Multiple sequence alignment - TraesCS5A01G254400

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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 TraesCS5A01G254400 chr5A 100.000 4459 0 0 1 4459 470174087 470178545 0.000000e+00 8235.0
1 TraesCS5A01G254400 chr5A 83.153 2683 302 63 722 3354 470184016 470186598 0.000000e+00 2313.0
2 TraesCS5A01G254400 chr5D 90.711 4166 251 56 364 4457 368289959 368294060 0.000000e+00 5424.0
3 TraesCS5A01G254400 chr5D 84.086 2702 291 52 695 3354 368299198 368301802 0.000000e+00 2479.0
4 TraesCS5A01G254400 chr5D 80.317 315 32 17 372 669 368298751 368299052 1.260000e-50 211.0
5 TraesCS5A01G254400 chr5D 77.465 355 36 16 3591 3915 4365410 4365750 5.930000e-39 172.0
6 TraesCS5A01G254400 chr5D 77.183 355 37 16 3591 3915 4416213 4416553 2.760000e-37 167.0
7 TraesCS5A01G254400 chr5D 77.183 355 37 16 3591 3915 4563213 4563553 2.760000e-37 167.0
8 TraesCS5A01G254400 chr5D 77.183 355 37 16 3591 3915 4627974 4628314 2.760000e-37 167.0
9 TraesCS5A01G254400 chr5D 93.976 83 2 1 1 83 368289702 368289781 6.060000e-24 122.0
10 TraesCS5A01G254400 chr5B 89.153 3199 237 53 372 3513 436213259 436216404 0.000000e+00 3884.0
11 TraesCS5A01G254400 chr5B 85.268 2403 247 48 698 3066 436244236 436246565 0.000000e+00 2377.0
12 TraesCS5A01G254400 chr5B 88.854 951 52 13 3515 4436 436236462 436237387 0.000000e+00 1120.0
13 TraesCS5A01G254400 chr5B 80.738 488 61 18 3596 4068 629732120 629731651 2.550000e-92 350.0
14 TraesCS5A01G254400 chr5B 80.328 488 63 20 3596 4068 626661447 626660978 5.520000e-89 339.0
15 TraesCS5A01G254400 chr5B 86.957 184 11 8 3 180 436212830 436213006 1.270000e-45 195.0
16 TraesCS5A01G254400 chr5B 87.582 153 11 2 3212 3356 436246740 436246892 2.130000e-38 171.0
17 TraesCS5A01G254400 chr3D 81.563 499 60 15 3584 4068 520456790 520456310 2.520000e-102 383.0
18 TraesCS5A01G254400 chr3D 80.628 191 34 3 3595 3785 323806044 323805857 1.290000e-30 145.0
19 TraesCS5A01G254400 chr3D 100.000 29 0 0 3553 3581 610988957 610988985 2.000000e-03 54.7
20 TraesCS5A01G254400 chr7B 79.959 489 63 13 3596 4068 643188448 643187979 1.200000e-85 327.0
21 TraesCS5A01G254400 chr7B 97.222 36 1 0 3547 3582 11319653 11319618 1.340000e-05 62.1
22 TraesCS5A01G254400 chr2D 80.758 343 36 16 3599 3915 43702163 43702501 1.600000e-59 241.0
23 TraesCS5A01G254400 chr2D 97.059 34 1 0 3521 3554 43702120 43702153 1.730000e-04 58.4
24 TraesCS5A01G254400 chr2D 94.444 36 2 0 3547 3582 468185538 468185573 6.230000e-04 56.5
25 TraesCS5A01G254400 chr6B 80.645 341 36 13 3602 3916 652346779 652347115 2.070000e-58 237.0
26 TraesCS5A01G254400 chrUn 77.095 358 38 16 3591 3918 357855005 357854662 2.760000e-37 167.0
27 TraesCS5A01G254400 chr3A 80.108 186 31 4 3595 3780 169034041 169034220 2.800000e-27 134.0
28 TraesCS5A01G254400 chr2B 87.826 115 12 2 4071 4184 298328324 298328211 2.800000e-27 134.0
29 TraesCS5A01G254400 chr4D 85.185 81 11 1 3595 3675 220882608 220882687 1.030000e-11 82.4
30 TraesCS5A01G254400 chr3B 95.122 41 2 0 3402 3442 9085798 9085758 1.040000e-06 65.8
31 TraesCS5A01G254400 chr1B 100.000 29 0 0 3554 3582 590999043 590999071 2.000000e-03 54.7


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 TraesCS5A01G254400 chr5A 470174087 470178545 4458 False 8235.0 8235 100.0000 1 4459 1 chr5A.!!$F1 4458
1 TraesCS5A01G254400 chr5A 470184016 470186598 2582 False 2313.0 2313 83.1530 722 3354 1 chr5A.!!$F2 2632
2 TraesCS5A01G254400 chr5D 368289702 368294060 4358 False 2773.0 5424 92.3435 1 4457 2 chr5D.!!$F5 4456
3 TraesCS5A01G254400 chr5D 368298751 368301802 3051 False 1345.0 2479 82.2015 372 3354 2 chr5D.!!$F6 2982
4 TraesCS5A01G254400 chr5B 436212830 436216404 3574 False 2039.5 3884 88.0550 3 3513 2 chr5B.!!$F2 3510
5 TraesCS5A01G254400 chr5B 436244236 436246892 2656 False 1274.0 2377 86.4250 698 3356 2 chr5B.!!$F3 2658
6 TraesCS5A01G254400 chr5B 436236462 436237387 925 False 1120.0 1120 88.8540 3515 4436 1 chr5B.!!$F1 921

