Multiple sequence alignment - TraesCS7A01G058300

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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 TraesCS7A01G058300 chr7A 100.000 4535 0 0 1 4535 28275072 28270538 0.000000e+00 8375.0
1 TraesCS7A01G058300 chr7A 95.602 773 30 4 3231 3999 28348155 28347383 0.000000e+00 1236.0
2 TraesCS7A01G058300 chr7A 90.234 768 58 8 765 1522 28350418 28349658 0.000000e+00 987.0
3 TraesCS7A01G058300 chr7A 93.452 504 29 3 2089 2589 28349179 28348677 0.000000e+00 745.0
4 TraesCS7A01G058300 chr7A 91.057 492 35 4 2589 3076 28348637 28348151 0.000000e+00 656.0
5 TraesCS7A01G058300 chr7A 91.509 424 28 3 1552 1975 28349656 28349241 1.090000e-160 577.0
6 TraesCS7A01G058300 chr7A 98.513 269 4 0 4267 4535 28346872 28346604 4.110000e-130 475.0
7 TraesCS7A01G058300 chr7A 96.667 240 7 1 4035 4273 28347178 28346939 9.140000e-107 398.0
8 TraesCS7A01G058300 chr7A 91.791 268 21 1 4269 4535 28310727 28310460 5.540000e-99 372.0
9 TraesCS7A01G058300 chr7A 96.296 54 2 0 2008 2061 28349234 28349181 6.250000e-14 89.8
10 TraesCS7A01G058300 chrUn 93.267 2703 126 16 395 3093 50266689 50264039 0.000000e+00 3932.0
11 TraesCS7A01G058300 chrUn 95.795 547 14 4 3231 3768 50264062 50263516 0.000000e+00 874.0
12 TraesCS7A01G058300 chrUn 91.185 363 29 2 1 360 50267045 50266683 1.470000e-134 490.0
13 TraesCS7A01G058300 chrUn 90.638 235 22 0 4033 4267 50263349 50263115 3.410000e-81 313.0
14 TraesCS7A01G058300 chrUn 91.667 228 15 1 4033 4260 479267772 479267549 3.410000e-81 313.0
15 TraesCS7A01G058300 chrUn 90.756 119 8 2 3818 3933 479267944 479267826 6.070000e-34 156.0
16 TraesCS7A01G058300 chrUn 96.386 83 3 0 3939 4021 50263476 50263394 2.200000e-28 137.0
17 TraesCS7A01G058300 chr4A 92.450 2596 136 18 1 2589 701479016 701481558 0.000000e+00 3653.0
18 TraesCS7A01G058300 chr4A 92.411 2596 137 18 1 2589 701412674 701410132 0.000000e+00 3648.0
19 TraesCS7A01G058300 chr4A 92.233 2356 147 15 1 2351 701527308 701524984 0.000000e+00 3304.0
20 TraesCS7A01G058300 chr4A 90.275 1820 124 17 773 2588 701564585 701562815 0.000000e+00 2331.0
21 TraesCS7A01G058300 chr4A 91.975 785 39 9 3238 4018 701562282 701561518 0.000000e+00 1079.0
22 TraesCS7A01G058300 chr4A 90.834 731 49 9 3216 3933 701424697 701425422 0.000000e+00 963.0
23 TraesCS7A01G058300 chr4A 90.997 722 41 12 3231 3933 701409600 701408884 0.000000e+00 952.0
24 TraesCS7A01G058300 chr4A 90.909 726 41 11 3228 3933 701482085 701482805 0.000000e+00 952.0
25 TraesCS7A01G058300 chr4A 94.012 501 28 2 4033 4532 701482859 701483358 0.000000e+00 758.0
26 TraesCS7A01G058300 chr4A 93.713 509 24 3 4033 4535 701561470 701560964 0.000000e+00 756.0
27 TraesCS7A01G058300 chr4A 92.857 504 30 3 4033 4535 701408830 701408332 0.000000e+00 726.0
28 TraesCS7A01G058300 chr4A 92.415 501 32 3 4033 4532 701425476 701425971 0.000000e+00 710.0
29 TraesCS7A01G058300 chr4A 91.583 499 33 5 2589 3079 701481598 701482095 0.000000e+00 680.0
30 TraesCS7A01G058300 chr4A 92.116 482 33 4 2589 3066 701410092 701409612 0.000000e+00 675.0
31 TraesCS7A01G058300 chr4A 90.650 492 40 5 2589 3076 701562774 701562285 0.000000e+00 649.0
32 TraesCS7A01G058300 chr4A 80.230 784 106 30 1127 1906 702070366 702071104 1.110000e-150 544.0
33 TraesCS7A01G058300 chr4A 82.616 558 71 17 3246 3789 702072633 702073178 1.910000e-128 470.0
34 TraesCS7A01G058300 chr4A 83.700 227 20 4 2856 3065 702072395 702072621 9.950000e-47 198.0
35 TraesCS7A01G058300 chr4A 86.441 118 11 5 143 255 472271075 472270958 1.710000e-24 124.0
36 TraesCS7A01G058300 chr7D 90.221 1718 115 23 876 2589 27974988 27973320 0.000000e+00 2193.0
37 TraesCS7A01G058300 chr7D 91.532 803 41 9 3238 4021 27972795 27972001 0.000000e+00 1081.0
38 TraesCS7A01G058300 chr7D 80.982 978 99 50 865 1810 28400082 28401004 0.000000e+00 695.0
39 TraesCS7A01G058300 chr7D 90.041 492 36 7 2589 3076 27973280 27972798 3.850000e-175 625.0
40 TraesCS7A01G058300 chr7D 83.513 558 64 18 3246 3788 28402287 28402831 3.150000e-136 496.0
41 TraesCS7A01G058300 chr7D 85.201 473 40 12 2619 3065 28401807 28402275 4.130000e-125 459.0
42 TraesCS7A01G058300 chr7D 85.279 197 17 7 4033 4229 27971956 27971772 4.630000e-45 193.0
43 TraesCS7A01G058300 chr7D 90.769 130 11 1 3101 3230 621735165 621735037 6.030000e-39 172.0
