Multiple sequence alignment - TraesCS4B01G230800

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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 TraesCS4B01G230800 chr4B 100.000 6199 0 0 1 6199 482136188 482142386 0.000000e+00 11448.0
1 TraesCS4B01G230800 chr4B 85.874 538 66 7 5670 6199 13369617 13369082 1.170000e-156 564.0
2 TraesCS4B01G230800 chr4B 80.581 654 110 13 5556 6199 610567970 610568616 7.220000e-134 488.0
3 TraesCS4B01G230800 chr4B 76.027 146 31 3 5561 5704 530502557 530502700 8.620000e-09 73.1
4 TraesCS4B01G230800 chr4D 93.341 2643 79 36 95 2697 392536398 392538983 0.000000e+00 3816.0
5 TraesCS4B01G230800 chr4D 95.692 2089 62 12 3312 5386 392540105 392542179 0.000000e+00 3334.0
6 TraesCS4B01G230800 chr4D 93.880 817 50 0 5383 6199 392542211 392543027 0.000000e+00 1232.0
7 TraesCS4B01G230800 chr4D 84.314 102 7 6 2859 2957 392539068 392539163 2.380000e-14 91.6
8 TraesCS4B01G230800 chr4D 94.231 52 3 0 2705 2756 392539013 392539064 5.150000e-11 80.5
9 TraesCS4B01G230800 chr4A 93.643 1400 34 17 569 1935 74008854 74010231 0.000000e+00 2041.0
10 TraesCS4B01G230800 chr4A 90.587 1466 75 19 2866 4308 74011039 74012464 0.000000e+00 1884.0
11 TraesCS4B01G230800 chr4A 91.627 1063 46 14 4338 5393 74012461 74013487 0.000000e+00 1430.0
12 TraesCS4B01G230800 chr4A 91.071 784 32 21 1993 2756 74010263 74011028 0.000000e+00 1026.0
13 TraesCS4B01G230800 chr4A 90.385 208 14 5 381 583 74008626 74008832 1.020000e-67 268.0
14 TraesCS4B01G230800 chr4A 78.676 408 68 6 1 394 74007959 74008361 2.870000e-63 254.0
15 TraesCS4B01G230800 chr2A 81.804 654 97 12 5557 6199 202051153 202051795 4.260000e-146 529.0
16 TraesCS4B01G230800 chr2A 85.075 67 6 4 2324 2388 53283798 53283862 1.440000e-06 65.8
17 TraesCS4B01G230800 chr7B 84.473 541 73 6 5669 6199 369093523 369094062 1.980000e-144 523.0
18 TraesCS4B01G230800 chr7B 81.356 118 19 3 3017 3133 505937429 505937314 6.620000e-15 93.5
19 TraesCS4B01G230800 chr5B 84.398 532 69 10 5670 6190 554645524 554646052 1.540000e-140 510.0
20 TraesCS4B01G230800 chr5B 90.157 254 23 2 1662 1915 409873321 409873572 4.630000e-86 329.0
21 TraesCS4B01G230800 chr5B 90.968 155 14 0 1454 1608 409873165 409873319 6.300000e-50 209.0
22 TraesCS4B01G230800 chr6D 83.729 547 76 7 5663 6199 451892058 451892601 7.170000e-139 505.0
23 TraesCS4B01G230800 chr6D 77.632 228 40 9 1650 1871 86014177 86014399 1.810000e-25 128.0
24 TraesCS4B01G230800 chr1A 80.974 657 104 15 5559 6199 124792926 124793577 9.280000e-138 501.0
25 TraesCS4B01G230800 chr2D 79.817 654 119 10 5557 6199 523731986 523732637 1.220000e-126 464.0
26 TraesCS4B01G230800 chr2D 78.906 128 15 9 2265 2388 52018134 52018253 6.660000e-10 76.8
27 TraesCS4B01G230800 chr5A 90.625 256 22 2 1662 1917 449255461 449255714 7.700000e-89 339.0
28 TraesCS4B01G230800 chr5A 90.323 155 15 0 1454 1608 449255305 449255459 2.930000e-48 204.0
29 TraesCS4B01G230800 chr5A 83.333 108 15 3 3027 3133 660831145 660831250 5.110000e-16 97.1
30 TraesCS4B01G230800 chr5D 90.157 254 23 2 1662 1915 349377398 349377649 4.630000e-86 329.0
31 TraesCS4B01G230800 chr5D 90.968 155 14 0 1454 1608 349377242 349377396 6.300000e-50 209.0
32 TraesCS4B01G230800 chr6A 78.866 194 37 3 1680 1871 103292207 103292398 1.810000e-25 128.0
33 TraesCS4B01G230800 chr6A 81.301 123 18 5 3016 3136 430338871 430338752 1.840000e-15 95.3
34 TraesCS4B01G230800 chr6A 81.356 118 19 3 3017 3133 27188934 27189049 6.620000e-15 93.5
35 TraesCS4B01G230800 chr6B 76.754 228 42 8 1650 1871 162622274 162622496 3.930000e-22 117.0
36 TraesCS4B01G230800 chr3D 80.000 160 21 9 2985 3135 170547104 170546947 2.360000e-19 108.0
37 TraesCS4B01G230800 chr7D 83.051 118 16 3 3017 3133 33102740 33102854 3.060000e-18 104.0
38 TraesCS4B01G230800 chr3A 83.051 118 16 4 3017 3133 549622908 549622794 3.060000e-18 104.0
39 TraesCS4B01G230800 chr7A 81.148 122 19 4 3017 3136 54675402 54675283 1.840000e-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 TraesCS4B01G230800 chr4B 482136188 482142386 6198 False 11448.00 11448 100.0000 1 6199 1 chr4B.!!$F1 6198