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
171 174 0.035439 AACAGCCAATACCCCTCACG 60.035 55.0 0.00 0.0 0.00 4.35 F
941 1260 0.109597 GCTTGCCAGTCCGTGAAATG 60.110 55.0 0.00 0.0 0.00 2.32 F
1829 2152 0.181114 TCTGTGGCTGCTGTTCAAGT 59.819 50.0 0.00 0.0 0.00 3.16 F
2097 2420 0.464452 GCTGTGGCTACCGGAGTATT 59.536 55.0 9.46 0.0 35.22 1.89 F
2430 2760 0.469494 TCAGTCTGAACTTGCCTGCA 59.531 50.0 0.00 0.0 31.71 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1885 2208 0.037877 ATCCAGCTGCTTTGCTCTGT 59.962 50.0 8.66 0.0 41.98 3.41 R
2607 2938 0.176680 GACTCCAGCATGTCCGTCAT 59.823 55.0 0.00 0.0 37.22 3.06 R
3281 3717 0.039618 TTCCCTTGGGCCTTGATGAC 59.960 55.0 4.53 0.0 0.00 3.06 R
3282 3718 0.332632 CTTCCCTTGGGCCTTGATGA 59.667 55.0 4.53 0.0 0.00 2.92 R
4129 4604 1.570813 CGATCAAGCGGACAAGCATA 58.429 50.0 0.00 0.0 40.15 3.14 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
38 39 3.694566 GGTACAAATGGGTGAATGAGGAC 59.305 47.826 0.00 0.00 0.00 3.85
88 89 9.881529 TTTTTCTTTTATTGCAAAATCAGCATC 57.118 25.926 1.71 0.00 42.33 3.91
108 109 2.094675 CAAACAGCCCCACCTAAGATG 58.905 52.381 0.00 0.00 0.00 2.90
118 119 3.763897 CCCACCTAAGATGGAAACCAAAG 59.236 47.826 0.00 0.00 39.87 2.77
125 126 6.208599 CCTAAGATGGAAACCAAAGCAACTAA 59.791 38.462 0.00 0.00 36.95 2.24
126 127 5.712152 AGATGGAAACCAAAGCAACTAAG 57.288 39.130 0.00 0.00 36.95 2.18
129 130 6.494835 AGATGGAAACCAAAGCAACTAAGAAT 59.505 34.615 0.00 0.00 36.95 2.40
149 152 2.964209 TGCTAACAAATTGGGGTTCCA 58.036 42.857 0.00 0.00 42.25 3.53
162 165 2.556559 GGGGTTCCAAGAACAGCCAATA 60.557 50.000 9.50 0.00 0.00 1.90
166 169 1.005450 TCCAAGAACAGCCAATACCCC 59.995 52.381 0.00 0.00 0.00 4.95
167 170 1.005924 CCAAGAACAGCCAATACCCCT 59.994 52.381 0.00 0.00 0.00 4.79
168 171 2.369394 CAAGAACAGCCAATACCCCTC 58.631 52.381 0.00 0.00 0.00 4.30
169 172 1.668826 AGAACAGCCAATACCCCTCA 58.331 50.000 0.00 0.00 0.00 3.86
170 173 1.282157 AGAACAGCCAATACCCCTCAC 59.718 52.381 0.00 0.00 0.00 3.51
171 174 0.035439 AACAGCCAATACCCCTCACG 60.035 55.000 0.00 0.00 0.00 4.35
173 176 0.251916 CAGCCAATACCCCTCACGAA 59.748 55.000 0.00 0.00 0.00 3.85
175 178 1.087771 GCCAATACCCCTCACGAACG 61.088 60.000 0.00 0.00 0.00 3.95
176 179 1.087771 CCAATACCCCTCACGAACGC 61.088 60.000 0.00 0.00 0.00 4.84
177 180 0.390603 CAATACCCCTCACGAACGCA 60.391 55.000 0.00 0.00 0.00 5.24
178 181 0.539986 AATACCCCTCACGAACGCAT 59.460 50.000 0.00 0.00 0.00 4.73
182 185 1.519455 CCCTCACGAACGCATCTCC 60.519 63.158 0.00 0.00 0.00 3.71
184 187 1.136774 CTCACGAACGCATCTCCGA 59.863 57.895 0.00 0.00 0.00 4.55
185 188 0.456142 CTCACGAACGCATCTCCGAA 60.456 55.000 0.00 0.00 0.00 4.30
186 189 0.456142 TCACGAACGCATCTCCGAAG 60.456 55.000 0.00 0.00 0.00 3.79
222 298 2.867429 CGCTCGAAAGAAATTTGGCAT 58.133 42.857 0.00 0.00 41.32 4.40
231 308 4.019792 AGAAATTTGGCATGGGAAAACC 57.980 40.909 0.00 0.00 40.81 3.27
253 330 9.981114 AAACCAAGTATAAAAGGATTTGACTTG 57.019 29.630 16.20 16.20 44.02 3.16
254 331 8.706322 ACCAAGTATAAAAGGATTTGACTTGT 57.294 30.769 18.89 11.04 43.55 3.16
255 332 8.576442 ACCAAGTATAAAAGGATTTGACTTGTG 58.424 33.333 18.89 15.21 43.55 3.33
262 339 7.609760 AAAAGGATTTGACTTGTGAAAAACC 57.390 32.000 0.00 0.00 39.02 3.27
263 340 6.544928 AAGGATTTGACTTGTGAAAAACCT 57.455 33.333 8.13 8.13 37.59 3.50
264 341 7.654022 AAGGATTTGACTTGTGAAAAACCTA 57.346 32.000 11.96 0.00 35.67 3.08
265 342 7.654022 AGGATTTGACTTGTGAAAAACCTAA 57.346 32.000 10.71 0.00 35.16 2.69
266 343 8.073467 AGGATTTGACTTGTGAAAAACCTAAA 57.927 30.769 10.71 0.00 35.16 1.85
267 344 8.536175 AGGATTTGACTTGTGAAAAACCTAAAA 58.464 29.630 10.71 0.00 35.16 1.52
268 345 9.157104 GGATTTGACTTGTGAAAAACCTAAAAA 57.843 29.630 0.00 0.00 0.00 1.94
292 369 1.079336 GGTGTCAGGTACCTTCGGC 60.079 63.158 13.15 3.98 35.30 5.54
302 402 2.074576 GTACCTTCGGCCTCTTTGAAC 58.925 52.381 0.00 0.00 0.00 3.18
306 406 2.494059 CTTCGGCCTCTTTGAACTGAA 58.506 47.619 0.00 0.00 0.00 3.02
309 409 2.104111 TCGGCCTCTTTGAACTGAAGAA 59.896 45.455 0.00 0.00 33.10 2.52
