Multiple sequence alignment - TraesCS7D01G124300

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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 TraesCS7D01G124300 chr7D 100.000 8706 0 0 1 8706 77491940 77483235 0.000000e+00 16078.0
1 TraesCS7D01G124300 chr7D 95.035 141 7 0 7344 7484 77484561 77484421 1.140000e-53 222.0
2 TraesCS7D01G124300 chr7D 95.035 141 7 0 7380 7520 77484597 77484457 1.140000e-53 222.0
3 TraesCS7D01G124300 chr7D 81.008 258 44 3 4679 4931 34457086 34457343 5.330000e-47 200.0
4 TraesCS7D01G124300 chr7D 78.927 261 47 6 4678 4931 192024392 192024651 4.180000e-38 171.0
5 TraesCS7D01G124300 chr7D 76.382 199 37 10 3464 3658 182808457 182808265 2.000000e-16 99.0
6 TraesCS7D01G124300 chr7B 94.408 3344 132 23 5073 8378 24403368 24400042 0.000000e+00 5088.0
7 TraesCS7D01G124300 chr7B 92.803 1987 81 24 3149 5093 24405695 24403729 0.000000e+00 2820.0
8 TraesCS7D01G124300 chr7B 90.802 1609 83 23 1 1558 24409361 24407767 0.000000e+00 2091.0
9 TraesCS7D01G124300 chr7B 95.388 889 25 8 2276 3154 24406931 24406049 0.000000e+00 1400.0
10 TraesCS7D01G124300 chr7B 94.248 765 26 10 1518 2277 24407764 24407013 0.000000e+00 1153.0
11 TraesCS7D01G124300 chr7B 92.181 243 18 1 8465 8706 24400047 24399805 8.370000e-90 342.0
12 TraesCS7D01G124300 chr7B 94.161 137 8 0 7344 7480 24401064 24400928 8.860000e-50 209.0
13 TraesCS7D01G124300 chr7B 93.431 137 9 0 7380 7516 24401100 24400964 4.120000e-48 204.0
14 TraesCS7D01G124300 chr7B 79.927 274 38 14 4676 4939 603621781 603621515 1.490000e-42 185.0
15 TraesCS7D01G124300 chr7B 78.598 271 50 6 4678 4941 680069273 680069542 1.160000e-38 172.0
16 TraesCS7D01G124300 chr7B 74.882 211 39 12 3464 3669 151328858 151328657 5.600000e-12 84.2
17 TraesCS7D01G124300 chr7A 96.057 2435 73 10 2177 4593 81139581 81137152 0.000000e+00 3943.0
18 TraesCS7D01G124300 chr7A 95.840 1971 48 12 4589 6529 81137050 81135084 0.000000e+00 3155.0
19 TraesCS7D01G124300 chr7A 91.173 1484 92 13 106 1555 81141459 81139981 0.000000e+00 1978.0
20 TraesCS7D01G124300 chr7A 91.377 1380 92 21 7344 8706 81133906 81132537 0.000000e+00 1864.0
21 TraesCS7D01G124300 chr7A 92.734 867 54 2 6663 7520 81134632 81133766 0.000000e+00 1243.0
22 TraesCS7D01G124300 chr7A 95.960 396 16 0 1518 1913 81139976 81139581 2.050000e-180 643.0
23 TraesCS7D01G124300 chr7A 92.081 442 22 6 1 429 81141900 81141459 2.080000e-170 610.0
24 TraesCS7D01G124300 chr7A 94.161 137 8 0 7344 7480 81133870 81133734 8.860000e-50 209.0
25 TraesCS7D01G124300 chr7A 91.971 137 11 0 7380 7516 81133942 81133806 8.920000e-45 193.0
26 TraesCS7D01G124300 chr7A 81.545 233 33 8 4690 4915 677991104 677991333 5.370000e-42 183.0
27 TraesCS7D01G124300 chr7A 94.783 115 6 0 6543 6657 81134987 81134873 6.940000e-41 180.0
28 TraesCS7D01G124300 chr7A 78.788 264 49 5 4678 4935 275561456 275561194 4.180000e-38 171.0
29 TraesCS7D01G124300 chr7A 76.056 213 41 10 3461 3669 188892019 188892225 1.550000e-17 102.0
30 TraesCS7D01G124300 chr5D 79.848 263 46 5 4679 4935 441606325 441606064 1.490000e-42 185.0
31 TraesCS7D01G124300 chr6B 76.214 206 35 14 3455 3651 18572431 18572231 7.190000e-16 97.1
32 TraesCS7D01G124300 chr6B 92.105 38 3 0 6543 6580 93576906 93576943 4.000000e-03 54.7
33 TraesCS7D01G124300 chr6B 90.476 42 3 1 6543 6583 676297574 676297533 4.000000e-03 54.7
34 TraesCS7D01G124300 chr6B 94.286 35 1 1 6543 6577 20322090 20322123 1.600000e-02 52.8
35 TraesCS7D01G124300 chr3D 97.059 34 1 0 6543 6576 372629485 372629452 3.390000e-04 58.4
36 TraesCS7D01G124300 chr3A 89.583 48 2 3 6529 6574 740351782 740351828 3.390000e-04 58.4
37 TraesCS7D01G124300 chr5B 97.059 34 0 1 6542 6574 709006288 709006255 1.000000e-03 56.5
38 TraesCS7D01G124300 chr6A 91.892 37 3 0 6543 6579 223554422 223554386 1.600000e-02 52.8


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 TraesCS7D01G124300 chr7D 77483235 77491940 8705 True 16078.000 16078 100.00000 1 8706 1 chr7D.!!$R1 8705
1 TraesCS7D01G124300 chr7B 24399805 24409361 9556 True 1663.375 5088 93.42775 1 8706 8 chr7B.!!$R3 8705
2 TraesCS7D01G124300 chr7A 81132537 81141900 9363 True 1401.800 3943 93.61370 1 8706 10 chr7A.!!$R2 8705

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
164 501 0.176219 TTTGGCCGGTCCGTATAGTG 59.824 55.000 11.06 0.00 37.80 2.74 F
538 888 2.203788 AGAGGGTCACGGCCTCAA 60.204 61.111 0.00 0.00 33.48 3.02 F
1411 1781 2.237393 TGCTTCAACCCAATGTTTGC 57.763 45.000 0.00 0.00 34.00 3.68 F
1957 2453 1.203052 GCCATCACATTCCCTGTTGTG 59.797 52.381 0.00 0.00 43.61 3.33 F
1958 2454 2.517959 CCATCACATTCCCTGTTGTGT 58.482 47.619 3.30 0.00 42.95 3.72 F
3223 4172 2.798847 GTCCTGTTTACTTCACCGTGAC 59.201 50.000 0.00 0.00 0.00 3.67 F
4193 5149 2.223923 TGGTGCAAACATTGTACAAGCC 60.224 45.455 14.65 5.77 46.35 4.35 F
4668 5752 1.873591 GCCGCCTACAATCCTGTTATG 59.126 52.381 0.00 0.00 36.96 1.90 F