44 TraesCS7A01G058300 chr7D 89.922 129 9 3 3107 3232 77427186 77427059 3.630000e-36 163.0
45 TraesCS7A01G058300 chr7D 88.235 136 14 2 3107 3242 69246648 69246515 1.310000e-35 161.0
46 TraesCS7A01G058300 chr1A 95.395 152 7 0 3079 3230 503581356 503581507 4.530000e-60 243.0
47 TraesCS7A01G058300 chr6B 81.250 272 33 14 1 257 25616197 25616465 2.140000e-48 204.0
48 TraesCS7A01G058300 chr6B 88.112 143 13 3 1 141 280347735 280347875 2.810000e-37 167.0
49 TraesCS7A01G058300 chr5A 90.541 148 13 1 3080 3227 34908455 34908601 1.290000e-45 195.0
50 TraesCS7A01G058300 chr5D 88.462 156 12 5 3084 3236 443360630 443360782 2.790000e-42 183.0
51 TraesCS7A01G058300 chr5D 96.970 33 1 0 268 300 192263975 192263943 6.340000e-04 56.5
52 TraesCS7A01G058300 chr7B 89.116 147 15 1 3083 3229 693291528 693291383 1.000000e-41 182.0
53 TraesCS7A01G058300 chr5B 86.928 153 19 1 3078 3229 440027686 440027534 2.170000e-38 171.0
54 TraesCS7A01G058300 chr5B 87.234 141 15 1 1 141 276796777 276796914 1.690000e-34 158.0
55 TraesCS7A01G058300 chr2D 88.489 139 16 0 1 139 324211387 324211525 7.800000e-38 169.0
56 TraesCS7A01G058300 chr6A 85.350 157 18 4 3079 3233 48638864 48638711 1.690000e-34 158.0
57 TraesCS7A01G058300 chr2B 84.397 141 22 0 1 141 116269945 116270085 6.120000e-29 139.0
58 TraesCS7A01G058300 chr2B 84.615 143 18 2 1 141 206367285 206367425 6.120000e-29 139.0
59 TraesCS7A01G058300 chr2B 80.368 163 9 11 3079 3230 35370895 35370745 8.030000e-18 102.0
60 TraesCS7A01G058300 chr1D 84.112 107 13 3 143 245 50006523 50006629 2.890000e-17 100.0
61 TraesCS7A01G058300 chr4D 92.537 67 4 1 190 255 486341345 486341411 1.340000e-15 95.3
62 TraesCS7A01G058300 chr3B 85.294 102 4 4 3080 3181 764458740 764458830 1.340000e-15 95.3


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 TraesCS7A01G058300 chr7A 28270538 28275072 4534 True 8375.000 8375 100.00000 1 4535 1 chr7A.!!$R1 4534
1 TraesCS7A01G058300 chr7A 28346604 28350418 3814 True 645.475 1236 94.16625 765 4535 8 chr7A.!!$R3 3770
2 TraesCS7A01G058300 chrUn 50263115 50267045 3930 True 1149.200 3932 93.45420 1 4267 5 chrUn.!!$R1 4266
3 TraesCS7A01G058300 chr4A 701524984 701527308 2324 True 3304.000 3304 92.23300 1 2351 1 chr4A.!!$R2 2350
4 TraesCS7A01G058300 chr4A 701479016 701483358 4342 False 1510.750 3653 92.23850 1 4532 4 chr4A.!!$F2 4531
5 TraesCS7A01G058300 chr4A 701408332 701412674 4342 True 1500.250 3648 92.09525 1 4535 4 chr4A.!!$R3 4534
6 TraesCS7A01G058300 chr4A 701560964 701564585 3621 True 1203.750 2331 91.65325 773 4535 4 chr4A.!!$R4 3762
7 TraesCS7A01G058300 chr4A 701424697 701425971 1274 False 836.500 963 91.62450 3216 4532 2 chr4A.!!$F1 1316
8 TraesCS7A01G058300 chr4A 702070366 702073178 2812 False 404.000 544 82.18200 1127 3789 3 chr4A.!!$F3 2662
9 TraesCS7A01G058300 chr7D 27971772 27974988 3216 True 1023.000 2193 89.26825 876 4229 4 chr7D.!!$R4 3353
10 TraesCS7A01G058300 chr7D 28400082 28402831 2749 False 550.000 695 83.23200 865 3788 3 chr7D.!!$F1 2923

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
318 322 1.006043 AGAGAGCTACCTGGTGCACTA 59.994 52.381 17.98 10.29 30.80 2.74 F
516 520 1.010419 GGCCTCATGCAAAAGCGTTG 61.010 55.000 0.00 0.00 43.89 4.10 F
889 894 1.082690 GAGCTAGCTTGCAGTTCCAC 58.917 55.000 20.42 0.00 34.99 4.02 F
1766 1808 0.326595 TGCCGCATGAAGGAGGTAAA 59.673 50.000 11.29 0.00 0.00 2.01 F
2424 2580 0.035739 TAGGTGCCGTTGAAGGGTTC 59.964 55.000 5.75 0.00 0.00 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1620 1662 0.183492 TGGCCCACTCATTATCTGCC 59.817 55.000 0.00 0.0 37.90 4.85 R
1664 1706 0.244994 GATGATACCGCGAGCCATCT 59.755 55.000 8.23 0.0 32.99 2.90 R
2149 2223 1.990327 TCCTCCCTCAACCCCTTTTAC 59.010 52.381 0.00 0.0 0.00 2.01 R
3183 3781 0.035820 AATAGCGGCGGACCTCAAAA 60.036 50.000 9.78 0.0 0.00 2.44 R
4029 4666 0.257328 TGTTGGAGCAGAAACCACCA 59.743 50.000 0.00 0.0 35.81 4.17 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
31 32 2.899900 GGGAAGGCAACCAAAGAGATTT 59.100 45.455 2.72 0.00 37.17 2.17
47 48 4.021544 AGAGATTTGAGAAAGAGCGTCTGT 60.022 41.667 0.00 0.00 0.00 3.41
85 86 7.361713 CCATTGTGCGTATAAAAAGAAGAGGAA 60.362 37.037 0.00 0.00 0.00 3.36
127 128 1.471684 AGTTAGAACTCACCTACCGCG 59.528 52.381 0.00 0.00 32.86 6.46
141 142 2.749839 CGCGGCCTTGGATTCCAA 60.750 61.111 17.09 17.09 41.69 3.53
