Multiple sequence alignment - TraesCS7D01G020800

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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 TraesCS7D01G020800 chr7D 100.000 6180 0 0 1 6180 9308693 9314872 0.000000e+00 11413.0
1 TraesCS7D01G020800 chr7D 88.918 3465 356 13 1000 4447 8347415 8343962 0.000000e+00 4246.0
2 TraesCS7D01G020800 chr7D 83.493 2187 286 40 2055 4214 10498638 10496500 0.000000e+00 1969.0
3 TraesCS7D01G020800 chr7D 94.158 291 16 1 5698 5987 10495228 10494938 5.690000e-120 442.0
4 TraesCS7D01G020800 chr7D 77.208 838 135 30 1000 1827 10501218 10500427 7.350000e-119 438.0
5 TraesCS7D01G020800 chr7D 76.702 382 71 12 1014 1389 2650096 2650465 4.890000e-46 196.0
6 TraesCS7D01G020800 chr7D 95.556 45 2 0 5571 5615 418723577 418723533 8.590000e-09 73.1
7 TraesCS7D01G020800 chr7A 90.573 3840 308 19 883 4695 8781087 8777275 0.000000e+00 5036.0
8 TraesCS7D01G020800 chr7A 86.653 3364 370 40 118 3447 9007393 9010711 0.000000e+00 3651.0
9 TraesCS7D01G020800 chr7A 90.653 674 57 4 3436 4107 9011884 9012553 0.000000e+00 891.0
10 TraesCS7D01G020800 chr7A 88.613 483 46 6 1 477 9006744 9007223 4.150000e-161 579.0
11 TraesCS7D01G020800 chr7A 90.476 420 29 3 4365 4783 9013681 9014090 1.520000e-150 544.0
12 TraesCS7D01G020800 chr7A 75.567 397 77 14 1014 1403 3273259 3273642 1.770000e-40 178.0
13 TraesCS7D01G020800 chr7A 71.272 731 168 28 2060 2772 3413614 3414320 1.390000e-31 148.0
14 TraesCS7D01G020800 chr7A 91.304 92 6 2 4693 4783 8775752 8775662 2.340000e-24 124.0
15 TraesCS7D01G020800 chr4A 88.334 3806 394 26 1000 4784 731407026 731410802 0.000000e+00 4523.0
16 TraesCS7D01G020800 chr4A 87.424 3125 335 26 1008 4103 729636712 729639807 0.000000e+00 3541.0
17 TraesCS7D01G020800 chr4A 95.532 2216 86 6 1809 4024 730114070 730111868 0.000000e+00 3531.0
18 TraesCS7D01G020800 chr4A 83.577 2186 286 39 2055 4214 728501218 728499080 0.000000e+00 1980.0
19 TraesCS7D01G020800 chr4A 95.876 1067 44 0 4483 5549 730108821 730107755 0.000000e+00 1727.0
20 TraesCS7D01G020800 chr4A 95.638 619 26 1 4164 4782 729639802 729640419 0.000000e+00 992.0
21 TraesCS7D01G020800 chr4A 97.925 530 10 1 4822 5350 729640426 729640955 0.000000e+00 917.0
22 TraesCS7D01G020800 chr4A 88.112 572 59 6 1211 1779 730114632 730114067 0.000000e+00 671.0
23 TraesCS7D01G020800 chr4A 80.498 923 129 25 5269 6178 728487189 728486305 0.000000e+00 660.0