5881 7377 2.092699 GGATTTCCCTCTAAGCACAGCT 60.093 50.000 0.00 0.00 42.56 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1005 1374 0.474614 TCCACCCACAACGAATGGAA 59.525 50.000 6.02 0.00 39.87 3.53 R
1760 2252 0.749454 GCTATGCCACCACCCAAGAG 60.749 60.000 0.00 0.00 0.00 2.85 R
3382 4334 0.981183 ACCGAACTCCCACAATAGCA 59.019 50.000 0.00 0.00 0.00 3.49 R
3457 4410 6.056236 AGACTTGGTCAAACTTAAAGAGGTC 58.944 40.000 0.52 0.00 34.60 3.85 R
3854 4810 6.540189 GTGTCTCTTGGCATAACATATCAAGT 59.460 38.462 0.00 0.00 36.94 3.16 R
4369 5327 0.327924 TGTGACTGGTTGGGCATAGG 59.672 55.000 0.00 0.00 0.00 2.57 R
6068 7564 0.245539 ACTTGTTGCATGGCAGATGC 59.754 50.000 11.95 11.95 40.61 3.91 R
6401 7897 5.699458 AGAGTAAAATTACCTGTTGTGTCGG 59.301 40.000 0.00 0.00 34.19 4.79 R
7768 9631 0.603975 GAGTTCAGAGCCACCCACAC 60.604 60.000 0.00 0.00 0.00 3.82 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
70 71 7.013369 ACCAGACACTTTGAGAAAGGTAAAATC 59.987 37.037 0.00 0.00 42.82 2.17
101 102 1.078708 TTCCTCGGCCGGACAAATC 60.079 57.895 27.83 0.00 31.44 2.17
162 499 1.137479 TCTTTTGGCCGGTCCGTATAG 59.863 52.381 11.06 2.81 37.80 1.31
163 500 0.903942 TTTTGGCCGGTCCGTATAGT 59.096 50.000 11.06 0.00 37.80 2.12
164 501 0.176219 TTTGGCCGGTCCGTATAGTG 59.824 55.000 11.06 0.00 37.80 2.74
235 576 2.773993 TAACCGCCCTTCCTTACTTG 57.226 50.000 0.00 0.00 0.00 3.16
241 582 3.081804 CGCCCTTCCTTACTTGTGATTT 58.918 45.455 0.00 0.00 0.00 2.17
242 583 3.506067 CGCCCTTCCTTACTTGTGATTTT 59.494 43.478 0.00 0.00 0.00 1.82
245 587 5.221441 GCCCTTCCTTACTTGTGATTTTTGT 60.221 40.000 0.00 0.00 0.00 2.83
256 598 5.303747 TGTGATTTTTGTTCGTGTGACTT 57.696 34.783 0.00 0.00 0.00 3.01
271 613 4.615961 GTGTGACTTACTACAGCAGTTACG 59.384 45.833 0.00 0.00 38.80 3.18
273 615 5.008911 TGTGACTTACTACAGCAGTTACGAA 59.991 40.000 0.00 0.00 38.80 3.85
281 623 9.811995 TTACTACAGCAGTTACGAATTATGATT 57.188 29.630 0.00 0.00 38.80 2.57
288 630 9.477484 AGCAGTTACGAATTATGATTACCTTAG 57.523 33.333 0.00 0.00 0.00 2.18
320 662 4.218417 AGAAGTGGAATGTACATTTGGTGC 59.782 41.667 21.63 8.86 0.00 5.01
372 717 5.972698 AGGTATTTTTACCCTTGGACCTTT 58.027 37.500 0.00 0.00 40.97 3.11
473 818 3.412386 AGCTGTGTAATTGTGGGACTTC 58.588 45.455 0.00 0.00 0.00 3.01
475 820 3.189287 GCTGTGTAATTGTGGGACTTCAG 59.811 47.826 0.00 0.00 0.00 3.02
483 828 3.407424 TGTGGGACTTCAGTGAATGAG 57.593 47.619 5.91 0.00 39.68 2.90
485 830 3.901222 TGTGGGACTTCAGTGAATGAGTA 59.099 43.478 5.91 0.00 39.68 2.59
538 888 2.203788 AGAGGGTCACGGCCTCAA 60.204 61.111 0.00 0.00 33.48 3.02
599 960 7.045126 AGCATAGAGATAACTAGTTGACCAC 57.955 40.000 18.56 5.85 0.00 4.16
600 961 6.041069 AGCATAGAGATAACTAGTTGACCACC 59.959 42.308 18.56 2.92 0.00 4.61
601 962 6.183360 GCATAGAGATAACTAGTTGACCACCA 60.183 42.308 18.56 0.00 0.00 4.17
602 963 5.923733 AGAGATAACTAGTTGACCACCAG 57.076 43.478 18.56 0.00 0.00 4.00
615 976 3.456644 TGACCACCAGAGTTAAGGAAACA 59.543 43.478 0.00 0.00 40.83 2.83
673 1035 5.241728 AGTGACATTACTTTCCCTTTCAAGC 59.758 40.000 0.00 0.00 0.00 4.01
681 1043 6.819397 ACTTTCCCTTTCAAGCACTATAAC 57.181 37.500 0.00 0.00 0.00 1.89
695 1057 5.768662 AGCACTATAACAGCGGATACTCTTA 59.231 40.000 0.00 0.00 0.00 2.10
723 1085 7.051000 AGGATTCTAGTTCCTAATTTCACAGC 58.949 38.462 13.28 0.00 41.89 4.40
917 1286 2.951229 TTCTTCTTCTGGGGAACACC 57.049 50.000 0.00 0.00 39.11 4.16
1039 1408 5.481824 TGTGGGTGGATAATTTGTTTATGCA 59.518 36.000 0.00 0.00 43.76 3.96
1089 1458 6.771076 TGCGTACTTCTGTGCTATTAATTTG 58.229 36.000 0.00 0.00 0.00 2.32
1237 1606 7.272244 CACTTAGAAACTTTTTCCCAAACCAT 58.728 34.615 0.00 0.00 0.00 3.55
1312 1681 9.270640 TCATGTTGGTTTATTTGAAAAATCCAG 57.729 29.630 0.00 0.00 0.00 3.86
1410 1780 6.857777 TTATTTGCTTCAACCCAATGTTTG 57.142 33.333 0.00 0.00 34.00 2.93
1411 1781 2.237393 TGCTTCAACCCAATGTTTGC 57.763 45.000 0.00 0.00 34.00 3.68
1516 1916 5.090652 TCAAGCGATTCAAAGTGTTACAC 57.909 39.130 7.50 7.50 34.10 2.90
1537 1937 7.189693 ACACGCATATGTTGATTAGGTTATG 57.810 36.000 11.99 0.00 0.00 1.90
1741 2226 8.203485 TGCTTGGTTTCTTCTTTTATGTTCATT 58.797 29.630 0.00 0.00 0.00 2.57
1742 2227 8.490355 GCTTGGTTTCTTCTTTTATGTTCATTG 58.510 33.333 0.00 0.00 0.00 2.82
1743 2228 9.533253 CTTGGTTTCTTCTTTTATGTTCATTGT 57.467 29.630 0.00 0.00 0.00 2.71
1744 2229 9.883142 TTGGTTTCTTCTTTTATGTTCATTGTT 57.117 25.926 0.00 0.00 0.00 2.83
1745 2230 9.528018 TGGTTTCTTCTTTTATGTTCATTGTTC 57.472 29.630 0.00 0.00 0.00 3.18
1746 2231 9.750125 GGTTTCTTCTTTTATGTTCATTGTTCT 57.250 29.630 0.00 0.00 0.00 3.01
1760 2252 4.452114 TCATTGTTCTGTGCATGTCTGTAC 59.548 41.667 0.00 0.00 38.36 2.90
1777 2269 1.557832 GTACTCTTGGGTGGTGGCATA 59.442 52.381 0.00 0.00 0.00 3.14
1825 2317 6.830873 ATTTATCTTGGCATGAAGCTATCC 57.169 37.500 7.20 0.00 44.79 2.59
1910 2402 4.650972 ACAGTAATGCCAAGGTAAGGAA 57.349 40.909 0.00 0.00 0.00 3.36
1913 2405 1.852633 AATGCCAAGGTAAGGAAGGC 58.147 50.000 0.00 0.00 45.41 4.35
1917 2409 1.340991 GCCAAGGTAAGGAAGGCATCA 60.341 52.381 0.00 0.00 44.59 3.07
1920 2416 3.562176 CCAAGGTAAGGAAGGCATCACTT 60.562 47.826 0.00 0.00 0.00 3.16