149 150 3.007831 GGCCTTGGATTCCAAAAATCACA 59.992 43.478 18.49 0.00 43.44 3.58
179 180 2.124983 CATGCCTAGTGCTGCCGT 60.125 61.111 0.00 0.00 42.00 5.68
185 186 1.290324 CTAGTGCTGCCGTGTCTGT 59.710 57.895 0.00 0.00 0.00 3.41
188 189 2.180204 GTGCTGCCGTGTCTGTTGT 61.180 57.895 0.00 0.00 0.00 3.32
259 263 5.742926 GCGTAGGAATTAGTACACAAGAGAC 59.257 44.000 0.00 0.00 0.00 3.36
266 270 8.092687 GGAATTAGTACACAAGAGACCTTTGTA 58.907 37.037 0.00 0.00 31.28 2.41
279 283 3.523087 TTTGTACCGAGGCAGCGCA 62.523 57.895 11.47 0.00 0.00 6.09
318 322 1.006043 AGAGAGCTACCTGGTGCACTA 59.994 52.381 17.98 10.29 30.80 2.74
399 403 1.030488 TCGTTTGTGGGCGGTTTGAA 61.030 50.000 0.00 0.00 0.00 2.69
410 414 1.198178 GCGGTTTGAAAGTCGCCATTA 59.802 47.619 12.53 0.00 42.02 1.90
417 421 5.957842 TTGAAAGTCGCCATTAAAGATGT 57.042 34.783 0.00 0.00 0.00 3.06
427 431 5.817816 CGCCATTAAAGATGTCCTAAGAAGT 59.182 40.000 0.00 0.00 0.00 3.01
447 451 9.832445 AAGAAGTGTAGTTTGAAAACTCTCATA 57.168 29.630 11.56 0.00 45.65 2.15
456 460 9.846248 AGTTTGAAAACTCTCATATTACATTGC 57.154 29.630 2.56 0.00 45.65 3.56
516 520 1.010419 GGCCTCATGCAAAAGCGTTG 61.010 55.000 0.00 0.00 43.89 4.10
518 522 1.602668 GCCTCATGCAAAAGCGTTGAA 60.603 47.619 7.29 0.00 40.77 2.69
522 526 2.357323 TCATGCAAAAGCGTTGAAGTGA 59.643 40.909 7.29 4.97 0.00 3.41
523 527 2.929531 TGCAAAAGCGTTGAAGTGAA 57.070 40.000 7.29 0.00 0.00 3.18
646 651 2.028190 CATACGCCGGCTCTCTGG 59.972 66.667 26.68 10.34 41.86 3.86
715 720 1.849976 GAGTCCGACAACGACGTCCT 61.850 60.000 10.58 0.00 42.66 3.85
889 894 1.082690 GAGCTAGCTTGCAGTTCCAC 58.917 55.000 20.42 0.00 34.99 4.02
995 1006 2.721167 CCGCCACCACTAGCTAGCA 61.721 63.158 20.91 1.89 0.00 3.49
1272 1292 2.294074 GTGATAAAGCCCAATGCCGTA 58.706 47.619 0.00 0.00 42.71 4.02
1459 1479 4.992381 TTGTTTTGTTCCACGGTTTTTG 57.008 36.364 0.00 0.00 0.00 2.44
1496 1519 6.014156 AGGCCAATAATACATGAGAGTCTACC 60.014 42.308 5.01 0.00 0.00 3.18
1547 1576 9.582648 GACCTAATTATTATCTAGGGGCAAAAA 57.417 33.333 0.00 0.00 37.17 1.94
1620 1662 3.581770 TGGGAGCTAATGATGAGGATGAG 59.418 47.826 0.00 0.00 0.00 2.90
1664 1706 1.294138 GTGGGACCGGTGAATTCGA 59.706 57.895 14.63 0.00 0.00 3.71
1665 1707 0.739813 GTGGGACCGGTGAATTCGAG 60.740 60.000 14.63 0.00 0.00 4.04
1727 1769 9.278978 TGTAACAGACAATACATTAACACATGT 57.721 29.630 0.00 0.00 36.82 3.21
1766 1808 0.326595 TGCCGCATGAAGGAGGTAAA 59.673 50.000 11.29 0.00 0.00 2.01
1768 1810 1.379527 CCGCATGAAGGAGGTAAACC 58.620 55.000 0.00 0.00 0.00 3.27
1812 1864 6.038050 GCCCTCTTTGCATCATATATTCTAGC 59.962 42.308 0.00 0.00 0.00 3.42
1813 1865 7.337167 CCCTCTTTGCATCATATATTCTAGCT 58.663 38.462 0.00 0.00 0.00 3.32
1814 1866 7.495279 CCCTCTTTGCATCATATATTCTAGCTC 59.505 40.741 0.00 0.00 0.00 4.09
1815 1867 8.039538 CCTCTTTGCATCATATATTCTAGCTCA 58.960 37.037 0.00 0.00 0.00 4.26
1816 1868 9.602568 CTCTTTGCATCATATATTCTAGCTCAT 57.397 33.333 0.00 0.00 0.00 2.90
1817 1869 9.955102 TCTTTGCATCATATATTCTAGCTCATT 57.045 29.630 0.00 0.00 0.00 2.57
1818 1870 9.989869 CTTTGCATCATATATTCTAGCTCATTG 57.010 33.333 0.00 0.00 0.00 2.82
1819 1871 9.511272 TTTGCATCATATATTCTAGCTCATTGT 57.489 29.630 0.00 0.00 0.00 2.71
1820 1872 9.511272 TTGCATCATATATTCTAGCTCATTGTT 57.489 29.630 0.00 0.00 0.00 2.83
1821 1873 8.943002 TGCATCATATATTCTAGCTCATTGTTG 58.057 33.333 0.00 0.00 0.00 3.33
1822 1874 9.159364 GCATCATATATTCTAGCTCATTGTTGA 57.841 33.333 0.00 0.00 0.00 3.18
1975 2031 7.999545 TCAGTCTCAATTACATAGCCTAGTAGT 59.000 37.037 0.00 0.00 0.00 2.73
1976 2032 9.286170 CAGTCTCAATTACATAGCCTAGTAGTA 57.714 37.037 0.00 0.00 0.00 1.82
1977 2033 9.509956 AGTCTCAATTACATAGCCTAGTAGTAG 57.490 37.037 0.00 0.00 0.00 2.57
2062 2134 6.408206 GGTCCATTTGTTGCTCCTAGTAGTAT 60.408 42.308 0.00 0.00 0.00 2.12
2149 2223 2.301738 GGTCTCCCAACTCCCCCTG 61.302 68.421 0.00 0.00 0.00 4.45
2175 2250 0.547954 GGGTTGAGGGAGGAGAGGTT 60.548 60.000 0.00 0.00 0.00 3.50
2218 2293 5.306678 CCCTATGACTCTATTTGGCTCTCTT 59.693 44.000 0.00 0.00 0.00 2.85
2424 2580 0.035739 TAGGTGCCGTTGAAGGGTTC 59.964 55.000 5.75 0.00 0.00 3.62
2442 2598 4.461431 GGGTTCCAATTTTCCTACGTTGAT 59.539 41.667 0.00 0.00 0.00 2.57
2605 2805 5.300792 TGGCTTCAAACTAACCTAAACTTGG 59.699 40.000 0.00 0.00 0.00 3.61
2865 3436 6.837992 TGTTGCGAAACTATAAGGATGTTTC 58.162 36.000 8.00 0.00 43.31 2.78