24 TraesCS7D01G020800 chr4A 89.979 469 18 9 5714 6180 729640951 729641392 4.150000e-161 579.0
25 TraesCS7D01G020800 chr4A 77.208 838 138 30 1000 1827 728503801 728503007 2.040000e-119 440.0
26 TraesCS7D01G020800 chr4A 86.348 293 30 5 5521 5813 728840298 728840580 1.670000e-80 311.0
27 TraesCS7D01G020800 chr4A 100.000 36 0 0 4792 4827 730108445 730108410 4.000000e-07 67.6
28 TraesCS7D01G020800 chr2D 86.719 2944 308 42 1864 4776 603209151 603212042 0.000000e+00 3193.0
29 TraesCS7D01G020800 chr2D 88.585 841 88 5 1000 1833 603208313 603209152 0.000000e+00 1014.0
30 TraesCS7D01G020800 chr2D 77.583 513 79 21 5697 6180 645527512 645528017 1.700000e-70 278.0
31 TraesCS7D01G020800 chr1D 75.128 1363 256 52 2061 3383 456653482 456654801 4.180000e-156 562.0
32 TraesCS7D01G020800 chr6B 95.556 45 2 0 5571 5615 319514092 319514048 8.590000e-09 73.1


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 TraesCS7D01G020800 chr7D 9308693 9314872 6179 False 11413.000000 11413 100.00000 1 6180 1 chr7D.!!$F2 6179
1 TraesCS7D01G020800 chr7D 8343962 8347415 3453 True 4246.000000 4246 88.91800 1000 4447 1 chr7D.!!$R1 3447
2 TraesCS7D01G020800 chr7D 10494938 10501218 6280 True 949.666667 1969 84.95300 1000 5987 3 chr7D.!!$R3 4987
3 TraesCS7D01G020800 chr7A 8775662 8781087 5425 True 2580.000000 5036 90.93850 883 4783 2 chr7A.!!$R1 3900
4 TraesCS7D01G020800 chr7A 9006744 9014090 7346 False 1416.250000 3651 89.09875 1 4783 4 chr7A.!!$F3 4782
5 TraesCS7D01G020800 chr4A 731407026 731410802 3776 False 4523.000000 4523 88.33400 1000 4784 1 chr4A.!!$F2 3784
6 TraesCS7D01G020800 chr4A 729636712 729641392 4680 False 1507.250000 3541 92.74150 1008 6180 4 chr4A.!!$F3 5172
7 TraesCS7D01G020800 chr4A 730107755 730114632 6877 True 1499.150000 3531 94.88000 1211 5549 4 chr4A.!!$R3 4338
8 TraesCS7D01G020800 chr4A 728499080 728503801 4721 True 1210.000000 1980 80.39250 1000 4214 2 chr4A.!!$R2 3214
9 TraesCS7D01G020800 chr4A 728486305 728487189 884 True 660.000000 660 80.49800 5269 6178 1 chr4A.!!$R1 909
10 TraesCS7D01G020800 chr2D 603208313 603212042 3729 False 2103.500000 3193 87.65200 1000 4776 2 chr2D.!!$F2 3776
11 TraesCS7D01G020800 chr2D 645527512 645528017 505 False 278.000000 278 77.58300 5697 6180 1 chr2D.!!$F1 483
12 TraesCS7D01G020800 chr1D 456653482 456654801 1319 False 562.000000 562 75.12800 2061 3383 1 chr1D.!!$F1 1322

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
