.00 0.00 0.00 2.78
4196 5722 1.079405 TTTCCAGTCCGTCGATGCC 60.079 57.895 0.00 0.00 0.00 4.40
4210 5736 4.126208 TCGATGCCGATGGTTAACTTTA 57.874 40.909 5.42 0.00 40.30 1.85
4346 5872 6.073003 ACTGAAAACTCTGTACATTAGCAAGC 60.073 38.462 0.00 0.00 0.00 4.01
4348 5874 5.613358 AAACTCTGTACATTAGCAAGCAC 57.387 39.130 0.00 0.00 0.00 4.40
4518 6045 8.093307 TGAATCCAAATTTAAATGTGCTTAGCA 58.907 29.630 12.25 1.39 35.60 3.49
4763 6290 0.804989 CTGAAATCTCCGGTTGGTGC 59.195 55.000 0.00 0.00 36.30 5.01
4827 6356 6.712547 AGCCTTATCTGGTGCTAAACATTATC 59.287 38.462 0.00 0.00 30.97 1.75
4943 6472 5.532032 TGACATTTATCCGTGCATGATTCAT 59.468 36.000 7.72 0.00 0.00 2.57
4970 6499 0.818040 AGTGTTCCTTGGCGTGGTTC 60.818 55.000 0.00 0.00 0.00 3.62
4991 6522 6.258899 GTTCTTAGCTTTGTAGGCATTTAGC 58.741 40.000 0.00 0.00 44.65 3.09
5023 6560 1.219393 CTCCCTTGAGAGAACGGCC 59.781 63.158 0.00 0.00 41.42 6.13
5304 6855 3.118482 GGGGTCTACTAAAGGTAAGCACC 60.118 52.174 0.00 0.00 46.19 5.01
5594 7146 5.053145 GTGTTATCTTCATGCCAGAGGTAG 58.947 45.833 0.00 0.00 0.00 3.18
5595 7147 4.101585 TGTTATCTTCATGCCAGAGGTAGG 59.898 45.833 0.00 0.00 0.00 3.18
5705 7257 1.039068 CCAAAACTCACATGGGTGCA 58.961 50.000 0.00 0.00 44.87 4.57
5975 7799 6.575162 AATCCAGTTTGGTGATAGAAACAC 57.425 37.500 0.00 0.00 39.03 3.32
6116 8229 8.002107 CGTTAGAATTAGTAACGCACCAATATG 58.998 37.037 15.72 0.00 44.33 1.78
6302 8426 9.457110 CACTTCACTCTGTCTGATACAATATAC 57.543 37.037 0.00 0.00 37.74 1.47
6303 8427 9.415008 ACTTCACTCTGTCTGATACAATATACT 57.585 33.333 0.00 0.00 37.74 2.12
6374 8498 7.306515 CCTGACCAAATTAACAACAAAATGACG 60.307 37.037 0.00 0.00 0.00 4.35
6377 8501 8.342725 ACCAAATTAACAACAAAATGACGTAC 57.657 30.769 0.00 0.00 0.00 3.67
6414 8538 0.855349 GTACAGGATTGATCGCTGCG 59.145 55.000 17.25 17.25 32.10 5.18
6417 8541 1.589993 AGGATTGATCGCTGCGTCG 60.590 57.895 22.48 0.00 0.00 5.12
6621 8745 6.042143 TCTTTTTCTTTTCCTGCATGTGTTC 58.958 36.000 0.00 0.00 0.00 3.18
6628 8752 4.836125 TTCCTGCATGTGTTCTTCTTTC 57.164 40.909 0.00 0.00 0.00 2.62
7033 9172 2.875485 CTGCTGCACACCTCATGC 59.125 61.111 0.00 0.00 43.68 4.06
7042 9181 1.225704 CACCTCATGCCTTCTCCCC 59.774 63.158 0.00 0.00 0.00 4.81
7106 9252 7.523709 GCAGAAACACATTTCCATTTCCTTCTA 60.524 37.037 0.00 0.00 44.66 2.10