310 410 2.481952 CGGCCTCTTTGAACTGAAGAAG 59.518 50.000 0.00 0.00 33.10 2.85
311 411 3.744660 GGCCTCTTTGAACTGAAGAAGA 58.255 45.455 0.00 0.00 33.10 2.87
312 412 3.500299 GGCCTCTTTGAACTGAAGAAGAC 59.500 47.826 0.00 0.00 33.10 3.01
344 444 1.310933 ACGAGTGAAGGCGTATCCGT 61.311 55.000 0.00 0.00 39.21 4.69
348 448 1.140161 TGAAGGCGTATCCGTTCCG 59.860 57.895 0.00 0.00 40.77 4.30
353 453 1.140375 GCGTATCCGTTCCGAACCT 59.860 57.895 5.67 0.00 36.15 3.50
377 535 1.544825 GCTGCACCACACTCTCCCTA 61.545 60.000 0.00 0.00 0.00 3.53
380 538 1.273267 TGCACCACACTCTCCCTATCT 60.273 52.381 0.00 0.00 0.00 1.98
389 547 5.299531 CACACTCTCCCTATCTATGAAACGA 59.700 44.000 0.00 0.00 0.00 3.85
390 548 6.015856 CACACTCTCCCTATCTATGAAACGAT 60.016 42.308 0.00 0.00 0.00 3.73
426 584 6.111768 TCTTTTATTTCTCTCATCTTGCGC 57.888 37.500 0.00 0.00 0.00 6.09
427 585 4.882671 TTTATTTCTCTCATCTTGCGCC 57.117 40.909 4.18 0.00 0.00 6.53
449 622 1.554392 CGCGGAAGAGTTCATCTGAG 58.446 55.000 0.00 0.00 38.67 3.35
481 664 2.708132 TCCCCTCCCCTCCCCTAG 60.708 72.222 0.00 0.00 0.00 3.02
505 688 0.810426 GGATCTCGGTTTTCGCTCCC 60.810 60.000 0.00 0.00 39.05 4.30
506 689 0.175989 GATCTCGGTTTTCGCTCCCT 59.824 55.000 0.00 0.00 39.05 4.20
507 690 0.175989 ATCTCGGTTTTCGCTCCCTC 59.824 55.000 0.00 0.00 39.05 4.30
508 691 0.898789 TCTCGGTTTTCGCTCCCTCT 60.899 55.000 0.00 0.00 39.05 3.69
509 692 0.815734 CTCGGTTTTCGCTCCCTCTA 59.184 55.000 0.00 0.00 39.05 2.43
510 693 0.529378 TCGGTTTTCGCTCCCTCTAC 59.471 55.000 0.00 0.00 39.05 2.59
520 703 2.359531 CGCTCCCTCTACCTTTCTGTAG 59.640 54.545 0.00 0.00 39.67 2.74
581 768 6.157471 AGGGAATTAATACAAGTCGTTAGGGT 59.843 38.462 0.00 0.00 0.00 4.34
604 791 1.028905 CAACCTGCGAGGGAAAAACA 58.971 50.000 7.06 0.00 40.58 2.83
622 810 1.290203 CATCAATCCGTCGGAACCTG 58.710 55.000 19.76 15.50 34.34 4.00
624 812 2.106683 CAATCCGTCGGAACCTGGC 61.107 63.158 19.76 0.00 34.34 4.85
626 814 2.521958 AATCCGTCGGAACCTGGCAG 62.522 60.000 19.76 7.75 34.34 4.85
627 815 4.003788 CCGTCGGAACCTGGCAGT 62.004 66.667 14.43 0.00 0.00 4.40
628 816 2.642254 CCGTCGGAACCTGGCAGTA 61.642 63.158 14.43 0.00 0.00 2.74
629 817 1.445582 CGTCGGAACCTGGCAGTAC 60.446 63.158 14.43 4.12 0.00 2.73
669 857 0.233848 GTACGAAATATTGGCGGCGG 59.766 55.000 9.78 0.00 0.00 6.13
765 1076 2.416893 GGATTGCTTGACGAACCTCTTC 59.583 50.000 0.00 0.00 0.00 2.87
941 1260 0.109597 GCTTGCCAGTCCGTGAAATG 60.110 55.000 0.00 0.00 0.00 2.32
988 1307 2.355837 TCACTGTGGCTTCGACGC 60.356 61.111 5.12 5.12 0.00 5.19
1083 1403 2.032681 AGGCTTCCGGTGAGCAAC 59.967 61.111 25.97 14.45 41.89 4.17
1188 1508 0.746923 AGCGTCGCCCCCTTTTATTC 60.747 55.000 14.86 0.00 0.00 1.75
1196 1516 3.169908 GCCCCCTTTTATTCTTCCAACA 58.830 45.455 0.00 0.00 0.00 3.33
1199 1519 5.083821 CCCCCTTTTATTCTTCCAACAAGA 58.916 41.667 0.00 0.00 0.00 3.02
1204 1524 2.951229 ATTCTTCCAACAAGACGGGT 57.049 45.000 0.00 0.00 0.00 5.28
1216 1536 2.032681 ACGGGTCTTCAGGCAAGC 59.967 61.111 0.00 0.00 31.26 4.01
1217 1537 2.348998 CGGGTCTTCAGGCAAGCT 59.651 61.111 0.00 0.00 31.26 3.74
1220 1540 0.676151 GGGTCTTCAGGCAAGCTCTG 60.676 60.000 0.00 0.00 31.26 3.35
1307 1627 1.202222 GCCTGATGATTTCTTGTGCGG 60.202 52.381 0.00 0.00 0.00 5.69
1317 1637 1.654137 CTTGTGCGGTTCGTGCAAC 60.654 57.895 0.00 0.00 45.23 4.17
1359 1679 4.889832 GAGCAAATCGACCATCAAGATT 57.110 40.909 0.00 0.00 36.29 2.40
1404 1724 2.593436 CACCTCGCCAAACCCGTT 60.593 61.111 0.00 0.00 0.00 4.44
1408 1728 0.320946 CCTCGCCAAACCCGTTAAGA 60.321 55.000 0.00 0.00 0.00 2.10
1410 1730 1.396996 CTCGCCAAACCCGTTAAGATG 59.603 52.381 0.00 0.00 0.00 2.90
1411 1734 1.161843 CGCCAAACCCGTTAAGATGT 58.838 50.000 0.00 0.00 0.00 3.06
1418 1741 3.772060 ACCCGTTAAGATGTACTCGAC 57.228 47.619 0.00 0.00 0.00 4.20
1421 1744 2.540361 CCGTTAAGATGTACTCGACGGG 60.540 54.545 18.41 0.00 45.04 5.28
1498 1821 1.152860 TTGCACTTTCTTCCGGGCA 60.153 52.632 0.00 0.00 0.00 5.36
1500 1823 0.539438 TGCACTTTCTTCCGGGCAAT 60.539 50.000 0.00 0.00 0.00 3.56