306 839 0.179078 CTCAGGATCAGTGCTGCCTC 60.179 60.000 0.0 0.0 42.89 4.70 F
760 1296 0.582005 GCATTGTCGGAATCGCCTAC 59.418 55.000 0.0 0.0 36.13 3.18 F
1654 2248 0.179032 CCTTGCCAGGTGTGTGTACA 60.179 55.000 0.0 0.0 35.06 2.90 F
2564 4786 0.175073 CCCTAGTGGCCGTACAGTTC 59.825 60.000 0.0 0.0 0.00 3.01 F
3132 5375 0.449388 CTTTTGGAGACGCTGGATGC 59.551 55.000 0.0 0.0 38.57 3.91 F
4015 7455 3.436700 AAACAAAAGTGGAAGGAAGCG 57.563 42.857 0.0 0.0 0.00 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 2043 0.105778 TTGTCATCTCACACGCCACA 59.894 50.000 0.0 0.0 0.00 4.17 R
1743 2340 0.251297 TTGTGGGGATGTCAAGCTGG 60.251 55.000 0.0 0.0 0.00 4.85 R
3157 5400 0.036732 GCTCCATGACTTGTGTGGGA 59.963 55.000 0.0 0.0 33.78 4.37 R
3920 7360 0.310543 TGGATTGTCGTGCAGCAAAC 59.689 50.000 0.0 0.0 0.00 2.93 R
4416 11355 2.171003 CCTTCCATCCCCTGTTCAAAC 58.829 52.381 0.0 0.0 0.00 2.93 R
5568 14068 0.609662 AGCCACCAAATTGACATGCC 59.390 50.000 0.0 0.0 0.00 4.40 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
44 45 2.092212 TGCAATCCTCCTCAAGAATCCC 60.092 50.000 0.00 0.00 0.00 3.85
73 74 1.132527 TGTTCCTCCTCTTCTTCCCCA 60.133 52.381 0.00 0.00 0.00 4.96
84 85 0.613260 TCTTCCCCACAATCCTGACG 59.387 55.000 0.00 0.00 0.00 4.35
98 99 2.187946 GACGGGATCCAGCACCTG 59.812 66.667 15.23 0.00 38.40 4.00
101 102 4.512914 GGGATCCAGCACCTGCCC 62.513 72.222 15.23 0.00 43.38 5.36
102 103 4.512914 GGATCCAGCACCTGCCCC 62.513 72.222 6.95 0.00 43.38 5.80
114 115 4.779733 TGCCCCGTCTCCCTCCTC 62.780 72.222 0.00 0.00 0.00 3.71
122 123 1.076632 TCTCCCTCCTCTTCCTCGC 60.077 63.158 0.00 0.00 0.00 5.03
144 145 2.683768 GGCTCCTCCTTATCCTTCTCA 58.316 52.381 0.00 0.00 0.00 3.27
164 165 3.840078 TCAGTGAGGTCCATCAATCAGAA 59.160 43.478 0.00 0.00 0.00 3.02
167 168 5.026121 AGTGAGGTCCATCAATCAGAACTA 58.974 41.667 0.00 0.00 0.00 2.24
187 188 2.909965 TTTCTGGCGCCCCAACAC 60.910 61.111 26.77 0.00 41.58 3.32
195 196 2.390599 CGCCCCAACACGATGTGAG 61.391 63.158 3.61 0.00 36.96 3.51
203 204 0.391661 ACACGATGTGAGGGCATGTC 60.392 55.000 3.61 0.00 36.96 3.06
208 209 2.887568 GTGAGGGCATGTCGAGCG 60.888 66.667 0.00 0.00 0.00 5.03
219 220 0.963856 TGTCGAGCGCCTAAAGGAGA 60.964 55.000 2.29 0.00 37.14 3.71
225 226 0.179081 GCGCCTAAAGGAGACCGAAT 60.179 55.000 3.70 0.00 37.14 3.34
237 238 3.589988 GAGACCGAATTTTCTGAGCTCA 58.410 45.455 17.19 17.19 0.00 4.26
248 249 2.827642 GAGCTCACCCATGCAGGC 60.828 66.667 9.40 0.00 35.39 4.85