7173 9334 1.815003 CAAATGTGTTCTCTCCAGGGC 59.185 52.381 0.00 0.00 0.00 5.19
7388 9576 2.601266 CGGAACAACGACCACATCAAAC 60.601 50.000 0.00 0.00 35.47 2.93
7432 9620 1.993369 GCCGCTGTTCAGGTAATGGC 61.993 60.000 1.97 0.00 0.00 4.40
7481 9669 0.036732 GAGTGGGATGTCAGTTGGCA 59.963 55.000 0.00 0.00 0.00 4.92
7731 10580 1.026718 GTAAGGGCATCAACGCTGCT 61.027 55.000 0.00 0.00 39.60 4.24
7796 10661 0.389391 CCGACCATCCAACGCTATCT 59.611 55.000 0.00 0.00 0.00 1.98
7868 10733 5.989168 ACACGACAGTATTCATCAAAGTTCA 59.011 36.000 0.00 0.00 0.00 3.18
7886 10751 9.552114 CAAAGTTCAGATAGAAAATAGCACAAG 57.448 33.333 0.00 0.00 38.13 3.16
7941 10806 7.660112 AGCACAACAATAGATCAAATTCAACA 58.340 30.769 0.00 0.00 0.00 3.33
7965 10830 3.627395 TTATCCGGATGCTCAACAAGT 57.373 42.857 27.55 0.00 0.00 3.16
7967 10832 1.808411 TCCGGATGCTCAACAAGTTC 58.192 50.000 0.00 0.00 0.00 3.01
7998 10863 2.794910 GGATCATATCGTTCCACACACG 59.205 50.000 0.00 0.00 39.08 4.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 4.090138 TGCAAAGTATGGCGTACATTTG 57.910 40.909 23.11 23.11 41.03 2.32
93 94 0.179000 CCACATTCTCCCCTCTTCCG 59.821 60.000 0.00 0.00 0.00 4.30
423 425 7.959733 TCACGTGTTTATGTGAATCTTATCAC 58.040 34.615 16.51 0.62 46.83 3.06
434 436 6.740905 GGAATACATGTTCACGTGTTTATGTG 59.259 38.462 27.74 18.39 43.01 3.21
438 1171 4.696402 GGGGAATACATGTTCACGTGTTTA 59.304 41.667 16.51 3.11 43.01 2.01
450 1183 8.704849 TGGTATAAAATCTTGGGGAATACATG 57.295 34.615 0.00 0.00 0.00 3.21
462 1195 7.554835 TGCACGTAAGGATTGGTATAAAATCTT 59.445 33.333 0.00 0.68 46.39 2.40
468 1201 4.871557 GTGTGCACGTAAGGATTGGTATAA 59.128 41.667 13.13 0.00 46.39 0.98
471 1204 2.037381 TGTGTGCACGTAAGGATTGGTA 59.963 45.455 13.13 0.00 46.39 3.25
500 1233 3.505464 AGGTGTACTCTTCGGAAATCG 57.495 47.619 0.00 0.00 40.90 3.34
513 1246 2.613506 GGCCGCACACAAGGTGTAC 61.614 63.158 1.15 0.00 45.65 2.90
514 1247 2.281208 GGCCGCACACAAGGTGTA 60.281 61.111 1.15 0.00 45.65 2.90
518 1251 2.498056 AAAAGGGCCGCACACAAGG 61.498 57.895 0.00 0.00 0.00 3.61
575 1310 0.299597 GTCGAACACGCAAAAGTCGT 59.700 50.000 0.00 0.00 41.28 4.34
578 1313 0.655733 CCAGTCGAACACGCAAAAGT 59.344 50.000 0.00 0.00 0.00 2.66