1 TraesCS4B01G230800 chr4B 13369082 13369617 535 True 564.00 564 85.8740 5670 6199 1 chr4B.!!$R1 529
2 TraesCS4B01G230800 chr4B 610567970 610568616 646 False 488.00 488 80.5810 5556 6199 1 chr4B.!!$F3 643
3 TraesCS4B01G230800 chr4D 392536398 392543027 6629 False 1710.82 3816 92.2916 95 6199 5 chr4D.!!$F1 6104
4 TraesCS4B01G230800 chr4A 74007959 74013487 5528 False 1150.50 2041 89.3315 1 5393 6 chr4A.!!$F1 5392
5 TraesCS4B01G230800 chr2A 202051153 202051795 642 False 529.00 529 81.8040 5557 6199 1 chr2A.!!$F2 642
6 TraesCS4B01G230800 chr7B 369093523 369094062 539 False 523.00 523 84.4730 5669 6199 1 chr7B.!!$F1 530
7 TraesCS4B01G230800 chr5B 554645524 554646052 528 False 510.00 510 84.3980 5670 6190 1 chr5B.!!$F1 520
8 TraesCS4B01G230800 chr6D 451892058 451892601 543 False 505.00 505 83.7290 5663 6199 1 chr6D.!!$F2 536
9 TraesCS4B01G230800 chr1A 124792926 124793577 651 False 501.00 501 80.9740 5559 6199 1 chr1A.!!$F1 640
10 TraesCS4B01G230800 chr2D 523731986 523732637 651 False 464.00 464 79.8170 5557 6199 1 chr2D.!!$F2 642

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
883 1241 0.402861 TTTTCACCCTCACCCCCTCT 60.403 55.0 0.00 0.00 0.00 3.69 F
2764 3193 0.171903 GGTTCTTAGCTACCACGCGA 59.828 55.0 15.93 0.00 34.48 5.87 F
2859 3288 0.313672 TTTTTGCGGGTGCTTAGCTG 59.686 50.0 5.60 0.00 43.34 4.24 F
3595 4775 0.465097 AGCCCATGTGCATGCTCTAC 60.465 55.0 20.33 9.56 37.49 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2854 3283 0.179094 CGGGGTTAACGATGCAGCTA 60.179 55.000 0.00 0.0 0.00 3.32 R
3934 5120 0.606944 GACCAAATGGCGGTGTGGTA 60.607 55.000 4.69 0.0 44.42 3.25 R
4039 5225 1.077787 GACGGGTGCCATCCAATCA 60.078 57.895 0.00 0.0 0.00 2.57 R
5396 6633 1.135199 GGTCGGCAGTAATCACTTCGA 60.135 52.381 0.00 0.0 36.27 3.71 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 1.690985 GGGGGAGGTTGAGAGGAGG 60.691 68.421 0.00 0.00 0.00 4.30
33 34 1.081277 GGGAGGTTGAGAGGAGGGT 59.919 63.158 0.00 0.00 0.00 4.34
34 35 1.268283 GGGAGGTTGAGAGGAGGGTG 61.268 65.000 0.00 0.00 0.00 4.61
38 39 0.836400 GGTTGAGAGGAGGGTGGTGA 60.836 60.000 0.00 0.00 0.00 4.02
40 41 0.545309 TTGAGAGGAGGGTGGTGAGG 60.545 60.000 0.00 0.00 0.00 3.86
41 42 1.388531 GAGAGGAGGGTGGTGAGGA 59.611 63.158 0.00 0.00 0.00 3.71
42 43 0.686112 GAGAGGAGGGTGGTGAGGAG 60.686 65.000 0.00 0.00 0.00 3.69
49 50 1.222936 GGTGGTGAGGAGAGGCATG 59.777 63.158 0.00 0.00 0.00 4.06
52 53 1.451028 GGTGAGGAGAGGCATGTGC 60.451 63.158 0.00 0.00 41.14 4.57
93 94 1.308128 ATGGTGGCAGGAGGATGGA 60.308 57.895 0.00 0.00 0.00 3.41
104 105 1.404843 GAGGATGGAGCGAAGTAGGT 58.595 55.000 0.00 0.00 0.00 3.08
194 198 3.651423 TGGATCGAGATCTAGTGGTCCTA 59.349 47.826 17.65 6.33 37.92 2.94
209 213 2.657143 GTCCTAGGAGAAGTGACCGAT 58.343 52.381 13.15 0.00 0.00 4.18
210 214 3.025262 GTCCTAGGAGAAGTGACCGATT 58.975 50.000 13.15 0.00 0.00 3.34
211 215 3.447944 GTCCTAGGAGAAGTGACCGATTT 59.552 47.826 13.15 0.00 0.00 2.17
319 334 2.811431 CTGGTGGCTTTGAATACGACAA 59.189 45.455 0.00 0.00 0.00 3.18
321 336 3.190327 TGGTGGCTTTGAATACGACAATG 59.810 43.478 0.00 0.00 0.00 2.82
328 343 6.640907 GGCTTTGAATACGACAATGAAAAAGT 59.359 34.615 0.00 0.00 0.00 2.66
460 757 6.423182 TCTTAACAATTGTCCATTAGAGGGG 58.577 40.000 12.39 0.00 0.00 4.79
461 758 4.675063 AACAATTGTCCATTAGAGGGGT 57.325 40.909 12.39 0.00 0.00 4.95
596 932 7.951591 AGAGAAAGAGAGTTGATAATAGGAGC 58.048 38.462 0.00 0.00 0.00 4.70
857 1215 6.038050 AGCAAGCAAAGAGATATAGACAAAGC 59.962 38.462 0.00 0.00 0.00 3.51
860 1218 5.131809 AGCAAAGAGATATAGACAAAGCCCT 59.868 40.000 0.00 0.00 0.00 5.19
883 1241 0.402861 TTTTCACCCTCACCCCCTCT 60.403 55.000 0.00 0.00 0.00 3.69
1090 1455 1.540797 GGTTGTGTGCAAGGGTACGTA 60.541 52.381 0.00 0.00 34.94 3.57
1213 1578 4.862823 CCTCGTCCTCCCCCTCCC 62.863 77.778 0.00 0.00 0.00 4.30
1337 1709 6.295067 CCAGGTACGTGGATCATAACATATGA 60.295 42.308 26.98 2.79 40.44 2.15