3077 3675 8.939929 TGCAGCTATATATATCTTTTGTTCTGC 58.060 33.333 0.00 0.00 40.49 4.26
3078 3676 8.394121 GCAGCTATATATATCTTTTGTTCTGCC 58.606 37.037 0.00 0.00 35.88 4.85
3079 3677 8.887717 CAGCTATATATATCTTTTGTTCTGCCC 58.112 37.037 0.00 0.00 0.00 5.36
3080 3678 8.605947 AGCTATATATATCTTTTGTTCTGCCCA 58.394 33.333 0.00 0.00 0.00 5.36
3081 3679 9.401058 GCTATATATATCTTTTGTTCTGCCCAT 57.599 33.333 0.00 0.00 0.00 4.00
3086 3684 7.961326 ATATCTTTTGTTCTGCCCATAGTTT 57.039 32.000 0.00 0.00 0.00 2.66
3087 3685 6.670695 ATCTTTTGTTCTGCCCATAGTTTT 57.329 33.333 0.00 0.00 0.00 2.43
3088 3686 7.775053 ATCTTTTGTTCTGCCCATAGTTTTA 57.225 32.000 0.00 0.00 0.00 1.52
3089 3687 7.589958 TCTTTTGTTCTGCCCATAGTTTTAA 57.410 32.000 0.00 0.00 0.00 1.52
3090 3688 8.012957 TCTTTTGTTCTGCCCATAGTTTTAAA 57.987 30.769 0.00 0.00 0.00 1.52
3091 3689 8.646900 TCTTTTGTTCTGCCCATAGTTTTAAAT 58.353 29.630 0.00 0.00 0.00 1.40
3092 3690 9.921637 CTTTTGTTCTGCCCATAGTTTTAAATA 57.078 29.630 0.00 0.00 0.00 1.40
3093 3691 9.921637 TTTTGTTCTGCCCATAGTTTTAAATAG 57.078 29.630 0.00 0.00 0.00 1.73
3094 3692 7.095695 TGTTCTGCCCATAGTTTTAAATAGC 57.904 36.000 0.00 0.00 0.00 2.97
3095 3693 6.096282 TGTTCTGCCCATAGTTTTAAATAGCC 59.904 38.462 0.00 0.00 0.00 3.93
3096 3694 4.819630 TCTGCCCATAGTTTTAAATAGCCG 59.180 41.667 0.00 0.00 0.00 5.52
3097 3695 3.886505 TGCCCATAGTTTTAAATAGCCGG 59.113 43.478 0.00 0.00 0.00 6.13
3098 3696 3.305131 GCCCATAGTTTTAAATAGCCGGC 60.305 47.826 21.89 21.89 0.00 6.13
3099 3697 4.142038 CCCATAGTTTTAAATAGCCGGCT 58.858 43.478 34.85 34.85 0.00 5.52
3100 3698 5.310451 CCCATAGTTTTAAATAGCCGGCTA 58.690 41.667 36.88 36.88 0.00 3.93
3101 3699 5.944007 CCCATAGTTTTAAATAGCCGGCTAT 59.056 40.000 37.79 37.79 40.63 2.97
3102 3700 7.107542 CCCATAGTTTTAAATAGCCGGCTATA 58.892 38.462 41.53 28.18 38.20 1.31
3103 3701 7.280205 CCCATAGTTTTAAATAGCCGGCTATAG 59.720 40.741 41.53 22.20 38.20 1.31
3104 3702 7.201617 CCATAGTTTTAAATAGCCGGCTATAGC 60.202 40.741 41.53 29.09 38.20 2.97
3118 3716 4.968553 TAGCCCCGCTATAGCCTT 57.031 55.556 19.00 3.16 40.44 4.35
3119 3717 2.362242 TAGCCCCGCTATAGCCTTG 58.638 57.895 19.00 8.23 40.44 3.61
3120 3718 1.827399 TAGCCCCGCTATAGCCTTGC 61.827 60.000 19.00 16.98 40.44 4.01
3121 3719 3.151906 CCCCGCTATAGCCTTGCT 58.848 61.111 19.00 0.00 43.41 3.91
3122 3720 1.827399 GCCCCGCTATAGCCTTGCTA 61.827 60.000 19.00 0.00 45.55 3.49
3139 3737 3.259207 GCTATAGCATTTTCAGCACGG 57.741 47.619 20.01 0.00 41.59 4.94
3140 3738 2.614057 GCTATAGCATTTTCAGCACGGT 59.386 45.455 20.01 0.00 41.59 4.83
3141 3739 3.546815 GCTATAGCATTTTCAGCACGGTG 60.547 47.826 20.01 3.15 41.59 4.94
3142 3740 0.521291 TAGCATTTTCAGCACGGTGC 59.479 50.000 25.00 25.00 45.46 5.01
3143 3741 1.734117 GCATTTTCAGCACGGTGCC 60.734 57.895 28.14 11.55 46.52 5.01
3144 3742 1.442520 CATTTTCAGCACGGTGCCG 60.443 57.895 28.14 19.43 46.52 5.69
3145 3743 3.267597 ATTTTCAGCACGGTGCCGC 62.268 57.895 28.14 5.08 46.52 6.53
3146 3744 4.927782 TTTCAGCACGGTGCCGCT 62.928 61.111 28.14 8.56 46.52 5.52
3147 3745 2.997952 TTTTCAGCACGGTGCCGCTA 62.998 55.000 28.14 10.17 46.52 4.26
3148 3746 2.997952 TTTCAGCACGGTGCCGCTAA 62.998 55.000 28.14 14.75 46.52 3.09
3149 3747 2.997952 TTCAGCACGGTGCCGCTAAA 62.998 55.000 28.14 13.09 46.52 1.85
3150 3748 2.046314 AGCACGGTGCCGCTAAAT 60.046 55.556 28.14 6.22 46.52 1.40
3151 3749 2.100216 GCACGGTGCCGCTAAATG 59.900 61.111 22.19 2.29 44.19 2.32
3152 3750 2.791256 CACGGTGCCGCTAAATGG 59.209 61.111 10.87 0.00 44.19 3.16
3153 3751 2.038269 CACGGTGCCGCTAAATGGT 61.038 57.895 10.87 0.00 44.19 3.55
3154 3752 1.302993 ACGGTGCCGCTAAATGGTT 60.303 52.632 10.87 0.00 44.19 3.67
3155 3753 0.891904 ACGGTGCCGCTAAATGGTTT 60.892 50.000 10.87 0.00 44.19 3.27
3156 3754 0.179174 CGGTGCCGCTAAATGGTTTC 60.179 55.000 0.00 0.00 0.00 2.78
3157 3755 0.885196 GGTGCCGCTAAATGGTTTCA 59.115 50.000 0.00 0.00 0.00 2.69
3158 3756 1.476488 GGTGCCGCTAAATGGTTTCAT 59.524 47.619 0.00 0.00 34.56 2.57
3159 3757 2.529151 GTGCCGCTAAATGGTTTCATG 58.471 47.619 0.00 0.00 33.18 3.07
3160 3758 2.094752 GTGCCGCTAAATGGTTTCATGT 60.095 45.455 0.00 0.00 33.18 3.21
3161 3759 3.127895 GTGCCGCTAAATGGTTTCATGTA 59.872 43.478 0.00 0.00 33.18 2.29
3162 3760 3.127895 TGCCGCTAAATGGTTTCATGTAC 59.872 43.478 0.00 0.00 33.18 2.90
3163 3761 3.127895 GCCGCTAAATGGTTTCATGTACA 59.872 43.478 0.00 0.00 33.18 2.90
