Multiple sequence alignment - TraesCS6B01G165200

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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 TraesCS6B01G165200 chr6B 100.000 3868 0 0 1 3868 172260455 172264322 0.000000e+00 7143
1 TraesCS6B01G165200 chr6B 91.753 97 7 1 713 809 172261028 172261123 2.420000e-27 134
2 TraesCS6B01G165200 chr6B 91.753 97 7 1 574 669 172261167 172261263 2.420000e-27 134
3 TraesCS6B01G165200 chr6A 90.856 1553 91 25 651 2171 108175424 108176957 0.000000e+00 2034
4 TraesCS6B01G165200 chr6A 90.191 1468 63 30 2204 3631 108176955 108178381 0.000000e+00 1838
5 TraesCS6B01G165200 chr6A 86.328 512 41 8 148 650 108174848 108175339 7.360000e-147 531
6 TraesCS6B01G165200 chr6D 90.819 1416 68 37 2248 3631 89730971 89732356 0.000000e+00 1838
7 TraesCS6B01G165200 chr6D 93.054 1195 53 12 19 1195 89728645 89729827 0.000000e+00 1720
8 TraesCS6B01G165200 chr6D 93.487 783 44 5 1471 2247 89730105 89730886 0.000000e+00 1157
9 TraesCS6B01G165200 chr6D 96.043 278 9 2 1252 1527 89729827 89730104 5.890000e-123 451
10 TraesCS6B01G165200 chr6D 84.181 177 10 13 3626 3791 89732958 89733127 5.170000e-34 156
11 TraesCS6B01G165200 chr6D 93.750 96 5 1 575 669 89729344 89729439 4.030000e-30 143
12 TraesCS6B01G165200 chr1D 90.868 219 12 3 3019 3232 403278832 403278617 1.760000e-73 287
13 TraesCS6B01G165200 chr2D 90.411 219 13 3 3016 3229 579178345 579178560 8.180000e-72 281
14 TraesCS6B01G165200 chr7D 89.189 222 16 4 3016 3232 559288898 559288680 1.770000e-68 270
15 TraesCS6B01G165200 chr4B 88.182 220 14 4 3016 3226 184600701 184600917 6.420000e-63 252
16 TraesCS6B01G165200 chr5A 86.697 218 13 3 3016 3232 615774104 615773902 1.080000e-55 228
17 TraesCS6B01G165200 chr5A 85.780 218 15 3 3016 3232 615833216 615833014 2.340000e-52 217
18 TraesCS6B01G165200 chr5D 95.918 98 2 2 1494 1591 546686474 546686569 1.440000e-34 158
19 TraesCS6B01G165200 chr5B 97.753 89 1 1 1503 1591 689998938 689998851 6.690000e-33 152
20 TraesCS6B01G165200 chr5B 90.435 115 7 3 1494 1605 689893561 689893674 8.660000e-32 148
21 TraesCS6B01G165200 chr4A 96.739 92 1 2 1503 1594 622239349 622239260 6.690000e-33 152
22 TraesCS6B01G165200 chr3D 88.550 131 8 7 1493 1621 48406990 48406865 6.690000e-33 152
23 TraesCS6B01G165200 chr3D 94.118 102 2 3 1496 1594 48419263 48419163 6.690000e-33 152
24 TraesCS6B01G165200 chr3A 87.302 126 11 5 1495 1619 60613543 60613422 5.210000e-29 139


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 TraesCS6B01G165200 chr6B 172260455 172264322 3867 False 2470.333333 7143 94.502 1 3868 3 chr6B.!!$F1 3867
1 TraesCS6B01G165200 chr6A 108174848 108178381 3533 False 1467.666667 2034 89.125 148 3631 3 chr6A.!!$F1 3483
2 TraesCS6B01G165200 chr6D 89728645 89733127 4482 False 910.833333 1838 91.889 19 3791 6 chr6D.!!$F1 3772

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
712 811 1.229428 TTTCCAGAACAAGCTCTGCG 58.771 50.0 0.0 0.0 41.36 5.18 F
2001 2199 0.602106 GCACAGCTGAGCAGTCAAGA 60.602 55.0 28.2 0.0 30.14 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2196 2394 0.104120 CGTGACACTGACAAGGTGGA 59.896 55.0 3.68 0.0 38.83 4.02 R
2953 3244 0.106708 GTTCACAGTGCCTGGTCTCA 59.893 55.0 0.00 0.0 35.51 3.27 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
35 36 4.529897 TCTGATGCTGCATGGTTAGAAAT 58.470 39.130 21.53 0.00 0.00 2.17
37 38 5.001237 TGATGCTGCATGGTTAGAAATTG 57.999 39.130 21.53 0.00 0.00 2.32
42 43 4.802039 GCTGCATGGTTAGAAATTGTCATG 59.198 41.667 0.00 0.00 36.17 3.07
70 71 8.671921 CACACTCACATAAGCAAAGAAGATAAT 58.328 33.333 0.00 0.00 0.00 1.28
144 145 9.545105 AGAAAATCATCTTCAGACACATATCTC 57.455 33.333 0.00 0.00 0.00 2.75
149 150 5.697473 TCTTCAGACACATATCTCGGATC 57.303 43.478 0.00 0.00 0.00 3.36
186 187 1.298041 ACCACGCGCAAAAGAAACG 60.298 52.632 5.73 0.00 0.00 3.60
229 232 3.198853 AGAAAGGAGGTCACTTCATAGCC 59.801 47.826 0.00 0.00 0.00 3.93
288 295 9.330063 CTAGTTCAGCAATATGAAATACCAAGA 57.670 33.333 0.00 0.00 40.72 3.02
332 345 1.522668 TCAGATGGTCCAAAGTTGCG 58.477 50.000 0.00 0.00 0.00 4.85
482 495 3.959535 TTAATTGGGCCTGAAGCTTTG 57.040 42.857 4.53 0.00 43.05 2.77