1338 1710 7.323420 CAGGTACGTGGATCATAACATATGAT 58.677 38.462 10.38 11.59 41.08 2.45
1339 1711 8.466798 CAGGTACGTGGATCATAACATATGATA 58.533 37.037 10.38 1.81 38.73 2.15
1340 1712 9.201989 AGGTACGTGGATCATAACATATGATAT 57.798 33.333 10.38 4.54 38.73 1.63
1341 1713 9.249457 GGTACGTGGATCATAACATATGATATG 57.751 37.037 21.17 21.17 38.73 1.78
1371 1743 6.456795 GATCATATATGGATCGGTCACTCA 57.543 41.667 12.78 0.00 32.62 3.41
1424 1813 3.242284 GCCGACACTTACGTACGTACATA 60.242 47.826 26.83 12.07 0.00 2.29
1425 1814 4.552767 GCCGACACTTACGTACGTACATAT 60.553 45.833 26.83 13.49 0.00 1.78
1426 1815 4.900182 CCGACACTTACGTACGTACATATG 59.100 45.833 26.83 21.78 0.00 1.78
1427 1816 5.492854 CGACACTTACGTACGTACATATGT 58.507 41.667 26.83 24.34 0.00 2.29
1428 1817 5.390572 CGACACTTACGTACGTACATATGTG 59.609 44.000 30.25 30.25 36.62 3.21
1429 1818 5.030295 ACACTTACGTACGTACATATGTGC 58.970 41.667 31.10 16.00 35.06 4.57
1430 1819 5.029654 CACTTACGTACGTACATATGTGCA 58.970 41.667 26.83 8.86 28.41 4.57
1431 1820 5.684184 CACTTACGTACGTACATATGTGCAT 59.316 40.000 26.83 10.96 28.41 3.96
1432 1821 6.197655 CACTTACGTACGTACATATGTGCATT 59.802 38.462 26.83 11.43 28.41 3.56
1433 1822 6.753279 ACTTACGTACGTACATATGTGCATTT 59.247 34.615 26.83 9.23 0.00 2.32
1434 1823 5.383984 ACGTACGTACATATGTGCATTTG 57.616 39.130 21.41 11.73 0.00 2.32
1435 1824 4.269123 ACGTACGTACATATGTGCATTTGG 59.731 41.667 21.41 9.00 0.00 3.28
1436 1825 4.269123 CGTACGTACATATGTGCATTTGGT 59.731 41.667 24.50 13.67 0.00 3.67
1437 1826 5.459434 CGTACGTACATATGTGCATTTGGTA 59.541 40.000 24.50 12.81 0.00 3.25
1438 1827 5.728351 ACGTACATATGTGCATTTGGTAC 57.272 39.130 21.64 7.07 0.00 3.34
1439 1828 5.179533 ACGTACATATGTGCATTTGGTACA 58.820 37.500 21.64 0.00 46.37 2.90
2076 2470 8.493547 GTTATTATATACCTGAACACGAAAGGC 58.506 37.037 0.00 0.00 34.18 4.35
2078 2472 0.320073 TACCTGAACACGAAAGGCCG 60.320 55.000 0.00 0.00 34.18 6.13
2079 2473 2.325082 CCTGAACACGAAAGGCCGG 61.325 63.158 0.00 0.00 0.00 6.13
2081 2475 3.053896 GAACACGAAAGGCCGGGG 61.054 66.667 2.18 0.00 37.25 5.73
2107 2504 7.041508 GCTTGATTATATGTCTTTGTGGGAGAG 60.042 40.741 0.00 0.00 0.00 3.20
2113 2510 3.042682 TGTCTTTGTGGGAGAGGTACAA 58.957 45.455 0.00 0.00 32.93 2.41
2157 2554 3.773119 TGGGTAGGTGGAGATAAGACAAC 59.227 47.826 0.00 0.00 0.00 3.32
2162 2559 3.055530 AGGTGGAGATAAGACAACAGCTG 60.056 47.826 13.48 13.48 35.62 4.24
2258 2661 0.307760 GCCGGCCGACATGAATTAAG 59.692 55.000 30.73 5.91 0.00 1.85
2306 2709 3.657956 GCTAGCTAGCTGACCACAG 57.342 57.895 33.71 15.94 45.62 3.66
2311 2714 3.214696 AGCTAGCTGACCACAGTTTTT 57.785 42.857 18.57 0.00 45.04 1.94
2312 2715 4.351874 AGCTAGCTGACCACAGTTTTTA 57.648 40.909 18.57 0.00 45.04 1.52
2313 2716 4.319177 AGCTAGCTGACCACAGTTTTTAG 58.681 43.478 18.57 0.00 45.04 1.85
2615 3020 3.008049 AGCTCCCGTAAACTCAACTCAAT 59.992 43.478 0.00 0.00 0.00 2.57
2665 3071 2.287915 CACTCGCTTAACACTGTTGCTT 59.712 45.455 4.57 0.00 0.00 3.91
2697 3103 4.209080 TGCGAGATTATGCAAACGACATAG 59.791 41.667 0.00 0.00 38.34 2.23
2698 3104 4.444388 GCGAGATTATGCAAACGACATAGA 59.556 41.667 0.00 0.00 31.90 1.98
2699 3105 5.051039 GCGAGATTATGCAAACGACATAGAA 60.051 40.000 0.00 0.00 31.90 2.10
2700 3106 6.346919 GCGAGATTATGCAAACGACATAGAAT 60.347 38.462 0.00 0.00 31.90 2.40
2701 3107 7.148804 GCGAGATTATGCAAACGACATAGAATA 60.149 37.037 0.00 0.00 31.90 1.75
2702 3108 8.864024 CGAGATTATGCAAACGACATAGAATAT 58.136 33.333 0.00 0.00 31.90 1.28
2703 3109 9.964253 GAGATTATGCAAACGACATAGAATATG 57.036 33.333 0.00 0.00 31.90 1.78
2749 3178 6.040842 AGGTTATTCATGCATGTAATGGGTTC 59.959 38.462 25.43 12.42 46.86 3.62
2750 3179 6.040842 GGTTATTCATGCATGTAATGGGTTCT 59.959 38.462 25.43 2.06 46.86 3.01
2751 3180 7.417797 GGTTATTCATGCATGTAATGGGTTCTT 60.418 37.037 25.43 1.36 46.86 2.52
2752 3181 8.629158 GTTATTCATGCATGTAATGGGTTCTTA 58.371 33.333 25.43 0.00 46.86 2.10
2753 3182 6.698008 TTCATGCATGTAATGGGTTCTTAG 57.302 37.500 25.43 0.00 46.86 2.18
2754 3183 4.580167 TCATGCATGTAATGGGTTCTTAGC 59.420 41.667 25.43 0.00 46.86 3.09