1927 2423 1.753073 GGAAGGCATCACTTTGGATGG 59.247 52.381 5.43 0.00 43.85 3.51
1957 2453 1.203052 GCCATCACATTCCCTGTTGTG 59.797 52.381 0.00 0.00 43.61 3.33
1958 2454 2.517959 CCATCACATTCCCTGTTGTGT 58.482 47.619 3.30 0.00 42.95 3.72
2033 2529 4.840115 TCTGAGATTGGAAAGCCCATTTTT 59.160 37.500 0.00 0.00 46.10 1.94
2055 2551 8.500837 TTTTGCGAAACATGTTTTACTATCTG 57.499 30.769 24.02 8.65 32.11 2.90
2091 2587 5.530915 CAGACTTTTAATTCTGGGTGACACA 59.469 40.000 8.08 0.00 36.39 3.72
2470 3058 8.814038 ATGTGCTATTCTTCCTGATAAAGTTT 57.186 30.769 0.00 0.00 0.00 2.66
2536 3124 4.971282 TCTTACATTCTCATGTGGGAGGAT 59.029 41.667 0.00 0.00 43.92 3.24
2800 3389 7.986085 AACTGCTCATGTACTGATTTAAACT 57.014 32.000 0.00 0.00 32.10 2.66
3223 4172 2.798847 GTCCTGTTTACTTCACCGTGAC 59.201 50.000 0.00 0.00 0.00 3.67
3359 4311 6.227298 TCTCTGATCTGTATTCCCTTGTTC 57.773 41.667 0.00 0.00 0.00 3.18
3382 4334 7.290110 TCATTGAGTGATCGGATAGTACAAT 57.710 36.000 0.00 0.00 0.00 2.71
3418 4370 3.086282 TCGGTAGCACTTCATGACTACA 58.914 45.455 17.98 2.00 38.57 2.74
3419 4371 3.699538 TCGGTAGCACTTCATGACTACAT 59.300 43.478 17.98 0.31 38.57 2.29
3464 4419 4.040936 TCTAGCTCAACTCAGACCTCTT 57.959 45.455 0.00 0.00 0.00 2.85
3465 4420 4.411927 TCTAGCTCAACTCAGACCTCTTT 58.588 43.478 0.00 0.00 0.00 2.52
3638 4594 4.799564 AGCCTGACTTGAGAGAAACTAG 57.200 45.455 0.00 0.00 0.00 2.57
3854 4810 7.039784 AGGTGCATTACTTTCTTTGCTTTGATA 60.040 33.333 0.00 0.00 36.10 2.15
3967 4923 2.871096 TCAATGGTTAGTGTCCCACC 57.129 50.000 0.00 0.00 34.49 4.61
3969 4925 2.714250 TCAATGGTTAGTGTCCCACCTT 59.286 45.455 0.00 0.00 34.49 3.50
3970 4926 3.911260 TCAATGGTTAGTGTCCCACCTTA 59.089 43.478 0.00 0.00 34.49 2.69
4079 5035 3.600388 CCTGTGGACAGTGGTTAATCTC 58.400 50.000 6.06 0.00 42.27 2.75
4148 5104 4.029809 GGACCCCAGTTCCCCACG 62.030 72.222 0.00 0.00 0.00 4.94
4193 5149 2.223923 TGGTGCAAACATTGTACAAGCC 60.224 45.455 14.65 5.77 46.35 4.35
4240 5198 6.456795 TGGTGATGATGTTTTGTGTGTTTA 57.543 33.333 0.00 0.00 0.00 2.01
4254 5212 5.690865 TGTGTGTTTACCTTTCTTCTCCAT 58.309 37.500 0.00 0.00 0.00 3.41
4354 5312 7.980662 TGTGAACAATTTGATGTCTTTTGATGT 59.019 29.630 2.79 0.00 31.81 3.06
4369 5327 3.988379 TGATGTTCCAAAACTCAGTGC 57.012 42.857 0.00 0.00 36.30 4.40
4414 5372 6.617371 ACAGATCTTCCTGGTAGGTCATTAAT 59.383 38.462 14.97 0.00 38.44 1.40
4668 5752 1.873591 GCCGCCTACAATCCTGTTATG 59.126 52.381 0.00 0.00 36.96 1.90
4669 5753 2.745152 GCCGCCTACAATCCTGTTATGT 60.745 50.000 0.00 0.00 36.96 2.29
4670 5754 3.541632 CCGCCTACAATCCTGTTATGTT 58.458 45.455 0.00 0.00 36.96 2.71
4671 5755 4.699637 CCGCCTACAATCCTGTTATGTTA 58.300 43.478 0.00 0.00 36.96 2.41
4672 5756 5.305585 CCGCCTACAATCCTGTTATGTTAT 58.694 41.667 0.00 0.00 36.96 1.89
4673 5757 5.179368 CCGCCTACAATCCTGTTATGTTATG 59.821 44.000 0.00 0.00 36.96 1.90
4674 5758 5.758296 CGCCTACAATCCTGTTATGTTATGT 59.242 40.000 0.00 0.00 36.96 2.29
4675 5759 6.926826 CGCCTACAATCCTGTTATGTTATGTA 59.073 38.462 0.00 0.00 36.96 2.29
4676 5760 7.095774 CGCCTACAATCCTGTTATGTTATGTAC 60.096 40.741 0.00 0.00 36.96 2.90
4677 5761 7.713507 GCCTACAATCCTGTTATGTTATGTACA 59.286 37.037 0.00 0.00 37.84 2.90
4678 5762 9.778741 CCTACAATCCTGTTATGTTATGTACAT 57.221 33.333 13.93 13.93 42.37 2.29
4685 5769 7.015877 TCCTGTTATGTTATGTACATACTCCCC 59.984 40.741 15.20 3.45 46.69 4.81
4686 5770 7.016268 CCTGTTATGTTATGTACATACTCCCCT 59.984 40.741 15.20 0.94 46.69 4.79
4994 6082 6.645415 ACGACAAAGAACCTCTATACAAACTG 59.355 38.462 0.00 0.00 0.00 3.16
5012 6100 7.198390 ACAAACTGTTCTTTGTCATCAATCTG 58.802 34.615 0.00 0.00 39.68 2.90
5070 6181 6.607735 TTATCATGCATGTGTATGTGACTG 57.392 37.500 25.43 0.00 38.89 3.51
5166 6662 6.643770 TGTCTAGACTGTTGTTTATTCGGTTC 59.356 38.462 23.01 0.00 0.00 3.62
5340 6836 3.003394 TGTATTCATGGGTTGAGCCTG 57.997 47.619 0.48 0.00 35.27 4.85
5881 7377 2.092699 GGATTTCCCTCTAAGCACAGCT 60.093 50.000 0.00 0.00 42.56 4.24
5944 7440 2.865079 TCTGGCCAAAATTCGTTACCA 58.135 42.857 7.01 0.00 0.00 3.25
6068 7564 6.476378 TCTCCTTCTGAAACCTCCAATTTAG 58.524 40.000 0.00 0.00 0.00 1.85
6401 7897 2.435805 TCCTCACCATTCCATCTACAGC 59.564 50.000 0.00 0.00 0.00 4.40
6716 8530 6.067263 TGGTTCCGAGTTATTTGAAAAGTG 57.933 37.500 0.00 0.00 0.00 3.16
6757 8580 0.326264 AAGCTCCAGGCCTGTTACAG 59.674 55.000 30.63 20.14 43.05 2.74
6827 8650 8.638685 TTAGCGTATGATAGTACCTGTTTTTC 57.361 34.615 0.00 0.00 0.00 2.29
6830 8653 5.747197 CGTATGATAGTACCTGTTTTTCGCT 59.253 40.000 0.00 0.00 0.00 4.93
6857 8680 1.207089 TGTTAGCTGCGCTAGGATGTT 59.793 47.619 9.73 0.00 42.34 2.71
6864 8687 1.828595 TGCGCTAGGATGTTAGTTGGA 59.171 47.619 9.73 0.00 0.00 3.53
6928 8752 3.305516 TGCGAGCTCAGTGCAGGA 61.306 61.111 15.40 0.00 45.94 3.86
6944 8768 5.009010 AGTGCAGGACAGTTTCAACTTATTG 59.991 40.000 0.00 0.00 37.08 1.90
7240 9064 1.302511 CCAACTGGTGAACCGAGGG 60.303 63.158 0.00 0.00 39.43 4.30
7260 9084 1.379044 GTGCAGTTAGCCAGGCCAT 60.379 57.895 8.22 0.00 44.83 4.40