484 497 2.242882 ATTGGGCCTGAAGCTTTGAT 57.757 45.000 4.53 0.00 43.05 2.57
491 504 4.160252 GGGCCTGAAGCTTTGATGAATTTA 59.840 41.667 0.84 0.00 43.05 1.40
500 513 6.681777 AGCTTTGATGAATTTAACAGTGGAC 58.318 36.000 0.00 0.00 0.00 4.02
503 516 7.581213 TTTGATGAATTTAACAGTGGACAGT 57.419 32.000 0.00 0.00 0.00 3.55
505 518 6.969366 TGATGAATTTAACAGTGGACAGTTG 58.031 36.000 0.00 0.00 0.00 3.16
518 531 3.936453 TGGACAGTTGAAGTTGTGTGTAC 59.064 43.478 0.00 0.00 0.00 2.90
528 542 5.878116 TGAAGTTGTGTGTACTAAAACAGCT 59.122 36.000 0.00 0.00 35.89 4.24
534 548 5.244402 TGTGTGTACTAAAACAGCTAGCCTA 59.756 40.000 12.13 0.00 0.00 3.93
557 571 2.224606 TCCAGAACAAGCTCTGCAAAG 58.775 47.619 0.00 0.00 41.36 2.77
577 591 8.194104 TGCAAAGCATTCAGTTTACTAAGAAAA 58.806 29.630 0.00 0.00 31.71 2.29
712 811 1.229428 TTTCCAGAACAAGCTCTGCG 58.771 50.000 0.00 0.00 41.36 5.18
784 884 8.079211 TGATACTAACAGTTTGAGCTTCCTAT 57.921 34.615 1.40 0.00 0.00 2.57
1006 1113 1.019650 TAGCTCCCTCTTCCTCCCTT 58.980 55.000 0.00 0.00 0.00 3.95
1057 1164 3.037851 TCACCATCATCAGGCTCTAGT 57.962 47.619 0.00 0.00 0.00 2.57
1086 1193 6.522625 TTCTTGATTCCTCTACAGAGTGAG 57.477 41.667 5.56 0.00 40.48 3.51
1090 1197 6.314899 TGATTCCTCTACAGAGTGAGACTA 57.685 41.667 5.56 0.00 40.48 2.59
1144 1251 1.468914 GGAGTTTTCGGGCAGCTTAAG 59.531 52.381 0.00 0.00 0.00 1.85
1147 1254 2.038557 AGTTTTCGGGCAGCTTAAGAGA 59.961 45.455 6.67 0.00 0.00 3.10
1148 1255 3.010420 GTTTTCGGGCAGCTTAAGAGAT 58.990 45.455 6.67 0.00 0.00 2.75
1149 1256 4.081087 AGTTTTCGGGCAGCTTAAGAGATA 60.081 41.667 6.67 0.00 0.00 1.98
1150 1257 3.454371 TTCGGGCAGCTTAAGAGATAC 57.546 47.619 6.67 0.00 0.00 2.24
1152 1259 3.031736 TCGGGCAGCTTAAGAGATACTT 58.968 45.455 6.67 0.00 42.04 2.24
1153 1260 3.451178 TCGGGCAGCTTAAGAGATACTTT 59.549 43.478 6.67 0.00 39.72 2.66
1154 1261 3.557595 CGGGCAGCTTAAGAGATACTTTG 59.442 47.826 6.67 0.00 39.72 2.77
1155 1262 4.680708 CGGGCAGCTTAAGAGATACTTTGA 60.681 45.833 6.67 0.00 39.72 2.69
1170 1282 7.271511 AGATACTTTGATCTTGAGGTAAGCTG 58.728 38.462 0.00 0.00 36.31 4.24
1171 1283 4.006319 ACTTTGATCTTGAGGTAAGCTGC 58.994 43.478 0.00 0.00 36.31 5.25
1194 1306 1.197036 TCTGCTCTTCTGTACACGTCG 59.803 52.381 0.00 0.00 0.00 5.12
1210 1322 5.992489 CACGTCGTGTGGATATGTATATG 57.008 43.478 17.30 0.00 45.21 1.78
1211 1323 4.857037 CACGTCGTGTGGATATGTATATGG 59.143 45.833 17.30 0.00 45.21 2.74
1218 1330 4.224147 TGTGGATATGTATATGGTTCCGGG 59.776 45.833 0.00 0.00 0.00 5.73
1240 1352 4.278419 GGCCTCTGAGAAGCTTTTGTTTAA 59.722 41.667 6.17 0.00 0.00 1.52
1243 1355 6.202226 CCTCTGAGAAGCTTTTGTTTAACAC 58.798 40.000 6.17 0.00 0.00 3.32
1245 1357 5.583061 TCTGAGAAGCTTTTGTTTAACACGA 59.417 36.000 0.00 0.00 0.00 4.35
1275 1387 1.291132 GAATTTCCCGAGAAGGCGAG 58.709 55.000 0.00 0.00 39.21 5.03
1299 1412 7.512992 AGAACAGCTTAAATCCTAGCATACAT 58.487 34.615 0.00 0.00 39.85 2.29
1480 1594 0.909623 TTCCTCGGTCCTCCCATTTC 59.090 55.000 0.00 0.00 0.00 2.17
1497 1628 7.041107 TCCCATTTCAAGAACAACTTCAAAAG 58.959 34.615 0.00 0.00 32.81 2.27
1592 1786 2.947652 CACTGAGCTATGGACCCATTTG 59.052 50.000 6.88 2.62 37.82 2.32
1595 1789 2.308570 TGAGCTATGGACCCATTTGTGT 59.691 45.455 6.88 0.00 37.82 3.72
1644 1838 9.407380 TCAAAGTATTGTGTTTATGGCTATGAT 57.593 29.630 0.00 0.00 37.79 2.45
1653 1847 7.503230 TGTGTTTATGGCTATGATTCATCACAT 59.497 33.333 1.55 8.70 40.03 3.21
1699 1893 9.687210 CTACTTACACATGTAACTGTTGTTCTA 57.313 33.333 0.00 0.00 35.75 2.10
1752 1946 5.586155 TTGGGTTCCCTACAGATGTAAAA 57.414 39.130 9.43 0.00 0.00 1.52
1809 2003 4.227300 ACATCTCCAAGCTGGGTAAACATA 59.773 41.667 7.13 0.00 38.32 2.29
1871 2065 6.058183 AGATCACCAGACTTTATTATGCCAC 58.942 40.000 0.00 0.00 0.00 5.01
1916 2114 6.961360 TCTAGTATTGTCACTGATGGGTAG 57.039 41.667 0.00 0.00 0.00 3.18
1923 2121 1.696884 TCACTGATGGGTAGTGTGCAA 59.303 47.619 0.00 0.00 44.49 4.08
2001 2199 0.602106 GCACAGCTGAGCAGTCAAGA 60.602 55.000 28.20 0.00 30.14 3.02
2145 2343 2.291540 GGTGATCCCTGATTTTCCACCA 60.292 50.000 0.00 0.00 41.45 4.17
2162 2360 5.640147 TCCACCATAAAAGTTTCACATCCT 58.360 37.500 0.00 0.00 0.00 3.24
2214 2412 2.417719 GATCCACCTTGTCAGTGTCAC 58.582 52.381 0.00 0.00 33.20 3.67
