Multiple sequence alignment - TraesCS1D01G389600

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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 TraesCS1D01G389600 chr1D 100.000 2753 0 0 1 2753 461142478 461145230 0.000000e+00 5084
1 TraesCS1D01G389600 chr1A 89.016 2358 170 53 292 2622 552216461 552218756 0.000000e+00 2837
2 TraesCS1D01G389600 chr1A 86.581 313 19 11 1 302 552215797 552216097 9.510000e-85 324
3 TraesCS1D01G389600 chr1A 85.906 149 14 5 2606 2753 552228329 552228471 4.750000e-33 152
4 TraesCS1D01G389600 chr1B 89.289 1251 123 8 571 1816 633351956 633353200 0.000000e+00 1557
5 TraesCS1D01G389600 chr1B 93.868 424 23 3 2332 2753 633397093 633397515 1.080000e-178 636
6 TraesCS1D01G389600 chr1B 92.147 382 20 3 1953 2332 633353757 633354130 5.220000e-147 531
7 TraesCS1D01G389600 chr1B 95.714 140 6 0 1816 1955 633353455 633353594 2.760000e-55 226
8 TraesCS1D01G389600 chrUn 78.282 1630 283 43 553 2145 108305117 108303522 0.000000e+00 983
9 TraesCS1D01G389600 chrUn 79.485 1243 209 33 562 1773 108430302 108431529 0.000000e+00 841
10 TraesCS1D01G389600 chrUn 82.493 337 50 7 534 869 134300106 134299778 1.250000e-73 287
11 TraesCS1D01G389600 chr4B 77.750 1618 283 48 571 2145 665919855 665921438 0.000000e+00 922
12 TraesCS1D01G389600 chr4B 74.983 1455 272 61 329 1720 625979610 625981035 1.100000e-163 586
13 TraesCS1D01G389600 chr7D 80.256 1251 215 21 571 1811 45838757 45837529 0.000000e+00 913
14 TraesCS1D01G389600 chr5A 76.821 1730 282 64 453 2145 705943789 705945436 0.000000e+00 863
15 TraesCS1D01G389600 chr5A 79.718 355 36 13 2411 2753 444056413 444056083 9.920000e-55 224
16 TraesCS1D01G389600 chr2D 76.332 1652 304 57 571 2192 14127895 14126301 0.000000e+00 804
17 TraesCS1D01G389600 chr2B 77.056 1216 228 33 571 1766 25844143 25842959 0.000000e+00 652
18 TraesCS1D01G389600 chr2A 75.139 1255 242 36 535 1766 16497189 16495982 2.430000e-145 525
19 TraesCS1D01G389600 chr5B 83.380 355 36 8 2411 2753 403184267 403183924 9.580000e-80 307


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 TraesCS1D01G389600 chr1D 461142478 461145230 2752 False 5084.000000 5084 100.000000 1 2753 1 chr1D.!!$F1 2752
1 TraesCS1D01G389600 chr1A 552215797 552218756 2959 False 1580.500000 2837 87.798500 1 2622 2 chr1A.!!$F2 2621
2 TraesCS1D01G389600 chr1B 633351956 633354130 2174 False 771.333333 1557 92.383333 571 2332 3 chr1B.!!$F2 1761
3 TraesCS1D01G389600 chrUn 108303522 108305117 1595 True 983.000000 983 78.282000 553 2145 1 chrUn.!!$R1 1592
4 TraesCS1D01G389600 chrUn 108430302 108431529 1227 False 841.000000 841 79.485000 562 1773 1 chrUn.!!$F1 1211
5 TraesCS1D01G389600 chr4B 665919855 665921438 1583 False 922.000000 922 77.750000 571 2145 1 chr4B.!!$F2 1574
6 TraesCS1D01G389600 chr4B 625979610 625981035 1425 False 586.000000 586 74.983000 329 1720 1 chr4B.!!$F1 1391
7 TraesCS1D01G389600 chr7D 45837529 45838757 1228 True 913.000000 913 80.256000 571 1811 1 chr7D.!!$R1 1240
8 TraesCS1D01G389600 chr5A 705943789 705945436 1647 False 863.000000 863 76.821000 453 2145 1 chr5A.!!$F1 1692
9 TraesCS1D01G389600 chr2D 14126301 14127895 1594 True 804.000000 804 76.332000 571 2192 1 chr2D.!!$R1 1621
10 TraesCS1D01G389600 chr2B 25842959 25844143 1184 True 652.000000 652 77.056000 571 1766 1 chr2B.!!$R1 1195
11 TraesCS1D01G389600 chr2A 16495982 16497189 1207 True 525.000000 525 75.139000 535 1766 1 chr2A.!!$R1 1231

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
290 301 0.385473 CGCAACAAAGTTAGCCCACG 60.385 55.0 0.0 0.0 0.0 4.94 F
331 716 0.395862 TCACTCCCTCCATCGACTCC 60.396 60.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1446 2024 2.596904 AATCGATTACAGTGTCCGGG 57.403 50.000 9.39 0.0 0.0 5.73 R
2298 3379 2.952310 AGAACAACAAAGGCTGAGAACC 59.048 45.455 0.00 0.0 0.0 3.62 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
127 137 9.809096 AAATATAGATTCATATCGTGGCTACTG 57.191 33.333 0.00 0.00 35.85 2.74
128 138 4.527509 AGATTCATATCGTGGCTACTGG 57.472 45.455 0.00 0.00 35.85 4.00
129 139 2.526304 TTCATATCGTGGCTACTGGC 57.474 50.000 0.00 0.00 40.90 4.85
130 140 1.704641 TCATATCGTGGCTACTGGCT 58.295 50.000 0.00 0.00 41.46 4.75
131 141 2.871453 TCATATCGTGGCTACTGGCTA 58.129 47.619 0.00 0.00 41.46 3.93
132 142 3.431415 TCATATCGTGGCTACTGGCTAT 58.569 45.455 0.00 0.00 41.46 2.97