7306 9130 0.990374 AGAGCCAGGCAATGAGAACT 59.010 50.000 15.80 0.00 0.00 3.01
7337 9161 0.321671 CCGACAGTCAACTCCACCAT 59.678 55.000 0.41 0.00 0.00 3.55
7408 9268 2.365635 TCTCCTGGCCTAGCACCC 60.366 66.667 3.32 0.00 0.00 4.61
7413 9273 2.529136 TGGCCTAGCACCCACTGT 60.529 61.111 3.32 0.00 0.00 3.55
7444 9304 2.365635 TCTCCTGGCCTAGCACCC 60.366 66.667 3.32 0.00 0.00 4.61
7449 9309 2.529136 TGGCCTAGCACCCACTGT 60.529 61.111 3.32 0.00 0.00 3.55
7516 9376 0.041386 AGTCTCCTGGTCTACCACCC 59.959 60.000 0.00 0.00 46.18 4.61
7764 9627 5.798125 TTAGAGAGGCTAACATGGATCTG 57.202 43.478 0.00 0.00 34.21 2.90
7768 9631 0.940126 GGCTAACATGGATCTGCGTG 59.060 55.000 0.00 0.00 0.00 5.34
7825 9688 6.985117 TGCGGTTAGATATTAACGTCCTTAT 58.015 36.000 0.00 0.00 0.00 1.73
7826 9689 6.864685 TGCGGTTAGATATTAACGTCCTTATG 59.135 38.462 0.00 0.00 0.00 1.90
7828 9691 7.383300 GCGGTTAGATATTAACGTCCTTATGTT 59.617 37.037 0.00 0.00 38.41 2.71
7829 9692 9.897744 CGGTTAGATATTAACGTCCTTATGTTA 57.102 33.333 0.00 0.00 36.28 2.41
7957 9827 3.163655 GCGTCAGCACTCTTCTGC 58.836 61.111 0.00 0.00 44.35 4.26
8034 9904 3.106054 TGCACTTGGATAAATTGCCCAT 58.894 40.909 0.00 0.00 42.27 4.00
8107 9981 4.520492 CACCCTGGGTTCTTATTCATATGC 59.480 45.833 17.76 0.00 31.02 3.14
8111 9985 5.829924 CCTGGGTTCTTATTCATATGCAGTT 59.170 40.000 0.00 0.00 0.00 3.16
8163 10049 1.501741 GCGCGATTTGTGTGACCAT 59.498 52.632 12.10 0.00 0.00 3.55
8219 10107 0.389426 CCACCACCTCGTTAAGTCCG 60.389 60.000 0.00 0.00 0.00 4.79
8241 10129 4.971220 CGTTTTGCGGTTGTTAAACTGTAT 59.029 37.500 0.00 0.00 43.51 2.29
8266 10155 6.059484 GGTCCTCCAATCCGTTTATGATAAA 58.941 40.000 0.00 0.00 0.00 1.40
8271 10160 8.129211 CCTCCAATCCGTTTATGATAAAACTTC 58.871 37.037 0.00 0.00 37.24 3.01
8321 10210 0.109412 GTGCTGCATTGCTGGAGTTC 60.109 55.000 16.06 0.00 42.43 3.01
8334 10223 5.410067 TGCTGGAGTTCAGTTTTTCTTTTG 58.590 37.500 0.00 0.00 45.08 2.44
8357 10246 3.871006 CCTGTGCATATTACTCAAAGCGA 59.129 43.478 0.00 0.00 0.00 4.93
8366 10255 8.076178 GCATATTACTCAAAGCGATTAACCAAT 58.924 33.333 0.00 0.00 0.00 3.16
8377 10360 7.801716 AGCGATTAACCAATTAGATAAGCAA 57.198 32.000 0.00 0.00 0.00 3.91
8378 10361 8.220755 AGCGATTAACCAATTAGATAAGCAAA 57.779 30.769 0.00 0.00 0.00 3.68
8379 10362 8.129211 AGCGATTAACCAATTAGATAAGCAAAC 58.871 33.333 0.00 0.00 0.00 2.93
8380 10363 7.913297 GCGATTAACCAATTAGATAAGCAAACA 59.087 33.333 0.00 0.00 0.00 2.83
8381 10364 9.781834 CGATTAACCAATTAGATAAGCAAACAA 57.218 29.630 0.00 0.00 0.00 2.83
8395 10378 9.722056 GATAAGCAAACAAATTACTCTACATGG 57.278 33.333 0.00 0.00 0.00 3.66
8396 10379 5.954335 AGCAAACAAATTACTCTACATGGC 58.046 37.500 0.00 0.00 0.00 4.40
8397 10380 5.476599 AGCAAACAAATTACTCTACATGGCA 59.523 36.000 0.00 0.00 0.00 4.92
8398 10381 6.153340 AGCAAACAAATTACTCTACATGGCAT 59.847 34.615 0.00 0.00 0.00 4.40
8399 10382 6.254157 GCAAACAAATTACTCTACATGGCATG 59.746 38.462 25.31 25.31 0.00 4.06
8400 10383 5.505173 ACAAATTACTCTACATGGCATGC 57.495 39.130 26.70 9.90 0.00 4.06
8401 10384 4.339247 ACAAATTACTCTACATGGCATGCC 59.661 41.667 30.54 30.54 0.00 4.40
8415 10398 4.007457 TGCCAGGAAGCATGAAGC 57.993 55.556 0.00 0.00 46.19 3.86
8426 10409 1.694639 GCATGAAGCAGTCTTGTTGC 58.305 50.000 0.00 0.00 44.79 4.17
8431 10414 4.049393 GCAGTCTTGTTGCTCGGT 57.951 55.556 0.00 0.00 38.51 4.69
8432 10415 2.321213 GCAGTCTTGTTGCTCGGTT 58.679 52.632 0.00 0.00 38.51 4.44
8433 10416 0.235926 GCAGTCTTGTTGCTCGGTTC 59.764 55.000 0.00 0.00 38.51 3.62
8434 10417 0.868406 CAGTCTTGTTGCTCGGTTCC 59.132 55.000 0.00 0.00 0.00 3.62
8435 10418 0.759346 AGTCTTGTTGCTCGGTTCCT 59.241 50.000 0.00 0.00 0.00 3.36
8436 10419 1.141053 AGTCTTGTTGCTCGGTTCCTT 59.859 47.619 0.00 0.00 0.00 3.36
8437 10420 1.264288 GTCTTGTTGCTCGGTTCCTTG 59.736 52.381 0.00 0.00 0.00 3.61
8438 10421 1.140052 TCTTGTTGCTCGGTTCCTTGA 59.860 47.619 0.00 0.00 0.00 3.02
8439 10422 1.946768 CTTGTTGCTCGGTTCCTTGAA 59.053 47.619 0.00 0.00 0.00 2.69
8440 10423 2.270352 TGTTGCTCGGTTCCTTGAAT 57.730 45.000 0.00 0.00 0.00 2.57
8441 10424 2.151202 TGTTGCTCGGTTCCTTGAATC 58.849 47.619 0.00 0.00 0.00 2.52
8442 10425 1.128692 GTTGCTCGGTTCCTTGAATCG 59.871 52.381 3.19 3.19 46.03 3.34
8443 10426 0.391130 TGCTCGGTTCCTTGAATCGG 60.391 55.000 9.36 2.51 44.94 4.18
8444 10427 0.391263 GCTCGGTTCCTTGAATCGGT 60.391 55.000 9.36 0.00 44.94 4.69
8445 10428 1.359848 CTCGGTTCCTTGAATCGGTG 58.640 55.000 9.36 0.56 44.94 4.94
8446 10429 0.970640 TCGGTTCCTTGAATCGGTGA 59.029 50.000 9.36 0.00 44.94 4.02
8447 10430 1.067142 TCGGTTCCTTGAATCGGTGAG 60.067 52.381 9.36 0.00 44.94 3.51
8448 10431 1.337823 CGGTTCCTTGAATCGGTGAGT 60.338 52.381 1.67 0.00 41.72 3.41
8449 10432 2.076863 GGTTCCTTGAATCGGTGAGTG 58.923 52.381 0.00 0.00 0.00 3.51
8450 10433 2.289444 GGTTCCTTGAATCGGTGAGTGA 60.289 50.000 0.00 0.00 0.00 3.41
8451 10434 2.996621 GTTCCTTGAATCGGTGAGTGAG 59.003 50.000 0.00 0.00 0.00 3.51
8452 10435 1.550524 TCCTTGAATCGGTGAGTGAGG 59.449 52.381 0.00 0.00 0.00 3.86
8453 10436 1.276421 CCTTGAATCGGTGAGTGAGGT 59.724 52.381 0.00 0.00 0.00 3.85