2217 2415 1.270305 CCACCTTGTCAGTGTCACGAT 60.270 52.381 0.00 0.00 33.20 3.73
2413 2698 2.969950 TGTTTACTAGGTGCTGACCAGT 59.030 45.455 0.00 0.00 45.98 4.00
2451 2736 2.305343 AGACTTTGAGCCAGCAAGATCT 59.695 45.455 0.00 0.00 0.00 2.75
2487 2772 5.488919 TGAGATTAATTTCCCAGACAGACCT 59.511 40.000 3.70 0.00 0.00 3.85
2559 2844 1.924731 AGAAGACCAGGACATCGTCA 58.075 50.000 0.00 0.00 33.68 4.35
2758 3045 8.135529 GCTTTATTCTTTGTCCAGTTTAACAGT 58.864 33.333 0.00 0.00 0.00 3.55
2760 3047 9.796120 TTTATTCTTTGTCCAGTTTAACAGTTG 57.204 29.630 0.00 0.00 0.00 3.16
2761 3048 5.828299 TCTTTGTCCAGTTTAACAGTTGG 57.172 39.130 0.00 0.00 0.00 3.77
2762 3049 5.502079 TCTTTGTCCAGTTTAACAGTTGGA 58.498 37.500 1.13 1.13 37.38 3.53
2763 3050 5.588648 TCTTTGTCCAGTTTAACAGTTGGAG 59.411 40.000 5.02 0.00 40.20 3.86
2764 3051 3.211045 TGTCCAGTTTAACAGTTGGAGC 58.789 45.455 5.02 2.63 40.20 4.70
2765 3052 2.552743 GTCCAGTTTAACAGTTGGAGCC 59.447 50.000 5.02 0.00 40.20 4.70
2768 3055 4.042311 TCCAGTTTAACAGTTGGAGCCATA 59.958 41.667 1.13 0.00 34.90 2.74
2802 3089 5.920840 GCAAAAGTAAGTTGGAAGTTGATCC 59.079 40.000 0.00 0.00 40.10 3.36
2870 3159 7.043454 TGTTTCACATTGTTTTTCAAAGACG 57.957 32.000 0.00 0.00 39.62 4.18
2883 3172 4.959631 TCAAAGACGCGTAACTGTAAAG 57.040 40.909 13.97 0.00 0.00 1.85
2886 3177 5.519566 TCAAAGACGCGTAACTGTAAAGAAA 59.480 36.000 13.97 0.00 0.00 2.52
2948 3239 5.482163 TCATGACATGTTGTGGACTAAGA 57.518 39.130 14.98 0.00 0.00 2.10
2950 3241 5.934043 TCATGACATGTTGTGGACTAAGAAG 59.066 40.000 14.98 0.00 0.00 2.85
2951 3242 4.065088 TGACATGTTGTGGACTAAGAAGC 58.935 43.478 0.00 0.00 0.00 3.86
2953 3244 4.655963 ACATGTTGTGGACTAAGAAGCAT 58.344 39.130 0.00 0.00 0.00 3.79
2954 3245 4.456911 ACATGTTGTGGACTAAGAAGCATG 59.543 41.667 0.00 0.00 37.69 4.06
2955 3246 4.350368 TGTTGTGGACTAAGAAGCATGA 57.650 40.909 0.00 0.00 0.00 3.07
2956 3247 4.318332 TGTTGTGGACTAAGAAGCATGAG 58.682 43.478 0.00 0.00 0.00 2.90
2958 3249 4.193826 TGTGGACTAAGAAGCATGAGAC 57.806 45.455 0.00 0.00 0.00 3.36
3014 3306 1.006571 ACAACGTGCTACTGACCGG 60.007 57.895 0.00 0.00 0.00 5.28
3072 3364 5.316167 TCACTTTGTTCAAGAGCCATGTAT 58.684 37.500 0.00 0.00 36.21 2.29
3073 3365 5.181811 TCACTTTGTTCAAGAGCCATGTATG 59.818 40.000 0.00 0.00 36.21 2.39
3075 3367 5.536161 ACTTTGTTCAAGAGCCATGTATGTT 59.464 36.000 0.00 0.00 36.21 2.71
3098 3390 4.163649 TCTTCAGAGAACATCATGGCTGAT 59.836 41.667 0.00 0.00 43.02 2.90
3165 3457 8.856153 TTTGCAATTAGGTCAGTAACAATCTA 57.144 30.769 0.00 0.00 0.00 1.98
3170 3462 7.973048 ATTAGGTCAGTAACAATCTACCTGA 57.027 36.000 0.00 0.00 37.85 3.86
3262 3563 8.325787 TGAAAGGTTTATAAGGTCAAGCAGATA 58.674 33.333 0.00 0.00 0.00 1.98
3263 3564 8.738645 AAAGGTTTATAAGGTCAAGCAGATAG 57.261 34.615 0.00 0.00 0.00 2.08
3409 3746 8.687242 CATCAACTATCAAGTAGGAGTAGACAA 58.313 37.037 0.00 0.00 33.75 3.18
3418 3755 6.197364 AGTAGGAGTAGACAACAAGAATCG 57.803 41.667 0.00 0.00 0.00 3.34
3489 3830 7.995488 TCAAAAGAAGACTTTCTGAAGGATTCT 59.005 33.333 6.52 11.37 44.41 2.40
3550 3892 2.437359 GCTGGCTTCACGCTCCAT 60.437 61.111 0.00 0.00 39.13 3.41
3551 3893 2.042831 GCTGGCTTCACGCTCCATT 61.043 57.895 0.00 0.00 39.13 3.16
3561 3905 1.533731 CACGCTCCATTTTACCGTTGT 59.466 47.619 0.00 0.00 0.00 3.32
3584 3928 3.430862 GCATCGCGGTTTGAGCCA 61.431 61.111 6.13 0.00 0.00 4.75
3586 3930 1.353103 CATCGCGGTTTGAGCCATC 59.647 57.895 6.13 0.00 0.00 3.51
3587 3931 1.091771 CATCGCGGTTTGAGCCATCT 61.092 55.000 6.13 0.00 0.00 2.90
3588 3932 0.464036 ATCGCGGTTTGAGCCATCTA 59.536 50.000 6.13 0.00 0.00 1.98
3600 3944 8.639761 GGTTTGAGCCATCTACTAGTCTTTATA 58.360 37.037 0.00 0.00 0.00 0.98
3607 3951 8.368668 GCCATCTACTAGTCTTTATAACCATGT 58.631 37.037 0.00 0.00 0.00 3.21
3667 4619 2.727123 TCAGCCAGTTTTTGTCCTCA 57.273 45.000 0.00 0.00 0.00 3.86
3672 4624 2.029918 GCCAGTTTTTGTCCTCACCATC 60.030 50.000 0.00 0.00 0.00 3.51
3753 4715 7.284074 TGGAAACTCCATACAAGTAACTGAAA 58.716 34.615 0.00 0.00 42.67 2.69
3759 4721 4.394920 CCATACAAGTAACTGAAACGCCAT 59.605 41.667 0.00 0.00 0.00 4.40
3791 4753 7.553504 AAAAGTGGCTGGAACCTAAAATAAT 57.446 32.000 0.00 0.00 0.00 1.28