1554 1877 2.335316 TTCAAGTTTACACGCTGGGT 57.665 45.000 0.00 0.00 0.00 4.51
1571 1894 1.557269 GGTGATGAGCAGTGGAGGGT 61.557 60.000 0.00 0.00 0.00 4.34
1572 1895 0.326264 GTGATGAGCAGTGGAGGGTT 59.674 55.000 0.00 0.00 0.00 4.11
1776 2099 3.426615 TCCTGCATTTGGTAATCCGTTT 58.573 40.909 0.00 0.00 36.30 3.60
1777 2100 3.442273 TCCTGCATTTGGTAATCCGTTTC 59.558 43.478 0.00 0.00 36.30 2.78
1829 2152 0.181114 TCTGTGGCTGCTGTTCAAGT 59.819 50.000 0.00 0.00 0.00 3.16
1840 2163 5.718146 CTGCTGTTCAAGTCAGAAGAGATA 58.282 41.667 5.20 0.00 40.30 1.98
1849 2172 2.957006 GTCAGAAGAGATACCGGGCTTA 59.043 50.000 6.32 0.00 0.00 3.09
1895 2218 4.621068 TTGACAACAAGACAGAGCAAAG 57.379 40.909 0.00 0.00 0.00 2.77
1896 2219 2.355756 TGACAACAAGACAGAGCAAAGC 59.644 45.455 0.00 0.00 0.00 3.51
1910 2233 1.093159 CAAAGCAGCTGGATCCAGAC 58.907 55.000 40.29 30.08 46.30 3.51
1950 2273 5.502079 TCAACACTTAAAGTTCTTGGACCA 58.498 37.500 0.00 0.00 0.00 4.02
1988 2311 7.341805 GGGGATAAGATTATCATGCATAGTGT 58.658 38.462 13.18 0.00 40.98 3.55
1995 2318 5.666969 TTATCATGCATAGTGTTAACGGC 57.333 39.130 0.00 0.60 0.00 5.68
2028 2351 1.084370 ATGAACTTACGAGCCAGCGC 61.084 55.000 0.00 0.00 33.86 5.92
2052 2375 6.128849 GCTTTACAATCGACGTAACCAAGTTA 60.129 38.462 8.40 0.00 0.00 2.24
2054 2377 4.240096 ACAATCGACGTAACCAAGTTAGG 58.760 43.478 0.00 5.82 39.05 2.69
2065 2388 4.017177 ACCAAGTTAGGGAAGCTGTTAC 57.983 45.455 0.00 0.00 0.00 2.50
2066 2389 3.651423 ACCAAGTTAGGGAAGCTGTTACT 59.349 43.478 0.00 0.00 0.00 2.24
2093 2416 4.514577 CCGCTGTGGCTACCGGAG 62.515 72.222 9.46 1.84 43.20 4.63
2097 2420 0.464452 GCTGTGGCTACCGGAGTATT 59.536 55.000 9.46 0.00 35.22 1.89
2105 2428 3.555168 GGCTACCGGAGTATTCAATCCTG 60.555 52.174 9.46 0.00 33.12 3.86
2151 2474 3.019564 GTTGGATGCATACAAGAAGGCT 58.980 45.455 24.89 0.00 29.65 4.58
2235 2558 3.079578 ACACGACCGTTCTGAGATAGAA 58.920 45.455 0.00 0.00 43.01 2.10
2252 2575 0.529555 GAAGAGCTGTGGAGATCCGC 60.530 60.000 5.45 5.45 46.40 5.54
2430 2760 0.469494 TCAGTCTGAACTTGCCTGCA 59.531 50.000 0.00 0.00 31.71 4.41
2650 2981 5.499313 TCATGTTGATAGTTTGGATGCTCA 58.501 37.500 0.00 0.00 0.00 4.26
2879 3230 5.712917 TGTTGTTACTTGTTTCCTTCCAGTT 59.287 36.000 0.00 0.00 0.00 3.16
2880 3231 6.885376 TGTTGTTACTTGTTTCCTTCCAGTTA 59.115 34.615 0.00 0.00 0.00 2.24
2881 3232 7.558444 TGTTGTTACTTGTTTCCTTCCAGTTAT 59.442 33.333 0.00 0.00 0.00 1.89
2882 3233 9.059260 GTTGTTACTTGTTTCCTTCCAGTTATA 57.941 33.333 0.00 0.00 0.00 0.98
2883 3234 8.842358 TGTTACTTGTTTCCTTCCAGTTATAG 57.158 34.615 0.00 0.00 0.00 1.31
2885 3236 9.933723 GTTACTTGTTTCCTTCCAGTTATAGTA 57.066 33.333 0.00 0.00 0.00 1.82
2888 3239 9.668497 ACTTGTTTCCTTCCAGTTATAGTATTC 57.332 33.333 0.00 0.00 0.00 1.75
2966 3333 7.700234 CACTTTTGTAACATGTGCTTTTCAGTA 59.300 33.333 0.00 0.00 0.00 2.74
3114 3515 8.220755 TGTGTTAATTTACTTCAGCAAAGAGT 57.779 30.769 5.93 0.00 38.44 3.24
3281 3717 3.535962 GAGGAGAGCGAGGCTGGG 61.536 72.222 0.00 0.00 39.88 4.45
3282 3718 4.390556 AGGAGAGCGAGGCTGGGT 62.391 66.667 0.00 0.00 39.88 4.51
3457 3900 8.537049 TTTAAAAATCTTGCTGGTTCATCATG 57.463 30.769 0.00 0.00 0.00 3.07
3461 3904 1.399440 CTTGCTGGTTCATCATGACCG 59.601 52.381 0.00 0.00 0.00 4.79
3601 4047 4.335416 TCAGTCCTCATTCCAATCAAACC 58.665 43.478 0.00 0.00 0.00 3.27
3614 4061 2.666272 TCAAACCATGGGTAAGTGCA 57.334 45.000 18.09 0.00 33.12 4.57
3657 4104 4.645535 TGAGTGAAACAAGGAAGGATCAG 58.354 43.478 0.00 0.00 41.43 2.90
3687 4134 2.483877 ACGAATGAATCACGCACATGTT 59.516 40.909 0.00 0.00 0.00 2.71
3705 4152 5.178252 ACATGTTGTTCATCAGTTCTTCTCG 59.822 40.000 0.00 0.00 34.09 4.04
3733 4180 6.696411 TGAAAATGGAACCCAATATGTTGTC 58.304 36.000 1.26 0.00 36.95 3.18
3782 4229 1.169661 CGATCAGCCTCCTCGCTAGT 61.170 60.000 0.00 0.00 36.82 2.57
3787 4234 3.905678 CCTCCTCGCTAGTGCCGG 61.906 72.222 0.00 0.00 35.36 6.13
3788 4235 4.577246 CTCCTCGCTAGTGCCGGC 62.577 72.222 22.73 22.73 35.36 6.13
3816 4289 2.544685 CTCAACATCTCCCGTGACATC 58.455 52.381 0.00 0.00 0.00 3.06