8454 10437 2.341257 CTTGAATCGGTGAGTGAGGTG 58.659 52.381 0.00 0.00 0.00 4.00
8455 10438 1.627864 TGAATCGGTGAGTGAGGTGA 58.372 50.000 0.00 0.00 0.00 4.02
8456 10439 1.967779 TGAATCGGTGAGTGAGGTGAA 59.032 47.619 0.00 0.00 0.00 3.18
8457 10440 2.029020 TGAATCGGTGAGTGAGGTGAAG 60.029 50.000 0.00 0.00 0.00 3.02
8458 10441 1.633774 ATCGGTGAGTGAGGTGAAGT 58.366 50.000 0.00 0.00 0.00 3.01
8459 10442 0.959553 TCGGTGAGTGAGGTGAAGTC 59.040 55.000 0.00 0.00 0.00 3.01
8460 10443 0.038159 CGGTGAGTGAGGTGAAGTCC 60.038 60.000 0.00 0.00 0.00 3.85
8461 10444 1.343069 GGTGAGTGAGGTGAAGTCCT 58.657 55.000 0.00 0.00 40.97 3.85
8462 10445 1.694696 GGTGAGTGAGGTGAAGTCCTT 59.305 52.381 0.00 0.00 38.02 3.36
8463 10446 2.548920 GGTGAGTGAGGTGAAGTCCTTG 60.549 54.545 0.00 0.00 38.02 3.61
8464 10447 2.365617 GTGAGTGAGGTGAAGTCCTTGA 59.634 50.000 0.00 0.00 38.02 3.02
8465 10448 3.038280 TGAGTGAGGTGAAGTCCTTGAA 58.962 45.455 0.00 0.00 38.02 2.69
8466 10449 3.070159 TGAGTGAGGTGAAGTCCTTGAAG 59.930 47.826 0.00 0.00 38.02 3.02
8467 10450 2.147150 GTGAGGTGAAGTCCTTGAAGC 58.853 52.381 0.00 0.00 38.02 3.86
8468 10451 1.768275 TGAGGTGAAGTCCTTGAAGCA 59.232 47.619 0.00 0.00 38.02 3.91
8479 10462 4.067896 GTCCTTGAAGCAAGAGATTGTCA 58.932 43.478 8.64 0.00 43.42 3.58
8554 10538 6.334378 TCAATATCCAACAATACCAGGGAA 57.666 37.500 0.00 0.00 0.00 3.97
8601 10587 3.130280 ACCCGTTTTCTTGTACCGATT 57.870 42.857 0.00 0.00 0.00 3.34
8604 10590 2.093152 CCGTTTTCTTGTACCGATTCCG 59.907 50.000 0.00 0.00 0.00 4.30
8618 10604 4.720649 CGATTCCGGTCTATGATACCAT 57.279 45.455 0.00 0.00 36.78 3.55
8633 10619 7.565190 ATGATACCATGATCTACACCAGATT 57.435 36.000 0.00 0.00 44.41 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 4.151689 CAGACGCGATTTTACCTTTCTCAA 59.848 41.667 15.93 0.00 0.00 3.02
70 71 3.358076 GAGGAAGGGGACAGACGCG 62.358 68.421 3.53 3.53 0.00 6.01
101 102 1.365999 GCGGAACAAAACAAGGGGG 59.634 57.895 0.00 0.00 0.00 5.40
162 499 0.591170 CATGTCCGTTTCACCACCAC 59.409 55.000 0.00 0.00 0.00 4.16
163 500 0.536233 CCATGTCCGTTTCACCACCA 60.536 55.000 0.00 0.00 0.00 4.17
164 501 1.862602 GCCATGTCCGTTTCACCACC 61.863 60.000 0.00 0.00 0.00 4.61
235 576 6.483687 AGTAAGTCACACGAACAAAAATCAC 58.516 36.000 0.00 0.00 0.00 3.06
241 582 4.505191 GCTGTAGTAAGTCACACGAACAAA 59.495 41.667 0.00 0.00 0.00 2.83
242 583 4.046462 GCTGTAGTAAGTCACACGAACAA 58.954 43.478 0.00 0.00 0.00 2.83
245 587 3.317149 ACTGCTGTAGTAAGTCACACGAA 59.683 43.478 0.00 0.00 38.04 3.85
309 651 1.093972 CTGCCATCGCACCAAATGTA 58.906 50.000 0.00 0.00 41.12 2.29
310 652 0.895100 ACTGCCATCGCACCAAATGT 60.895 50.000 0.00 0.00 41.12 2.71
320 662 3.624326 TGAAAAACTCAACTGCCATCG 57.376 42.857 0.00 0.00 0.00 3.84
485 830 9.543783 GTTTCGGAGAAAATATACCAATCTACT 57.456 33.333 0.00 0.00 45.90 2.57
538 888 6.207691 ACTTGAATTAACAAAGCACACTGT 57.792 33.333 0.00 0.00 0.00 3.55
599 960 7.331026 TCTCATATGTGTTTCCTTAACTCTGG 58.669 38.462 1.90 0.00 37.64 3.86
600 961 8.037758 ACTCTCATATGTGTTTCCTTAACTCTG 58.962 37.037 1.90 0.00 37.64 3.35
601 962 8.140112 ACTCTCATATGTGTTTCCTTAACTCT 57.860 34.615 1.90 0.00 37.64 3.24
602 963 8.254508 AGACTCTCATATGTGTTTCCTTAACTC 58.745 37.037 1.90 0.00 37.64 3.01
640 1002 6.918022 GGGAAAGTAATGTCACTTCACTTTTG 59.082 38.462 0.00 0.00 39.02 2.44
673 1035 6.430308 TCCTAAGAGTATCCGCTGTTATAGTG 59.570 42.308 0.00 0.00 33.66 2.74
681 1043 2.865079 TCCTCCTAAGAGTATCCGCTG 58.135 52.381 0.00 0.00 38.58 5.18
695 1057 7.403231 TGTGAAATTAGGAACTAGAATCCTCCT 59.597 37.037 20.34 13.36 44.01 3.69
794 1159 5.997746 TGATGCCTGGCAAAGACTATATTAC 59.002 40.000 27.24 4.71 43.62 1.89
970 1339 9.126151 TCAAGGTCAAAATTCATAAGTGTACAA 57.874 29.630 0.00 0.00 0.00 2.41
1005 1374 0.474614 TCCACCCACAACGAATGGAA 59.525 50.000 6.02 0.00 39.87 3.53
1089 1458 6.541934 ACCTGGTAAATAGTGGTAGAGTTC 57.458 41.667 0.00 0.00 0.00 3.01
1206 1575 8.173542 TGGGAAAAAGTTTCTAAGTGGTATTC 57.826 34.615 1.11 0.00 0.00 1.75
1208 1577 8.418662 GTTTGGGAAAAAGTTTCTAAGTGGTAT 58.581 33.333 1.11 0.00 0.00 2.73
1285 1654 9.050601 TGGATTTTTCAAATAAACCAACATGAC 57.949 29.630 0.00 0.00 0.00 3.06
1438 1838 5.514500 AACTAACACACATGGGTAGGATT 57.486 39.130 0.00 0.00 0.00 3.01
1516 1916 6.079763 GCACATAACCTAATCAACATATGCG 58.920 40.000 1.58 0.00 0.00 4.73
1537 1937 4.278419 AGAGACAAATTGTAACCTTGGCAC 59.722 41.667 0.00 0.00 29.97 5.01
1741 2226 3.321968 AGAGTACAGACATGCACAGAACA 59.678 43.478 0.00 0.00 0.00 3.18
1742 2227 3.919216 AGAGTACAGACATGCACAGAAC 58.081 45.455 0.00 0.00 0.00 3.01
1743 2228 4.309933 CAAGAGTACAGACATGCACAGAA 58.690 43.478 0.00 0.00 0.00 3.02
1744 2229 3.306294 CCAAGAGTACAGACATGCACAGA 60.306 47.826 0.00 0.00 0.00 3.41
1745 2230 2.998670 CCAAGAGTACAGACATGCACAG 59.001 50.000 0.00 0.00 0.00 3.66
1746 2231 2.289631 CCCAAGAGTACAGACATGCACA 60.290 50.000 0.00 0.00 0.00 4.57
1747 2232 2.289694 ACCCAAGAGTACAGACATGCAC 60.290 50.000 0.00 0.00 0.00 4.57
1760 2252 0.749454 GCTATGCCACCACCCAAGAG 60.749 60.000 0.00 0.00 0.00 2.85