133 143 4.595986 TCATATCGTGGCTACTGGCTATA 58.404 43.478 0.00 0.00 41.46 1.31
134 144 5.201243 TCATATCGTGGCTACTGGCTATAT 58.799 41.667 0.00 0.00 41.46 0.86
135 145 6.362248 TCATATCGTGGCTACTGGCTATATA 58.638 40.000 0.00 0.00 41.46 0.86
136 146 4.985538 ATCGTGGCTACTGGCTATATAC 57.014 45.455 0.00 0.00 41.46 1.47
137 147 4.030314 TCGTGGCTACTGGCTATATACT 57.970 45.455 0.00 0.00 41.46 2.12
138 148 4.008330 TCGTGGCTACTGGCTATATACTC 58.992 47.826 0.00 0.00 41.46 2.59
190 200 5.741011 ACAGTACAAACCGAATCACCATAT 58.259 37.500 0.00 0.00 0.00 1.78
191 201 5.584649 ACAGTACAAACCGAATCACCATATG 59.415 40.000 0.00 0.00 0.00 1.78
219 229 2.098443 GCAAACTGAACGGAAACTTGGA 59.902 45.455 0.00 0.00 0.00 3.53
290 301 0.385473 CGCAACAAAGTTAGCCCACG 60.385 55.000 0.00 0.00 0.00 4.94
293 678 1.535462 CAACAAAGTTAGCCCACGAGG 59.465 52.381 0.00 0.00 39.47 4.63
311 696 1.135094 GGCAGGATCCAGAATCTCCA 58.865 55.000 15.82 0.00 34.56 3.86
318 703 3.007831 GGATCCAGAATCTCCATCACTCC 59.992 52.174 6.95 0.00 34.56 3.85
323 708 2.022625 AGAATCTCCATCACTCCCTCCA 60.023 50.000 0.00 0.00 0.00 3.86
331 716 0.395862 TCACTCCCTCCATCGACTCC 60.396 60.000 0.00 0.00 0.00 3.85
336 721 0.687757 CCCTCCATCGACTCCTTCCA 60.688 60.000 0.00 0.00 0.00 3.53
367 759 2.431683 GGGAGTCAACTGCTGCCA 59.568 61.111 0.00 0.00 42.94 4.92
438 875 2.191109 GTTCACCACCACCACCGT 59.809 61.111 0.00 0.00 0.00 4.83
468 962 2.489275 GCACCACCACCACAACCAG 61.489 63.158 0.00 0.00 0.00 4.00
513 1013 2.857483 CACCACTACCATCACAACCAA 58.143 47.619 0.00 0.00 0.00 3.67
526 1032 1.380650 AACCAACACCACCACCACC 60.381 57.895 0.00 0.00 0.00 4.61
533 1039 1.077068 ACCACCACCACCACAACAG 60.077 57.895 0.00 0.00 0.00 3.16
583 1091 1.153188 CAGCGCCACCACCATATCA 60.153 57.895 2.29 0.00 0.00 2.15
904 1415 2.072487 GCTGGGGCCTCATGGACTA 61.072 63.158 5.29 0.00 42.43 2.59
910 1421 2.417516 CCTCATGGACTACCGCGG 59.582 66.667 26.86 26.86 39.42 6.46
1102 1650 1.216444 GTGGTCTGCATCTGCTCGA 59.784 57.895 3.53 0.00 42.66 4.04
1109 1657 3.257561 CATCTGCTCGAACCCGCG 61.258 66.667 0.00 0.00 35.37 6.46
1242 1798 1.818674 GGTTCCATTTACTGGCCTGTG 59.181 52.381 24.33 8.03 45.52 3.66
1256 1812 2.446994 TGTGGACGGTGAACCCCT 60.447 61.111 0.00 0.00 0.00 4.79
1515 2093 1.618640 GGTTCGCTCTCGACTTGCAC 61.619 60.000 0.00 0.00 45.43 4.57
1820 2409 5.609533 GGTATGAGCTAACCCTTACAAGA 57.390 43.478 0.00 0.00 0.00 3.02
1821 2410 5.358090 GGTATGAGCTAACCCTTACAAGAC 58.642 45.833 0.00 0.00 0.00 3.01
1822 2411 5.128991 GGTATGAGCTAACCCTTACAAGACT 59.871 44.000 0.00 0.00 0.00 3.24
1823 2412 4.537135 TGAGCTAACCCTTACAAGACTG 57.463 45.455 0.00 0.00 0.00 3.51
1824 2413 3.263261 GAGCTAACCCTTACAAGACTGC 58.737 50.000 0.00 0.00 0.00 4.40
1825 2414 2.907042 AGCTAACCCTTACAAGACTGCT 59.093 45.455 0.00 0.00 0.00 4.24
1826 2415 4.094476 AGCTAACCCTTACAAGACTGCTA 58.906 43.478 0.00 0.00 0.00 3.49
1827 2416 4.160626 AGCTAACCCTTACAAGACTGCTAG 59.839 45.833 0.00 0.00 0.00 3.42
1828 2417 4.081586 GCTAACCCTTACAAGACTGCTAGT 60.082 45.833 0.00 0.00 0.00 2.57
1829 2418 4.976540 AACCCTTACAAGACTGCTAGTT 57.023 40.909 0.00 0.00 0.00 2.24
1830 2419 4.538746 ACCCTTACAAGACTGCTAGTTC 57.461 45.455 0.00 0.00 0.00 3.01
1831 2420 4.161102 ACCCTTACAAGACTGCTAGTTCT 58.839 43.478 0.00 0.00 0.00 3.01
1832 2421 4.021016 ACCCTTACAAGACTGCTAGTTCTG 60.021 45.833 0.00 0.00 0.00 3.02
1833 2422 4.499183 CCTTACAAGACTGCTAGTTCTGG 58.501 47.826 0.00 0.00 0.00 3.86
1834 2423 4.220821 CCTTACAAGACTGCTAGTTCTGGA 59.779 45.833 0.00 0.00 0.00 3.86
1835 2424 5.279506 CCTTACAAGACTGCTAGTTCTGGAA 60.280 44.000 0.00 0.00 0.00 3.53
1836 2425 4.689612 ACAAGACTGCTAGTTCTGGAAA 57.310 40.909 0.00 0.00 0.00 3.13
1837 2426 4.636249 ACAAGACTGCTAGTTCTGGAAAG 58.364 43.478 0.00 0.00 0.00 2.62
1838 2427 4.101741 ACAAGACTGCTAGTTCTGGAAAGT 59.898 41.667 0.00 0.00 0.00 2.66
1839 2428 5.304614 ACAAGACTGCTAGTTCTGGAAAGTA 59.695 40.000 0.00 0.00 0.00 2.24
1840 2429 6.183360 ACAAGACTGCTAGTTCTGGAAAGTAA 60.183 38.462 0.00 0.00 0.00 2.24
1841 2430 6.613153 AGACTGCTAGTTCTGGAAAGTAAT 57.387 37.500 0.00 0.00 0.00 1.89
1842 2431 6.402222 AGACTGCTAGTTCTGGAAAGTAATG 58.598 40.000 0.00 0.00 0.00 1.90
2041 3109 8.623903 TGGAATAGTTCTGATATGTTGCATTTC 58.376 33.333 0.00 0.00 0.00 2.17
2243 3324 5.239306 AGTCTTCATCTTTGACGATGCAAAA 59.761 36.000 0.00 0.00 40.41 2.44
2260 3341 7.531534 CGATGCAAAATTTCTTGTTTTCCATTC 59.468 33.333 0.00 0.00 29.58 2.67