2755 3184 4.235079 TGCATGTAATGGGTTCTTAGCT 57.765 40.909 0.00 0.00 46.86 3.32
2756 3185 5.366482 TGCATGTAATGGGTTCTTAGCTA 57.634 39.130 0.00 0.00 46.86 3.32
2757 3186 5.123227 TGCATGTAATGGGTTCTTAGCTAC 58.877 41.667 0.00 0.00 46.86 3.58
2758 3187 4.515567 GCATGTAATGGGTTCTTAGCTACC 59.484 45.833 0.00 0.00 46.86 3.18
2759 3188 5.680619 CATGTAATGGGTTCTTAGCTACCA 58.319 41.667 5.76 4.24 41.79 3.25
2760 3189 5.093849 TGTAATGGGTTCTTAGCTACCAC 57.906 43.478 5.76 0.00 36.10 4.16
2761 3190 2.981859 ATGGGTTCTTAGCTACCACG 57.018 50.000 5.76 0.00 36.10 4.94
2762 3191 0.248289 TGGGTTCTTAGCTACCACGC 59.752 55.000 5.76 6.10 36.10 5.34
2763 3192 0.804933 GGGTTCTTAGCTACCACGCG 60.805 60.000 3.53 3.53 36.10 6.01
2764 3193 0.171903 GGTTCTTAGCTACCACGCGA 59.828 55.000 15.93 0.00 34.48 5.87
2765 3194 1.266466 GTTCTTAGCTACCACGCGAC 58.734 55.000 15.93 0.00 34.40 5.19
2766 3195 0.883153 TTCTTAGCTACCACGCGACA 59.117 50.000 15.93 0.00 34.40 4.35
2767 3196 0.883153 TCTTAGCTACCACGCGACAA 59.117 50.000 15.93 0.00 34.40 3.18
2768 3197 1.135489 TCTTAGCTACCACGCGACAAG 60.135 52.381 15.93 5.58 34.40 3.16
2769 3198 0.734942 TTAGCTACCACGCGACAAGC 60.735 55.000 15.93 15.88 43.95 4.01
2779 3208 3.829754 GCGACAAGCGTGGTAAAAA 57.170 47.368 4.26 0.00 43.41 1.94
2780 3209 1.391787 GCGACAAGCGTGGTAAAAAC 58.608 50.000 4.26 0.00 43.41 2.43
2781 3210 1.268133 GCGACAAGCGTGGTAAAAACA 60.268 47.619 4.26 0.00 43.41 2.83
2782 3211 2.791849 GCGACAAGCGTGGTAAAAACAA 60.792 45.455 4.26 0.00 43.41 2.83
2783 3212 3.623863 CGACAAGCGTGGTAAAAACAAT 58.376 40.909 4.26 0.00 34.64 2.71
2784 3213 3.662186 CGACAAGCGTGGTAAAAACAATC 59.338 43.478 4.26 0.00 34.64 2.67
2785 3214 4.553938 CGACAAGCGTGGTAAAAACAATCT 60.554 41.667 4.26 0.00 34.64 2.40
2786 3215 4.855531 ACAAGCGTGGTAAAAACAATCTC 58.144 39.130 4.26 0.00 0.00 2.75
2787 3216 4.336993 ACAAGCGTGGTAAAAACAATCTCA 59.663 37.500 4.26 0.00 0.00 3.27
2788 3217 5.163602 ACAAGCGTGGTAAAAACAATCTCAA 60.164 36.000 4.26 0.00 0.00 3.02
2789 3218 5.508200 AGCGTGGTAAAAACAATCTCAAA 57.492 34.783 0.00 0.00 0.00 2.69
2790 3219 6.084326 AGCGTGGTAAAAACAATCTCAAAT 57.916 33.333 0.00 0.00 0.00 2.32
2791 3220 6.512297 AGCGTGGTAAAAACAATCTCAAATT 58.488 32.000 0.00 0.00 0.00 1.82
2792 3221 6.420604 AGCGTGGTAAAAACAATCTCAAATTG 59.579 34.615 0.00 0.00 35.29 2.32
2793 3222 6.419413 GCGTGGTAAAAACAATCTCAAATTGA 59.581 34.615 4.86 0.00 33.51 2.57
2794 3223 7.566868 GCGTGGTAAAAACAATCTCAAATTGAC 60.567 37.037 4.86 0.00 33.51 3.18
2795 3224 7.433719 CGTGGTAAAAACAATCTCAAATTGACA 59.566 33.333 4.86 0.00 33.51 3.58
2796 3225 9.092876 GTGGTAAAAACAATCTCAAATTGACAA 57.907 29.630 4.86 0.00 33.51 3.18
2797 3226 9.658799 TGGTAAAAACAATCTCAAATTGACAAA 57.341 25.926 4.86 0.00 33.51 2.83
2827 3256 3.954258 GGGTTCTTATAGCTGCATGGTTT 59.046 43.478 1.02 0.00 0.00 3.27
2828 3257 4.402474 GGGTTCTTATAGCTGCATGGTTTT 59.598 41.667 1.02 0.00 0.00 2.43
2829 3258 5.105351 GGGTTCTTATAGCTGCATGGTTTTT 60.105 40.000 1.02 0.00 0.00 1.94
2858 3287 2.727103 TTTTTGCGGGTGCTTAGCT 58.273 47.368 5.60 0.00 43.34 3.32
2859 3288 0.313672 TTTTTGCGGGTGCTTAGCTG 59.686 50.000 5.60 0.00 43.34 4.24
2860 3289 2.141122 TTTTGCGGGTGCTTAGCTGC 62.141 55.000 5.60 5.15 43.34 5.25
2861 3290 3.841137 TTGCGGGTGCTTAGCTGCA 62.841 57.895 5.60 8.72 43.34 4.41
2862 3291 2.825836 GCGGGTGCTTAGCTGCAT 60.826 61.111 5.60 0.00 45.23 3.96
2863 3292 2.828128 GCGGGTGCTTAGCTGCATC 61.828 63.158 5.60 1.13 45.23 3.91
2864 3293 2.528743 CGGGTGCTTAGCTGCATCG 61.529 63.158 5.60 6.25 44.40 3.84
2879 3309 1.135228 GCATCGTTAACCCCGCAAAAT 60.135 47.619 0.00 0.00 0.00 1.82
2884 3314 5.192327 TCGTTAACCCCGCAAAATTTAAA 57.808 34.783 0.00 0.00 0.00 1.52
2885 3315 5.594926 TCGTTAACCCCGCAAAATTTAAAA 58.405 33.333 0.00 0.00 0.00 1.52
2886 3316 5.461407 TCGTTAACCCCGCAAAATTTAAAAC 59.539 36.000 0.00 0.00 0.00 2.43
2995 3428 7.195474 AGGCATCTCATATCTAATACTCCCTT 58.805 38.462 0.00 0.00 0.00 3.95
2997 3430 7.124901 GGCATCTCATATCTAATACTCCCTTCA 59.875 40.741 0.00 0.00 0.00 3.02