3861 4334 1.131126 CATGTCCACCATGTTTCGCTC 59.869 52.381 0.00 0.00 44.96 5.03
3874 4347 4.751060 TGTTTCGCTCCATCTTACGTTAT 58.249 39.130 0.00 0.00 0.00 1.89
3883 4356 6.724893 TCCATCTTACGTTATTCCTCATCA 57.275 37.500 0.00 0.00 0.00 3.07
3964 4439 8.256611 AGTACAGCAATATCTACACAACAAAG 57.743 34.615 0.00 0.00 0.00 2.77
4146 4621 2.939103 GTCTTATGCTTGTCCGCTTGAT 59.061 45.455 0.00 0.00 0.00 2.57
4179 4654 2.293955 TCCACGTGTCACGATCTTACAA 59.706 45.455 30.95 5.32 46.05 2.41
4194 4669 5.762179 TCTTACAACAGATGGATGGTTCT 57.238 39.130 0.00 0.00 0.00 3.01
4231 4706 1.779061 CGCTTGATAACGCGTGTGT 59.221 52.632 14.98 0.65 44.01 3.72
4292 4767 1.959042 AAGTTCTCTGTGCCAGTGTG 58.041 50.000 2.68 0.00 32.61 3.82
4341 4816 6.280643 GGCTTTGTTACAAAAAGAGGACATT 58.719 36.000 11.80 0.00 36.88 2.71
4342 4817 6.420903 GGCTTTGTTACAAAAAGAGGACATTC 59.579 38.462 11.80 0.00 36.88 2.67
4343 4818 7.203218 GCTTTGTTACAAAAAGAGGACATTCT 58.797 34.615 11.80 0.00 36.88 2.40
4344 4819 7.168135 GCTTTGTTACAAAAAGAGGACATTCTG 59.832 37.037 11.80 0.00 36.88 3.02
4345 4820 7.873719 TTGTTACAAAAAGAGGACATTCTGA 57.126 32.000 0.00 0.00 0.00 3.27
4346 4821 8.463930 TTGTTACAAAAAGAGGACATTCTGAT 57.536 30.769 0.00 0.00 0.00 2.90
4347 4822 8.463930 TGTTACAAAAAGAGGACATTCTGATT 57.536 30.769 0.00 0.00 0.00 2.57
4348 4823 9.567776 TGTTACAAAAAGAGGACATTCTGATTA 57.432 29.630 0.00 0.00 0.00 1.75
4401 4876 4.600111 AGTAGTTCCCCTGTATTGTCCAAA 59.400 41.667 0.00 0.00 0.00 3.28
4457 4932 7.807977 ATTAAAAAGAGAAGTTGCTCACAGA 57.192 32.000 0.00 0.00 37.37 3.41
4458 4933 7.807977 TTAAAAAGAGAAGTTGCTCACAGAT 57.192 32.000 0.00 0.00 37.37 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 0.322456 TCAAATGTCCTTGGGGAGCG 60.322 55.000 0.00 0.00 43.12 5.03
67 68 8.283992 TGTTTGATGCTGATTTTGCAATAAAAG 58.716 29.630 0.00 0.00 44.01 2.27
74 75 3.061322 GCTGTTTGATGCTGATTTTGCA 58.939 40.909 0.00 0.00 44.95 4.08
84 85 0.323360 TAGGTGGGGCTGTTTGATGC 60.323 55.000 0.00 0.00 0.00 3.91
86 87 1.992557 TCTTAGGTGGGGCTGTTTGAT 59.007 47.619 0.00 0.00 0.00 2.57
87 88 1.440618 TCTTAGGTGGGGCTGTTTGA 58.559 50.000 0.00 0.00 0.00 2.69
88 89 2.094675 CATCTTAGGTGGGGCTGTTTG 58.905 52.381 0.00 0.00 0.00 2.93
108 109 4.686091 GCATTCTTAGTTGCTTTGGTTTCC 59.314 41.667 3.45 0.00 35.95 3.13
118 119 6.311200 CCCAATTTGTTAGCATTCTTAGTTGC 59.689 38.462 0.00 2.63 39.17 4.17
125 126 4.222810 GGAACCCCAATTTGTTAGCATTCT 59.777 41.667 0.00 0.00 0.00 2.40
126 127 4.020662 TGGAACCCCAATTTGTTAGCATTC 60.021 41.667 0.00 0.00 40.09 2.67
129 130 2.964209 TGGAACCCCAATTTGTTAGCA 58.036 42.857 0.00 0.00 40.09 3.49
149 152 1.992557 TGAGGGGTATTGGCTGTTCTT 59.007 47.619 0.00 0.00 0.00 2.52
162 165 2.227089 GAGATGCGTTCGTGAGGGGT 62.227 60.000 0.00 0.00 0.00 4.95
166 169 0.456142 TTCGGAGATGCGTTCGTGAG 60.456 55.000 0.00 0.00 35.04 3.51
167 170 0.456142 CTTCGGAGATGCGTTCGTGA 60.456 55.000 0.00 0.00 35.04 4.35
168 171 1.413767 CCTTCGGAGATGCGTTCGTG 61.414 60.000 0.00 0.00 35.04 4.35
169 172 1.153823 CCTTCGGAGATGCGTTCGT 60.154 57.895 0.00 0.00 35.04 3.85
170 173 0.457853 TTCCTTCGGAGATGCGTTCG 60.458 55.000 0.00 0.00 35.04 3.95
171 174 1.941325 ATTCCTTCGGAGATGCGTTC 58.059 50.000 0.00 0.00 35.04 3.95
173 176 1.656652 CAATTCCTTCGGAGATGCGT 58.343 50.000 0.00 0.00 35.04 5.24
175 178 1.332997 CAGCAATTCCTTCGGAGATGC 59.667 52.381 11.67 11.67 41.91 3.91
176 179 1.332997 GCAGCAATTCCTTCGGAGATG 59.667 52.381 0.00 0.00 35.04 2.90
177 180 1.673168 GCAGCAATTCCTTCGGAGAT 58.327 50.000 0.00 0.00 35.04 2.75
178 181 0.740868 CGCAGCAATTCCTTCGGAGA 60.741 55.000 0.00 0.00 31.21 3.71
197 200 0.169009 AATTTCTTTCGAGCGCAGGC 59.831 50.000 11.47 0.00 40.37 4.85
198 201 2.245096 CAAATTTCTTTCGAGCGCAGG 58.755 47.619 11.47 0.00 0.00 4.85
203 279 2.925563 CCATGCCAAATTTCTTTCGAGC 59.074 45.455 0.00 0.00 0.00 5.03
207 283 5.048782 GGTTTTCCCATGCCAAATTTCTTTC 60.049 40.000 0.00 0.00 0.00 2.62
222 298 8.371699 CAAATCCTTTTATACTTGGTTTTCCCA 58.628 33.333 0.00 0.00 43.27 4.37
240 317 6.544928 AGGTTTTTCACAAGTCAAATCCTT 57.455 33.333 0.00 0.00 29.03 3.36