2332 3413 1.583404 GTTGTTCTTTGTTGCACGCAG 59.417 47.619 0.00 0.00 0.00 5.18
2333 3414 0.100325 TGTTCTTTGTTGCACGCAGG 59.900 50.000 0.00 0.00 0.00 4.85
2334 3415 0.594796 GTTCTTTGTTGCACGCAGGG 60.595 55.000 0.00 0.00 0.00 4.45
2335 3416 1.733402 TTCTTTGTTGCACGCAGGGG 61.733 55.000 0.00 0.00 0.00 4.79
2336 3417 3.211564 CTTTGTTGCACGCAGGGGG 62.212 63.158 0.00 0.00 0.00 5.40
2365 3446 8.843885 AATAATATAAACCGGCTTCTAAGTCC 57.156 34.615 0.00 0.00 0.00 3.85
2389 3470 8.303876 TCCTTAACTTCCTTTTGTTGAATATGC 58.696 33.333 0.00 0.00 0.00 3.14
2392 3473 5.942872 ACTTCCTTTTGTTGAATATGCTCG 58.057 37.500 0.00 0.00 0.00 5.03
2394 3475 3.128589 TCCTTTTGTTGAATATGCTCGCC 59.871 43.478 0.00 0.00 0.00 5.54
2399 3480 2.169561 TGTTGAATATGCTCGCCACCTA 59.830 45.455 0.00 0.00 0.00 3.08
2401 3482 2.833794 TGAATATGCTCGCCACCTAAC 58.166 47.619 0.00 0.00 0.00 2.34
2418 3501 3.325135 CCTAACTCATATGACCCTGACCC 59.675 52.174 0.00 0.00 0.00 4.46
2420 3503 3.136641 ACTCATATGACCCTGACCCTT 57.863 47.619 0.00 0.00 0.00 3.95
2425 3508 1.760405 ATGACCCTGACCCTTTCCTT 58.240 50.000 0.00 0.00 0.00 3.36
2452 3535 7.169645 ACAATATTTGTTGTTCATTGTGTCTGC 59.830 33.333 0.00 0.00 42.22 4.26
2455 3538 2.757314 TGTTGTTCATTGTGTCTGCCAA 59.243 40.909 0.00 0.00 0.00 4.52
2462 3545 3.827876 TCATTGTGTCTGCCAATTGTCAT 59.172 39.130 4.43 0.00 30.28 3.06
2470 3553 2.498481 CTGCCAATTGTCATGGGTGAAT 59.502 45.455 4.43 0.00 38.44 2.57
2474 3557 6.076653 TGCCAATTGTCATGGGTGAATATAT 58.923 36.000 4.43 0.00 38.44 0.86
2476 3559 7.176515 TGCCAATTGTCATGGGTGAATATATAC 59.823 37.037 4.43 0.00 38.44 1.47
2481 3564 7.722795 TGTCATGGGTGAATATATACAAACG 57.277 36.000 0.00 0.00 35.80 3.60
2482 3565 7.501844 TGTCATGGGTGAATATATACAAACGA 58.498 34.615 0.00 0.00 35.80 3.85
2483 3566 7.988028 TGTCATGGGTGAATATATACAAACGAA 59.012 33.333 0.00 0.00 35.80 3.85
2484 3567 8.999431 GTCATGGGTGAATATATACAAACGAAT 58.001 33.333 0.00 0.00 35.80 3.34
2522 3605 4.079558 AGGCATGAAACATACCCAGAATCT 60.080 41.667 0.00 0.00 0.00 2.40
2541 3624 3.620488 TCTTGAGGTTTGTGAAGCTGTT 58.380 40.909 0.00 0.00 43.27 3.16
2548 3631 4.646492 AGGTTTGTGAAGCTGTTGAAATCT 59.354 37.500 0.00 0.00 41.77 2.40
2551 3634 5.833406 TTGTGAAGCTGTTGAAATCTTGA 57.167 34.783 0.00 0.00 0.00 3.02
2554 3637 7.509141 TGTGAAGCTGTTGAAATCTTGATAA 57.491 32.000 0.00 0.00 0.00 1.75
2562 3645 8.348507 GCTGTTGAAATCTTGATAATCCTTAGG 58.651 37.037 0.00 0.00 0.00 2.69
2575 3658 2.893424 TCCTTAGGTACAACCGGACTT 58.107 47.619 9.46 0.00 44.90 3.01
2576 3659 3.242011 TCCTTAGGTACAACCGGACTTT 58.758 45.455 9.46 0.00 44.90 2.66
2577 3660 3.647590 TCCTTAGGTACAACCGGACTTTT 59.352 43.478 9.46 0.00 44.90 2.27
2581 3664 1.875514 GGTACAACCGGACTTTTGGAC 59.124 52.381 9.46 9.15 36.03 4.02
2587 3671 4.645588 ACAACCGGACTTTTGGACAAATAA 59.354 37.500 9.46 0.00 0.00 1.40
2588 3672 4.841443 ACCGGACTTTTGGACAAATAAC 57.159 40.909 9.46 0.00 0.00 1.89
2614 3698 9.224267 CCCCTTTTGATCATCATTATACTGTAG 57.776 37.037 0.00 0.00 0.00 2.74
2615 3699 8.725148 CCCTTTTGATCATCATTATACTGTAGC 58.275 37.037 0.00 0.00 0.00 3.58
2622 3706 8.859236 ATCATCATTATACTGTAGCAAAGCAT 57.141 30.769 0.00 0.00 0.00 3.79
2623 3707 8.091385 TCATCATTATACTGTAGCAAAGCATG 57.909 34.615 0.00 0.00 0.00 4.06
2624 3708 7.716560 TCATCATTATACTGTAGCAAAGCATGT 59.283 33.333 0.00 0.00 0.00 3.21
2625 3709 7.864108 TCATTATACTGTAGCAAAGCATGTT 57.136 32.000 0.00 0.00 0.00 2.71
2626 3710 8.956533 TCATTATACTGTAGCAAAGCATGTTA 57.043 30.769 0.00 0.00 0.00 2.41
2627 3711 9.559732 TCATTATACTGTAGCAAAGCATGTTAT 57.440 29.630 0.00 0.00 0.00 1.89
2628 3712 9.603298 CATTATACTGTAGCAAAGCATGTTATG 57.397 33.333 0.00 0.00 0.00 1.90
2629 3713 8.731275 TTATACTGTAGCAAAGCATGTTATGT 57.269 30.769 0.00 0.00 0.00 2.29
2630 3714 5.300969 ACTGTAGCAAAGCATGTTATGTG 57.699 39.130 0.00 0.00 0.00 3.21
2631 3715 4.761739 ACTGTAGCAAAGCATGTTATGTGT 59.238 37.500 0.00 0.00 0.00 3.72
2632 3716 5.937540 ACTGTAGCAAAGCATGTTATGTGTA 59.062 36.000 0.00 0.00 0.00 2.90
2633 3717 6.128282 ACTGTAGCAAAGCATGTTATGTGTAC 60.128 38.462 0.00 0.00 0.00 2.90
2634 3718 4.701956 AGCAAAGCATGTTATGTGTACC 57.298 40.909 0.00 0.00 0.00 3.34
2635 3719 4.078537 AGCAAAGCATGTTATGTGTACCA 58.921 39.130 0.00 0.00 0.00 3.25
2636 3720 4.706476 AGCAAAGCATGTTATGTGTACCAT 59.294 37.500 0.00 0.00 37.58 3.55
2637 3721 5.885352 AGCAAAGCATGTTATGTGTACCATA 59.115 36.000 0.00 0.00 34.86 2.74
2638 3722 6.547141 AGCAAAGCATGTTATGTGTACCATAT 59.453 34.615 0.00 0.00 35.96 1.78