3164 3762 4.380023 GCCGCTAAATGGTTTCATGTACAA 60.380 41.667 0.00 0.00 33.18 2.41
3165 3763 5.704888 CCGCTAAATGGTTTCATGTACAAA 58.295 37.500 0.00 0.00 33.18 2.83
3166 3764 5.571357 CCGCTAAATGGTTTCATGTACAAAC 59.429 40.000 0.00 0.00 33.18 2.93
3167 3765 6.146216 CGCTAAATGGTTTCATGTACAAACA 58.854 36.000 0.00 0.00 40.69 2.83
3169 3767 7.008266 CGCTAAATGGTTTCATGTACAAACATC 59.992 37.037 0.00 0.00 44.70 3.06
3170 3768 7.275560 GCTAAATGGTTTCATGTACAAACATCC 59.724 37.037 0.00 1.28 44.70 3.51
3171 3769 5.659440 ATGGTTTCATGTACAAACATCCC 57.341 39.130 0.00 0.00 44.70 3.85
3172 3770 3.504134 TGGTTTCATGTACAAACATCCCG 59.496 43.478 0.00 0.00 44.70 5.14
3173 3771 3.498082 GTTTCATGTACAAACATCCCGC 58.502 45.455 0.00 0.00 44.70 6.13
3174 3772 2.779755 TCATGTACAAACATCCCGCT 57.220 45.000 0.00 0.00 44.70 5.52
3175 3773 3.897141 TCATGTACAAACATCCCGCTA 57.103 42.857 0.00 0.00 44.70 4.26
3176 3774 4.415881 TCATGTACAAACATCCCGCTAT 57.584 40.909 0.00 0.00 44.70 2.97
3177 3775 5.538849 TCATGTACAAACATCCCGCTATA 57.461 39.130 0.00 0.00 44.70 1.31
3178 3776 5.538118 TCATGTACAAACATCCCGCTATAG 58.462 41.667 0.00 0.00 44.70 1.31
3179 3777 3.724374 TGTACAAACATCCCGCTATAGC 58.276 45.455 15.09 15.09 37.78 2.97
3180 3778 3.386726 TGTACAAACATCCCGCTATAGCT 59.613 43.478 21.98 0.47 39.32 3.32
3181 3779 2.838736 ACAAACATCCCGCTATAGCTG 58.161 47.619 21.98 15.59 39.32 4.24
3182 3780 2.434336 ACAAACATCCCGCTATAGCTGA 59.566 45.455 21.98 17.61 39.32 4.26
3183 3781 3.071602 ACAAACATCCCGCTATAGCTGAT 59.928 43.478 21.98 18.92 39.32 2.90
3184 3782 4.067896 CAAACATCCCGCTATAGCTGATT 58.932 43.478 21.98 11.39 39.32 2.57
3185 3783 4.357918 AACATCCCGCTATAGCTGATTT 57.642 40.909 21.98 13.38 39.32 2.17
3186 3784 4.357918 ACATCCCGCTATAGCTGATTTT 57.642 40.909 21.98 10.08 39.32 1.82
3187 3785 4.067896 ACATCCCGCTATAGCTGATTTTG 58.932 43.478 21.98 14.63 39.32 2.44
3188 3786 4.202357 ACATCCCGCTATAGCTGATTTTGA 60.202 41.667 21.98 8.53 39.32 2.69
3189 3787 3.995199 TCCCGCTATAGCTGATTTTGAG 58.005 45.455 21.98 3.56 39.32 3.02
3190 3788 3.070018 CCCGCTATAGCTGATTTTGAGG 58.930 50.000 21.98 11.98 39.32 3.86
3191 3789 3.495100 CCCGCTATAGCTGATTTTGAGGT 60.495 47.826 21.98 0.00 39.32 3.85
3192 3790 3.743396 CCGCTATAGCTGATTTTGAGGTC 59.257 47.826 21.98 0.00 39.32 3.85
3193 3791 3.743396 CGCTATAGCTGATTTTGAGGTCC 59.257 47.826 21.98 0.00 39.32 4.46
3194 3792 3.743396 GCTATAGCTGATTTTGAGGTCCG 59.257 47.826 17.75 0.00 38.21 4.79
3195 3793 2.024176 TAGCTGATTTTGAGGTCCGC 57.976 50.000 0.00 0.00 0.00 5.54
3196 3794 0.678048 AGCTGATTTTGAGGTCCGCC 60.678 55.000 0.00 0.00 0.00 6.13
3197 3795 1.982073 GCTGATTTTGAGGTCCGCCG 61.982 60.000 0.00 0.00 40.50 6.46
3198 3796 1.982073 CTGATTTTGAGGTCCGCCGC 61.982 60.000 0.00 0.00 40.50 6.53
3199 3797 1.745489 GATTTTGAGGTCCGCCGCT 60.745 57.895 0.00 0.00 40.50 5.52
3200 3798 0.461339 GATTTTGAGGTCCGCCGCTA 60.461 55.000 0.00 0.00 40.50 4.26
3201 3799 0.180406 ATTTTGAGGTCCGCCGCTAT 59.820 50.000 0.00 0.00 40.50 2.97
3202 3800 0.035820 TTTTGAGGTCCGCCGCTATT 60.036 50.000 0.00 0.00 40.50 1.73
3203 3801 0.035820 TTTGAGGTCCGCCGCTATTT 60.036 50.000 0.00 0.00 40.50 1.40
3204 3802 0.742990 TTGAGGTCCGCCGCTATTTG 60.743 55.000 0.00 0.00 40.50 2.32
3205 3803 1.887707 GAGGTCCGCCGCTATTTGG 60.888 63.158 0.00 0.00 40.50 3.28
3225 3823 3.897325 GGCATAGCCCGCTATTTAAAAC 58.103 45.455 6.48 0.00 44.06 2.43
3226 3824 3.316868 GGCATAGCCCGCTATTTAAAACA 59.683 43.478 6.48 0.00 44.06 2.83
3227 3825 4.022329 GGCATAGCCCGCTATTTAAAACAT 60.022 41.667 6.48 0.00 44.06 2.71
3228 3826 5.508994 GGCATAGCCCGCTATTTAAAACATT 60.509 40.000 6.48 0.00 44.06 2.71
3229 3827 5.402270 GCATAGCCCGCTATTTAAAACATTG 59.598 40.000 6.48 0.00 37.16 2.82
3597 4202 6.211587 TGCATGTTCCTTTTAATCATCAGG 57.788 37.500 0.00 0.00 0.00 3.86
3794 4418 9.613428 ACTTCGGAATAAAACAGATCATATTGA 57.387 29.630 0.00 0.00 0.00 2.57
4021 4658 1.956170 CTCGTGCACAGTTTCGGCT 60.956 57.895 18.64 0.00 0.00 5.52
4022 4659 0.666274 CTCGTGCACAGTTTCGGCTA 60.666 55.000 18.64 0.00 0.00 3.93
4023 4660 0.037697 TCGTGCACAGTTTCGGCTAT 60.038 50.000 18.64 0.00 0.00 2.97
4024 4661 1.202817 TCGTGCACAGTTTCGGCTATA 59.797 47.619 18.64 0.00 0.00 1.31
4025 4662 1.588404 CGTGCACAGTTTCGGCTATAG 59.412 52.381 18.64 0.00 0.00 1.31
4026 4663 2.618053 GTGCACAGTTTCGGCTATAGT 58.382 47.619 13.17 0.00 0.00 2.12