252 329 5.185442 ACCTTCGGTTTTTAGGTTTTTCACA 59.815 36.000 0.00 0.00 39.19 3.58
253 330 5.517411 CACCTTCGGTTTTTAGGTTTTTCAC 59.483 40.000 0.00 0.00 40.24 3.18
254 331 5.185442 ACACCTTCGGTTTTTAGGTTTTTCA 59.815 36.000 0.00 0.00 40.24 2.69
255 332 5.653507 ACACCTTCGGTTTTTAGGTTTTTC 58.346 37.500 0.00 0.00 40.24 2.29
257 334 4.705991 TGACACCTTCGGTTTTTAGGTTTT 59.294 37.500 0.00 0.00 40.24 2.43
258 335 4.271661 TGACACCTTCGGTTTTTAGGTTT 58.728 39.130 0.00 0.00 40.24 3.27
259 336 3.881089 CTGACACCTTCGGTTTTTAGGTT 59.119 43.478 0.00 0.00 40.24 3.50
260 337 3.473625 CTGACACCTTCGGTTTTTAGGT 58.526 45.455 0.00 0.00 42.92 3.08
261 338 2.812011 CCTGACACCTTCGGTTTTTAGG 59.188 50.000 0.00 0.00 31.02 2.69
262 339 3.473625 ACCTGACACCTTCGGTTTTTAG 58.526 45.455 0.00 0.00 31.02 1.85
263 340 3.564053 ACCTGACACCTTCGGTTTTTA 57.436 42.857 0.00 0.00 31.02 1.52
264 341 2.430248 ACCTGACACCTTCGGTTTTT 57.570 45.000 0.00 0.00 31.02 1.94
265 342 2.486013 GGTACCTGACACCTTCGGTTTT 60.486 50.000 4.06 0.00 34.33 2.43
266 343 1.071228 GGTACCTGACACCTTCGGTTT 59.929 52.381 4.06 0.00 34.33 3.27
267 344 0.683412 GGTACCTGACACCTTCGGTT 59.317 55.000 4.06 0.00 34.33 4.44
268 345 0.178941 AGGTACCTGACACCTTCGGT 60.179 55.000 15.42 0.00 44.18 4.69
287 364 2.104111 TCTTCAGTTCAAAGAGGCCGAA 59.896 45.455 0.00 0.00 0.00 4.30
288 365 1.691976 TCTTCAGTTCAAAGAGGCCGA 59.308 47.619 0.00 0.00 0.00 5.54
289 366 2.169832 TCTTCAGTTCAAAGAGGCCG 57.830 50.000 0.00 0.00 0.00 6.13
290 367 3.500299 GTCTTCTTCAGTTCAAAGAGGCC 59.500 47.826 0.00 0.00 34.42 5.19
292 369 4.621991 TCGTCTTCTTCAGTTCAAAGAGG 58.378 43.478 0.00 0.00 34.42 3.69
344 444 4.697756 CAGCGGCCAGGTTCGGAA 62.698 66.667 2.24 0.00 0.00 4.30
358 458 1.544825 TAGGGAGAGTGTGGTGCAGC 61.545 60.000 9.47 9.47 0.00 5.25
359 459 1.137872 GATAGGGAGAGTGTGGTGCAG 59.862 57.143 0.00 0.00 0.00 4.41
363 463 4.816048 TCATAGATAGGGAGAGTGTGGT 57.184 45.455 0.00 0.00 0.00 4.16
364 464 5.508153 CGTTTCATAGATAGGGAGAGTGTGG 60.508 48.000 0.00 0.00 0.00 4.17
366 466 5.446860 TCGTTTCATAGATAGGGAGAGTGT 58.553 41.667 0.00 0.00 0.00 3.55
367 467 6.385843 CATCGTTTCATAGATAGGGAGAGTG 58.614 44.000 0.00 0.00 0.00 3.51
368 468 5.478679 CCATCGTTTCATAGATAGGGAGAGT 59.521 44.000 0.00 0.00 0.00 3.24
369 469 5.623368 GCCATCGTTTCATAGATAGGGAGAG 60.623 48.000 0.00 0.00 0.00 3.20
370 470 4.220821 GCCATCGTTTCATAGATAGGGAGA 59.779 45.833 0.00 0.00 0.00 3.71
389 547 8.682936 AGAAATAAAAGATGAGATTACGCCAT 57.317 30.769 0.00 0.00 0.00 4.40
390 548 7.987458 AGAGAAATAAAAGATGAGATTACGCCA 59.013 33.333 0.00 0.00 0.00 5.69
427 585 2.509336 ATGAACTCTTCCGCGCCG 60.509 61.111 0.00 0.00 0.00 6.46
436 609 1.205893 GGGCGAACTCAGATGAACTCT 59.794 52.381 0.00 0.00 33.14 3.24
449 622 2.126031 GGAGACTCACGGGCGAAC 60.126 66.667 4.53 0.00 0.00 3.95
494 677 2.764439 AAGGTAGAGGGAGCGAAAAC 57.236 50.000 0.00 0.00 0.00 2.43
498 681 1.272536 ACAGAAAGGTAGAGGGAGCGA 60.273 52.381 0.00 0.00 0.00 4.93
500 683 3.367321 ACTACAGAAAGGTAGAGGGAGC 58.633 50.000 7.30 0.00 42.68 4.70
501 684 3.628487 CGACTACAGAAAGGTAGAGGGAG 59.372 52.174 7.30 0.00 42.68 4.30
505 688 2.791849 GCGCGACTACAGAAAGGTAGAG 60.792 54.545 12.10 2.77 42.68 2.43
506 689 1.131883 GCGCGACTACAGAAAGGTAGA 59.868 52.381 12.10 0.00 42.68 2.59
507 690 1.132643 AGCGCGACTACAGAAAGGTAG 59.867 52.381 12.10 0.00 44.97 3.18
508 691 1.171308 AGCGCGACTACAGAAAGGTA 58.829 50.000 12.10 0.00 0.00 3.08
509 692 0.317479 AAGCGCGACTACAGAAAGGT 59.683 50.000 12.10 0.00 0.00 3.50
510 693 0.992802 GAAGCGCGACTACAGAAAGG 59.007 55.000 12.10 0.00 0.00 3.11
520 703 1.346538 GATGCAGAAGAAGCGCGAC 59.653 57.895 12.10 0.04 33.85 5.19
563 749 5.549347 TGCAAACCCTAACGACTTGTATTA 58.451 37.500 0.00 0.00 0.00 0.98
564 750 4.391155 TGCAAACCCTAACGACTTGTATT 58.609 39.130 0.00 0.00 0.00 1.89
566 752 3.472283 TGCAAACCCTAACGACTTGTA 57.528 42.857 0.00 0.00 0.00 2.41
568 754 2.994849 GTTGCAAACCCTAACGACTTG 58.005 47.619 0.00 0.00 42.21 3.16