2639 3723 6.857964 GCAAAGCATGTTATGTGTACCATATC 59.142 38.462 0.00 5.62 35.96 1.63
2640 3724 7.362662 CAAAGCATGTTATGTGTACCATATCC 58.637 38.462 0.00 1.97 35.96 2.59
2641 3725 6.439636 AGCATGTTATGTGTACCATATCCT 57.560 37.500 0.00 0.00 35.96 3.24
2642 3726 6.233434 AGCATGTTATGTGTACCATATCCTG 58.767 40.000 0.00 8.17 35.96 3.86
2643 3727 5.106555 GCATGTTATGTGTACCATATCCTGC 60.107 44.000 16.84 16.84 38.75 4.85
2644 3728 4.968259 TGTTATGTGTACCATATCCTGCC 58.032 43.478 5.29 0.00 35.96 4.85
2645 3729 4.658435 TGTTATGTGTACCATATCCTGCCT 59.342 41.667 5.29 0.00 35.96 4.75
2646 3730 5.131977 TGTTATGTGTACCATATCCTGCCTT 59.868 40.000 5.29 0.00 35.96 4.35
2647 3731 4.796110 ATGTGTACCATATCCTGCCTTT 57.204 40.909 0.00 0.00 29.82 3.11
2648 3732 4.584638 TGTGTACCATATCCTGCCTTTT 57.415 40.909 0.00 0.00 0.00 2.27
2649 3733 5.702065 TGTGTACCATATCCTGCCTTTTA 57.298 39.130 0.00 0.00 0.00 1.52
2650 3734 6.260700 TGTGTACCATATCCTGCCTTTTAT 57.739 37.500 0.00 0.00 0.00 1.40
2651 3735 6.668645 TGTGTACCATATCCTGCCTTTTATT 58.331 36.000 0.00 0.00 0.00 1.40
2652 3736 6.770785 TGTGTACCATATCCTGCCTTTTATTC 59.229 38.462 0.00 0.00 0.00 1.75
2653 3737 6.998673 GTGTACCATATCCTGCCTTTTATTCT 59.001 38.462 0.00 0.00 0.00 2.40
2654 3738 6.998074 TGTACCATATCCTGCCTTTTATTCTG 59.002 38.462 0.00 0.00 0.00 3.02
2655 3739 6.018433 ACCATATCCTGCCTTTTATTCTGT 57.982 37.500 0.00 0.00 0.00 3.41
2656 3740 7.149202 ACCATATCCTGCCTTTTATTCTGTA 57.851 36.000 0.00 0.00 0.00 2.74
2657 3741 7.227156 ACCATATCCTGCCTTTTATTCTGTAG 58.773 38.462 0.00 0.00 0.00 2.74
2658 3742 7.147302 ACCATATCCTGCCTTTTATTCTGTAGT 60.147 37.037 0.00 0.00 0.00 2.73
2659 3743 7.173907 CCATATCCTGCCTTTTATTCTGTAGTG 59.826 40.741 0.00 0.00 0.00 2.74
2660 3744 5.499004 TCCTGCCTTTTATTCTGTAGTGT 57.501 39.130 0.00 0.00 0.00 3.55
2661 3745 5.876357 TCCTGCCTTTTATTCTGTAGTGTT 58.124 37.500 0.00 0.00 0.00 3.32
2662 3746 5.938125 TCCTGCCTTTTATTCTGTAGTGTTC 59.062 40.000 0.00 0.00 0.00 3.18
2663 3747 5.705441 CCTGCCTTTTATTCTGTAGTGTTCA 59.295 40.000 0.00 0.00 0.00 3.18
2664 3748 6.375455 CCTGCCTTTTATTCTGTAGTGTTCAT 59.625 38.462 0.00 0.00 0.00 2.57
2665 3749 7.144722 TGCCTTTTATTCTGTAGTGTTCATG 57.855 36.000 0.00 0.00 0.00 3.07
2666 3750 6.030228 GCCTTTTATTCTGTAGTGTTCATGC 58.970 40.000 0.00 0.00 0.00 4.06
2667 3751 6.555315 CCTTTTATTCTGTAGTGTTCATGCC 58.445 40.000 0.00 0.00 0.00 4.40
2668 3752 6.375455 CCTTTTATTCTGTAGTGTTCATGCCT 59.625 38.462 0.00 0.00 0.00 4.75
2669 3753 6.741992 TTTATTCTGTAGTGTTCATGCCTG 57.258 37.500 0.00 0.00 0.00 4.85
2670 3754 3.769739 TTCTGTAGTGTTCATGCCTGT 57.230 42.857 0.00 0.00 0.00 4.00
2671 3755 3.319137 TCTGTAGTGTTCATGCCTGTC 57.681 47.619 0.00 0.00 0.00 3.51
2672 3756 2.632512 TCTGTAGTGTTCATGCCTGTCA 59.367 45.455 0.00 0.00 0.00 3.58
2673 3757 2.998670 CTGTAGTGTTCATGCCTGTCAG 59.001 50.000 0.00 0.00 0.00 3.51
2674 3758 2.368548 TGTAGTGTTCATGCCTGTCAGT 59.631 45.455 0.00 0.00 0.00 3.41
2675 3759 2.175878 AGTGTTCATGCCTGTCAGTC 57.824 50.000 0.00 0.00 0.00 3.51
2676 3760 0.792640 GTGTTCATGCCTGTCAGTCG 59.207 55.000 0.00 0.00 0.00 4.18
2677 3761 0.392706 TGTTCATGCCTGTCAGTCGT 59.607 50.000 0.00 0.00 0.00 4.34
2678 3762 0.792640 GTTCATGCCTGTCAGTCGTG 59.207 55.000 0.00 0.00 0.00 4.35
2679 3763 0.950555 TTCATGCCTGTCAGTCGTGC 60.951 55.000 0.00 0.00 0.00 5.34
2680 3764 1.375140 CATGCCTGTCAGTCGTGCT 60.375 57.895 0.00 0.00 0.00 4.40
2681 3765 0.108662 CATGCCTGTCAGTCGTGCTA 60.109 55.000 0.00 0.00 0.00 3.49
2682 3766 0.826715 ATGCCTGTCAGTCGTGCTAT 59.173 50.000 0.00 0.00 0.00 2.97
2683 3767 0.173481 TGCCTGTCAGTCGTGCTATC 59.827 55.000 0.00 0.00 0.00 2.08
2684 3768 0.173481 GCCTGTCAGTCGTGCTATCA 59.827 55.000 0.00 0.00 0.00 2.15
2685 3769 1.202463 GCCTGTCAGTCGTGCTATCAT 60.202 52.381 0.00 0.00 0.00 2.45
2686 3770 2.034685 GCCTGTCAGTCGTGCTATCATA 59.965 50.000 0.00 0.00 0.00 2.15
2687 3771 3.305676 GCCTGTCAGTCGTGCTATCATAT 60.306 47.826 0.00 0.00 0.00 1.78
2688 3772 4.233005 CCTGTCAGTCGTGCTATCATATG 58.767 47.826 0.00 0.00 0.00 1.78
2689 3773 3.642705 TGTCAGTCGTGCTATCATATGC 58.357 45.455 0.00 0.00 0.00 3.14
2690 3774 2.989840 GTCAGTCGTGCTATCATATGCC 59.010 50.000 0.00 0.00 0.00 4.40
2691 3775 2.893489 TCAGTCGTGCTATCATATGCCT 59.107 45.455 0.00 0.00 0.00 4.75
2692 3776 3.321968 TCAGTCGTGCTATCATATGCCTT 59.678 43.478 0.00 0.00 0.00 4.35
2693 3777 4.060900 CAGTCGTGCTATCATATGCCTTT 58.939 43.478 0.00 0.00 0.00 3.11