3792 4754 8.658840 AAAAGTGGCTGGAACCTAAAATAATA 57.341 30.769 0.00 0.00 0.00 0.98
3793 4755 7.881775 AAGTGGCTGGAACCTAAAATAATAG 57.118 36.000 0.00 0.00 0.00 1.73
3794 4756 5.828328 AGTGGCTGGAACCTAAAATAATAGC 59.172 40.000 0.00 0.00 0.00 2.97
3795 4757 5.009710 GTGGCTGGAACCTAAAATAATAGCC 59.990 44.000 0.00 0.00 46.25 3.93
3796 4758 5.137551 GGCTGGAACCTAAAATAATAGCCA 58.862 41.667 0.00 0.00 45.58 4.75
3797 4759 5.241728 GGCTGGAACCTAAAATAATAGCCAG 59.758 44.000 0.00 0.00 45.58 4.85
3798 4760 6.062095 GCTGGAACCTAAAATAATAGCCAGA 58.938 40.000 0.00 0.00 42.15 3.86
3799 4761 6.017026 GCTGGAACCTAAAATAATAGCCAGAC 60.017 42.308 0.00 0.00 42.15 3.51
3800 4762 6.964464 TGGAACCTAAAATAATAGCCAGACA 58.036 36.000 0.00 0.00 0.00 3.41
3801 4763 6.826741 TGGAACCTAAAATAATAGCCAGACAC 59.173 38.462 0.00 0.00 0.00 3.67
3802 4764 6.262496 GGAACCTAAAATAATAGCCAGACACC 59.738 42.308 0.00 0.00 0.00 4.16
3803 4765 6.576778 ACCTAAAATAATAGCCAGACACCT 57.423 37.500 0.00 0.00 0.00 4.00
3804 4766 6.357367 ACCTAAAATAATAGCCAGACACCTG 58.643 40.000 0.00 0.00 40.09 4.00
3805 4767 5.239525 CCTAAAATAATAGCCAGACACCTGC 59.760 44.000 0.00 0.00 39.07 4.85
3806 4768 3.931907 AATAATAGCCAGACACCTGCA 57.068 42.857 0.00 0.00 39.07 4.41
3807 4769 4.443978 AATAATAGCCAGACACCTGCAT 57.556 40.909 0.00 0.00 39.07 3.96
3808 4770 2.814805 AATAGCCAGACACCTGCATT 57.185 45.000 0.00 0.00 39.07 3.56
3809 4771 2.814805 ATAGCCAGACACCTGCATTT 57.185 45.000 0.00 0.00 39.07 2.32
3810 4772 2.584835 TAGCCAGACACCTGCATTTT 57.415 45.000 0.00 0.00 39.07 1.82
3811 4773 2.584835 AGCCAGACACCTGCATTTTA 57.415 45.000 0.00 0.00 39.07 1.52
3812 4774 3.091633 AGCCAGACACCTGCATTTTAT 57.908 42.857 0.00 0.00 39.07 1.40
3813 4775 3.019564 AGCCAGACACCTGCATTTTATC 58.980 45.455 0.00 0.00 39.07 1.75
3814 4776 2.754552 GCCAGACACCTGCATTTTATCA 59.245 45.455 0.00 0.00 39.07 2.15
3815 4777 3.193267 GCCAGACACCTGCATTTTATCAA 59.807 43.478 0.00 0.00 39.07 2.57
3816 4778 4.676196 GCCAGACACCTGCATTTTATCAAG 60.676 45.833 0.00 0.00 39.07 3.02
3817 4779 4.460382 CCAGACACCTGCATTTTATCAAGT 59.540 41.667 0.00 0.00 39.07 3.16
3818 4780 5.392380 CCAGACACCTGCATTTTATCAAGTC 60.392 44.000 0.00 0.00 39.07 3.01
3819 4781 5.181811 CAGACACCTGCATTTTATCAAGTCA 59.818 40.000 0.00 0.00 33.07 3.41
3820 4782 5.413833 AGACACCTGCATTTTATCAAGTCAG 59.586 40.000 0.00 0.00 0.00 3.51
3821 4783 4.460382 ACACCTGCATTTTATCAAGTCAGG 59.540 41.667 0.00 0.00 43.73 3.86
3822 4784 4.666512 ACCTGCATTTTATCAAGTCAGGT 58.333 39.130 5.29 5.29 45.49 4.00
3824 4786 6.757897 CCTGCATTTTATCAAGTCAGGTAA 57.242 37.500 0.00 0.00 35.97 2.85
3825 4787 6.789262 CCTGCATTTTATCAAGTCAGGTAAG 58.211 40.000 0.00 0.00 35.97 2.34
3826 4788 6.183360 CCTGCATTTTATCAAGTCAGGTAAGG 60.183 42.308 0.00 0.00 35.97 2.69
3827 4789 6.480763 TGCATTTTATCAAGTCAGGTAAGGA 58.519 36.000 0.00 0.00 0.00 3.36
3828 4790 6.945435 TGCATTTTATCAAGTCAGGTAAGGAA 59.055 34.615 0.00 0.00 0.00 3.36
3829 4791 7.450014 TGCATTTTATCAAGTCAGGTAAGGAAA 59.550 33.333 0.00 0.00 0.00 3.13
3830 4792 8.303876 GCATTTTATCAAGTCAGGTAAGGAAAA 58.696 33.333 0.00 0.00 0.00 2.29
3834 4796 9.581289 TTTATCAAGTCAGGTAAGGAAAAATCA 57.419 29.630 0.00 0.00 0.00 2.57
3835 4797 7.693969 ATCAAGTCAGGTAAGGAAAAATCAG 57.306 36.000 0.00 0.00 0.00 2.90
3836 4798 6.837312 TCAAGTCAGGTAAGGAAAAATCAGA 58.163 36.000 0.00 0.00 0.00 3.27
3837 4799 7.461749 TCAAGTCAGGTAAGGAAAAATCAGAT 58.538 34.615 0.00 0.00 0.00 2.90
3838 4800 7.607991 TCAAGTCAGGTAAGGAAAAATCAGATC 59.392 37.037 0.00 0.00 0.00 2.75
3839 4801 6.109359 AGTCAGGTAAGGAAAAATCAGATCG 58.891 40.000 0.00 0.00 0.00 3.69
3840 4802 6.070767 AGTCAGGTAAGGAAAAATCAGATCGA 60.071 38.462 0.00 0.00 0.00 3.59
3841 4803 6.594159 GTCAGGTAAGGAAAAATCAGATCGAA 59.406 38.462 0.00 0.00 0.00 3.71
3842 4804 7.281100 GTCAGGTAAGGAAAAATCAGATCGAAT 59.719 37.037 0.00 0.00 0.00 3.34
3843 4805 7.280876 TCAGGTAAGGAAAAATCAGATCGAATG 59.719 37.037 0.00 0.00 0.00 2.67
3844 4806 7.066284 CAGGTAAGGAAAAATCAGATCGAATGT 59.934 37.037 0.00 0.00 0.00 2.71
3845 4807 7.611855 AGGTAAGGAAAAATCAGATCGAATGTT 59.388 33.333 0.00 0.00 0.00 2.71
3846 4808 8.244113 GGTAAGGAAAAATCAGATCGAATGTTT 58.756 33.333 0.00 0.00 0.00 2.83