1910 2402 2.610438 AACCATCCAAAGTGATGCCT 57.390 45.000 0.00 0.00 40.66 4.75
1913 2405 5.902613 ACATGTAACCATCCAAAGTGATG 57.097 39.130 0.00 0.00 41.47 3.07
1917 2409 3.258123 GGCAACATGTAACCATCCAAAGT 59.742 43.478 11.29 0.00 0.00 2.66
1920 2416 2.881734 TGGCAACATGTAACCATCCAA 58.118 42.857 14.21 0.00 46.17 3.53
2024 2520 2.142319 ACATGTTTCGCAAAAATGGGC 58.858 42.857 13.11 0.00 0.00 5.36
2033 2529 7.609760 ATCAGATAGTAAAACATGTTTCGCA 57.390 32.000 23.47 9.78 31.45 5.10
2081 2577 6.077322 TGATATGAGATATCTGTGTCACCCA 58.923 40.000 10.74 0.00 41.69 4.51
2091 2587 8.598202 ACTCTGAAGCATGATATGAGATATCT 57.402 34.615 4.47 4.47 41.69 1.98
2222 2718 7.189079 ACCTAAACAACTGAAAATGGGAAAA 57.811 32.000 0.00 0.00 0.00 2.29
2358 2938 8.421784 CAACTTAGGATAATACCTACAAGCAGA 58.578 37.037 0.00 0.00 41.51 4.26
2480 3068 6.169557 AGTGGGCGTGAGTGATTATAATAA 57.830 37.500 0.00 0.00 0.00 1.40
2481 3069 5.801531 AGTGGGCGTGAGTGATTATAATA 57.198 39.130 0.00 0.00 0.00 0.98
2482 3070 4.689612 AGTGGGCGTGAGTGATTATAAT 57.310 40.909 0.00 0.00 0.00 1.28
2856 3446 2.161855 TCAGCACATGGGCAGTTTAAG 58.838 47.619 24.51 2.61 35.83 1.85
3002 3592 8.532977 TTGGTCAAGAAACTCAAAAGAAAAAG 57.467 30.769 0.00 0.00 0.00 2.27
3223 4172 3.515502 TGGACACTATTCCAGAAGAGGTG 59.484 47.826 6.95 7.51 41.00 4.00
3350 4299 3.599343 CGATCACTCAATGAACAAGGGA 58.401 45.455 0.00 0.00 41.93 4.20
3359 4311 6.128715 GCATTGTACTATCCGATCACTCAATG 60.129 42.308 16.39 16.39 41.01 2.82
3382 4334 0.981183 ACCGAACTCCCACAATAGCA 59.019 50.000 0.00 0.00 0.00 3.49
3449 4402 6.761714 GTCAAACTTAAAGAGGTCTGAGTTGA 59.238 38.462 5.10 0.00 30.27 3.18
3457 4410 6.056236 AGACTTGGTCAAACTTAAAGAGGTC 58.944 40.000 0.52 0.00 34.60 3.85
3464 4419 8.626526 GTTTTCCATAGACTTGGTCAAACTTAA 58.373 33.333 16.21 0.00 37.66 1.85
3465 4420 7.996644 AGTTTTCCATAGACTTGGTCAAACTTA 59.003 33.333 18.07 0.00 42.37 2.24
3638 4594 9.143631 CCATCAGTTCCAAATTATTTTGAGTTC 57.856 33.333 10.87 1.10 44.11 3.01
3854 4810 6.540189 GTGTCTCTTGGCATAACATATCAAGT 59.460 38.462 0.00 0.00 36.94 3.16
4003 4959 0.823356 GCAGGAAGTGGAAGGCAACA 60.823 55.000 0.00 0.00 41.41 3.33
4079 5035 6.638468 GTGAACTAAGCTTGTTTGAGAATTGG 59.362 38.462 9.86 0.00 0.00 3.16
4148 5104 9.107177 CCATATTTGAGCATCTTAGTGATATCC 57.893 37.037 0.00 0.00 34.92 2.59
4193 5149 7.913297 CCAAACATACCAGTAAAATATCCAACG 59.087 37.037 0.00 0.00 0.00 4.10
4240 5198 4.202461 TGTGTGCTTATGGAGAAGAAAGGT 60.202 41.667 0.00 0.00 0.00 3.50
4254 5212 6.375174 ACATGCTAGAATTTGATGTGTGCTTA 59.625 34.615 0.00 0.00 0.00 3.09
4354 5312 2.819608 GCATAGGCACTGAGTTTTGGAA 59.180 45.455 0.00 0.00 41.52 3.53
4369 5327 0.327924 TGTGACTGGTTGGGCATAGG 59.672 55.000 0.00 0.00 0.00 2.57
4668 5752 6.326843 AGGAAAGAGGGGAGTATGTACATAAC 59.673 42.308 17.07 13.41 0.00 1.89
4669 5753 6.326583 CAGGAAAGAGGGGAGTATGTACATAA 59.673 42.308 17.07 0.00 0.00 1.90
4670 5754 5.839063 CAGGAAAGAGGGGAGTATGTACATA 59.161 44.000 11.62 11.62 0.00 2.29
4671 5755 4.656112 CAGGAAAGAGGGGAGTATGTACAT 59.344 45.833 13.93 13.93 0.00 2.29
4672 5756 4.030913 CAGGAAAGAGGGGAGTATGTACA 58.969 47.826 0.00 0.00 0.00 2.90
4673 5757 4.287552 TCAGGAAAGAGGGGAGTATGTAC 58.712 47.826 0.00 0.00 0.00 2.90
4674 5758 4.620086 TCAGGAAAGAGGGGAGTATGTA 57.380 45.455 0.00 0.00 0.00 2.29
4675 5759 3.491766 TCAGGAAAGAGGGGAGTATGT 57.508 47.619 0.00 0.00 0.00 2.29
4676 5760 6.694445 ATATTCAGGAAAGAGGGGAGTATG 57.306 41.667 0.00 0.00 0.00 2.39
4677 5761 7.459444 CCTTATATTCAGGAAAGAGGGGAGTAT 59.541 40.741 0.00 0.00 32.41 2.12
4678 5762 6.787957 CCTTATATTCAGGAAAGAGGGGAGTA 59.212 42.308 0.00 0.00 32.41 2.59
4685 5769 8.908786 TTATGCACCTTATATTCAGGAAAGAG 57.091 34.615 7.49 0.00 35.14 2.85
4686 5770 9.866655 ATTTATGCACCTTATATTCAGGAAAGA 57.133 29.630 7.49 0.00 35.14 2.52
4860 5944 4.036262 GTGCATGTTTGACCAAGTTCTACA 59.964 41.667 0.00 0.00 0.00 2.74
4861 5945 4.036262 TGTGCATGTTTGACCAAGTTCTAC 59.964 41.667 0.00 0.00 0.00 2.59
4864 5948 3.435105 TGTGCATGTTTGACCAAGTTC 57.565 42.857 0.00 0.00 0.00 3.01
4994 6082 8.922058 ATTAATGCAGATTGATGACAAAGAAC 57.078 30.769 0.00 0.00 39.54 3.01
5012 6100 9.533253 AACTTCTACATTGGCAATAATTAATGC 57.467 29.630 15.81 15.81 41.82 3.56
5070 6181 7.011857 TCCAAATTGAGTTTGTGTAAAATTGCC 59.988 33.333 0.00 0.00 44.58 4.52
5112 6608 7.019388 ACATGGAGTATCAGGGTAGTCATTAT 58.981 38.462 0.00 0.00 36.25 1.28
5123 6619 3.703556 AGACAGACACATGGAGTATCAGG 59.296 47.826 0.00 0.00 36.25 3.86
5166 6662 8.514594 TCAAATAAGCAGAGGTTGAATTTACAG 58.485 33.333 0.00 0.00 0.00 2.74
5278 6774 4.240881 ACCTGATGGTGTTTGCATAGAT 57.759 40.909 0.00 0.00 46.51 1.98
5706 7202 7.390027 AGTTGCATCAGTTTCTACAGTATTCT 58.610 34.615 0.00 0.00 0.00 2.40
5881 7377 6.721704 ACATACATATCTTCTGACTGAGCA 57.278 37.500 0.00 0.00 0.00 4.26
5944 7440 2.402564 CCAGGTCCACCACTAGATGAT 58.597 52.381 0.00 0.00 38.89 2.45
5956 7452 2.024176 TTGAACTAGAGCCAGGTCCA 57.976 50.000 0.00 0.00 30.70 4.02
6068 7564 0.245539 ACTTGTTGCATGGCAGATGC 59.754 50.000 11.95 11.95 40.61 3.91