3007 3440 9.784531 ATCTAATACTCCCTTCACATACAAATG 57.215 33.333 0.00 0.00 39.17 2.32
3015 3448 5.642063 CCCTTCACATACAAATGTAAGACGT 59.358 40.000 3.09 0.00 44.70 4.34
3036 3469 9.701098 AGACGTTTTGAATAAAGACTACATACA 57.299 29.630 0.00 0.00 0.00 2.29
3139 3574 6.867519 TGTGAACAGAGGGAGTAATTATCA 57.132 37.500 0.00 0.00 0.00 2.15
3168 3603 9.747293 AAACAGTAGTCTCTTTTCAGTTACTAC 57.253 33.333 0.00 0.00 38.40 2.73
3218 3908 5.508224 GCACAGTTTAGATTAATTGTCACGC 59.492 40.000 0.00 0.00 0.00 5.34
3219 3909 5.728049 CACAGTTTAGATTAATTGTCACGCG 59.272 40.000 3.53 3.53 0.00 6.01
3297 3987 9.793259 AAGTCCATTAACATTACCCACTATATG 57.207 33.333 0.00 0.00 0.00 1.78
3475 4644 0.901124 CCAGGTAGAGACAAGCTGCT 59.099 55.000 0.00 0.00 40.35 4.24
3595 4775 0.465097 AGCCCATGTGCATGCTCTAC 60.465 55.000 20.33 9.56 37.49 2.59
3651 4831 4.562394 CACTTTAATAATTGGCACTTGGCG 59.438 41.667 0.00 0.00 46.16 5.69
3656 4836 0.899717 AATTGGCACTTGGCGGTCAT 60.900 50.000 0.00 0.00 46.16 3.06
3799 4980 4.402793 TGAGCTTTTAGAGGAACGAGCTAT 59.597 41.667 0.00 0.00 37.08 2.97
3800 4981 5.593095 TGAGCTTTTAGAGGAACGAGCTATA 59.407 40.000 0.00 0.00 37.08 1.31
3865 5046 3.670377 GCGTGGTCCCTTTGGTGC 61.670 66.667 0.00 0.00 0.00 5.01
4007 5193 2.806621 GGCCGTCGGTACACGTTC 60.807 66.667 13.94 0.00 44.69 3.95
4039 5225 2.290323 GCCACCAGTATCTTGTTGGACT 60.290 50.000 0.00 0.00 35.89 3.85
4263 5453 0.864455 GTACGTACTCGATCTCCCGG 59.136 60.000 18.47 0.00 40.62 5.73
4387 5577 1.526041 GCTGAGTGCTAATGATCTGCG 59.474 52.381 0.00 0.00 38.95 5.18
5022 6212 0.685458 GGTTAGGACTGTAGGGGCGA 60.685 60.000 0.00 0.00 0.00 5.54
5212 6409 8.947940 CAACGAACTTCTAAGAAATTTGACAAG 58.052 33.333 0.00 0.00 0.00 3.16
5299 6496 1.502231 TTGTCTCTTCGTTGCTCTGC 58.498 50.000 0.00 0.00 0.00 4.26
5300 6497 0.676184 TGTCTCTTCGTTGCTCTGCT 59.324 50.000 0.00 0.00 0.00 4.24
5301 6498 1.066914 GTCTCTTCGTTGCTCTGCTG 58.933 55.000 0.00 0.00 0.00 4.41
5302 6499 0.668706 TCTCTTCGTTGCTCTGCTGC 60.669 55.000 0.00 0.00 0.00 5.25
5303 6500 0.947660 CTCTTCGTTGCTCTGCTGCA 60.948 55.000 0.88 0.88 41.65 4.41
5304 6501 0.321034 TCTTCGTTGCTCTGCTGCAT 60.321 50.000 1.31 0.00 42.96 3.96
5305 6502 0.179197 CTTCGTTGCTCTGCTGCATG 60.179 55.000 1.31 0.16 42.96 4.06
5396 6633 3.842923 CTCCGCCGAGCATCCAGT 61.843 66.667 0.00 0.00 0.00 4.00
5397 6634 3.781770 CTCCGCCGAGCATCCAGTC 62.782 68.421 0.00 0.00 0.00 3.51
5405 6642 1.202348 CGAGCATCCAGTCGAAGTGAT 60.202 52.381 0.00 0.00 38.50 3.06
5481 6718 5.551233 ACCGTAACTACTACTGTGTACTCA 58.449 41.667 0.00 0.00 0.00 3.41
5484 6721 6.538021 CCGTAACTACTACTGTGTACTCAGAT 59.462 42.308 27.10 15.46 38.63 2.90
5647 6885 3.537206 GACGCAGCTGGACCACCTT 62.537 63.158 17.12 0.00 37.04 3.50
5659 6897 2.762327 GGACCACCTTTCGTATGTCCTA 59.238 50.000 0.00 0.00 40.24 2.94
5729 6967 3.242511 CCATCATACATGCCATTATCGCG 60.243 47.826 0.00 0.00 0.00 5.87
5747 6985 5.200734 TCGCGCGTAAATAACAAATGTTA 57.799 34.783 30.98 8.34 43.71 2.41
5940 7180 5.574055 GCTGATTTGCATTTTGATCTTTCGA 59.426 36.000 0.00 0.00 0.00 3.71
5941 7181 6.089820 GCTGATTTGCATTTTGATCTTTCGAA 59.910 34.615 0.00 0.00 0.00 3.71
5942 7183 7.337150 TGATTTGCATTTTGATCTTTCGAAC 57.663 32.000 0.00 0.00 0.00 3.95
5984 7231 6.294731 GGTGCTTCAAAATCATTTGGACTACT 60.295 38.462 1.86 0.00 44.88 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.010046 TCTCAACCTCCCCCATCATCT 59.990 52.381 0.00 0.00 0.00 2.90
8 9 1.516110 CTCTCAACCTCCCCCATCAT 58.484 55.000 0.00 0.00 0.00 2.45
9 10 0.621571 CCTCTCAACCTCCCCCATCA 60.622 60.000 0.00 0.00 0.00 3.07
11 12 0.327000 CTCCTCTCAACCTCCCCCAT 60.327 60.000 0.00 0.00 0.00 4.00
16 17 1.268283 CCACCCTCCTCTCAACCTCC 61.268 65.000 0.00 0.00 0.00 4.30
31 32 1.222936 CATGCCTCTCCTCACCACC 59.777 63.158 0.00 0.00 0.00 4.61
33 34 1.985614 CACATGCCTCTCCTCACCA 59.014 57.895 0.00 0.00 0.00 4.17
34 35 1.451028 GCACATGCCTCTCCTCACC 60.451 63.158 0.00 0.00 34.31 4.02
38 39 2.685017 TCCGCACATGCCTCTCCT 60.685 61.111 0.00 0.00 37.91 3.69
40 41 2.894387 GCTCCGCACATGCCTCTC 60.894 66.667 0.00 0.00 37.91 3.20
41 42 4.827087 CGCTCCGCACATGCCTCT 62.827 66.667 0.00 0.00 37.91 3.69