253 786 3.376078 CACCCATGCAGGCACACC 61.376 66.667 0.00 0.00 35.39 4.16
267 800 2.961741 GGCACACCTATCTCTCAGATCA 59.038 50.000 0.00 0.00 36.20 2.92
269 802 4.321899 GGCACACCTATCTCTCAGATCATC 60.322 50.000 0.00 0.00 36.20 2.92
275 808 7.098477 CACCTATCTCTCAGATCATCCATTTC 58.902 42.308 0.00 0.00 36.20 2.17
276 809 6.786461 ACCTATCTCTCAGATCATCCATTTCA 59.214 38.462 0.00 0.00 36.20 2.69
280 813 4.449131 TCTCAGATCATCCATTTCACAGC 58.551 43.478 0.00 0.00 0.00 4.40
282 815 2.289820 CAGATCATCCATTTCACAGCGG 59.710 50.000 0.00 0.00 0.00 5.52
287 820 0.605319 TCCATTTCACAGCGGTCACC 60.605 55.000 0.00 0.00 0.00 4.02
306 839 0.179078 CTCAGGATCAGTGCTGCCTC 60.179 60.000 0.00 0.00 42.89 4.70
364 897 6.594159 TGTTCTGCCTTTAGTCTAACTAATGC 59.406 38.462 11.78 11.78 40.08 3.56
381 914 2.680312 TGCGCTGCTCTTTCTTCTAT 57.320 45.000 9.73 0.00 0.00 1.98
411 944 4.835284 TTTGAGGTAGTGCATATCCACA 57.165 40.909 0.00 0.00 38.18 4.17
412 945 5.372343 TTTGAGGTAGTGCATATCCACAT 57.628 39.130 0.00 0.00 38.18 3.21
413 946 4.607293 TGAGGTAGTGCATATCCACATC 57.393 45.455 0.00 0.00 38.18 3.06
414 947 3.966665 TGAGGTAGTGCATATCCACATCA 59.033 43.478 0.00 0.00 38.18 3.07
415 948 4.039609 TGAGGTAGTGCATATCCACATCAG 59.960 45.833 0.00 0.00 38.18 2.90
420 953 4.449131 AGTGCATATCCACATCAGAACTG 58.551 43.478 0.00 0.00 38.18 3.16
432 965 6.376978 CACATCAGAACTGGAGAATTTTGAC 58.623 40.000 1.93 0.00 0.00 3.18
456 989 2.683362 GTCCCATTTAGGCTAAGTGCAC 59.317 50.000 20.70 9.40 45.15 4.57
489 1022 4.083537 GGTGTTGATGCACGAATTCACTAA 60.084 41.667 6.22 0.00 40.08 2.24
508 1042 2.755952 AGTTGGAACCTGCTTTCCTT 57.244 45.000 11.92 0.00 44.89 3.36
510 1044 2.175715 AGTTGGAACCTGCTTTCCTTCT 59.824 45.455 11.92 8.15 44.89 2.85
553 1087 5.636543 GCATTGTTTTGCAATAAGAGAGCTT 59.363 36.000 0.00 0.00 45.33 3.74
556 1090 7.698836 TTGTTTTGCAATAAGAGAGCTTTTC 57.301 32.000 0.00 0.00 32.13 2.29
561 1095 7.602517 TTGCAATAAGAGAGCTTTTCTAGTC 57.397 36.000 0.00 0.00 35.87 2.59
572 1106 6.127479 AGAGCTTTTCTAGTCATCGTGAGATT 60.127 38.462 0.00 0.00 41.27 2.40
587 1121 7.397892 TCGTGAGATTCACTAATTCTCTTCT 57.602 36.000 7.52 0.00 44.85 2.85
588 1122 7.831753 TCGTGAGATTCACTAATTCTCTTCTT 58.168 34.615 7.52 0.00 44.85 2.52
589 1123 8.307483 TCGTGAGATTCACTAATTCTCTTCTTT 58.693 33.333 7.52 0.00 44.85 2.52
590 1124 8.591312 CGTGAGATTCACTAATTCTCTTCTTTC 58.409 37.037 7.52 0.00 44.85 2.62
591 1125 9.651913 GTGAGATTCACTAATTCTCTTCTTTCT 57.348 33.333 2.08 0.00 43.73 2.52