590 1325 3.128349 GTTCAGTTTTACTGCCAGTCGA 58.872 45.455 0.00 0.00 45.54 4.20
606 1342 2.158900 AGTGGCGGGAATCATAGTTCAG 60.159 50.000 0.00 0.00 0.00 3.02
614 1350 1.079405 GTTCGAGTGGCGGGAATCA 60.079 57.895 0.00 0.00 41.33 2.57
615 1351 1.814169 GGTTCGAGTGGCGGGAATC 60.814 63.158 0.00 0.00 41.33 2.52
663 1400 3.719924 TCGGGTCGCGATTAAATTATGT 58.280 40.909 14.06 0.00 0.00 2.29
710 1447 4.868171 GGTTTGCGGTTTTCTCTTCTTTTT 59.132 37.500 0.00 0.00 0.00 1.94
711 1448 4.159693 AGGTTTGCGGTTTTCTCTTCTTTT 59.840 37.500 0.00 0.00 0.00 2.27
712 1449 3.699538 AGGTTTGCGGTTTTCTCTTCTTT 59.300 39.130 0.00 0.00 0.00 2.52
713 1450 3.288092 AGGTTTGCGGTTTTCTCTTCTT 58.712 40.909 0.00 0.00 0.00 2.52
720 1457 7.006187 TCAAAAATTTAGGTTTGCGGTTTTC 57.994 32.000 0.00 0.00 35.21 2.29
749 1486 6.483307 ACCACATCTGATCCGTATGTTTATTG 59.517 38.462 2.81 0.00 31.60 1.90
779 1517 1.150764 GGAAAATCTAGGGGCCCCG 59.849 63.158 35.78 22.57 41.95 5.73
780 1518 0.860457 ATGGAAAATCTAGGGGCCCC 59.140 55.000 35.90 35.90 0.00 5.80
781 1519 1.481242 CCATGGAAAATCTAGGGGCCC 60.481 57.143 17.12 17.12 0.00 5.80
784 1522 9.774071 ATAATTTATCCATGGAAAATCTAGGGG 57.226 33.333 20.67 0.00 29.34 4.79
814 1552 2.158740 TCTGTCAAAATCCAACGGGTGA 60.159 45.455 0.00 0.00 34.93 4.02
901 1647 5.381184 AGCCACTCATTCTCTCTCTACTA 57.619 43.478 0.00 0.00 0.00 1.82
1120 2390 4.646877 TTCCCAAACCGCCGGTCC 62.647 66.667 10.32 0.00 33.12 4.46
1400 2688 2.571757 CAGAGCAGACGGCCGTTA 59.428 61.111 34.65 0.00 46.50 3.18
1416 2704 1.065199 CCATTACCAAGGAGCAGAGCA 60.065 52.381 0.00 0.00 0.00 4.26
1489 2777 2.771943 ACTTGGACTGGACAAGAACAGA 59.228 45.455 16.86 0.00 46.27 3.41
1503 2792 4.097286 TGCTGGTAGTTTTGAAACTTGGAC 59.903 41.667 13.71 6.89 46.52 4.02
1556 2851 8.480501 CCAGTAATTAACCTAACCTAACTAGCA 58.519 37.037 0.00 0.00 0.00 3.49
1583 2885 7.095270 GTGATCTAGGAAGAAGAAAACCGTAA 58.905 38.462 0.00 0.00 34.73 3.18
1626 2928 3.853475 CATTTTGCTCTGATTTGGGGAC 58.147 45.455 0.00 0.00 0.00 4.46
1669 2972 7.429920 CGAAAAGAAAATGAACCGTCAAAACTA 59.570 33.333 0.00 0.00 37.30 2.24
1687 3148 4.035091 CACAGACATCACCAACGAAAAGAA 59.965 41.667 0.00 0.00 0.00 2.52
1693 3154 3.584834 CATACACAGACATCACCAACGA 58.415 45.455 0.00 0.00 0.00 3.85