70 71 2.273449 CTCCTGCCACCATCACCC 59.727 66.667 0.00 0.00 0.00 4.61
75 76 1.308128 TCCATCCTCCTGCCACCAT 60.308 57.895 0.00 0.00 0.00 3.55
78 79 2.191641 GCTCCATCCTCCTGCCAC 59.808 66.667 0.00 0.00 0.00 5.01
81 82 1.227497 CTTCGCTCCATCCTCCTGC 60.227 63.158 0.00 0.00 0.00 4.85
84 85 0.676736 CCTACTTCGCTCCATCCTCC 59.323 60.000 0.00 0.00 0.00 4.30
93 94 2.108278 AACCGCCAACCTACTTCGCT 62.108 55.000 0.00 0.00 0.00 4.93
118 119 6.554334 TCTTCAACCTCACCTTATTTTTCG 57.446 37.500 0.00 0.00 0.00 3.46
122 126 7.004086 TGTTCATCTTCAACCTCACCTTATTT 58.996 34.615 0.00 0.00 0.00 1.40
125 129 5.560722 TGTTCATCTTCAACCTCACCTTA 57.439 39.130 0.00 0.00 0.00 2.69
281 296 1.407437 CCAGGGTGCACTGTTAGGATC 60.407 57.143 17.98 0.00 36.75 3.36
319 334 6.715347 ACAAGGAGCTTAACACTTTTTCAT 57.285 33.333 0.00 0.00 0.00 2.57
321 336 6.560711 TCAACAAGGAGCTTAACACTTTTTC 58.439 36.000 0.00 0.00 0.00 2.29
328 343 3.550820 TGCTTCAACAAGGAGCTTAACA 58.449 40.909 0.00 0.00 0.00 2.41
596 932 3.689309 TGTGTACATGTTGTTGCAGTG 57.311 42.857 2.30 0.00 0.00 3.66
883 1241 0.027907 TAGCTAGGGAGGGGAGGAGA 60.028 60.000 0.00 0.00 0.00 3.71
1090 1455 2.954989 GGGCTAACCTTACTAGCTACGT 59.045 50.000 0.00 0.00 41.32 3.57
1183 1548 2.443016 CGAGGAGGTGGAGGAGGG 60.443 72.222 0.00 0.00 0.00 4.30
1356 1728 0.176680 GTGCTGAGTGACCGATCCAT 59.823 55.000 0.00 0.00 0.00 3.41
1439 1828 9.290988 CGCATCAGGGTCTATATAGATAGTAAT 57.709 37.037 15.43 5.21 37.03 1.89
1440 1829 7.720074 CCGCATCAGGGTCTATATAGATAGTAA 59.280 40.741 15.43 3.20 37.03 2.24
1441 1830 7.072076 TCCGCATCAGGGTCTATATAGATAGTA 59.928 40.741 15.43 2.21 37.03 1.82
1442 1831 6.065374 CCGCATCAGGGTCTATATAGATAGT 58.935 44.000 15.43 0.90 37.03 2.12
1443 1832 6.299922 TCCGCATCAGGGTCTATATAGATAG 58.700 44.000 15.43 6.56 37.04 2.08
1444 1833 6.262056 TCCGCATCAGGGTCTATATAGATA 57.738 41.667 15.43 0.92 34.39 1.98
1445 1834 5.130705 TCCGCATCAGGGTCTATATAGAT 57.869 43.478 15.43 0.00 34.39 1.98
1446 1835 4.527944 CTCCGCATCAGGGTCTATATAGA 58.472 47.826 8.44 8.44 0.00 1.98
1447 1836 3.634448 CCTCCGCATCAGGGTCTATATAG 59.366 52.174 3.10 3.10 0.00 1.31
1451 1840 0.105453 ACCTCCGCATCAGGGTCTAT 60.105 55.000 0.00 0.00 35.01 1.98
1744 2133 1.379044 CTTGATGCCCACCAGGTCC 60.379 63.158 0.00 0.00 38.26 4.46
1756 2145 0.449388 GCCGGAAGTGCTTCTTGATG 59.551 55.000 5.05 0.00 39.45 3.07
1919 2308 2.713770 GAGTAGCGGCGTCGATGA 59.286 61.111 16.53 0.00 39.00 2.92
2076 2470 3.703001 AGACATATAATCAAGCCCCGG 57.297 47.619 0.00 0.00 0.00 5.73
2078 2472 5.010012 CCACAAAGACATATAATCAAGCCCC 59.990 44.000 0.00 0.00 0.00 5.80
2079 2473 5.010012 CCCACAAAGACATATAATCAAGCCC 59.990 44.000 0.00 0.00 0.00 5.19
2081 2475 6.767902 TCTCCCACAAAGACATATAATCAAGC 59.232 38.462 0.00 0.00 0.00 4.01
2082 2476 7.443575 CCTCTCCCACAAAGACATATAATCAAG 59.556 40.741 0.00 0.00 0.00 3.02
2084 2478 6.386927 ACCTCTCCCACAAAGACATATAATCA 59.613 38.462 0.00 0.00 0.00 2.57
2085 2479 6.831976 ACCTCTCCCACAAAGACATATAATC 58.168 40.000 0.00 0.00 0.00 1.75
2086 2480 6.831664 ACCTCTCCCACAAAGACATATAAT 57.168 37.500 0.00 0.00 0.00 1.28
2087 2481 6.670464 TGTACCTCTCCCACAAAGACATATAA 59.330 38.462 0.00 0.00 0.00 0.98
2107 2504 3.654414 GATCGATCTCCATGGTTGTACC 58.346 50.000 18.29 0.00 39.22 3.34
2140 2537 3.055530 CAGCTGTTGTCTTATCTCCACCT 60.056 47.826 5.25 0.00 0.00 4.00
2157 2554 3.111853 TCTGAACTAACACCACAGCTG 57.888 47.619 13.48 13.48 0.00 4.24
2162 2559 7.632721 TCGTTAAAATTCTGAACTAACACCAC 58.367 34.615 14.28 0.00 0.00 4.16
2230 2627 4.752879 TCGGCCGGCTACACTTGC 62.753 66.667 28.56 5.59 0.00 4.01
2311 2714 9.525826 AAAAACTCCACTTAGTAGCTACTACTA 57.474 33.333 29.18 16.98 44.35 1.82
2450 2853 3.015327 CAGCATCCTAGCTTTGCTTCTT 58.985 45.455 9.57 0.00 43.94 2.52
2451 2854 2.641305 CAGCATCCTAGCTTTGCTTCT 58.359 47.619 9.57 0.00 43.94 2.85
2452 2855 1.674962 CCAGCATCCTAGCTTTGCTTC 59.325 52.381 9.57 0.00 43.94 3.86
2615 3020 4.546829 AATTAGAACGGTAGGTGCTTCA 57.453 40.909 0.00 0.00 35.56 3.02
2665 3071 2.837498 CATAATCTCGCACACCCATGA 58.163 47.619 0.00 0.00 0.00 3.07