2694 3778 5.010617 TCAGTCGTGCTATCATATGCCTTTA 59.989 40.000 0.00 0.00 0.00 1.85
2695 3779 5.347093 CAGTCGTGCTATCATATGCCTTTAG 59.653 44.000 0.00 0.00 0.00 1.85
2696 3780 5.011125 AGTCGTGCTATCATATGCCTTTAGT 59.989 40.000 0.00 0.00 0.00 2.24
2697 3781 5.696724 GTCGTGCTATCATATGCCTTTAGTT 59.303 40.000 0.00 0.00 0.00 2.24
2698 3782 5.696270 TCGTGCTATCATATGCCTTTAGTTG 59.304 40.000 0.00 0.00 0.00 3.16
2699 3783 5.696270 CGTGCTATCATATGCCTTTAGTTGA 59.304 40.000 0.00 0.00 0.00 3.18
2700 3784 6.128715 CGTGCTATCATATGCCTTTAGTTGAG 60.129 42.308 0.00 0.00 0.00 3.02
2701 3785 6.708054 GTGCTATCATATGCCTTTAGTTGAGT 59.292 38.462 0.00 0.00 0.00 3.41
2702 3786 7.227512 GTGCTATCATATGCCTTTAGTTGAGTT 59.772 37.037 0.00 0.00 0.00 3.01
2703 3787 7.227314 TGCTATCATATGCCTTTAGTTGAGTTG 59.773 37.037 0.00 0.00 0.00 3.16
2704 3788 6.949352 ATCATATGCCTTTAGTTGAGTTGG 57.051 37.500 0.00 0.00 0.00 3.77
2705 3789 5.192927 TCATATGCCTTTAGTTGAGTTGGG 58.807 41.667 0.00 0.00 0.00 4.12
2706 3790 3.806949 ATGCCTTTAGTTGAGTTGGGA 57.193 42.857 0.00 0.00 0.00 4.37
2707 3791 3.140325 TGCCTTTAGTTGAGTTGGGAG 57.860 47.619 0.00 0.00 0.00 4.30
2708 3792 2.441750 TGCCTTTAGTTGAGTTGGGAGT 59.558 45.455 0.00 0.00 0.00 3.85
2709 3793 3.649023 TGCCTTTAGTTGAGTTGGGAGTA 59.351 43.478 0.00 0.00 0.00 2.59
2710 3794 4.001652 GCCTTTAGTTGAGTTGGGAGTAC 58.998 47.826 0.00 0.00 0.00 2.73
2711 3795 4.576879 CCTTTAGTTGAGTTGGGAGTACC 58.423 47.826 0.00 0.00 40.81 3.34
2712 3796 4.286291 CCTTTAGTTGAGTTGGGAGTACCT 59.714 45.833 0.00 0.00 41.11 3.08
2713 3797 5.479124 TTTAGTTGAGTTGGGAGTACCTC 57.521 43.478 0.00 0.00 41.11 3.85
2714 3798 2.972348 AGTTGAGTTGGGAGTACCTCA 58.028 47.619 0.00 0.00 41.11 3.86
2715 3799 3.521727 AGTTGAGTTGGGAGTACCTCAT 58.478 45.455 0.00 0.00 41.11 2.90
2716 3800 3.910627 AGTTGAGTTGGGAGTACCTCATT 59.089 43.478 0.00 0.00 41.11 2.57
2717 3801 4.020128 AGTTGAGTTGGGAGTACCTCATTC 60.020 45.833 0.00 0.00 41.11 2.67
2718 3802 3.516586 TGAGTTGGGAGTACCTCATTCA 58.483 45.455 0.00 0.00 41.11 2.57
2719 3803 3.515502 TGAGTTGGGAGTACCTCATTCAG 59.484 47.826 0.00 0.00 41.11 3.02
2720 3804 2.237392 AGTTGGGAGTACCTCATTCAGC 59.763 50.000 0.00 0.00 41.11 4.26
2721 3805 1.951209 TGGGAGTACCTCATTCAGCA 58.049 50.000 0.00 0.00 41.11 4.41
2722 3806 2.265367 TGGGAGTACCTCATTCAGCAA 58.735 47.619 0.00 0.00 41.11 3.91
2723 3807 2.642311 TGGGAGTACCTCATTCAGCAAA 59.358 45.455 0.00 0.00 41.11 3.68
2724 3808 3.010420 GGGAGTACCTCATTCAGCAAAC 58.990 50.000 0.00 0.00 35.85 2.93
2725 3809 3.559171 GGGAGTACCTCATTCAGCAAACA 60.559 47.826 0.00 0.00 35.85 2.83
2726 3810 3.686726 GGAGTACCTCATTCAGCAAACAG 59.313 47.826 0.00 0.00 31.08 3.16
2727 3811 4.319177 GAGTACCTCATTCAGCAAACAGT 58.681 43.478 0.00 0.00 0.00 3.55
2728 3812 5.479306 GAGTACCTCATTCAGCAAACAGTA 58.521 41.667 0.00 0.00 0.00 2.74
2729 3813 5.865085 AGTACCTCATTCAGCAAACAGTAA 58.135 37.500 0.00 0.00 0.00 2.24
2730 3814 6.296026 AGTACCTCATTCAGCAAACAGTAAA 58.704 36.000 0.00 0.00 0.00 2.01
2731 3815 6.942576 AGTACCTCATTCAGCAAACAGTAAAT 59.057 34.615 0.00 0.00 0.00 1.40
2732 3816 6.259550 ACCTCATTCAGCAAACAGTAAATC 57.740 37.500 0.00 0.00 0.00 2.17
2733 3817 6.006449 ACCTCATTCAGCAAACAGTAAATCT 58.994 36.000 0.00 0.00 0.00 2.40
2746 3830 4.832248 CAGTAAATCTGCTAGGTGGTTCA 58.168 43.478 0.00 0.00 37.36 3.18
2747 3831 4.872691 CAGTAAATCTGCTAGGTGGTTCAG 59.127 45.833 0.00 0.00 37.36 3.02
2748 3832 2.409948 AATCTGCTAGGTGGTTCAGC 57.590 50.000 0.00 0.00 35.82 4.26
2749 3833 1.279496 ATCTGCTAGGTGGTTCAGCA 58.721 50.000 0.00 0.00 42.77 4.41
2750 3834 0.321671 TCTGCTAGGTGGTTCAGCAC 59.678 55.000 0.24 0.24 40.26 4.40
2751 3835 0.035317 CTGCTAGGTGGTTCAGCACA 59.965 55.000 11.09 0.00 40.26 4.57
2752 3836 0.472044 TGCTAGGTGGTTCAGCACAA 59.528 50.000 11.09 0.00 40.26 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 7.147976 GGAATATTGCATATTTGGAGTCCAAC 58.852 38.462 24.52 12.84 43.82 3.77
113 123 6.366340 AGTATATAGCCAGTAGCCACGATAT 58.634 40.000 0.00 0.00 45.47 1.63
117 127 3.128938 GGAGTATATAGCCAGTAGCCACG 59.871 52.174 0.00 0.00 45.47 4.94
126 136 9.393786 AGGAAGAAAATTAGGAGTATATAGCCA 57.606 33.333 4.79 0.00 0.00 4.75
169 179 5.984725 TCATATGGTGATTCGGTTTGTACT 58.015 37.500 2.13 0.00 0.00 2.73
190 200 1.021202 CGTTCAGTTTGCAGGGTTCA 58.979 50.000 0.00 0.00 0.00 3.18
191 201 0.310854 CCGTTCAGTTTGCAGGGTTC 59.689 55.000 0.00 0.00 0.00 3.62