1694 3155 2.094258 GCATACACAGACATCACCAACG 59.906 50.000 0.00 0.00 0.00 4.10
1695 3156 3.338249 AGCATACACAGACATCACCAAC 58.662 45.455 0.00 0.00 0.00 3.77
1718 3179 5.171476 ACATACAAAGTCTCAGATTCACCG 58.829 41.667 0.00 0.00 0.00 4.94
1895 3366 9.944663 AACCTTTCAAAAACAAAAGAAAGTTTC 57.055 25.926 7.57 7.57 43.21 2.78
1927 3398 3.060602 CGGGTCAAGAGACAGAAAGTTC 58.939 50.000 0.00 0.00 46.80 3.01
1995 3466 8.537858 AGGGGAAATACAGTTTGTTAGTAGTAG 58.462 37.037 0.00 0.00 0.00 2.57
1997 3468 7.325725 AGGGGAAATACAGTTTGTTAGTAGT 57.674 36.000 0.00 0.00 0.00 2.73
2013 3484 2.379907 ACATGACAGGACAAGGGGAAAT 59.620 45.455 0.00 0.00 0.00 2.17
2017 3488 1.909302 AGTACATGACAGGACAAGGGG 59.091 52.381 0.00 0.00 0.00 4.79
2018 3490 3.769844 ACTAGTACATGACAGGACAAGGG 59.230 47.826 0.00 0.00 0.00 3.95
2041 3513 2.438021 TGGACCCAAGATGCATAGTACC 59.562 50.000 0.00 0.00 0.00 3.34
2277 3763 0.957395 AGGTTGATGGTGAAGCAGCG 60.957 55.000 0.00 0.00 34.27 5.18
2301 3788 0.461135 AGTGGTTTGGCACAGCTTTG 59.539 50.000 4.34 0.00 42.39 2.77
2302 3789 0.746659 GAGTGGTTTGGCACAGCTTT 59.253 50.000 4.34 0.00 42.39 3.51
2325 3812 6.896883 ACTTTTACAGAGGGAGTACAGTTTT 58.103 36.000 0.00 0.00 0.00 2.43
2336 3823 6.600882 TTAGACCACTACTTTTACAGAGGG 57.399 41.667 0.00 0.00 0.00 4.30
2337 3824 6.585322 CGTTTAGACCACTACTTTTACAGAGG 59.415 42.308 0.00 0.00 0.00 3.69
2338 3825 6.089150 GCGTTTAGACCACTACTTTTACAGAG 59.911 42.308 0.00 0.00 0.00 3.35
2339 3826 5.922544 GCGTTTAGACCACTACTTTTACAGA 59.077 40.000 0.00 0.00 0.00 3.41
2340 3827 5.924825 AGCGTTTAGACCACTACTTTTACAG 59.075 40.000 0.00 0.00 0.00 2.74
2341 3828 5.846203 AGCGTTTAGACCACTACTTTTACA 58.154 37.500 0.00 0.00 0.00 2.41
2342 3829 6.775939 AAGCGTTTAGACCACTACTTTTAC 57.224 37.500 0.00 0.00 0.00 2.01
2343 3830 7.790823 AAAAGCGTTTAGACCACTACTTTTA 57.209 32.000 0.00 0.00 33.52 1.52
2344 3831 6.688637 AAAAGCGTTTAGACCACTACTTTT 57.311 33.333 0.00 0.00 32.00 2.27
2345 3832 7.974482 ATAAAAGCGTTTAGACCACTACTTT 57.026 32.000 10.55 0.00 32.76 2.66
2346 3833 9.662947 AATATAAAAGCGTTTAGACCACTACTT 57.337 29.630 10.55 0.00 32.76 2.24
2347 3834 9.662947 AAATATAAAAGCGTTTAGACCACTACT 57.337 29.630 10.55 0.00 32.76 2.57
2358 3845 9.940166 CCTCCGTAAATAAATATAAAAGCGTTT 57.060 29.630 2.53 2.53 0.00 3.60