4027 4664 3.732774 CGTGCACAGTTTCGGCTATAGTA 60.733 47.826 18.64 0.00 0.00 1.82
4028 4665 3.550678 GTGCACAGTTTCGGCTATAGTAC 59.449 47.826 13.17 0.00 0.00 2.73
4029 4666 3.446161 TGCACAGTTTCGGCTATAGTACT 59.554 43.478 0.00 0.00 0.00 2.73
4030 4667 3.797256 GCACAGTTTCGGCTATAGTACTG 59.203 47.826 5.39 9.67 39.03 2.74
4031 4668 4.360563 CACAGTTTCGGCTATAGTACTGG 58.639 47.826 5.39 0.00 37.80 4.00
4064 4906 2.741517 CCAACATTCAGCATCGTGTGTA 59.258 45.455 0.00 0.00 0.00 2.90
4072 4914 0.107897 GCATCGTGTGTATCCCACCA 60.108 55.000 0.00 0.00 43.85 4.17
4097 4939 6.560253 AATAGAACTAGCCCAAAATATGCG 57.440 37.500 0.00 0.00 0.00 4.73
4117 4959 4.891566 CACGCCTAGTGTCTCACC 57.108 61.111 0.00 0.00 45.51 4.02
4473 5398 2.860971 AAGCAAGGGCCCAGGAGT 60.861 61.111 27.56 0.00 42.56 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 3.573967 TCAAATCTCTTTGGTTGCCTTCC 59.426 43.478 0.00 0.00 41.74 3.46
31 32 0.389025 TGCACAGACGCTCTTTCTCA 59.611 50.000 0.00 0.00 0.00 3.27
61 62 7.174253 TGTTCCTCTTCTTTTTATACGCACAAT 59.826 33.333 0.00 0.00 0.00 2.71
85 86 2.413837 GTTCTGCCGACAATACAGTGT 58.586 47.619 0.00 0.00 33.12 3.55
127 128 3.007831 TGTGATTTTTGGAATCCAAGGCC 59.992 43.478 14.96 0.00 44.84 5.19
141 142 6.755141 GCATGCTGATTTCTACATGTGATTTT 59.245 34.615 11.37 0.00 41.51 1.82
149 150 5.061853 CACTAGGCATGCTGATTTCTACAT 58.938 41.667 18.92 0.00 0.00 2.29
179 180 5.161358 CGCTTCAGTCTATTACAACAGACA 58.839 41.667 3.43 0.00 42.99 3.41
185 186 4.811969 TTCCCGCTTCAGTCTATTACAA 57.188 40.909 0.00 0.00 0.00 2.41
188 189 4.499188 CGTGATTCCCGCTTCAGTCTATTA 60.499 45.833 0.00 0.00 0.00 0.98
259 263 2.100631 CGCTGCCTCGGTACAAAGG 61.101 63.158 8.12 8.12 34.41 3.11
266 270 4.393155 TTCATGCGCTGCCTCGGT 62.393 61.111 9.73 0.00 0.00 4.69
279 283 0.179032 TTGTGCACTGGGACGTTCAT 60.179 50.000 19.41 0.00 38.35 2.57
318 322 5.703310 AGGGTATCTTACTGATTCCTACGT 58.297 41.667 0.00 0.00 40.94 3.57
381 385 0.179134 TTTCAAACCGCCCACAAACG 60.179 50.000 0.00 0.00 0.00 3.60
399 403 4.222124 AGGACATCTTTAATGGCGACTT 57.778 40.909 0.00 0.00 0.00 3.01
410 414 8.429641 TCAAACTACACTTCTTAGGACATCTTT 58.570 33.333 0.00 0.00 0.00 2.52
447 451 2.582636 AGACCCTCCCAAGCAATGTAAT 59.417 45.455 0.00 0.00 0.00 1.89
454 458 2.935481 CCCAGACCCTCCCAAGCA 60.935 66.667 0.00 0.00 0.00 3.91
456 460 2.538141 TTGCCCAGACCCTCCCAAG 61.538 63.158 0.00 0.00 0.00 3.61
516 520 4.683781 CAGCTGACTTAGACACTTCACTTC 59.316 45.833 8.42 0.00 0.00 3.01
518 522 3.006323 CCAGCTGACTTAGACACTTCACT 59.994 47.826 17.39 0.00 0.00 3.41
522 526 4.423625 AAACCAGCTGACTTAGACACTT 57.576 40.909 17.39 0.00 0.00 3.16
523 527 4.423625 AAAACCAGCTGACTTAGACACT 57.576 40.909 17.39 0.00 0.00 3.55
715 720 1.300620 CTCGTCGCAAACTGGTCCA 60.301 57.895 0.00 0.00 0.00 4.02
750 755 2.722201 GGGACGTCTACAGCCCCAG 61.722 68.421 16.46 0.00 37.04 4.45
792 797 2.125552 CAAGGAGATGGCGTGCGA 60.126 61.111 0.00 0.00 0.00 5.10
889 894 2.547990 AGTCCTATTTATAGCCCCGGG 58.452 52.381 15.80 15.80 0.00 5.73
995 1006 2.200930 TGGGTGTGGCCATTGCTT 59.799 55.556 9.72 0.00 39.65 3.91
1272 1292 2.375509 AGCAGTTTTACCTAGCCCAGTT 59.624 45.455 0.00 0.00 0.00 3.16
1327 1347 1.659794 CAACCAGTTTCGCCTTGGG 59.340 57.895 0.00 0.00 36.28 4.12
1496 1519 1.973281 AGCAGTGGTTTCATGCCCG 60.973 57.895 0.00 0.00 40.89 6.13
1540 1569 9.619316 TGCACAATATATATAATCGTTTTTGCC 57.381 29.630 9.83 1.13 0.00 4.52
1547 1576 7.770433 ACCTGCATGCACAATATATATAATCGT 59.230 33.333 18.46 0.00 0.00 3.73
1620 1662 0.183492 TGGCCCACTCATTATCTGCC 59.817 55.000 0.00 0.00 37.90 4.85
1664 1706 0.244994 GATGATACCGCGAGCCATCT 59.755 55.000 8.23 0.00 32.99 2.90
1665 1707 0.737715 GGATGATACCGCGAGCCATC 60.738 60.000 8.23 14.13 34.48 3.51
1788 1834 7.337167 AGCTAGAATATATGATGCAAAGAGGG 58.663 38.462 0.00 0.00 0.00 4.30
1812 1864 9.483062 GATAACGAGAAGAAATTCAACAATGAG 57.517 33.333 0.00 0.00 36.78 2.90
1813 1865 9.219603 AGATAACGAGAAGAAATTCAACAATGA 57.780 29.630 0.00 0.00 0.00 2.57
1814 1866 9.270576 CAGATAACGAGAAGAAATTCAACAATG 57.729 33.333 0.00 0.00 0.00 2.82
1815 1867 9.219603 TCAGATAACGAGAAGAAATTCAACAAT 57.780 29.630 0.00 0.00 0.00 2.71
1816 1868 8.601845 TCAGATAACGAGAAGAAATTCAACAA 57.398 30.769 0.00 0.00 0.00 2.83
1817 1869 8.777865 ATCAGATAACGAGAAGAAATTCAACA 57.222 30.769 0.00 0.00 0.00 3.33
1818 1870 8.873830 TGATCAGATAACGAGAAGAAATTCAAC 58.126 33.333 0.00 0.00 0.00 3.18