2697 3103 8.577296 TGTGACTGCTAATACTACCTCATATTC 58.423 37.037 0.00 0.00 0.00 1.75
2698 3104 8.478775 TGTGACTGCTAATACTACCTCATATT 57.521 34.615 0.00 0.00 0.00 1.28
2699 3105 8.478775 TTGTGACTGCTAATACTACCTCATAT 57.521 34.615 0.00 0.00 0.00 1.78
2700 3106 7.014326 CCTTGTGACTGCTAATACTACCTCATA 59.986 40.741 0.00 0.00 0.00 2.15
2701 3107 6.183360 CCTTGTGACTGCTAATACTACCTCAT 60.183 42.308 0.00 0.00 0.00 2.90
2702 3108 5.127194 CCTTGTGACTGCTAATACTACCTCA 59.873 44.000 0.00 0.00 0.00 3.86
2703 3109 5.127356 ACCTTGTGACTGCTAATACTACCTC 59.873 44.000 0.00 0.00 0.00 3.85
2749 3178 1.269166 CTTGTCGCGTGGTAGCTAAG 58.731 55.000 5.77 0.00 34.40 2.18
2750 3179 0.734942 GCTTGTCGCGTGGTAGCTAA 60.735 55.000 5.77 0.00 34.40 3.09
2751 3180 1.153901 GCTTGTCGCGTGGTAGCTA 60.154 57.895 5.77 0.00 34.40 3.32
2752 3181 2.432628 GCTTGTCGCGTGGTAGCT 60.433 61.111 5.77 0.00 34.40 3.32
2761 3190 1.268133 TGTTTTTACCACGCTTGTCGC 60.268 47.619 0.00 0.00 43.23 5.19
2762 3191 2.741122 TGTTTTTACCACGCTTGTCG 57.259 45.000 0.00 0.00 45.38 4.35
2763 3192 4.855531 AGATTGTTTTTACCACGCTTGTC 58.144 39.130 0.00 0.00 0.00 3.18
2764 3193 4.336993 TGAGATTGTTTTTACCACGCTTGT 59.663 37.500 0.00 0.00 0.00 3.16
2765 3194 4.854399 TGAGATTGTTTTTACCACGCTTG 58.146 39.130 0.00 0.00 0.00 4.01
2766 3195 5.508200 TTGAGATTGTTTTTACCACGCTT 57.492 34.783 0.00 0.00 0.00 4.68
2767 3196 5.508200 TTTGAGATTGTTTTTACCACGCT 57.492 34.783 0.00 0.00 0.00 5.07
2768 3197 6.419413 TCAATTTGAGATTGTTTTTACCACGC 59.581 34.615 0.00 0.00 0.00 5.34
2769 3198 7.433719 TGTCAATTTGAGATTGTTTTTACCACG 59.566 33.333 0.00 0.00 0.00 4.94
2770 3199 8.641499 TGTCAATTTGAGATTGTTTTTACCAC 57.359 30.769 0.00 0.00 0.00 4.16
2771 3200 9.658799 TTTGTCAATTTGAGATTGTTTTTACCA 57.341 25.926 0.00 0.00 0.00 3.25
2799 3228 6.407299 CCATGCAGCTATAAGAACCCATTTTT 60.407 38.462 0.00 0.00 0.00 1.94
2800 3229 5.069516 CCATGCAGCTATAAGAACCCATTTT 59.930 40.000 0.00 0.00 0.00 1.82
2801 3230 4.586001 CCATGCAGCTATAAGAACCCATTT 59.414 41.667 0.00 0.00 0.00 2.32
2802 3231 4.147321 CCATGCAGCTATAAGAACCCATT 58.853 43.478 0.00 0.00 0.00 3.16
2803 3232 3.139025 ACCATGCAGCTATAAGAACCCAT 59.861 43.478 0.00 0.00 0.00 4.00
2804 3233 2.509548 ACCATGCAGCTATAAGAACCCA 59.490 45.455 0.00 0.00 0.00 4.51
2805 3234 3.214696 ACCATGCAGCTATAAGAACCC 57.785 47.619 0.00 0.00 0.00 4.11
2806 3235 5.582689 AAAACCATGCAGCTATAAGAACC 57.417 39.130 0.00 0.00 0.00 3.62
2840 3269 0.313672 CAGCTAAGCACCCGCAAAAA 59.686 50.000 0.00 0.00 42.27 1.94
2841 3270 1.956043 CAGCTAAGCACCCGCAAAA 59.044 52.632 0.00 0.00 42.27 2.44
2842 3271 2.625823 GCAGCTAAGCACCCGCAAA 61.626 57.895 0.00 0.00 42.27 3.68
2843 3272 3.055719 GCAGCTAAGCACCCGCAA 61.056 61.111 0.00 0.00 42.27 4.85
2844 3273 4.328025 TGCAGCTAAGCACCCGCA 62.328 61.111 0.00 0.00 40.11 5.69
2851 3280 1.330829 GGGTTAACGATGCAGCTAAGC 59.669 52.381 0.00 2.46 0.00 3.09
2852 3281 1.940613 GGGGTTAACGATGCAGCTAAG 59.059 52.381 0.00 0.00 0.00 2.18
2853 3282 1.741055 CGGGGTTAACGATGCAGCTAA 60.741 52.381 0.00 0.00 0.00 3.09
2854 3283 0.179094 CGGGGTTAACGATGCAGCTA 60.179 55.000 0.00 0.00 0.00 3.32
2855 3284 1.449601 CGGGGTTAACGATGCAGCT 60.450 57.895 0.00 0.00 0.00 4.24
2856 3285 3.098555 CGGGGTTAACGATGCAGC 58.901 61.111 0.00 0.00 0.00 5.25
2857 3286 1.302383 TTGCGGGGTTAACGATGCAG 61.302 55.000 14.24 0.00 33.41 4.41
2858 3287 0.889638 TTTGCGGGGTTAACGATGCA 60.890 50.000 11.68 11.68 0.00 3.96
2859 3288 0.241481 TTTTGCGGGGTTAACGATGC 59.759 50.000 0.00 3.73 0.00 3.91
2860 3289 2.931512 ATTTTGCGGGGTTAACGATG 57.068 45.000 0.00 0.00 0.00 3.84
2861 3290 3.945981 AAATTTTGCGGGGTTAACGAT 57.054 38.095 0.00 0.00 0.00 3.73
2862 3291 4.843220 TTAAATTTTGCGGGGTTAACGA 57.157 36.364 0.00 0.00 0.00 3.85
2863 3292 5.233689 TGTTTTAAATTTTGCGGGGTTAACG 59.766 36.000 0.00 0.00 0.00 3.18
2864 3293 6.600246 TGTTTTAAATTTTGCGGGGTTAAC 57.400 33.333 0.00 0.00 0.00 2.01
2879 3309 7.088905 TGCGACTGGTTAAACTTTGTTTTAAA 58.911 30.769 0.94 0.00 33.71 1.52