592 1126 9.868277 TGAGATTCACTAATTCTCTTCTTTCTC 57.132 33.333 0.00 0.00 0.00 2.87
593 1127 9.313118 GAGATTCACTAATTCTCTTCTTTCTCC 57.687 37.037 0.00 0.00 0.00 3.71
594 1128 8.820831 AGATTCACTAATTCTCTTCTTTCTCCA 58.179 33.333 0.00 0.00 0.00 3.86
595 1129 8.785329 ATTCACTAATTCTCTTCTTTCTCCAC 57.215 34.615 0.00 0.00 0.00 4.02
596 1130 7.303182 TCACTAATTCTCTTCTTTCTCCACA 57.697 36.000 0.00 0.00 0.00 4.17
624 1158 4.576330 AGAAAGATAGAACCAAGTGGGG 57.424 45.455 1.69 0.00 42.91 4.96
682 1216 4.589216 TTTTCAGTGCTCAGGGAATTTG 57.411 40.909 0.00 0.00 0.00 2.32
689 1223 1.547372 GCTCAGGGAATTTGCACATGT 59.453 47.619 0.00 0.00 0.00 3.21
727 1263 8.519799 AAAACAAGAAAGATAGAACCAAGTGA 57.480 30.769 0.00 0.00 0.00 3.41
743 1279 4.365111 GAGGCCCACCACCATGCA 62.365 66.667 0.00 0.00 39.06 3.96
749 1285 1.507630 CCACCACCATGCATTGTCG 59.492 57.895 0.00 0.00 0.00 4.35
760 1296 0.582005 GCATTGTCGGAATCGCCTAC 59.418 55.000 0.00 0.00 36.13 3.18
761 1297 0.852777 CATTGTCGGAATCGCCTACG 59.147 55.000 0.00 0.00 35.17 3.51
762 1298 0.874607 ATTGTCGGAATCGCCTACGC 60.875 55.000 0.00 0.00 39.84 4.42
763 1299 2.103538 GTCGGAATCGCCTACGCA 59.896 61.111 0.00 0.00 39.84 5.24
764 1300 1.944676 GTCGGAATCGCCTACGCAG 60.945 63.158 0.00 0.00 39.84 5.18
765 1301 2.116533 TCGGAATCGCCTACGCAGA 61.117 57.895 0.00 0.00 39.84 4.26
766 1302 1.944676 CGGAATCGCCTACGCAGAC 60.945 63.158 0.00 0.00 39.84 3.51
768 1304 1.944676 GAATCGCCTACGCAGACGG 60.945 63.158 0.00 0.00 46.04 4.79
793 1329 5.107760 GCACCGATAAAATAGCATTTGCATG 60.108 40.000 5.20 0.00 45.16 4.06
800 1336 8.876275 ATAAAATAGCATTTGCATGTTGGTAG 57.124 30.769 5.20 0.00 45.16 3.18
820 1356 7.679783 TGGTAGCTTAGCATCATATGTAATGT 58.320 34.615 7.07 0.00 0.00 2.71
856 1392 2.092538 CCAGCAGATTGAAGGAGTGGAT 60.093 50.000 0.00 0.00 0.00 3.41
880 1416 4.130118 GGATGACTGACCATGGATGTTAC 58.870 47.826 21.47 5.74 0.00 2.50
918 1454 3.430513 GGCACTTGTAGCTACCTACCTTC 60.431 52.174 21.01 4.59 42.66 3.46
921 1457 5.068723 GCACTTGTAGCTACCTACCTTCATA 59.931 44.000 21.01 0.00 42.66 2.15
922 1458 6.239345 GCACTTGTAGCTACCTACCTTCATAT 60.239 42.308 21.01 0.00 42.66 1.78
951 1487 1.915769 GCTCCTGTGTCCTCCTGGT 60.916 63.158 0.00 0.00 34.23 4.00
968 1504 5.342017 TCCTGGTCTCTTTTCTCTATCCAA 58.658 41.667 0.00 0.00 0.00 3.53
969 1505 5.785423 TCCTGGTCTCTTTTCTCTATCCAAA 59.215 40.000 0.00 0.00 0.00 3.28
998 1534 1.980765 TGATCTGAGCTTCCAACCAGT 59.019 47.619 0.00 0.00 0.00 4.00