290 301 1.347378 GGAGATTCTGGATCCTGCCTC 59.653 57.143 14.23 16.99 35.21 4.70
293 678 2.371179 TGATGGAGATTCTGGATCCTGC 59.629 50.000 14.23 0.00 35.21 4.85
311 696 1.698506 GAGTCGATGGAGGGAGTGAT 58.301 55.000 0.00 0.00 0.00 3.06
318 703 0.461961 GTGGAAGGAGTCGATGGAGG 59.538 60.000 0.00 0.00 0.00 4.30
323 708 1.038130 CGGGAGTGGAAGGAGTCGAT 61.038 60.000 0.00 0.00 0.00 3.59
331 716 0.745845 CCATTGCTCGGGAGTGGAAG 60.746 60.000 0.00 0.00 37.12 3.46
396 788 4.636435 ACGGGGGTTTCGCTGGTG 62.636 66.667 0.00 0.00 36.62 4.17
397 789 4.324991 GACGGGGGTTTCGCTGGT 62.325 66.667 0.00 0.00 36.62 4.00
399 791 3.659089 ATCGACGGGGGTTTCGCTG 62.659 63.158 0.00 0.00 35.15 5.18
400 792 3.366739 GATCGACGGGGGTTTCGCT 62.367 63.158 0.00 0.00 35.15 4.93
401 793 2.889018 GATCGACGGGGGTTTCGC 60.889 66.667 0.00 0.00 35.15 4.70
423 845 3.918977 CGACGGTGGTGGTGGTGA 61.919 66.667 0.00 0.00 0.00 4.02
438 875 4.243008 TGGTGCTTCCGTTGGCGA 62.243 61.111 0.00 0.00 41.33 5.54
468 962 2.663196 CGGAGGTGGAGGTGGTTC 59.337 66.667 0.00 0.00 0.00 3.62
513 1013 1.379309 GTTGTGGTGGTGGTGGTGT 60.379 57.895 0.00 0.00 0.00 4.16
526 1032 1.063972 CGTGGTTGTGGCTGTTGTG 59.936 57.895 0.00 0.00 0.00 3.33
563 1069 3.420206 ATATGGTGGTGGCGCTGGG 62.420 63.158 7.64 0.00 0.00 4.45
583 1091 1.668101 GGTCGTCTTCGCTGAGGGAT 61.668 60.000 0.00 0.00 36.96 3.85
910 1421 1.536943 CCATAGGAGGAGGTAGCCGC 61.537 65.000 0.00 0.00 0.00 6.53
1256 1812 3.450578 GCCGTGTTTATCCTAATCGTGA 58.549 45.455 0.00 0.00 0.00 4.35
1446 2024 2.596904 AATCGATTACAGTGTCCGGG 57.403 50.000 9.39 0.00 0.00 5.73
1812 2401 5.392767 TCCAGAACTAGCAGTCTTGTAAG 57.607 43.478 0.00 0.00 0.00 2.34
1813 2402 5.801531 TTCCAGAACTAGCAGTCTTGTAA 57.198 39.130 0.00 0.00 0.00 2.41
1814 2403 5.304614 ACTTTCCAGAACTAGCAGTCTTGTA 59.695 40.000 0.00 0.00 0.00 2.41
1815 2404 4.101741 ACTTTCCAGAACTAGCAGTCTTGT 59.898 41.667 0.00 0.00 0.00 3.16
1816 2405 4.636249 ACTTTCCAGAACTAGCAGTCTTG 58.364 43.478 0.00 0.00 0.00 3.02
1817 2406 4.965200 ACTTTCCAGAACTAGCAGTCTT 57.035 40.909 0.00 0.00 0.00 3.01
1818 2407 6.402222 CATTACTTTCCAGAACTAGCAGTCT 58.598 40.000 0.00 0.00 0.00 3.24
1819 2408 5.582665 CCATTACTTTCCAGAACTAGCAGTC 59.417 44.000 0.00 0.00 0.00 3.51
1820 2409 5.013183 ACCATTACTTTCCAGAACTAGCAGT 59.987 40.000 0.00 0.00 0.00 4.40
1821 2410 5.491982 ACCATTACTTTCCAGAACTAGCAG 58.508 41.667 0.00 0.00 0.00 4.24
1822 2411 5.499004 ACCATTACTTTCCAGAACTAGCA 57.501 39.130 0.00 0.00 0.00 3.49
1823 2412 8.507524 AATAACCATTACTTTCCAGAACTAGC 57.492 34.615 0.00 0.00 0.00 3.42
1840 2429 9.407380 TGCATCAACAGAGTAATTAATAACCAT 57.593 29.630 0.00 0.00 0.00 3.55
1841 2430 8.800370 TGCATCAACAGAGTAATTAATAACCA 57.200 30.769 0.00 0.00 0.00 3.67
1876 2466 6.014327 ACAATCCAGGTTTCAATGCTAAACAT 60.014 34.615 0.00 0.00 42.30 2.71
1878 2468 5.783111 ACAATCCAGGTTTCAATGCTAAAC 58.217 37.500 0.00 0.00 36.34 2.01
2041 3109 3.350219 TTAGTCAAAAGGCCTAGCAGG 57.650 47.619 5.16 0.00 38.80 4.85
2077 3156 6.744112 TCAATAAATGACCAACTTGAACACC 58.256 36.000 0.00 0.00 31.50 4.16
2084 3163 9.750125 GTTTTTCTCTCAATAAATGACCAACTT 57.250 29.630 0.00 0.00 33.47 2.66
2156 3235 6.748658 ACATATGCATGTTCGAAAGTTCATTG 59.251 34.615 10.16 6.06 42.98 2.82
2226 3307 6.925165 ACAAGAAATTTTGCATCGTCAAAGAT 59.075 30.769 0.00 0.00 37.27 2.40
2243 3324 7.012610 CAGCAAAAGGAATGGAAAACAAGAAAT 59.987 33.333 0.00 0.00 0.00 2.17
2260 3341 3.655276 AAGAGATTGTGCAGCAAAAGG 57.345 42.857 3.88 0.00 40.91 3.11
2265 3346 5.241285 TCAAACATTAAGAGATTGTGCAGCA 59.759 36.000 0.00 0.00 0.00 4.41
2266 3347 5.702865 TCAAACATTAAGAGATTGTGCAGC 58.297 37.500 0.00 0.00 0.00 5.25
2298 3379 2.952310 AGAACAACAAAGGCTGAGAACC 59.048 45.455 0.00 0.00 0.00 3.62
2333 3414 3.949754 GCCGGTTTATATTATTAGCCCCC 59.050 47.826 1.90 0.00 0.00 5.40
2334 3415 4.851843 AGCCGGTTTATATTATTAGCCCC 58.148 43.478 1.90 0.00 0.00 5.80
2335 3416 6.178324 AGAAGCCGGTTTATATTATTAGCCC 58.822 40.000 2.48 0.00 0.00 5.19
2336 3417 8.782339 TTAGAAGCCGGTTTATATTATTAGCC 57.218 34.615 2.48 0.00 0.00 3.93
2337 3418 9.433153 ACTTAGAAGCCGGTTTATATTATTAGC 57.567 33.333 2.48 0.00 0.00 3.09
2339 3420 9.933723 GGACTTAGAAGCCGGTTTATATTATTA 57.066 33.333 2.48 0.00 0.00 0.98
2340 3421 8.657712 AGGACTTAGAAGCCGGTTTATATTATT 58.342 33.333 2.48 0.00 0.00 1.40
2341 3422 8.203681 AGGACTTAGAAGCCGGTTTATATTAT 57.796 34.615 2.48 0.00 0.00 1.28
2342 3423 7.607615 AGGACTTAGAAGCCGGTTTATATTA 57.392 36.000 2.48 0.00 0.00 0.98