2359 3846 9.328845 TCCTCCGTAAATAAATATAAAAGCGTT 57.671 29.630 0.00 0.00 0.00 4.84
2360 3847 8.891671 TCCTCCGTAAATAAATATAAAAGCGT 57.108 30.769 0.00 0.00 0.00 5.07
2361 3848 8.985805 ACTCCTCCGTAAATAAATATAAAAGCG 58.014 33.333 0.00 0.00 0.00 4.68
2372 3859 8.624776 GCTAGTTAAGTACTCCTCCGTAAATAA 58.375 37.037 0.00 0.00 38.33 1.40
2373 3860 7.995488 AGCTAGTTAAGTACTCCTCCGTAAATA 59.005 37.037 0.00 0.00 38.33 1.40
2374 3861 6.832900 AGCTAGTTAAGTACTCCTCCGTAAAT 59.167 38.462 0.00 0.00 38.33 1.40
2375 3862 6.094603 CAGCTAGTTAAGTACTCCTCCGTAAA 59.905 42.308 0.00 0.00 38.33 2.01
2376 3863 5.587844 CAGCTAGTTAAGTACTCCTCCGTAA 59.412 44.000 0.00 0.00 38.33 3.18
2377 3864 5.121811 CAGCTAGTTAAGTACTCCTCCGTA 58.878 45.833 0.00 0.00 38.33 4.02
2378 3865 3.946558 CAGCTAGTTAAGTACTCCTCCGT 59.053 47.826 0.00 0.00 38.33 4.69
2379 3866 3.946558 ACAGCTAGTTAAGTACTCCTCCG 59.053 47.826 0.00 0.00 38.33 4.63
2380 3867 5.918426 AACAGCTAGTTAAGTACTCCTCC 57.082 43.478 0.00 0.00 39.09 4.30
2381 3868 6.689554 ACAAACAGCTAGTTAAGTACTCCTC 58.310 40.000 0.00 0.00 40.26 3.71
2382 3869 6.295180 GGACAAACAGCTAGTTAAGTACTCCT 60.295 42.308 0.00 0.00 40.26 3.69
2383 3870 5.868258 GGACAAACAGCTAGTTAAGTACTCC 59.132 44.000 0.00 0.00 40.26 3.85
2384 3871 6.586844 CAGGACAAACAGCTAGTTAAGTACTC 59.413 42.308 0.00 0.00 40.26 2.59
2385 3872 6.456501 CAGGACAAACAGCTAGTTAAGTACT 58.543 40.000 10.63 10.63 40.26 2.73
2386 3873 5.120363 GCAGGACAAACAGCTAGTTAAGTAC 59.880 44.000 2.60 5.69 40.26 2.73
2387 3874 5.221561 TGCAGGACAAACAGCTAGTTAAGTA 60.222 40.000 2.60 0.00 40.26 2.24
2388 3875 4.065789 GCAGGACAAACAGCTAGTTAAGT 58.934 43.478 2.60 4.96 40.26 2.24
2389 3876 4.065088 TGCAGGACAAACAGCTAGTTAAG 58.935 43.478 2.60 2.41 40.26 1.85
2390 3877 3.813166 GTGCAGGACAAACAGCTAGTTAA 59.187 43.478 0.00 0.00 40.26 2.01
2450 3937 3.678056 TGCGTATTTCAGACTGAACCT 57.322 42.857 17.52 10.46 35.89 3.50
2468 3955 9.435688 AAATTTCTTGATAACCCAAATACTTGC 57.564 29.630 0.00 0.00 0.00 4.01
2685 4172 7.093992 ACGTTGAATCCTTGAAAGAACAAAAA 58.906 30.769 0.00 0.00 0.00 1.94
2905 4400 7.504238 TGTCAAAGGTGAAGTATAAACCACAAT 59.496 33.333 0.00 0.00 36.37 2.71
3243 4767 6.375455 AGCCTGTATCAAATCGAAAACTCAAT 59.625 34.615 0.00 0.00 0.00 2.57