3847 4809 9.278734 GTAAGGAAAAATCAGATCGAATGTTTC 57.721 33.333 13.53 13.53 0.00 2.78
3848 4810 7.452880 AGGAAAAATCAGATCGAATGTTTCA 57.547 32.000 19.33 0.00 0.00 2.69
3849 4811 7.885297 AGGAAAAATCAGATCGAATGTTTCAA 58.115 30.769 19.33 0.00 0.00 2.69
3850 4812 8.359642 AGGAAAAATCAGATCGAATGTTTCAAA 58.640 29.630 19.33 0.00 0.00 2.69
3851 4813 8.642020 GGAAAAATCAGATCGAATGTTTCAAAG 58.358 33.333 19.33 0.00 0.00 2.77
3852 4814 9.185192 GAAAAATCAGATCGAATGTTTCAAAGT 57.815 29.630 15.60 0.00 0.00 2.66
3853 4815 9.533253 AAAAATCAGATCGAATGTTTCAAAGTT 57.467 25.926 0.00 0.00 0.00 2.66
3854 4816 8.733857 AAATCAGATCGAATGTTTCAAAGTTC 57.266 30.769 0.00 0.00 0.00 3.01
3855 4817 6.859420 TCAGATCGAATGTTTCAAAGTTCA 57.141 33.333 0.00 0.00 0.00 3.18
3856 4818 7.258022 TCAGATCGAATGTTTCAAAGTTCAA 57.742 32.000 0.00 0.00 0.00 2.69
3857 4819 7.702386 TCAGATCGAATGTTTCAAAGTTCAAA 58.298 30.769 0.00 0.00 0.00 2.69
3858 4820 7.857389 TCAGATCGAATGTTTCAAAGTTCAAAG 59.143 33.333 0.00 0.00 0.00 2.77
3859 4821 7.857389 CAGATCGAATGTTTCAAAGTTCAAAGA 59.143 33.333 0.00 0.00 0.00 2.52
3860 4822 8.072567 AGATCGAATGTTTCAAAGTTCAAAGAG 58.927 33.333 0.00 0.00 0.00 2.85
3861 4823 6.494842 TCGAATGTTTCAAAGTTCAAAGAGG 58.505 36.000 0.00 0.00 0.00 3.69
3862 4824 5.687285 CGAATGTTTCAAAGTTCAAAGAGGG 59.313 40.000 0.00 0.00 0.00 4.30
3863 4825 5.535753 ATGTTTCAAAGTTCAAAGAGGGG 57.464 39.130 0.00 0.00 0.00 4.79
3864 4826 3.132111 TGTTTCAAAGTTCAAAGAGGGGC 59.868 43.478 0.00 0.00 0.00 5.80
3865 4827 1.995376 TCAAAGTTCAAAGAGGGGCC 58.005 50.000 0.00 0.00 0.00 5.80
3866 4828 1.499007 TCAAAGTTCAAAGAGGGGCCT 59.501 47.619 0.84 0.00 0.00 5.19
3867 4829 1.889170 CAAAGTTCAAAGAGGGGCCTC 59.111 52.381 0.84 0.00 43.03 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.377485 CAGCATCAGAAACCAATCTCCAG 59.623 47.826 0.00 0.00 0.00 3.86
2 3 2.098770 GCAGCATCAGAAACCAATCTCC 59.901 50.000 0.00 0.00 0.00 3.71
3 4 2.751259 TGCAGCATCAGAAACCAATCTC 59.249 45.455 0.00 0.00 0.00 2.75
4 5 2.799017 TGCAGCATCAGAAACCAATCT 58.201 42.857 0.00 0.00 0.00 2.40
5 6 3.444916 CATGCAGCATCAGAAACCAATC 58.555 45.455 4.38 0.00 0.00 2.67
6 7 2.167693 CCATGCAGCATCAGAAACCAAT 59.832 45.455 4.38 0.00 0.00 3.16
7 8 1.546923 CCATGCAGCATCAGAAACCAA 59.453 47.619 4.38 0.00 0.00 3.67
8 9 1.179152 CCATGCAGCATCAGAAACCA 58.821 50.000 4.38 0.00 0.00 3.67
9 10 1.180029 ACCATGCAGCATCAGAAACC 58.820 50.000 4.38 0.00 0.00 3.27
10 11 3.691118 TCTAACCATGCAGCATCAGAAAC 59.309 43.478 4.38 0.00 0.00 2.78
11 12 3.954200 TCTAACCATGCAGCATCAGAAA 58.046 40.909 4.38 0.00 0.00 2.52
12 13 3.632643 TCTAACCATGCAGCATCAGAA 57.367 42.857 4.38 0.00 0.00 3.02
13 14 3.632643 TTCTAACCATGCAGCATCAGA 57.367 42.857 4.38 3.30 0.00 3.27
14 15 4.913335 ATTTCTAACCATGCAGCATCAG 57.087 40.909 4.38 2.38 0.00 2.90
15 16 4.463539 ACAATTTCTAACCATGCAGCATCA 59.536 37.500 4.38 0.00 0.00 3.07
16 17 5.002464 ACAATTTCTAACCATGCAGCATC 57.998 39.130 4.38 0.00 0.00 3.91
17 18 4.463539 TGACAATTTCTAACCATGCAGCAT 59.536 37.500 0.52 0.52 0.00 3.79
35 36 2.275134 ATGTGAGTGTGCCATGACAA 57.725 45.000 0.00 0.00 0.00 3.18
37 38 2.096496 GCTTATGTGAGTGTGCCATGAC 59.904 50.000 0.00 0.00 0.00 3.06
42 43 2.813754 TCTTTGCTTATGTGAGTGTGCC 59.186 45.455 0.00 0.00 0.00 5.01
144 145 0.392706 TGTCCCATTCCATCGATCCG 59.607 55.000 0.00 0.00 0.00 4.18
149 150 1.942657 GTGATGTGTCCCATTCCATCG 59.057 52.381 0.00 0.00 37.18 3.84
172 173 1.724581 GACCCGTTTCTTTTGCGCG 60.725 57.895 0.00 0.00 0.00 6.86
229 232 3.702045 AGAAAGAGGATAGTGGACCTTCG 59.298 47.826 0.00 0.00 36.57 3.79
237 240 7.559897 AGAGGTTCTAAGAGAAAGAGGATAGTG 59.440 40.741 0.00 0.00 35.75 2.74
288 295 0.738389 CACCCACAGCTCGTTTTGTT 59.262 50.000 0.00 0.00 0.00 2.83
332 345 3.127030 GGTATGCAGTTAAGAGCACAACC 59.873 47.826 14.55 14.55 44.49 3.77
468 481 1.549203 TTCATCAAAGCTTCAGGCCC 58.451 50.000 0.00 0.00 43.05 5.80
471 484 7.327761 CACTGTTAAATTCATCAAAGCTTCAGG 59.672 37.037 0.00 0.00 0.00 3.86
477 490 6.446318 TGTCCACTGTTAAATTCATCAAAGC 58.554 36.000 0.00 0.00 0.00 3.51
482 495 7.202016 TCAACTGTCCACTGTTAAATTCATC 57.798 36.000 2.07 0.00 36.47 2.92
484 497 6.601613 ACTTCAACTGTCCACTGTTAAATTCA 59.398 34.615 2.07 0.00 36.47 2.57