2343 3424 6.496144 AGGACTTAGAAGCCGGTTTATATT 57.504 37.500 2.48 0.00 0.00 1.28
2344 3425 6.496144 AAGGACTTAGAAGCCGGTTTATAT 57.504 37.500 2.48 0.00 0.00 0.86
2345 3426 5.945144 AAGGACTTAGAAGCCGGTTTATA 57.055 39.130 2.48 1.55 0.00 0.98
2351 3432 3.889520 AGTTAAGGACTTAGAAGCCGG 57.110 47.619 0.00 0.00 33.92 6.13
2365 3446 9.346725 GAGCATATTCAACAAAAGGAAGTTAAG 57.653 33.333 0.00 0.00 0.00 1.85
2389 3470 3.553096 GGTCATATGAGTTAGGTGGCGAG 60.553 52.174 5.42 0.00 0.00 5.03
2392 3473 2.706190 AGGGTCATATGAGTTAGGTGGC 59.294 50.000 5.42 0.00 0.00 5.01
2394 3475 4.202264 GGTCAGGGTCATATGAGTTAGGTG 60.202 50.000 5.42 0.00 0.00 4.00
2399 3480 3.136641 AGGGTCAGGGTCATATGAGTT 57.863 47.619 5.42 0.00 0.00 3.01
2401 3482 3.181450 GGAAAGGGTCAGGGTCATATGAG 60.181 52.174 5.42 0.00 0.00 2.90
2425 3508 9.676195 CAGACACAATGAACAACAAATATTGTA 57.324 29.630 0.00 0.00 44.59 2.41
2449 3532 1.548081 TCACCCATGACAATTGGCAG 58.452 50.000 20.69 8.82 35.91 4.85
2452 3535 8.634335 TGTATATATTCACCCATGACAATTGG 57.366 34.615 10.83 0.00 33.38 3.16
2455 3538 8.783093 CGTTTGTATATATTCACCCATGACAAT 58.217 33.333 0.00 0.00 33.38 2.71
2474 3557 9.516314 CTATCACATCTGTCTAATTCGTTTGTA 57.484 33.333 0.00 0.00 0.00 2.41
2476 3559 7.517417 GCCTATCACATCTGTCTAATTCGTTTG 60.517 40.741 0.00 0.00 0.00 2.93
2479 3562 5.069119 TGCCTATCACATCTGTCTAATTCGT 59.931 40.000 0.00 0.00 0.00 3.85
2480 3563 5.532557 TGCCTATCACATCTGTCTAATTCG 58.467 41.667 0.00 0.00 0.00 3.34
2481 3564 7.157347 TCATGCCTATCACATCTGTCTAATTC 58.843 38.462 0.00 0.00 0.00 2.17
2482 3565 7.071069 TCATGCCTATCACATCTGTCTAATT 57.929 36.000 0.00 0.00 0.00 1.40
2483 3566 6.676990 TCATGCCTATCACATCTGTCTAAT 57.323 37.500 0.00 0.00 0.00 1.73
2484 3567 6.484364 TTCATGCCTATCACATCTGTCTAA 57.516 37.500 0.00 0.00 0.00 2.10
2522 3605 3.351740 TCAACAGCTTCACAAACCTCAA 58.648 40.909 0.00 0.00 0.00 3.02
2548 3631 5.662208 TCCGGTTGTACCTAAGGATTATCAA 59.338 40.000 0.00 0.00 35.66 2.57
2551 3634 5.214293 AGTCCGGTTGTACCTAAGGATTAT 58.786 41.667 0.00 0.00 35.66 1.28
2554 3637 3.111741 AGTCCGGTTGTACCTAAGGAT 57.888 47.619 0.00 0.00 35.66 3.24
2562 3645 2.563702 TGTCCAAAAGTCCGGTTGTAC 58.436 47.619 0.00 0.00 0.00 2.90
2575 3658 6.327626 TGATCAAAAGGGGTTATTTGTCCAAA 59.672 34.615 0.00 0.00 37.68 3.28
2576 3659 5.841237 TGATCAAAAGGGGTTATTTGTCCAA 59.159 36.000 0.00 0.00 37.68 3.53
2577 3660 5.398236 TGATCAAAAGGGGTTATTTGTCCA 58.602 37.500 0.00 0.00 37.68 4.02
2587 3671 7.586349 ACAGTATAATGATGATCAAAAGGGGT 58.414 34.615 7.27 0.00 0.00 4.95
2588 3672 9.224267 CTACAGTATAATGATGATCAAAAGGGG 57.776 37.037 7.27 0.00 0.00 4.79
2614 3698 4.433186 TGGTACACATAACATGCTTTGC 57.567 40.909 0.00 0.00 0.00 3.68
2630 3714 6.998673 ACAGAATAAAAGGCAGGATATGGTAC 59.001 38.462 0.00 0.00 0.00 3.34
2631 3715 7.149202 ACAGAATAAAAGGCAGGATATGGTA 57.851 36.000 0.00 0.00 0.00 3.25
2632 3716 6.018433 ACAGAATAAAAGGCAGGATATGGT 57.982 37.500 0.00 0.00 0.00 3.55
2633 3717 7.173907 CACTACAGAATAAAAGGCAGGATATGG 59.826 40.741 0.00 0.00 0.00 2.74
2634 3718 7.716998 ACACTACAGAATAAAAGGCAGGATATG 59.283 37.037 0.00 0.00 0.00 1.78
2635 3719 7.806180 ACACTACAGAATAAAAGGCAGGATAT 58.194 34.615 0.00 0.00 0.00 1.63
2636 3720 7.195374 ACACTACAGAATAAAAGGCAGGATA 57.805 36.000 0.00 0.00 0.00 2.59
2637 3721 6.067217 ACACTACAGAATAAAAGGCAGGAT 57.933 37.500 0.00 0.00 0.00 3.24
2638 3722 5.499004 ACACTACAGAATAAAAGGCAGGA 57.501 39.130 0.00 0.00 0.00 3.86
2639 3723 5.705441 TGAACACTACAGAATAAAAGGCAGG 59.295 40.000 0.00 0.00 0.00 4.85
2640 3724 6.801539 TGAACACTACAGAATAAAAGGCAG 57.198 37.500 0.00 0.00 0.00 4.85
2641 3725 6.349280 GCATGAACACTACAGAATAAAAGGCA 60.349 38.462 0.00 0.00 0.00 4.75
2642 3726 6.030228 GCATGAACACTACAGAATAAAAGGC 58.970 40.000 0.00 0.00 0.00 4.35
2643 3727 6.375455 AGGCATGAACACTACAGAATAAAAGG 59.625 38.462 0.00 0.00 0.00 3.11
2644 3728 7.094634 ACAGGCATGAACACTACAGAATAAAAG 60.095 37.037 4.84 0.00 0.00 2.27
2645 3729 6.714810 ACAGGCATGAACACTACAGAATAAAA 59.285 34.615 4.84 0.00 0.00 1.52
2646 3730 6.237901 ACAGGCATGAACACTACAGAATAAA 58.762 36.000 4.84 0.00 0.00 1.40
2647 3731 5.804639 ACAGGCATGAACACTACAGAATAA 58.195 37.500 4.84 0.00 0.00 1.40
2648 3732 5.046663 TGACAGGCATGAACACTACAGAATA 60.047 40.000 4.84 0.00 0.00 1.75
2649 3733 4.256920 GACAGGCATGAACACTACAGAAT 58.743 43.478 4.84 0.00 0.00 2.40
2650 3734 3.070878 TGACAGGCATGAACACTACAGAA 59.929 43.478 4.84 0.00 0.00 3.02