3425 4949 0.730265 TTTCATCGGTAATGTGCGGC 59.270 50.000 0.00 0.00 36.68 6.53
3518 5042 2.910319 ACCTATAGTGCCACCAAGTTCA 59.090 45.455 0.00 0.00 0.00 3.18
3594 5118 1.132262 ACTTGCAAACAACTGTGTCCG 59.868 47.619 0.00 0.00 36.80 4.79
3620 5144 5.841237 TGAAATTATTTTGACCCCTCAACCA 59.159 36.000 0.00 0.00 36.06 3.67
3865 5391 1.413118 ACCAGGCAAAAGTTTCCAGG 58.587 50.000 3.89 3.89 33.30 4.45
3906 5432 4.202326 ACCTGTTCACCAACTACAGTTAGG 60.202 45.833 0.00 0.00 38.04 2.69
3912 5438 5.362105 AAGTTACCTGTTCACCAACTACA 57.638 39.130 0.00 0.00 33.17 2.74
3971 5497 2.203800 TGAGTATCGCGGACAATGTC 57.796 50.000 6.13 4.51 38.61 3.06
3972 5498 2.890808 ATGAGTATCGCGGACAATGT 57.109 45.000 6.13 0.00 38.61 2.71
4070 5596 1.558233 ACCCAAGTCCTCTTAGTCCG 58.442 55.000 0.00 0.00 32.07 4.79
4181 5707 3.822192 TCGGCATCGACGGACTGG 61.822 66.667 0.00 0.00 40.88 4.00
4196 5722 7.358023 GCAAACAATGTGTAAAGTTAACCATCG 60.358 37.037 0.88 0.00 0.00 3.84
4210 5736 2.497107 GCACAGAGCAAACAATGTGT 57.503 45.000 6.10 0.00 43.84 3.72
4311 5837 3.058639 CAGAGTTTTCAGTAGCCTTGCAC 60.059 47.826 0.00 0.00 0.00 4.57
4408 5935 7.713764 TGTTACATCATGGAGATTAACGATG 57.286 36.000 0.00 0.00 35.41 3.84
4763 6290 7.391554 TGAAGGTAACAATTCAAAGGATCAGAG 59.608 37.037 0.00 0.00 41.41 3.35
4827 6356 3.684305 TGACCTGAGAATATTTGTGCACG 59.316 43.478 13.13 0.00 0.00 5.34
4970 6499 4.570772 TCGCTAAATGCCTACAAAGCTAAG 59.429 41.667 0.00 0.00 38.78 2.18
4991 6522 1.826385 AGGGAGGTTGCAAGATTTCG 58.174 50.000 0.00 0.00 0.00 3.46
5039 6576 9.549078 GAAAATAAACTTGATTACACCCCAAAA 57.451 29.630 0.00 0.00 0.00 2.44
5043 6580 8.117813 TCAGAAAATAAACTTGATTACACCCC 57.882 34.615 0.00 0.00 0.00 4.95
5304 6855 5.211454 TGCCATCGTTTGAAAATATATGCG 58.789 37.500 0.00 0.00 0.00 4.73
5594 7146 2.723273 ACAATAGCTGGTAAGGCAACC 58.277 47.619 0.00 2.29 40.19 3.77
5595 7147 6.451064 AAATACAATAGCTGGTAAGGCAAC 57.549 37.500 0.00 0.00 0.00 4.17
5705 7257 2.813908 GAACCGAGGCGCATCGTT 60.814 61.111 37.53 30.31 41.12 3.85
5794 7346 1.264288 GTGAAGAAGGCGTCAAAGGTG 59.736 52.381 2.69 0.00 34.35 4.00
6116 8229 7.175990 TCACATTAGGTATTTGGAGGAACAAAC 59.824 37.037 0.00 0.00 42.51 2.93
6302 8426 6.957984 TTGAGATCGAAATGAAAGAGACAG 57.042 37.500 0.00 0.00 0.00 3.51