491 504 3.440173 CACAACTTCAACTGTCCACTGTT 59.560 43.478 0.00 0.00 38.32 3.16
500 513 7.523219 TGTTTTAGTACACACAACTTCAACTG 58.477 34.615 0.00 0.00 0.00 3.16
503 516 6.373216 AGCTGTTTTAGTACACACAACTTCAA 59.627 34.615 0.00 0.00 0.00 2.69
505 518 6.359480 AGCTGTTTTAGTACACACAACTTC 57.641 37.500 0.00 0.00 0.00 3.01
518 531 6.349300 TCTGGAAATAGGCTAGCTGTTTTAG 58.651 40.000 15.72 13.75 0.00 1.85
528 542 4.471386 AGAGCTTGTTCTGGAAATAGGCTA 59.529 41.667 0.00 0.00 0.00 3.93
534 548 2.867624 TGCAGAGCTTGTTCTGGAAAT 58.132 42.857 14.53 0.00 41.70 2.17
861 961 2.948979 CCTGCTGACAAACACCAACTTA 59.051 45.455 0.00 0.00 0.00 2.24
864 964 0.249031 GCCTGCTGACAAACACCAAC 60.249 55.000 0.00 0.00 0.00 3.77
865 965 0.682532 TGCCTGCTGACAAACACCAA 60.683 50.000 0.00 0.00 0.00 3.67
866 966 0.467844 ATGCCTGCTGACAAACACCA 60.468 50.000 0.00 0.00 0.00 4.17
867 967 0.038892 CATGCCTGCTGACAAACACC 60.039 55.000 0.00 0.00 0.00 4.16
868 968 0.953727 TCATGCCTGCTGACAAACAC 59.046 50.000 0.00 0.00 0.00 3.32
869 969 1.689984 TTCATGCCTGCTGACAAACA 58.310 45.000 0.00 0.00 0.00 2.83
870 970 2.991190 CAATTCATGCCTGCTGACAAAC 59.009 45.455 0.00 0.00 0.00 2.93
871 971 2.028839 CCAATTCATGCCTGCTGACAAA 60.029 45.455 0.00 0.00 0.00 2.83
872 972 1.546923 CCAATTCATGCCTGCTGACAA 59.453 47.619 0.00 0.00 0.00 3.18
873 973 1.179152 CCAATTCATGCCTGCTGACA 58.821 50.000 0.00 0.00 0.00 3.58
917 1021 6.064717 AGTTAGTTGGATGCACTTCTTCTTT 58.935 36.000 0.00 0.00 0.00 2.52
931 1038 2.969821 ATGGTGGCAAGTTAGTTGGA 57.030 45.000 1.75 0.00 36.56 3.53
1006 1113 1.423921 GGAGTTTGGTTTGGAGGGAGA 59.576 52.381 0.00 0.00 0.00 3.71
1057 1164 6.533730 TCTGTAGAGGAATCAAGAAAGCAAA 58.466 36.000 0.00 0.00 0.00 3.68
1144 1251 7.437862 CAGCTTACCTCAAGATCAAAGTATCTC 59.562 40.741 0.00 0.00 35.10 2.75
1147 1254 5.819901 GCAGCTTACCTCAAGATCAAAGTAT 59.180 40.000 0.00 0.00 36.22 2.12
1148 1255 5.178797 GCAGCTTACCTCAAGATCAAAGTA 58.821 41.667 0.00 0.00 36.22 2.24
1149 1256 4.006319 GCAGCTTACCTCAAGATCAAAGT 58.994 43.478 0.00 0.00 36.22 2.66
1150 1257 3.376546 GGCAGCTTACCTCAAGATCAAAG 59.623 47.826 0.00 0.00 36.22 2.77
1152 1259 2.573462 AGGCAGCTTACCTCAAGATCAA 59.427 45.455 0.00 0.00 36.22 2.57
1153 1260 2.191400 AGGCAGCTTACCTCAAGATCA 58.809 47.619 0.00 0.00 36.22 2.92
1154 1261 2.998316 AGGCAGCTTACCTCAAGATC 57.002 50.000 0.00 0.00 36.22 2.75
1155 1262 2.843113 AGAAGGCAGCTTACCTCAAGAT 59.157 45.455 5.52 0.00 36.14 2.40
1170 1282 2.342179 GTGTACAGAAGAGCAGAAGGC 58.658 52.381 0.00 0.00 45.30 4.35
1171 1283 2.029828 ACGTGTACAGAAGAGCAGAAGG 60.030 50.000 0.00 0.00 0.00 3.46
1194 1306 5.175859 CCGGAACCATATACATATCCACAC 58.824 45.833 0.00 0.00 0.00 3.82
1199 1311 3.454812 AGGCCCGGAACCATATACATATC 59.545 47.826 15.02 0.00 0.00 1.63
1200 1312 3.454812 GAGGCCCGGAACCATATACATAT 59.545 47.826 15.02 0.00 0.00 1.78
1201 1313 2.835764 GAGGCCCGGAACCATATACATA 59.164 50.000 15.02 0.00 0.00 2.29
1202 1314 1.628846 GAGGCCCGGAACCATATACAT 59.371 52.381 15.02 0.00 0.00 2.29
1210 1322 2.245438 CTTCTCAGAGGCCCGGAACC 62.245 65.000 0.73 3.63 0.00 3.62
1211 1323 1.219393 CTTCTCAGAGGCCCGGAAC 59.781 63.158 0.73 0.00 0.00 3.62
1218 1330 3.998099 AAACAAAAGCTTCTCAGAGGC 57.002 42.857 0.00 0.00 34.80 4.70
1240 1352 3.325293 AATTCAGCTCTCATGTCGTGT 57.675 42.857 0.00 0.00 0.00 4.49
1243 1355 2.611292 GGGAAATTCAGCTCTCATGTCG 59.389 50.000 0.00 0.00 0.00 4.35
1245 1357 2.237143 TCGGGAAATTCAGCTCTCATGT 59.763 45.455 0.00 0.00 0.00 3.21
1275 1387 7.736447 ATGTATGCTAGGATTTAAGCTGTTC 57.264 36.000 0.65 0.00 39.53 3.18
1299 1412 5.250982 AGATCACAGATGCATCAGAACAAA 58.749 37.500 27.81 7.41 0.00 2.83
1342 1456 4.389077 CCTACACAAAGAAAAGCTCCTACG 59.611 45.833 0.00 0.00 0.00 3.51
1497 1628 8.700973 TGGGCCCTAATTGTATTTTTCTATTTC 58.299 33.333 25.70 0.00 0.00 2.17
1809 2003 6.478512 TGAAAAGGCCTTCAAGTTATTTGT 57.521 33.333 20.79 0.00 38.01 2.83
1853 2047 7.765695 AATATGGTGGCATAATAAAGTCTGG 57.234 36.000 0.00 0.00 0.00 3.86
1916 2114 7.872163 TTCATCTAAAATGAACATTGCACAC 57.128 32.000 0.69 0.00 33.55 3.82
2001 2199 3.829601 CTGTAGAGGTCCAAGAAGTCTGT 59.170 47.826 0.00 0.00 0.00 3.41
2100 2298 7.292356 ACCCCTGAATGAAACTTTATCCTTTTT 59.708 33.333 0.00 0.00 0.00 1.94