2651 3735 2.632512 TGACAGGCATGAACACTACAGA 59.367 45.455 4.84 0.00 0.00 3.41
2652 3736 2.998670 CTGACAGGCATGAACACTACAG 59.001 50.000 4.84 0.00 0.00 2.74
2653 3737 2.368548 ACTGACAGGCATGAACACTACA 59.631 45.455 4.84 0.00 0.00 2.74
2654 3738 2.996621 GACTGACAGGCATGAACACTAC 59.003 50.000 4.84 0.00 0.00 2.73
2655 3739 2.352715 CGACTGACAGGCATGAACACTA 60.353 50.000 9.48 0.00 0.00 2.74
2656 3740 1.606480 CGACTGACAGGCATGAACACT 60.606 52.381 9.48 0.00 0.00 3.55
2657 3741 0.792640 CGACTGACAGGCATGAACAC 59.207 55.000 9.48 0.00 0.00 3.32
2658 3742 0.392706 ACGACTGACAGGCATGAACA 59.607 50.000 9.48 4.05 0.00 3.18
2659 3743 0.792640 CACGACTGACAGGCATGAAC 59.207 55.000 9.48 0.00 0.00 3.18
2660 3744 0.950555 GCACGACTGACAGGCATGAA 60.951 55.000 8.95 0.00 0.00 2.57
2661 3745 1.374631 GCACGACTGACAGGCATGA 60.375 57.895 8.95 0.00 0.00 3.07
2662 3746 0.108662 TAGCACGACTGACAGGCATG 60.109 55.000 9.48 4.16 0.00 4.06
2663 3747 0.826715 ATAGCACGACTGACAGGCAT 59.173 50.000 9.48 0.00 0.00 4.40
2664 3748 0.173481 GATAGCACGACTGACAGGCA 59.827 55.000 9.48 0.00 0.00 4.75
2665 3749 0.173481 TGATAGCACGACTGACAGGC 59.827 55.000 7.51 1.93 0.00 4.85
2666 3750 2.879002 ATGATAGCACGACTGACAGG 57.121 50.000 7.51 0.00 0.00 4.00
2667 3751 3.672397 GCATATGATAGCACGACTGACAG 59.328 47.826 6.97 0.00 0.00 3.51
2668 3752 3.552890 GGCATATGATAGCACGACTGACA 60.553 47.826 6.97 0.00 0.00 3.58
2669 3753 2.989840 GGCATATGATAGCACGACTGAC 59.010 50.000 6.97 0.00 0.00 3.51
2670 3754 2.893489 AGGCATATGATAGCACGACTGA 59.107 45.455 6.97 0.00 0.00 3.41
2671 3755 3.309961 AGGCATATGATAGCACGACTG 57.690 47.619 6.97 0.00 0.00 3.51
2672 3756 4.342862 AAAGGCATATGATAGCACGACT 57.657 40.909 6.97 0.00 0.00 4.18
2673 3757 5.230942 ACTAAAGGCATATGATAGCACGAC 58.769 41.667 6.97 0.00 0.00 4.34
2674 3758 5.468540 ACTAAAGGCATATGATAGCACGA 57.531 39.130 6.97 0.00 0.00 4.35
2675 3759 5.696270 TCAACTAAAGGCATATGATAGCACG 59.304 40.000 6.97 0.00 0.00 5.34
2676 3760 6.708054 ACTCAACTAAAGGCATATGATAGCAC 59.292 38.462 6.97 0.00 0.00 4.40
2677 3761 6.830912 ACTCAACTAAAGGCATATGATAGCA 58.169 36.000 6.97 0.00 0.00 3.49
2678 3762 7.308229 CCAACTCAACTAAAGGCATATGATAGC 60.308 40.741 6.97 0.00 0.00 2.97
2679 3763 7.173907 CCCAACTCAACTAAAGGCATATGATAG 59.826 40.741 6.97 5.46 0.00 2.08
2680 3764 6.998074 CCCAACTCAACTAAAGGCATATGATA 59.002 38.462 6.97 0.00 0.00 2.15
2681 3765 5.829924 CCCAACTCAACTAAAGGCATATGAT 59.170 40.000 6.97 0.00 0.00 2.45
2682 3766 5.045213 TCCCAACTCAACTAAAGGCATATGA 60.045 40.000 6.97 0.00 0.00 2.15
2683 3767 5.192927 TCCCAACTCAACTAAAGGCATATG 58.807 41.667 0.00 0.00 0.00 1.78
2684 3768 5.044846 ACTCCCAACTCAACTAAAGGCATAT 60.045 40.000 0.00 0.00 0.00 1.78
2685 3769 4.288626 ACTCCCAACTCAACTAAAGGCATA 59.711 41.667 0.00 0.00 0.00 3.14
2686 3770 3.074538 ACTCCCAACTCAACTAAAGGCAT 59.925 43.478 0.00 0.00 0.00 4.40
2687 3771 2.441750 ACTCCCAACTCAACTAAAGGCA 59.558 45.455 0.00 0.00 0.00 4.75
2688 3772 3.141767 ACTCCCAACTCAACTAAAGGC 57.858 47.619 0.00 0.00 0.00 4.35
2689 3773 4.286291 AGGTACTCCCAACTCAACTAAAGG 59.714 45.833 0.00 0.00 34.66 3.11
2690 3774 5.485209 AGGTACTCCCAACTCAACTAAAG 57.515 43.478 0.00 0.00 34.66 1.85
2707 3791 6.554334 TTTACTGTTTGCTGAATGAGGTAC 57.446 37.500 0.00 0.00 0.00 3.34
2708 3792 7.119699 CAGATTTACTGTTTGCTGAATGAGGTA 59.880 37.037 0.00 0.00 41.30 3.08
2709 3793 6.006449 AGATTTACTGTTTGCTGAATGAGGT 58.994 36.000 0.00 0.00 0.00 3.85
2710 3794 6.320171 CAGATTTACTGTTTGCTGAATGAGG 58.680 40.000 0.00 0.00 41.30 3.86
2725 3809 4.624125 GCTGAACCACCTAGCAGATTTACT 60.624 45.833 0.00 0.00 37.40 2.24
2726 3810 3.623510 GCTGAACCACCTAGCAGATTTAC 59.376 47.826 0.00 0.00 37.40 2.01
2727 3811 3.263170 TGCTGAACCACCTAGCAGATTTA 59.737 43.478 0.00 0.00 42.05 1.40
2728 3812 2.040278 TGCTGAACCACCTAGCAGATTT 59.960 45.455 0.00 0.00 42.05 2.17
2729 3813 1.630369 TGCTGAACCACCTAGCAGATT 59.370 47.619 0.00 0.00 42.05 2.40
2730 3814 1.065854 GTGCTGAACCACCTAGCAGAT 60.066 52.381 0.00 0.00 46.91 2.90
2731 3815 0.321671 GTGCTGAACCACCTAGCAGA 59.678 55.000 0.00 0.00 46.91 4.26
2732 3816 0.035317 TGTGCTGAACCACCTAGCAG 59.965 55.000 0.00 0.00 46.91 4.24
2733 3817 0.472044 TTGTGCTGAACCACCTAGCA 59.528 50.000 0.00 0.00 44.45 3.49
2734 3818 3.322514 TTGTGCTGAACCACCTAGC 57.677 52.632 0.00 0.00 37.93 3.42


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

AutoCloner maintained by Alex Coulton.