6401 7897 5.699458 AGAGTAAAATTACCTGTTGTGTCGG 59.301 40.000 0.00 0.00 34.19 4.79
6442 7938 9.996554 TCCTACACTATGTTGGTAAATATCATG 57.003 33.333 8.89 0.00 42.57 3.07
6597 8176 8.915654 GGTTTTGCATAAAAGTAAAGTCATCAG 58.084 33.333 0.00 0.00 36.51 2.90
6716 8530 4.970662 TTCAAATGACTAGGCATCAAGC 57.029 40.909 12.63 0.00 44.65 4.01
6757 8580 7.932120 ACACAAGCGAGATAGTATACAATTC 57.068 36.000 5.50 0.00 0.00 2.17
6847 8670 5.051153 GCTTACTCCAACTAACATCCTAGC 58.949 45.833 0.00 0.00 0.00 3.42
6857 8680 7.325694 GTTATTGTAGGTGCTTACTCCAACTA 58.674 38.462 0.00 0.00 31.59 2.24
6864 8687 5.395682 TGTCGTTATTGTAGGTGCTTACT 57.604 39.130 0.00 0.00 0.00 2.24
6927 8751 8.398665 ACTTCTTGTCAATAAGTTGAAACTGTC 58.601 33.333 9.85 0.00 45.38 3.51
6928 8752 8.184192 CACTTCTTGTCAATAAGTTGAAACTGT 58.816 33.333 12.35 0.00 45.38 3.55
6944 8768 6.573434 AGAAAAATTGGTTCCACTTCTTGTC 58.427 36.000 0.00 0.00 0.00 3.18
7240 9064 2.751837 GCCTGGCTAACTGCACCC 60.752 66.667 12.43 0.00 45.15 4.61
7260 9084 2.029623 GAACGTAGAGATGGCCTGGTA 58.970 52.381 3.32 0.00 0.00 3.25
7306 9130 1.367471 CTGTCGGGACACTGCTTGA 59.633 57.895 0.00 0.00 36.21 3.02
7408 9268 3.268603 TGCACACGCGGAACAGTG 61.269 61.111 12.47 11.94 42.97 3.66
7444 9304 3.268603 TGCACACGCGGAACAGTG 61.269 61.111 12.47 11.94 42.97 3.66
7516 9376 2.535788 CGTAGCGGGAGTCGGAGAG 61.536 68.421 0.00 0.00 36.95 3.20
7561 9424 1.443802 TCGGATCCATCTCGATCTCG 58.556 55.000 13.41 0.00 38.97 4.04
7764 9627 4.626081 AGAGCCACCCACACACGC 62.626 66.667 0.00 0.00 0.00 5.34
7768 9631 0.603975 GAGTTCAGAGCCACCCACAC 60.604 60.000 0.00 0.00 0.00 3.82
7826 9689 9.730420 CCCTACATTTGCAAACTAACATATAAC 57.270 33.333 15.41 0.00 0.00 1.89
7828 9691 9.337396 CTCCCTACATTTGCAAACTAACATATA 57.663 33.333 15.41 0.00 0.00 0.86
7829 9692 7.834181 ACTCCCTACATTTGCAAACTAACATAT 59.166 33.333 15.41 0.00 0.00 1.78
7838 9703 5.235850 TCAGTACTCCCTACATTTGCAAA 57.764 39.130 15.44 15.44 0.00 3.68
7938 9807 1.005748 CAGAAGAGTGCTGACGCCA 60.006 57.895 0.00 0.00 35.39 5.69
7957 9827 0.457853 GCATGCACATCCAAGCACAG 60.458 55.000 14.21 0.00 44.49 3.66
7964 9834 1.746239 CGACCTGCATGCACATCCA 60.746 57.895 18.46 0.00 0.00 3.41
8107 9981 8.007716 CGGTTGTGTTACTATTTAACTGAACTG 58.992 37.037 0.00 0.00 0.00 3.16
8111 9985 5.409214 GCCGGTTGTGTTACTATTTAACTGA 59.591 40.000 1.90 0.00 0.00 3.41
8147 10033 1.806542 ACTCATGGTCACACAAATCGC 59.193 47.619 0.00 0.00 0.00 4.58
8163 10049 4.340097 TCCACTTCGAAGTACTTTGACTCA 59.660 41.667 29.28 9.75 37.08 3.41
8178 10066 3.553511 GCTGTTAGATCACATCCACTTCG 59.446 47.826 0.00 0.00 0.00 3.79
8203 10091 2.159327 AAACGGACTTAACGAGGTGG 57.841 50.000 0.00 0.00 34.93 4.61
8219 10107 5.174216 CCATACAGTTTAACAACCGCAAAAC 59.826 40.000 0.00 0.00 32.70 2.43
8241 10129 2.841266 TCATAAACGGATTGGAGGACCA 59.159 45.455 0.00 0.00 45.34 4.02
8321 10210 3.931285 GCACAGGCAAAAGAAAAACTG 57.069 42.857 0.00 0.00 40.72 3.16
8334 10223 3.546815 CGCTTTGAGTAATATGCACAGGC 60.547 47.826 0.00 0.00 41.68 4.85
8377 10360 5.163519 GGCATGCCATGTAGAGTAATTTGTT 60.164 40.000 32.08 0.00 35.81 2.83
8378 10361 4.339247 GGCATGCCATGTAGAGTAATTTGT 59.661 41.667 32.08 0.00 35.81 2.83
8379 10362 4.338964 TGGCATGCCATGTAGAGTAATTTG 59.661 41.667 35.59 0.00 41.89 2.32
8380 10363 4.535781 TGGCATGCCATGTAGAGTAATTT 58.464 39.130 35.59 0.00 41.89 1.82
8381 10364 4.139786 CTGGCATGCCATGTAGAGTAATT 58.860 43.478 38.47 0.00 46.15 1.40
8382 10365 3.497405 CCTGGCATGCCATGTAGAGTAAT 60.497 47.826 38.47 0.00 46.15 1.89
8383 10366 2.158769 CCTGGCATGCCATGTAGAGTAA 60.159 50.000 38.47 12.85 46.15 2.24
8384 10367 1.417517 CCTGGCATGCCATGTAGAGTA 59.582 52.381 38.47 13.63 46.15 2.59
8385 10368 0.182061 CCTGGCATGCCATGTAGAGT 59.818 55.000 38.47 0.00 46.15 3.24
8386 10369 0.471191 TCCTGGCATGCCATGTAGAG 59.529 55.000 38.47 24.92 46.15 2.43
8387 10370 0.918258 TTCCTGGCATGCCATGTAGA 59.082 50.000 38.47 27.42 46.15 2.59
8388 10371 1.315690 CTTCCTGGCATGCCATGTAG 58.684 55.000 38.47 31.34 46.15 2.74
8389 10372 0.752743 GCTTCCTGGCATGCCATGTA 60.753 55.000 38.47 27.12 46.15 2.29
8390 10373 2.056223 GCTTCCTGGCATGCCATGT 61.056 57.895 38.47 0.00 46.15 3.21
8391 10374 2.055633 TGCTTCCTGGCATGCCATG 61.056 57.895 38.47 33.92 46.15 3.66
8392 10375 2.361375 TGCTTCCTGGCATGCCAT 59.639 55.556 38.47 0.00 46.15 4.40
8398 10381 0.963856 CTGCTTCATGCTTCCTGGCA 60.964 55.000 0.00 0.00 46.63 4.92
8399 10382 0.964358 ACTGCTTCATGCTTCCTGGC 60.964 55.000 0.00 0.00 43.37 4.85
8400 10383 1.093159 GACTGCTTCATGCTTCCTGG 58.907 55.000 0.00 0.00 43.37 4.45
8401 10384 2.110901 AGACTGCTTCATGCTTCCTG 57.889 50.000 0.00 0.00 43.37 3.86
8402 10385 2.224719 ACAAGACTGCTTCATGCTTCCT 60.225 45.455 0.00 0.00 43.37 3.36
8403 10386 2.157738 ACAAGACTGCTTCATGCTTCC 58.842 47.619 0.00 0.00 43.37 3.46
8404 10387 3.562505 CAACAAGACTGCTTCATGCTTC 58.437 45.455 0.00 0.00 43.37 3.86
8405 10388 2.288030 GCAACAAGACTGCTTCATGCTT 60.288 45.455 0.00 0.00 43.37 3.91
8406 10389 1.268899 GCAACAAGACTGCTTCATGCT 59.731 47.619 0.00 0.00 43.37 3.79