1819 1871 8.873830 GTGATCAGATAACGAGAAGAAATTCAA 58.126 33.333 0.00 0.00 0.00 2.69
1820 1872 8.253810 AGTGATCAGATAACGAGAAGAAATTCA 58.746 33.333 0.00 0.00 0.00 2.57
1821 1873 8.641499 AGTGATCAGATAACGAGAAGAAATTC 57.359 34.615 0.00 0.00 0.00 2.17
1822 1874 9.442047 AAAGTGATCAGATAACGAGAAGAAATT 57.558 29.630 0.00 0.00 0.00 1.82
1823 1875 8.877779 CAAAGTGATCAGATAACGAGAAGAAAT 58.122 33.333 0.00 0.00 0.00 2.17
1824 1876 7.148573 GCAAAGTGATCAGATAACGAGAAGAAA 60.149 37.037 0.00 0.00 0.00 2.52
1825 1877 6.311445 GCAAAGTGATCAGATAACGAGAAGAA 59.689 38.462 0.00 0.00 0.00 2.52
1826 1878 5.807520 GCAAAGTGATCAGATAACGAGAAGA 59.192 40.000 0.00 0.00 0.00 2.87
1827 1879 5.578336 TGCAAAGTGATCAGATAACGAGAAG 59.422 40.000 0.00 0.00 0.00 2.85
1828 1880 5.478407 TGCAAAGTGATCAGATAACGAGAA 58.522 37.500 0.00 0.00 0.00 2.87
1975 2031 9.104965 CGTCCAAATATGATTTTACAAGACCTA 57.895 33.333 0.00 0.00 0.00 3.08
1976 2032 7.067008 CCGTCCAAATATGATTTTACAAGACCT 59.933 37.037 0.00 0.00 0.00 3.85
1977 2033 7.193595 CCGTCCAAATATGATTTTACAAGACC 58.806 38.462 0.00 0.00 0.00 3.85
2149 2223 1.990327 TCCTCCCTCAACCCCTTTTAC 59.010 52.381 0.00 0.00 0.00 2.01
2175 2250 2.218603 GGCAAAAACGAAGAGTCCTCA 58.781 47.619 0.00 0.00 0.00 3.86
2218 2293 9.224267 CAAAATGAGAGAGTGAAGGAATAAAGA 57.776 33.333 0.00 0.00 0.00 2.52
2412 2568 3.320826 AGGAAAATTGGAACCCTTCAACG 59.679 43.478 0.00 0.00 0.00 4.10
2424 2580 6.314784 GTCTTCATCAACGTAGGAAAATTGG 58.685 40.000 0.00 0.00 0.00 3.16
2889 3466 2.939756 TCGCAGTGCTTTAAGTCAAACA 59.060 40.909 14.33 0.00 0.00 2.83
3075 3673 3.886505 CCGGCTATTTAAAACTATGGGCA 59.113 43.478 0.00 0.00 0.00 5.36
3076 3674 3.305131 GCCGGCTATTTAAAACTATGGGC 60.305 47.826 22.15 0.00 0.00 5.36
3077 3675 4.142038 AGCCGGCTATTTAAAACTATGGG 58.858 43.478 31.86 0.00 0.00 4.00
3078 3676 7.201617 GCTATAGCCGGCTATTTAAAACTATGG 60.202 40.741 44.65 25.96 39.65 2.74
3079 3677 7.685594 GCTATAGCCGGCTATTTAAAACTATG 58.314 38.462 44.65 24.19 39.65 2.23
3080 3678 7.845066 GCTATAGCCGGCTATTTAAAACTAT 57.155 36.000 44.65 26.21 39.65 2.12
3101 3699 1.827399 GCAAGGCTATAGCGGGGCTA 61.827 60.000 18.30 0.00 45.55 3.93
3102 3700 3.151906 CAAGGCTATAGCGGGGCT 58.848 61.111 18.30 7.01 43.26 5.19
3103 3701 1.827399 TAGCAAGGCTATAGCGGGGC 61.827 60.000 18.30 18.97 43.26 5.80
3104 3702 2.362242 TAGCAAGGCTATAGCGGGG 58.638 57.895 18.30 10.64 43.26 5.73
3119 3717 2.614057 ACCGTGCTGAAAATGCTATAGC 59.386 45.455 18.18 18.18 42.50 2.97
3120 3718 3.546815 GCACCGTGCTGAAAATGCTATAG 60.547 47.826 16.51 0.00 40.96 1.31
3121 3719 2.354510 GCACCGTGCTGAAAATGCTATA 59.645 45.455 16.51 0.00 40.96 1.31
3122 3720 1.133025 GCACCGTGCTGAAAATGCTAT 59.867 47.619 16.51 0.00 40.96 2.97
3123 3721 0.521291 GCACCGTGCTGAAAATGCTA 59.479 50.000 16.51 0.00 40.96 3.49
3124 3722 1.286880 GCACCGTGCTGAAAATGCT 59.713 52.632 16.51 0.00 40.96 3.79
3125 3723 1.734117 GGCACCGTGCTGAAAATGC 60.734 57.895 22.41 0.01 44.28 3.56
3126 3724 4.557942 GGCACCGTGCTGAAAATG 57.442 55.556 22.41 0.00 44.28 2.32
3133 3731 2.046314 ATTTAGCGGCACCGTGCT 60.046 55.556 22.41 6.23 44.28 4.40
3134 3732 2.100216 CATTTAGCGGCACCGTGC 59.900 61.111 15.50 15.50 44.08 5.34
3135 3733 1.582610 AACCATTTAGCGGCACCGTG 61.583 55.000 11.27 0.21 42.09 4.94
3136 3734 0.891904 AAACCATTTAGCGGCACCGT 60.892 50.000 11.27 0.32 42.09 4.83
3137 3735 0.179174 GAAACCATTTAGCGGCACCG 60.179 55.000 4.30 4.30 43.09 4.94
3138 3736 0.885196 TGAAACCATTTAGCGGCACC 59.115 50.000 1.45 0.00 0.00 5.01
3139 3737 2.094752 ACATGAAACCATTTAGCGGCAC 60.095 45.455 0.00 0.00 0.00 5.01
3140 3738 2.166829 ACATGAAACCATTTAGCGGCA 58.833 42.857 0.00 0.00 0.00 5.69
3141 3739 2.939460 ACATGAAACCATTTAGCGGC 57.061 45.000 0.00 0.00 0.00 6.53
3142 3740 4.955925 TGTACATGAAACCATTTAGCGG 57.044 40.909 0.00 0.00 0.00 5.52
3143 3741 6.146216 TGTTTGTACATGAAACCATTTAGCG 58.854 36.000 0.00 0.00 33.18 4.26
3144 3742 7.275560 GGATGTTTGTACATGAAACCATTTAGC 59.724 37.037 0.00 0.00 44.90 3.09
3145 3743 7.759433 GGGATGTTTGTACATGAAACCATTTAG 59.241 37.037 0.00 0.00 44.90 1.85
3146 3744 7.575909 CGGGATGTTTGTACATGAAACCATTTA 60.576 37.037 0.00 0.00 44.90 1.40
3147 3745 6.463360 GGGATGTTTGTACATGAAACCATTT 58.537 36.000 0.00 0.00 44.90 2.32
3148 3746 5.336372 CGGGATGTTTGTACATGAAACCATT 60.336 40.000 0.00 0.00 44.90 3.16