6303 8427 7.912056 AATTGAGATCGAAATGAAAGAGACA 57.088 32.000 0.00 0.00 0.00 3.41
6313 8437 4.731773 GCCAAGCGAAATTGAGATCGAAAT 60.732 41.667 1.54 0.00 41.43 2.17
6321 8445 1.723003 GCTTTGCCAAGCGAAATTGAG 59.277 47.619 6.78 0.00 46.06 3.02
6348 8472 7.306515 CGTCATTTTGTTGTTAATTTGGTCAGG 60.307 37.037 0.00 0.00 0.00 3.86
6374 8498 7.747888 TGTACATATTCAAGCACATTGTGTAC 58.252 34.615 17.64 8.74 42.41 2.90
6377 8501 6.093909 TCCTGTACATATTCAAGCACATTGTG 59.906 38.462 12.54 12.54 40.05 3.33
6414 8538 0.099791 GCTCTAGCTGTCCAGACGAC 59.900 60.000 0.00 0.00 42.33 4.34
6417 8541 0.174617 GGTGCTCTAGCTGTCCAGAC 59.825 60.000 0.00 0.00 42.66 3.51
6595 8719 6.405538 ACACATGCAGGAAAAGAAAAAGAAA 58.594 32.000 4.84 0.00 0.00 2.52
6645 8769 9.679661 TTGATCAGAGAGATAGATCCATACTAC 57.320 37.037 0.00 0.00 37.86 2.73
7003 9136 2.205307 GCAGCAGCAAATTCAGATCC 57.795 50.000 0.00 0.00 41.58 3.36
7074 9219 8.538409 AAATGGAAATGTGTTTCTGCTAAATC 57.462 30.769 1.50 0.00 42.66 2.17
7106 9252 7.200434 TCTGAGTATTTGCTTCCTCCTATTT 57.800 36.000 0.00 0.00 0.00 1.40
7118 9267 4.340894 TTTGCGACATCTGAGTATTTGC 57.659 40.909 0.00 0.00 0.00 3.68
7173 9334 0.381801 ACACCAAAAACAGAGCTGCG 59.618 50.000 0.00 0.00 0.00 5.18
7344 9532 5.296748 GCCATTTTGTCTTACAATTGTGGT 58.703 37.500 21.42 0.00 38.00 4.16
7388 9576 1.719529 ATGAGCTCAGATCAGGAGGG 58.280 55.000 22.96 0.00 32.96 4.30
7432 9620 6.094325 GTCTTCCCGTAGTATCATATGAGAGG 59.906 46.154 11.78 4.05 0.00 3.69
7481 9669 9.793252 GAAATGTCACTATGATTTGCAATAAGT 57.207 29.630 0.00 0.00 0.00 2.24
7635 9824 3.834489 AGTGTCATCATCCTGGTCATC 57.166 47.619 0.00 0.00 0.00 2.92
7796 10661 6.098017 TGAAATGCGATTTGAATTGTATGCA 58.902 32.000 0.00 0.00 35.35 3.96
7868 10733 7.568349 TGGATGACTTGTGCTATTTTCTATCT 58.432 34.615 0.00 0.00 0.00 1.98
7886 10751 9.616634 CTTATTTGCATGTTATGTATGGATGAC 57.383 33.333 0.00 0.00 0.00 3.06
7941 10806 6.299141 ACTTGTTGAGCATCCGGATAATATT 58.701 36.000 18.63 0.56 0.00 1.28
7965 10830 3.304458 CGATATGATCCGTTCGTGGAGAA 60.304 47.826 0.00 0.00 42.45 2.87
7967 10832 2.031069 ACGATATGATCCGTTCGTGGAG 60.031 50.000 11.60 0.00 42.66 3.86


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

AutoCloner maintained by Alex Coulton.