1081 1636 5.003160 TCTTAGCTGCAAATCACAAGCTTA 58.997 37.500 0.00 0.00 34.29 3.09
1311 1884 2.994995 ACGTGGATCCGTCAGGCA 60.995 61.111 7.39 0.00 35.95 4.75
1408 1981 4.502962 GGAGTCATCCAAGTTGAGAGAAG 58.497 47.826 3.87 0.00 45.87 2.85
1457 2033 1.294780 CCTCCTCTTGCTCAGCGTT 59.705 57.895 0.00 0.00 0.00 4.84
1654 2248 0.179032 CCTTGCCAGGTGTGTGTACA 60.179 55.000 0.00 0.00 35.06 2.90
1817 2432 5.779241 ATTCTCAGATTGTACCTTGGGAA 57.221 39.130 0.00 0.00 0.00 3.97
2114 4327 7.387397 GGACAGAATTTTGGCATGACATAAAAA 59.613 33.333 8.58 3.92 0.00 1.94
2350 4572 1.182667 GTGATGGTTTACCCCTTGCC 58.817 55.000 0.00 0.00 34.29 4.52
2564 4786 0.175073 CCCTAGTGGCCGTACAGTTC 59.825 60.000 0.00 0.00 0.00 3.01
2864 5095 0.547471 TTGGCTCTCCCTCCATGACA 60.547 55.000 0.00 0.00 31.54 3.58
3132 5375 0.449388 CTTTTGGAGACGCTGGATGC 59.551 55.000 0.00 0.00 38.57 3.91
3157 5400 7.552330 GCAAGAAGAACCAAGATAGAGATTCTT 59.448 37.037 0.00 0.00 38.70 2.52
3383 5635 3.627395 AGGTGAAAATATGGTGCGAGA 57.373 42.857 0.00 0.00 0.00 4.04
3920 7360 5.237815 TGCTATGTAAGGATCTAAATGGCG 58.762 41.667 0.00 0.00 0.00 5.69
4015 7455 3.436700 AAACAAAAGTGGAAGGAAGCG 57.563 42.857 0.00 0.00 0.00 4.68
4157 10183 4.497291 TTATCAGTGATAACACCCCACC 57.503 45.455 19.51 0.00 46.99 4.61
4215 10241 7.972277 AGTGTCATGCATCTTATTTTGCTTAAG 59.028 33.333 0.00 0.00 39.60 1.85
4350 10385 7.437862 GGTGATGATGAGAAAGAAGATACAGAC 59.562 40.741 0.00 0.00 0.00 3.51
4355 10390 8.993121 TGATGAGAAAGAAGATACAGACAAAAC 58.007 33.333 0.00 0.00 0.00 2.43
4416 11355 1.271597 CCTCCAGTGGACAAGGAAAGG 60.272 57.143 8.12 1.11 0.00 3.11
4450 11389 5.131067 GGATGGAAGGAATGGTAGGTTTAC 58.869 45.833 0.00 0.00 0.00 2.01
4465 11404 2.615912 GGTTTACAGGATCAGCAGATGC 59.384 50.000 2.17 2.17 42.36 3.91
4851 13319 2.119495 AGGAGAAGTCCAACAGTGTGT 58.881 47.619 0.00 0.00 46.80 3.72
4962 13435 0.254462 TGTCTGTGCAGTTGGGTTCA 59.746 50.000 0.00 0.00 0.00 3.18
4979 13452 7.831691 TGGGTTCAGAAGTTCATTGAAAATA 57.168 32.000 5.50 0.00 33.10 1.40
5355 13844 3.747529 GGTTGGCATTTGATGTTTCAAGG 59.252 43.478 0.00 0.00 42.60 3.61
5400 13889 4.383552 GGCAATTGGTCTGTCTAGTGATCT 60.384 45.833 7.72 0.00 0.00 2.75
5456 13945 3.708195 GTTGCTGCTTGCTACATGG 57.292 52.632 0.00 0.00 44.64 3.66
5482 13982 2.775890 CCAGACTGCTATGGCTTATGG 58.224 52.381 1.68 2.62 39.59 2.74
5483 13983 2.369860 CCAGACTGCTATGGCTTATGGA 59.630 50.000 10.17 0.00 36.39 3.41
5484 13984 3.397482 CAGACTGCTATGGCTTATGGAC 58.603 50.000 1.68 0.00 39.59 4.02