2884 3314 4.606961 CATGCGACTGGTTAAACTTTGTT 58.393 39.130 0.00 0.00 0.00 2.83
2885 3315 3.550030 GCATGCGACTGGTTAAACTTTGT 60.550 43.478 0.00 0.00 0.00 2.83
2886 3316 2.979813 GCATGCGACTGGTTAAACTTTG 59.020 45.455 0.00 0.00 0.00 2.77
2915 3345 3.321111 GTGCCATTAGCTAGCCAGTAGTA 59.679 47.826 12.13 0.00 44.23 1.82
2917 3347 2.103094 TGTGCCATTAGCTAGCCAGTAG 59.897 50.000 12.13 0.00 44.23 2.57
2918 3348 2.115427 TGTGCCATTAGCTAGCCAGTA 58.885 47.619 12.13 0.00 44.23 2.74
2919 3349 0.911769 TGTGCCATTAGCTAGCCAGT 59.088 50.000 12.13 0.00 44.23 4.00
2995 3428 8.144155 TCAAAACGTCTTACATTTGTATGTGA 57.856 30.769 7.73 0.00 44.56 3.58
3024 3457 5.294356 TCGTTGCAGTTTGTATGTAGTCTT 58.706 37.500 0.00 0.00 0.00 3.01
3025 3458 4.878439 TCGTTGCAGTTTGTATGTAGTCT 58.122 39.130 0.00 0.00 0.00 3.24
3036 3469 3.057876 TGTTTGTTCACTCGTTGCAGTTT 60.058 39.130 0.00 0.00 0.00 2.66
3216 3906 0.304705 GGCAGTGTCATATTTCCGCG 59.695 55.000 0.00 0.00 0.00 6.46
3218 3908 3.270027 TCAAGGCAGTGTCATATTTCCG 58.730 45.455 0.00 0.00 0.00 4.30
3219 3909 5.643379 TTTCAAGGCAGTGTCATATTTCC 57.357 39.130 0.00 0.00 0.00 3.13
3527 4696 3.102985 CGAGCGATCGAGAGTGGT 58.897 61.111 20.02 0.00 34.64 4.16
3530 4699 2.824489 TGGCGAGCGATCGAGAGT 60.824 61.111 29.29 0.00 34.64 3.24
3651 4831 4.686554 GTGACAACTGACAAGAGTATGACC 59.313 45.833 0.00 0.00 0.00 4.02
3656 4836 2.953648 TCGGTGACAACTGACAAGAGTA 59.046 45.455 0.00 0.00 36.75 2.59
3713 4894 4.138290 TGGAAGAGGAAATTAACGTGCAA 58.862 39.130 0.00 0.00 0.00 4.08
3799 4980 3.817148 TCGAGTTGCACGCGATATATA 57.183 42.857 15.93 0.00 44.93 0.86
3800 4981 2.699251 TCGAGTTGCACGCGATATAT 57.301 45.000 15.93 0.00 44.93 0.86
3806 4987 1.057822 CTTGATCGAGTTGCACGCG 59.942 57.895 3.53 3.53 42.73 6.01
3907 5093 1.211181 CGAGATCGATGTGTGCGCAT 61.211 55.000 15.91 0.00 43.02 4.73
3934 5120 0.606944 GACCAAATGGCGGTGTGGTA 60.607 55.000 4.69 0.00 44.42 3.25
4039 5225 1.077787 GACGGGTGCCATCCAATCA 60.078 57.895 0.00 0.00 0.00 2.57
4387 5577 3.357079 CTCCACCCTGCAACACGC 61.357 66.667 0.00 0.00 42.89 5.34
4483 5673 1.204941 GATAACGATAGGCCGGAGCAT 59.795 52.381 5.05 0.00 42.56 3.79
4979 6169 2.837291 CTCTCCTCAGGGCCTCGG 60.837 72.222 0.95 7.70 0.00 4.63
5212 6409 6.142320 CGTGGTAGAAGTTTTCAAAAGCATTC 59.858 38.462 0.00 0.00 0.00 2.67
5302 6499 1.460504 AGACAACAGGATGCAGCATG 58.539 50.000 15.98 15.98 42.53 4.06
5303 6500 2.211250 AAGACAACAGGATGCAGCAT 57.789 45.000 7.91 7.91 42.53 3.79
5304 6501 1.610038 CAAAGACAACAGGATGCAGCA 59.390 47.619 3.51 0.00 42.53 4.41
5305 6502 1.668047 GCAAAGACAACAGGATGCAGC 60.668 52.381 0.00 0.00 42.53 5.25
5396 6633 1.135199 GGTCGGCAGTAATCACTTCGA 60.135 52.381 0.00 0.00 36.27 3.71
5397 6634 1.278238 GGTCGGCAGTAATCACTTCG 58.722 55.000 0.00 0.00 30.46 3.79
5425 6662 6.084277 GTCTACCATTTTGTTCACGGATTTC 58.916 40.000 0.00 0.00 0.00 2.17
5426 6663 5.533154 TGTCTACCATTTTGTTCACGGATTT 59.467 36.000 0.00 0.00 0.00 2.17
5481 6718 4.446889 GGCCTACCATTTGGATCTCAATCT 60.447 45.833 3.01 0.00 38.94 2.40
5484 6721 2.580322 TGGCCTACCATTTGGATCTCAA 59.420 45.455 3.32 0.00 42.67 3.02
5544 6781 5.592054 CAGATGCTCTAATTCAGTCGGTTA 58.408 41.667 0.00 0.00 0.00 2.85
5545 6782 4.437239 CAGATGCTCTAATTCAGTCGGTT 58.563 43.478 0.00 0.00 0.00 4.44
5647 6885 2.575532 CTACCGGGTAGGACATACGAA 58.424 52.381 23.83 0.00 45.00 3.85
5659 6897 1.802553 AAGATATGTGGCTACCGGGT 58.197 50.000 6.32 4.46 0.00 5.28
5729 6967 7.393327 TCGCTACTAACATTTGTTATTTACGC 58.607 34.615 3.76 3.18 39.49 4.42
5928 7168 5.588648 ACAAGTCCAAGTTCGAAAGATCAAA 59.411 36.000 0.00 0.00 41.60 2.69
5940 7180 4.743955 GCACCTAGAGAACAAGTCCAAGTT 60.744 45.833 0.00 0.00 0.00 2.66
5941 7181 3.244249 GCACCTAGAGAACAAGTCCAAGT 60.244 47.826 0.00 0.00 0.00 3.16
5942 7183 3.007398 AGCACCTAGAGAACAAGTCCAAG 59.993 47.826 0.00 0.00 0.00 3.61
5984 7231 1.839994 GTCAAGGATGAGGGTGATGGA 59.160 52.381 0.00 0.00 35.88 3.41
6153 7409 6.421377 AAGGCAACAAACAAAGTCATTTTC 57.579 33.333 0.00 0.00 41.41 2.29


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

AutoCloner maintained by Alex Coulton.