581 768 0.753479 TTTCCCTCGCAGGTTGCAAA 60.753 50.000 0.00 0.00 45.36 3.68
593 780 3.181510 CGACGGATTGATGTTTTTCCCTC 60.182 47.826 0.00 0.00 0.00 4.30
604 791 0.178068 CCAGGTTCCGACGGATTGAT 59.822 55.000 19.12 1.28 0.00 2.57
622 810 6.058183 ACTGAATTTCATAGATGGTACTGCC 58.942 40.000 0.00 0.00 37.90 4.85
624 812 7.203218 TCGACTGAATTTCATAGATGGTACTG 58.797 38.462 0.00 0.00 0.00 2.74
626 814 7.203910 ACTCGACTGAATTTCATAGATGGTAC 58.796 38.462 0.00 0.00 0.00 3.34
627 815 7.348080 ACTCGACTGAATTTCATAGATGGTA 57.652 36.000 0.00 0.00 0.00 3.25
628 816 6.227298 ACTCGACTGAATTTCATAGATGGT 57.773 37.500 0.00 0.00 0.00 3.55
629 817 6.360947 CGTACTCGACTGAATTTCATAGATGG 59.639 42.308 0.00 0.00 39.71 3.51
633 821 7.736031 TTTCGTACTCGACTGAATTTCATAG 57.264 36.000 0.00 0.00 46.03 2.23
669 857 5.075493 TGGTACTGCTACCTAGTAATAGGC 58.925 45.833 16.11 3.26 42.94 3.93
675 867 5.384145 AGACATGGTACTGCTACCTAGTA 57.616 43.478 0.00 0.00 42.94 1.82
720 1031 9.955102 TCCATGATCCATAATCTTTGAATCTAG 57.045 33.333 0.00 0.00 35.24 2.43
794 1105 3.557898 CGCTATGCCCTCAACATTATCCT 60.558 47.826 0.00 0.00 0.00 3.24
912 1231 1.007387 CTGGCAAGCCAAACGAACC 60.007 57.895 15.55 0.00 46.63 3.62
941 1260 1.753073 CAGATCCTTGGGCAATCAACC 59.247 52.381 0.00 0.00 0.00 3.77
988 1307 1.421485 GCTTCATCGCCACGACTTG 59.579 57.895 0.00 0.00 39.18 3.16
1083 1403 3.832237 AACACGGCACCTCAGCAGG 62.832 63.158 0.00 0.00 46.87 4.85
1172 1492 2.022195 GGAAGAATAAAAGGGGGCGAC 58.978 52.381 0.00 0.00 0.00 5.19
1199 1519 2.032681 GCTTGCCTGAAGACCCGT 59.967 61.111 0.00 0.00 32.82 5.28
1216 1536 2.895680 TGCTTCGCTAGGGCAGAG 59.104 61.111 10.59 5.64 38.60 3.35
1220 1540 2.202946 GGACTGCTTCGCTAGGGC 60.203 66.667 1.02 0.00 0.00 5.19
1282 1602 4.730657 CACAAGAAATCATCAGGCTCAAC 58.269 43.478 0.00 0.00 0.00 3.18
1307 1627 0.935196 AAGAAGACCGTTGCACGAAC 59.065 50.000 9.75 0.00 46.05 3.95
1317 1637 2.408704 CGAGTACAAGCAAAGAAGACCG 59.591 50.000 0.00 0.00 0.00 4.79
1341 1661 3.129113 TGGCAATCTTGATGGTCGATTTG 59.871 43.478 0.00 0.00 0.00 2.32
1347 1667 2.424956 GAGGTTGGCAATCTTGATGGTC 59.575 50.000 15.31 0.00 0.00 4.02
1404 1724 2.989909 TCACCCGTCGAGTACATCTTA 58.010 47.619 0.00 0.00 0.00 2.10
1408 1728 1.404391 GTGATCACCCGTCGAGTACAT 59.596 52.381 15.31 0.00 0.00 2.29
1410 1730 0.100146 GGTGATCACCCGTCGAGTAC 59.900 60.000 31.37 4.70 45.68 2.73
1411 1734 2.485677 GGTGATCACCCGTCGAGTA 58.514 57.895 31.37 0.00 45.68 2.59
1421 1744 3.512680 CTGTAGAACGAAGGGTGATCAC 58.487 50.000 17.91 17.91 0.00 3.06
1498 1821 0.677731 CCGACATGGTGGTGCTCATT 60.678 55.000 0.00 0.00 0.00 2.57
1500 1823 2.347114 CCGACATGGTGGTGCTCA 59.653 61.111 0.00 0.00 0.00 4.26
1554 1877 0.325933 CAACCCTCCACTGCTCATCA 59.674 55.000 0.00 0.00 0.00 3.07
1561 1884 1.417890 AGTTCTGACAACCCTCCACTG 59.582 52.381 0.00 0.00 0.00 3.66
1571 1894 4.142609 AGAGCTTGTTCAGTTCTGACAA 57.857 40.909 1.72 9.02 41.36 3.18
1572 1895 3.827008 AGAGCTTGTTCAGTTCTGACA 57.173 42.857 1.72 2.30 41.36 3.58
1776 2099 5.691896 TCTATCTCCGTGATCCAGTAAAGA 58.308 41.667 0.00 0.00 36.65 2.52
1777 2100 6.582677 ATCTATCTCCGTGATCCAGTAAAG 57.417 41.667 0.00 0.00 36.65 1.85
1829 2152 2.160721 AAGCCCGGTATCTCTTCTGA 57.839 50.000 0.00 0.00 0.00 3.27
1840 2163 2.967946 GCTTCCCTGTAAGCCCGGT 61.968 63.158 0.00 0.00 44.98 5.28
1849 2172 2.025037 TCCAAATATGCAGCTTCCCTGT 60.025 45.455 0.00 0.00 43.71 4.00
1885 2208 0.037877 ATCCAGCTGCTTTGCTCTGT 59.962 50.000 8.66 0.00 41.98 3.41
1886 2209 0.733729 GATCCAGCTGCTTTGCTCTG 59.266 55.000 8.66 0.00 41.98 3.35
1894 2217 0.684479 TACGTCTGGATCCAGCTGCT 60.684 55.000 33.39 18.51 43.31 4.24
1895 2218 0.390860 ATACGTCTGGATCCAGCTGC 59.609 55.000 33.39 23.56 43.31 5.25
1896 2219 2.887783 ACTATACGTCTGGATCCAGCTG 59.112 50.000 33.39 27.95 43.31 4.24
1930 2253 4.850680 TGTGGTCCAAGAACTTTAAGTGT 58.149 39.130 0.00 0.00 0.00 3.55
1950 2273 6.688073 ATCTTATCCCCGTAGATGAAATGT 57.312 37.500 0.00 0.00 0.00 2.71
2028 2351 5.834239 ACTTGGTTACGTCGATTGTAAAG 57.166 39.130 12.90 10.28 33.89 1.85