2104 2302 5.015178 TCACCCCTGAATGAAACTTTATCCT 59.985 40.000 0.00 0.00 0.00 3.24
2171 2369 1.377725 CCAGGCCCACATGTGAGTC 60.378 63.158 27.46 16.35 0.00 3.36
2196 2394 0.104120 CGTGACACTGACAAGGTGGA 59.896 55.000 3.68 0.00 38.83 4.02
2256 2538 2.025981 TGCAATAACAGAGGCATGGTCT 60.026 45.455 0.00 0.00 0.00 3.85
2260 2542 5.041287 CAGATTTGCAATAACAGAGGCATG 58.959 41.667 0.00 0.00 35.98 4.06
2372 2656 1.078347 GGAGGCAACCAATGGGGAA 59.922 57.895 3.55 0.00 41.15 3.97
2451 2736 6.039717 GGAAATTAATCTCAGTTGGCAGCATA 59.960 38.462 3.63 0.00 0.00 3.14
2559 2844 0.548682 ATCTTGCAGAGGAGGTGGGT 60.549 55.000 0.00 0.00 0.00 4.51
2765 3052 8.702438 CAACTTACTTTTGCATTTCCAACTATG 58.298 33.333 0.00 0.00 0.00 2.23
2768 3055 6.048509 CCAACTTACTTTTGCATTTCCAACT 58.951 36.000 0.00 0.00 0.00 3.16
2802 3089 5.990996 ACCAAAGCTTTATGGACAAAACATG 59.009 36.000 21.51 1.51 39.12 3.21
2870 3159 7.461107 TGATTAGCATTTCTTTACAGTTACGC 58.539 34.615 0.00 0.00 0.00 4.42
2883 3172 3.805971 GGCATGCCTTTGATTAGCATTTC 59.194 43.478 29.98 0.00 44.61 2.17
2886 3177 2.364324 CAGGCATGCCTTTGATTAGCAT 59.636 45.455 36.92 8.87 45.70 3.79
2948 3239 0.322277 CAGTGCCTGGTCTCATGCTT 60.322 55.000 0.00 0.00 35.87 3.91
2950 3241 1.002868 ACAGTGCCTGGTCTCATGC 60.003 57.895 7.06 0.00 35.51 4.06
2951 3242 0.322648 TCACAGTGCCTGGTCTCATG 59.677 55.000 0.00 0.00 35.51 3.07
2953 3244 0.106708 GTTCACAGTGCCTGGTCTCA 59.893 55.000 0.00 0.00 35.51 3.27
2954 3245 0.394565 AGTTCACAGTGCCTGGTCTC 59.605 55.000 0.00 0.00 35.51 3.36
2955 3246 0.107456 CAGTTCACAGTGCCTGGTCT 59.893 55.000 10.67 0.00 35.51 3.85
2956 3247 0.179045 ACAGTTCACAGTGCCTGGTC 60.179 55.000 18.78 0.00 35.51 4.02
2958 3249 1.066002 CAAACAGTTCACAGTGCCTGG 59.934 52.381 18.78 0.00 35.51 4.45
2964 3255 4.614993 CGTGGAAAACAAACAGTTCACAGT 60.615 41.667 0.00 0.00 40.26 3.55
3075 3367 3.516700 TCAGCCATGATGTTCTCTGAAGA 59.483 43.478 0.00 0.00 0.00 2.87
3098 3390 2.091389 ACCAATGTGGCAGCCCATAATA 60.091 45.455 9.64 0.00 44.51 0.98
3165 3457 3.211865 CAGCTGCATAATCACATCAGGT 58.788 45.455 0.00 0.00 36.11 4.00
3191 3483 4.422073 TCACACTGTTCAAGGAAGACAT 57.578 40.909 0.00 0.00 0.00 3.06
3237 3531 7.631717 ATCTGCTTGACCTTATAAACCTTTC 57.368 36.000 0.00 0.00 0.00 2.62
3255 3556 2.811431 CGAGGATCTTCGTCTATCTGCT 59.189 50.000 18.29 0.00 35.91 4.24
3262 3563 0.895530 TTTGGCGAGGATCTTCGTCT 59.104 50.000 28.53 0.51 44.98 4.18
3263 3564 1.393883 GTTTTGGCGAGGATCTTCGTC 59.606 52.381 23.31 23.31 44.95 4.20
3364 3701 9.682465 AGTTGATGCTGATGCTATTATTCATAT 57.318 29.630 0.00 0.00 40.48 1.78
3366 3703 7.997773 AGTTGATGCTGATGCTATTATTCAT 57.002 32.000 0.00 0.00 40.48 2.57
3367 3704 9.159364 GATAGTTGATGCTGATGCTATTATTCA 57.841 33.333 0.00 0.00 40.48 2.57
3409 3746 1.660607 CGCATAGCACACGATTCTTGT 59.339 47.619 0.00 0.00 0.00 3.16
3550 3892 2.151881 TGCGAGCTACAACGGTAAAA 57.848 45.000 0.00 0.00 0.00 1.52
3551 3893 2.264813 GATGCGAGCTACAACGGTAAA 58.735 47.619 0.00 0.00 0.00 2.01
3586 3930 9.751542 CCAGAACATGGTTATAAAGACTAGTAG 57.248 37.037 0.00 0.00 44.91 2.57
3607 3951 1.066430 CCCTAGCTAAACGTGCCAGAA 60.066 52.381 0.00 0.00 0.00 3.02
3632 4584 6.179756 ACTGGCTGAAACTTTCCAAAAATTT 58.820 32.000 0.00 0.00 0.00 1.82
3652 4604 3.004734 GTGATGGTGAGGACAAAAACTGG 59.995 47.826 0.00 0.00 0.00 4.00
3712 4674 9.010029 TGGAGTTTCCACTTATTCTGTTATTTC 57.990 33.333 0.00 0.00 42.67 2.17
3729 4691 7.570691 CGTTTCAGTTACTTGTATGGAGTTTCC 60.571 40.741 0.00 0.00 36.96 3.13
3732 4694 5.178809 GCGTTTCAGTTACTTGTATGGAGTT 59.821 40.000 0.00 0.00 0.00 3.01
3741 4703 3.980775 CCAAATGGCGTTTCAGTTACTTG 59.019 43.478 0.71 0.00 0.00 3.16
3753 4715 2.035832 CCACTTTTTCTCCAAATGGCGT 59.964 45.455 0.00 0.00 34.44 5.68
3759 4721 3.025322 TCCAGCCACTTTTTCTCCAAA 57.975 42.857 0.00 0.00 0.00 3.28
3791 4753 2.584835 AAAATGCAGGTGTCTGGCTA 57.415 45.000 0.00 0.00 41.19 3.93
3792 4754 2.584835 TAAAATGCAGGTGTCTGGCT 57.415 45.000 0.00 0.00 41.19 4.75
3793 4755 2.754552 TGATAAAATGCAGGTGTCTGGC 59.245 45.455 0.00 0.00 41.19 4.85
3794 4756 4.460382 ACTTGATAAAATGCAGGTGTCTGG 59.540 41.667 0.00 0.00 41.19 3.86