8407 10390 1.694639 GCAACAAGACTGCTTCATGC 58.305 50.000 0.00 0.00 43.25 4.06
8414 10397 0.235926 GAACCGAGCAACAAGACTGC 59.764 55.000 0.00 0.00 40.24 4.40
8415 10398 0.868406 GGAACCGAGCAACAAGACTG 59.132 55.000 0.00 0.00 0.00 3.51
8416 10399 0.759346 AGGAACCGAGCAACAAGACT 59.241 50.000 0.00 0.00 0.00 3.24
8417 10400 1.264288 CAAGGAACCGAGCAACAAGAC 59.736 52.381 0.00 0.00 0.00 3.01
8418 10401 1.140052 TCAAGGAACCGAGCAACAAGA 59.860 47.619 0.00 0.00 0.00 3.02
8419 10402 1.593196 TCAAGGAACCGAGCAACAAG 58.407 50.000 0.00 0.00 0.00 3.16
8420 10403 2.045561 TTCAAGGAACCGAGCAACAA 57.954 45.000 0.00 0.00 0.00 2.83
8421 10404 2.151202 GATTCAAGGAACCGAGCAACA 58.849 47.619 0.00 0.00 0.00 3.33
8422 10405 1.128692 CGATTCAAGGAACCGAGCAAC 59.871 52.381 0.00 0.00 0.00 4.17
8423 10406 1.438651 CGATTCAAGGAACCGAGCAA 58.561 50.000 0.00 0.00 0.00 3.91
8424 10407 0.391130 CCGATTCAAGGAACCGAGCA 60.391 55.000 0.00 0.00 0.00 4.26
8425 10408 0.391263 ACCGATTCAAGGAACCGAGC 60.391 55.000 0.00 0.00 0.00 5.03
8426 10409 1.067142 TCACCGATTCAAGGAACCGAG 60.067 52.381 0.00 0.00 0.00 4.63
8427 10410 0.970640 TCACCGATTCAAGGAACCGA 59.029 50.000 0.00 0.00 0.00 4.69
8428 10411 1.337823 ACTCACCGATTCAAGGAACCG 60.338 52.381 0.00 0.00 0.00 4.44
8429 10412 2.076863 CACTCACCGATTCAAGGAACC 58.923 52.381 0.00 0.00 0.00 3.62
8430 10413 2.996621 CTCACTCACCGATTCAAGGAAC 59.003 50.000 0.00 0.00 0.00 3.62
8431 10414 2.028112 CCTCACTCACCGATTCAAGGAA 60.028 50.000 0.00 0.00 0.00 3.36
8432 10415 1.550524 CCTCACTCACCGATTCAAGGA 59.449 52.381 0.00 0.00 0.00 3.36
8433 10416 1.276421 ACCTCACTCACCGATTCAAGG 59.724 52.381 0.00 0.00 0.00 3.61
8434 10417 2.029020 TCACCTCACTCACCGATTCAAG 60.029 50.000 0.00 0.00 0.00 3.02
8435 10418 1.967779 TCACCTCACTCACCGATTCAA 59.032 47.619 0.00 0.00 0.00 2.69
8436 10419 1.627864 TCACCTCACTCACCGATTCA 58.372 50.000 0.00 0.00 0.00 2.57
8437 10420 2.028930 ACTTCACCTCACTCACCGATTC 60.029 50.000 0.00 0.00 0.00 2.52
8438 10421 1.971357 ACTTCACCTCACTCACCGATT 59.029 47.619 0.00 0.00 0.00 3.34
8439 10422 1.546476 GACTTCACCTCACTCACCGAT 59.454 52.381 0.00 0.00 0.00 4.18
8440 10423 0.959553 GACTTCACCTCACTCACCGA 59.040 55.000 0.00 0.00 0.00 4.69
8441 10424 0.038159 GGACTTCACCTCACTCACCG 60.038 60.000 0.00 0.00 0.00 4.94
8442 10425 1.343069 AGGACTTCACCTCACTCACC 58.657 55.000 0.00 0.00 34.98 4.02
8443 10426 2.365617 TCAAGGACTTCACCTCACTCAC 59.634 50.000 0.00 0.00 39.62 3.51
8444 10427 2.677914 TCAAGGACTTCACCTCACTCA 58.322 47.619 0.00 0.00 39.62 3.41
8445 10428 3.658709 CTTCAAGGACTTCACCTCACTC 58.341 50.000 0.00 0.00 39.62 3.51
8446 10429 2.224402 GCTTCAAGGACTTCACCTCACT 60.224 50.000 0.00 0.00 39.62 3.41
8447 10430 2.147150 GCTTCAAGGACTTCACCTCAC 58.853 52.381 0.00 0.00 39.62 3.51
8448 10431 1.768275 TGCTTCAAGGACTTCACCTCA 59.232 47.619 0.00 0.00 39.62 3.86
8449 10432 2.550830 TGCTTCAAGGACTTCACCTC 57.449 50.000 0.00 0.00 39.62 3.85
8450 10433 2.439507 TCTTGCTTCAAGGACTTCACCT 59.560 45.455 6.71 0.00 41.33 4.00
8451 10434 2.810852 CTCTTGCTTCAAGGACTTCACC 59.189 50.000 6.71 0.00 41.33 4.02
8452 10435 3.733337 TCTCTTGCTTCAAGGACTTCAC 58.267 45.455 6.71 0.00 41.33 3.18
8453 10436 4.630644 ATCTCTTGCTTCAAGGACTTCA 57.369 40.909 6.71 0.00 41.33 3.02
8454 10437 4.759183 ACAATCTCTTGCTTCAAGGACTTC 59.241 41.667 6.71 0.00 41.33 3.01
8455 10438 4.723309 ACAATCTCTTGCTTCAAGGACTT 58.277 39.130 6.71 0.00 41.33 3.01
8456 10439 4.202398 TGACAATCTCTTGCTTCAAGGACT 60.202 41.667 6.71 0.00 41.33 3.85
8457 10440 4.067896 TGACAATCTCTTGCTTCAAGGAC 58.932 43.478 6.71 0.00 41.33 3.85
8458 10441 4.356405 TGACAATCTCTTGCTTCAAGGA 57.644 40.909 6.71 4.12 41.33 3.36
8459 10442 4.201792 CGATGACAATCTCTTGCTTCAAGG 60.202 45.833 6.71 0.00 41.33 3.61
8460 10443 4.727162 GCGATGACAATCTCTTGCTTCAAG 60.727 45.833 0.37 0.37 42.25 3.02
8461 10444 3.125829 GCGATGACAATCTCTTGCTTCAA 59.874 43.478 0.00 0.00 35.69 2.69
8462 10445 2.674852 GCGATGACAATCTCTTGCTTCA 59.325 45.455 0.00 0.00 35.69 3.02
8463 10446 2.285486 CGCGATGACAATCTCTTGCTTC 60.285 50.000 0.00 0.00 35.69 3.86
8464 10447 1.662629 CGCGATGACAATCTCTTGCTT 59.337 47.619 0.00 0.00 35.69 3.91
8465 10448 1.284657 CGCGATGACAATCTCTTGCT 58.715 50.000 0.00 0.00 35.69 3.91
8466 10449 1.002366 ACGCGATGACAATCTCTTGC 58.998 50.000 15.93 0.00 35.69 4.01
8467 10450 4.027295 GTCTAACGCGATGACAATCTCTTG 60.027 45.833 15.93 0.00 38.39 3.02
8468 10451 4.106197 GTCTAACGCGATGACAATCTCTT 58.894 43.478 15.93 0.00 0.00 2.85
8479 10462 0.606604 AACACCAGGTCTAACGCGAT 59.393 50.000 15.93 2.34 0.00 4.58
8554 10538 5.356470 GGCATCTTTTCTCTAGTGCAAGATT 59.644 40.000 12.72 2.28 32.91 2.40
8601 10587 4.935578 AGATCATGGTATCATAGACCGGA 58.064 43.478 9.46 0.00 40.09 5.14
8604 10590 6.437477 TGGTGTAGATCATGGTATCATAGACC 59.563 42.308 0.00 0.00 37.49 3.85
8618 10604 4.684214 GCACATCCAATCTGGTGTAGATCA 60.684 45.833 0.00 0.00 45.41 2.92
8633 10619 1.554617 TCCAAATCGAGAGCACATCCA 59.445 47.619 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.