2034 2357 3.511146 TCCCTAACTTGGTTACGTCGATT 59.489 43.478 0.00 0.00 0.00 3.34
2037 2360 3.248266 CTTCCCTAACTTGGTTACGTCG 58.752 50.000 0.00 0.00 0.00 5.12
2065 2388 2.282462 ACAGCGGGGGCTGAAAAG 60.282 61.111 21.61 0.00 39.96 2.27
2066 2389 2.597217 CACAGCGGGGGCTGAAAA 60.597 61.111 21.61 0.00 39.96 2.29
2082 2405 2.367567 GGATTGAATACTCCGGTAGCCA 59.632 50.000 0.00 0.00 0.00 4.75
2083 2406 2.633481 AGGATTGAATACTCCGGTAGCC 59.367 50.000 0.00 0.00 36.62 3.93
2084 2407 3.069729 ACAGGATTGAATACTCCGGTAGC 59.930 47.826 0.00 0.00 38.05 3.58
2085 2408 4.939052 ACAGGATTGAATACTCCGGTAG 57.061 45.455 0.00 0.00 38.05 3.18
2086 2409 5.836898 ACATACAGGATTGAATACTCCGGTA 59.163 40.000 0.00 4.48 43.30 4.02
2089 2412 7.329471 CACATACATACAGGATTGAATACTCCG 59.671 40.741 0.00 0.00 36.62 4.63
2093 2416 9.547753 ACTTCACATACATACAGGATTGAATAC 57.452 33.333 0.00 0.00 0.00 1.89
2097 2420 7.041721 GTGACTTCACATACATACAGGATTGA 58.958 38.462 4.43 0.00 45.75 2.57
2235 2558 2.430610 GGCGGATCTCCACAGCTCT 61.431 63.158 0.00 0.00 35.14 4.09
2252 2575 1.027357 CCTTTGCTGAATCCGATGGG 58.973 55.000 0.00 0.00 0.00 4.00
2430 2760 5.104485 GGATAAGTTTACCTGATCTGGTGGT 60.104 44.000 29.04 16.88 41.05 4.16
2607 2938 0.176680 GACTCCAGCATGTCCGTCAT 59.823 55.000 0.00 0.00 37.22 3.06
2650 2981 2.242196 CCTCCACACCATACCTTCCATT 59.758 50.000 0.00 0.00 0.00 3.16
2766 3117 3.520721 TGGGATCATCTTCTTGCTCTCAA 59.479 43.478 0.00 0.00 0.00 3.02
2985 3352 3.849002 CTGCAGACCAGTGCTATGT 57.151 52.632 8.42 0.00 44.32 2.29
3209 3641 8.940952 ACTGTTCTAAGAAAAAGCATACAGATC 58.059 33.333 0.00 0.00 35.62 2.75
3211 3643 9.944376 ATACTGTTCTAAGAAAAAGCATACAGA 57.056 29.630 0.00 0.00 35.62 3.41
3281 3717 0.039618 TTCCCTTGGGCCTTGATGAC 59.960 55.000 4.53 0.00 0.00 3.06
3282 3718 0.332632 CTTCCCTTGGGCCTTGATGA 59.667 55.000 4.53 0.00 0.00 2.92
3400 3843 4.661993 CAACGCACTTGCATTCTACTAA 57.338 40.909 1.48 0.00 42.21 2.24
3425 3868 7.003402 ACCAGCAAGATTTTTAAAATGCCTA 57.997 32.000 16.73 0.00 0.00 3.93
3426 3869 5.868454 ACCAGCAAGATTTTTAAAATGCCT 58.132 33.333 16.73 6.17 0.00 4.75
3498 3941 7.821134 ATATCCTATGTCCATAAAGCTCCTT 57.179 36.000 0.00 0.00 0.00 3.36
3500 3946 7.051000 GGAATATCCTATGTCCATAAAGCTCC 58.949 42.308 0.00 0.00 32.53 4.70
3517 3963 9.300681 TGACATTAATTGGAATGAGGAATATCC 57.699 33.333 7.74 0.00 38.83 2.59
3601 4047 7.151308 TCATTAACTTTTTGCACTTACCCATG 58.849 34.615 0.00 0.00 0.00 3.66
3614 4061 9.956720 CACTCAACTCAGATTCATTAACTTTTT 57.043 29.630 0.00 0.00 0.00 1.94
3657 4104 4.667948 GCGTGATTCATTCGTTCATTCATC 59.332 41.667 0.00 0.00 0.00 2.92
3687 4134 3.914312 GGTCGAGAAGAACTGATGAACA 58.086 45.455 0.00 0.00 32.63 3.18
3705 4152 5.422012 ACATATTGGGTTCCATTTTCAGGTC 59.578 40.000 0.00 0.00 31.53 3.85
3787 4234 3.512516 GATGTTGAGGCCGGCAGC 61.513 66.667 30.85 19.85 42.60 5.25
3788 4235 1.817099 GAGATGTTGAGGCCGGCAG 60.817 63.158 30.85 0.00 0.00 4.85
3789 4236 2.268920 GAGATGTTGAGGCCGGCA 59.731 61.111 30.85 6.55 0.00 5.69
3858 4331 4.945246 TGAGGAATAACGTAAGATGGAGC 58.055 43.478 0.00 0.00 43.62 4.70
3861 4334 8.926710 GTTATGATGAGGAATAACGTAAGATGG 58.073 37.037 0.00 0.00 43.62 3.51
3975 4450 6.127338 GGGAAGGCAAGCATATAAGTTCTTTT 60.127 38.462 0.00 0.00 0.00 2.27
3976 4451 5.360999 GGGAAGGCAAGCATATAAGTTCTTT 59.639 40.000 0.00 0.00 0.00 2.52
3978 4453 4.464947 GGGAAGGCAAGCATATAAGTTCT 58.535 43.478 0.00 0.00 0.00 3.01
4129 4604 1.570813 CGATCAAGCGGACAAGCATA 58.429 50.000 0.00 0.00 40.15 3.14
4146 4621 2.675423 CGTGGAGAGGTGGACCGA 60.675 66.667 0.00 0.00 42.08 4.69
4179 4654 2.440409 GCACAAGAACCATCCATCTGT 58.560 47.619 0.00 0.00 0.00 3.41
4194 4669 3.663176 GCTCAAGCAGCCGCACAA 61.663 61.111 0.00 0.00 43.17 3.33
4231 4706 3.682885 CAAATGCTGGGCGGTGCA 61.683 61.111 0.61 0.61 43.67 4.57
4288 4763 5.880054 ATGTAGGCACATTTAACTCACAC 57.120 39.130 0.00 0.00 42.98 3.82
4401 4876 6.209391 AGCTTGATGTGCCTACAATTTTTACT 59.791 34.615 0.00 0.00 40.84 2.24


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

AutoCloner maintained by Alex Coulton.