3149 3747 4.157656 CGGGATGTTTGTACATGAAACCAT 59.842 41.667 0.00 0.00 44.90 3.55
3150 3748 3.504134 CGGGATGTTTGTACATGAAACCA 59.496 43.478 0.00 0.00 44.90 3.67
3151 3749 3.672241 GCGGGATGTTTGTACATGAAACC 60.672 47.826 0.00 0.00 44.90 3.27
3152 3750 3.190535 AGCGGGATGTTTGTACATGAAAC 59.809 43.478 0.00 0.11 44.90 2.78
3153 3751 3.417101 AGCGGGATGTTTGTACATGAAA 58.583 40.909 0.00 0.00 44.90 2.69
3154 3752 3.066291 AGCGGGATGTTTGTACATGAA 57.934 42.857 0.00 0.00 44.90 2.57
3155 3753 2.779755 AGCGGGATGTTTGTACATGA 57.220 45.000 0.00 0.00 44.90 3.07
3156 3754 4.152402 GCTATAGCGGGATGTTTGTACATG 59.848 45.833 9.40 0.00 44.90 3.21
3157 3755 4.040461 AGCTATAGCGGGATGTTTGTACAT 59.960 41.667 18.82 0.00 46.16 2.29
3158 3756 3.724374 GCTATAGCGGGATGTTTGTACA 58.276 45.455 9.40 0.00 38.95 2.90
3172 3770 3.743396 CGGACCTCAAAATCAGCTATAGC 59.257 47.826 17.33 17.33 42.49 2.97
3173 3771 3.743396 GCGGACCTCAAAATCAGCTATAG 59.257 47.826 0.00 0.00 33.80 1.31
3174 3772 3.494398 GGCGGACCTCAAAATCAGCTATA 60.494 47.826 0.00 0.00 36.44 1.31
3175 3773 2.565841 GCGGACCTCAAAATCAGCTAT 58.434 47.619 0.00 0.00 33.80 2.97
3176 3774 1.406887 GGCGGACCTCAAAATCAGCTA 60.407 52.381 0.00 0.00 36.44 3.32
3177 3775 0.678048 GGCGGACCTCAAAATCAGCT 60.678 55.000 0.00 0.00 36.44 4.24
3178 3776 1.803289 GGCGGACCTCAAAATCAGC 59.197 57.895 0.00 0.00 35.57 4.26
3179 3777 1.982073 GCGGCGGACCTCAAAATCAG 61.982 60.000 9.78 0.00 0.00 2.90
3180 3778 2.038269 GCGGCGGACCTCAAAATCA 61.038 57.895 9.78 0.00 0.00 2.57
3181 3779 0.461339 TAGCGGCGGACCTCAAAATC 60.461 55.000 9.78 0.00 0.00 2.17
3182 3780 0.180406 ATAGCGGCGGACCTCAAAAT 59.820 50.000 9.78 0.00 0.00 1.82
3183 3781 0.035820 AATAGCGGCGGACCTCAAAA 60.036 50.000 9.78 0.00 0.00 2.44
3184 3782 0.035820 AAATAGCGGCGGACCTCAAA 60.036 50.000 9.78 0.00 0.00 2.69
3185 3783 0.742990 CAAATAGCGGCGGACCTCAA 60.743 55.000 9.78 0.00 0.00 3.02
3186 3784 1.153449 CAAATAGCGGCGGACCTCA 60.153 57.895 9.78 0.00 0.00 3.86
3187 3785 1.887707 CCAAATAGCGGCGGACCTC 60.888 63.158 9.78 0.00 0.00 3.85
3188 3786 2.189521 CCAAATAGCGGCGGACCT 59.810 61.111 9.78 0.00 0.00 3.85
3189 3787 3.583086 GCCAAATAGCGGCGGACC 61.583 66.667 9.78 0.00 40.35 4.46
3205 3803 4.561735 TGTTTTAAATAGCGGGCTATGC 57.438 40.909 13.53 2.55 39.03 3.14
3206 3804 5.920273 CCAATGTTTTAAATAGCGGGCTATG 59.080 40.000 13.53 0.00 39.03 2.23
3207 3805 5.596772 ACCAATGTTTTAAATAGCGGGCTAT 59.403 36.000 7.36 7.36 40.63 2.97
3208 3806 4.951094 ACCAATGTTTTAAATAGCGGGCTA 59.049 37.500 2.42 2.42 0.00 3.93
3209 3807 3.767131 ACCAATGTTTTAAATAGCGGGCT 59.233 39.130 0.00 0.00 0.00 5.19
3210 3808 4.118093 ACCAATGTTTTAAATAGCGGGC 57.882 40.909 0.00 0.00 0.00 6.13
3211 3809 5.804979 CAGAACCAATGTTTTAAATAGCGGG 59.195 40.000 0.00 0.00 33.97 6.13
3212 3810 5.288472 GCAGAACCAATGTTTTAAATAGCGG 59.712 40.000 0.00 0.00 33.97 5.52
3213 3811 5.288472 GGCAGAACCAATGTTTTAAATAGCG 59.712 40.000 0.00 0.00 38.86 4.26
3214 3812 6.647212 GGCAGAACCAATGTTTTAAATAGC 57.353 37.500 0.00 0.00 38.86 2.97
3229 3827 9.350951 AGTATTTATTAATTAGGTGGCAGAACC 57.649 33.333 0.00 0.00 40.85 3.62
3597 4202 4.295870 GGAAACGGAAGAAATCAAACACC 58.704 43.478 0.00 0.00 0.00 4.16
4021 4658 4.404715 GGAGCAGAAACCACCAGTACTATA 59.595 45.833 0.00 0.00 0.00 1.31
4022 4659 3.197983 GGAGCAGAAACCACCAGTACTAT 59.802 47.826 0.00 0.00 0.00 2.12
4023 4660 2.565834 GGAGCAGAAACCACCAGTACTA 59.434 50.000 0.00 0.00 0.00 1.82
4024 4661 1.348036 GGAGCAGAAACCACCAGTACT 59.652 52.381 0.00 0.00 0.00 2.73
4025 4662 1.071699 TGGAGCAGAAACCACCAGTAC 59.928 52.381 0.00 0.00 0.00 2.73
4026 4663 1.429930 TGGAGCAGAAACCACCAGTA 58.570 50.000 0.00 0.00 0.00 2.74
4027 4664 0.550914 TTGGAGCAGAAACCACCAGT 59.449 50.000 0.00 0.00 35.81 4.00
4028 4665 0.954452 GTTGGAGCAGAAACCACCAG 59.046 55.000 0.00 0.00 35.81 4.00
4029 4666 0.257328 TGTTGGAGCAGAAACCACCA 59.743 50.000 0.00 0.00 35.81 4.17
4030 4667 1.620822 ATGTTGGAGCAGAAACCACC 58.379 50.000 0.00 0.00 35.81 4.61
4031 4668 2.622942 TGAATGTTGGAGCAGAAACCAC 59.377 45.455 0.00 0.00 35.81 4.16
4064 4906 4.536489 GGGCTAGTTCTATTATGGTGGGAT 59.464 45.833 0.00 0.00 0.00 3.85
4072 4914 7.336931 CCGCATATTTTGGGCTAGTTCTATTAT 59.663 37.037 0.00 0.00 36.97 1.28
4106 4948 0.887836 AGACGCACGGTGAGACACTA 60.888 55.000 18.79 0.00 34.40 2.74


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

AutoCloner maintained by Alex Coulton.