3795 4757 5.181811 TGACTTGATAAAATGCAGGTGTCTG 59.818 40.000 0.00 0.00 43.64 3.51
3796 4758 5.316167 TGACTTGATAAAATGCAGGTGTCT 58.684 37.500 0.00 0.00 0.00 3.41
3797 4759 5.392380 CCTGACTTGATAAAATGCAGGTGTC 60.392 44.000 0.00 0.00 37.30 3.67
3798 4760 4.460382 CCTGACTTGATAAAATGCAGGTGT 59.540 41.667 0.00 0.00 37.30 4.16
3799 4761 4.990257 CCTGACTTGATAAAATGCAGGTG 58.010 43.478 0.00 0.00 37.30 4.00
3801 4763 6.183360 CCTTACCTGACTTGATAAAATGCAGG 60.183 42.308 0.00 0.00 45.19 4.85
3802 4764 6.599244 TCCTTACCTGACTTGATAAAATGCAG 59.401 38.462 0.00 0.00 0.00 4.41
3803 4765 6.480763 TCCTTACCTGACTTGATAAAATGCA 58.519 36.000 0.00 0.00 0.00 3.96
3804 4766 7.391148 TTCCTTACCTGACTTGATAAAATGC 57.609 36.000 0.00 0.00 0.00 3.56
3808 4770 9.581289 TGATTTTTCCTTACCTGACTTGATAAA 57.419 29.630 0.00 0.00 0.00 1.40
3809 4771 9.231297 CTGATTTTTCCTTACCTGACTTGATAA 57.769 33.333 0.00 0.00 0.00 1.75
3810 4772 8.602424 TCTGATTTTTCCTTACCTGACTTGATA 58.398 33.333 0.00 0.00 0.00 2.15
3811 4773 7.461749 TCTGATTTTTCCTTACCTGACTTGAT 58.538 34.615 0.00 0.00 0.00 2.57
3812 4774 6.837312 TCTGATTTTTCCTTACCTGACTTGA 58.163 36.000 0.00 0.00 0.00 3.02
3813 4775 7.413438 CGATCTGATTTTTCCTTACCTGACTTG 60.413 40.741 0.00 0.00 0.00 3.16
3814 4776 6.595716 CGATCTGATTTTTCCTTACCTGACTT 59.404 38.462 0.00 0.00 0.00 3.01
3815 4777 6.070767 TCGATCTGATTTTTCCTTACCTGACT 60.071 38.462 0.00 0.00 0.00 3.41
3816 4778 6.106673 TCGATCTGATTTTTCCTTACCTGAC 58.893 40.000 0.00 0.00 0.00 3.51
3817 4779 6.294361 TCGATCTGATTTTTCCTTACCTGA 57.706 37.500 0.00 0.00 0.00 3.86
3818 4780 6.985188 TTCGATCTGATTTTTCCTTACCTG 57.015 37.500 0.00 0.00 0.00 4.00
3819 4781 7.112779 ACATTCGATCTGATTTTTCCTTACCT 58.887 34.615 2.79 0.00 0.00 3.08
3820 4782 7.321745 ACATTCGATCTGATTTTTCCTTACC 57.678 36.000 2.79 0.00 0.00 2.85
3821 4783 9.278734 GAAACATTCGATCTGATTTTTCCTTAC 57.721 33.333 2.79 0.00 0.00 2.34
3822 4784 9.008965 TGAAACATTCGATCTGATTTTTCCTTA 57.991 29.630 11.23 0.00 0.00 2.69
3823 4785 7.885297 TGAAACATTCGATCTGATTTTTCCTT 58.115 30.769 11.23 0.00 0.00 3.36
3824 4786 7.452880 TGAAACATTCGATCTGATTTTTCCT 57.547 32.000 11.23 0.00 0.00 3.36
3825 4787 8.519492 TTTGAAACATTCGATCTGATTTTTCC 57.481 30.769 11.23 0.00 0.00 3.13
3826 4788 9.185192 ACTTTGAAACATTCGATCTGATTTTTC 57.815 29.630 2.79 8.62 0.00 2.29
3827 4789 9.533253 AACTTTGAAACATTCGATCTGATTTTT 57.467 25.926 2.79 0.00 0.00 1.94
3828 4790 9.185192 GAACTTTGAAACATTCGATCTGATTTT 57.815 29.630 2.79 0.00 0.00 1.82
3829 4791 8.352201 TGAACTTTGAAACATTCGATCTGATTT 58.648 29.630 2.79 0.90 0.00 2.17
3830 4792 7.874940 TGAACTTTGAAACATTCGATCTGATT 58.125 30.769 2.79 0.00 0.00 2.57
3831 4793 7.439157 TGAACTTTGAAACATTCGATCTGAT 57.561 32.000 2.79 0.00 0.00 2.90
3832 4794 6.859420 TGAACTTTGAAACATTCGATCTGA 57.141 33.333 2.79 0.00 0.00 3.27
3833 4795 7.857389 TCTTTGAACTTTGAAACATTCGATCTG 59.143 33.333 0.00 0.00 0.00 2.90
3834 4796 7.930217 TCTTTGAACTTTGAAACATTCGATCT 58.070 30.769 0.00 0.00 0.00 2.75
3835 4797 7.324616 CCTCTTTGAACTTTGAAACATTCGATC 59.675 37.037 0.00 0.00 0.00 3.69
3836 4798 7.141363 CCTCTTTGAACTTTGAAACATTCGAT 58.859 34.615 0.00 0.00 0.00 3.59
3837 4799 6.459573 CCCTCTTTGAACTTTGAAACATTCGA 60.460 38.462 0.00 0.00 0.00 3.71
3838 4800 5.687285 CCCTCTTTGAACTTTGAAACATTCG 59.313 40.000 0.00 0.00 0.00 3.34
3839 4801 5.985530 CCCCTCTTTGAACTTTGAAACATTC 59.014 40.000 0.00 0.00 0.00 2.67
3840 4802 5.684813 GCCCCTCTTTGAACTTTGAAACATT 60.685 40.000 0.00 0.00 0.00 2.71
3841 4803 4.202253 GCCCCTCTTTGAACTTTGAAACAT 60.202 41.667 0.00 0.00 0.00 2.71
3842 4804 3.132111 GCCCCTCTTTGAACTTTGAAACA 59.868 43.478 0.00 0.00 0.00 2.83
3843 4805 3.492656 GGCCCCTCTTTGAACTTTGAAAC 60.493 47.826 0.00 0.00 0.00 2.78
3844 4806 2.698274 GGCCCCTCTTTGAACTTTGAAA 59.302 45.455 0.00 0.00 0.00 2.69
3845 4807 2.091333 AGGCCCCTCTTTGAACTTTGAA 60.091 45.455 0.00 0.00 0.00 2.69
3846 4808 1.499007 AGGCCCCTCTTTGAACTTTGA 59.501 47.619 0.00 0.00 0.00 2.69
3847 4809 1.889170 GAGGCCCCTCTTTGAACTTTG 59.111 52.381 0.00 0.00 39.80 2.77
3848 4810 2.294449 GAGGCCCCTCTTTGAACTTT 57.706 50.000 0.00 0.00 39.80 2.66


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

AutoCloner maintained by Alex Coulton.