5485 13985 3.070734 CAGACTGCTATGGCTTATGGACT 59.929 47.826 1.68 0.00 39.59 3.85
5486 13986 3.323403 AGACTGCTATGGCTTATGGACTC 59.677 47.826 1.68 0.00 39.59 3.36
5487 13987 3.041211 ACTGCTATGGCTTATGGACTCA 58.959 45.455 1.68 0.00 39.59 3.41
5488 13988 3.649981 ACTGCTATGGCTTATGGACTCAT 59.350 43.478 1.68 0.00 39.59 2.90
5516 14016 6.005583 TGAAGATGATCAAGTGCTTTCAAC 57.994 37.500 0.00 0.00 0.00 3.18
5529 14029 9.086336 CAAGTGCTTTCAACAAATTTTCTCTTA 57.914 29.630 0.00 0.00 0.00 2.10
5531 14031 9.468532 AGTGCTTTCAACAAATTTTCTCTTATC 57.531 29.630 0.00 0.00 0.00 1.75
5549 14049 7.661437 TCTCTTATCAATTTGTAGTTGTGCTGT 59.339 33.333 0.00 0.00 0.00 4.40
5551 14051 9.448438 TCTTATCAATTTGTAGTTGTGCTGTAT 57.552 29.630 0.00 0.00 0.00 2.29
5555 14055 7.529158 TCAATTTGTAGTTGTGCTGTATCATG 58.471 34.615 0.00 0.00 0.00 3.07
5559 14059 6.524101 TGTAGTTGTGCTGTATCATGAGTA 57.476 37.500 0.09 0.00 0.00 2.59
5560 14060 6.930731 TGTAGTTGTGCTGTATCATGAGTAA 58.069 36.000 0.09 0.00 0.00 2.24
5566 14066 7.364522 TGTGCTGTATCATGAGTAAACTTTC 57.635 36.000 0.09 0.00 0.00 2.62
5568 14068 7.118245 TGTGCTGTATCATGAGTAAACTTTCAG 59.882 37.037 0.09 0.00 0.00 3.02
5576 14076 4.713553 TGAGTAAACTTTCAGGCATGTCA 58.286 39.130 0.00 0.00 0.00 3.58
5595 14095 2.036217 TCAATTTGGTGGCTTTCTGCTG 59.964 45.455 0.00 0.00 42.39 4.41
5597 14097 2.356665 TTTGGTGGCTTTCTGCTGTA 57.643 45.000 0.00 0.00 42.39 2.74
5598 14098 1.604604 TTGGTGGCTTTCTGCTGTAC 58.395 50.000 0.00 0.00 42.39 2.90
5601 14101 1.604604 GTGGCTTTCTGCTGTACCAA 58.395 50.000 0.00 0.00 42.39 3.67
5606 14106 3.550842 GGCTTTCTGCTGTACCAAAGTTG 60.551 47.826 0.00 0.00 42.39 3.16
5616 14116 5.391950 GCTGTACCAAAGTTGACCATGTATG 60.392 44.000 0.00 0.00 0.00 2.39
5617 14117 4.457603 TGTACCAAAGTTGACCATGTATGC 59.542 41.667 0.00 0.00 0.00 3.14
5626 14126 3.281158 TGACCATGTATGCTGTTGGATG 58.719 45.455 5.34 0.00 33.36 3.51
5628 14128 4.080638 TGACCATGTATGCTGTTGGATGTA 60.081 41.667 5.34 0.00 33.36 2.29
5632 14132 6.656270 ACCATGTATGCTGTTGGATGTATATG 59.344 38.462 5.34 0.00 33.36 1.78
5640 14140 3.181459 TGTTGGATGTATATGTGGTCCCG 60.181 47.826 0.00 0.00 0.00 5.14
5650 14173 1.970092 TGTGGTCCCGGTTAACTTTG 58.030 50.000 5.42 0.00 0.00 2.77
5651 14174 1.489649 TGTGGTCCCGGTTAACTTTGA 59.510 47.619 5.42 0.00 0.00 2.69
5652 14175 1.875514 GTGGTCCCGGTTAACTTTGAC 59.124 52.381 5.42 9.03 0.00 3.18
5654 14177 2.106857 TGGTCCCGGTTAACTTTGACAT 59.893 45.455 17.42 0.00 0.00 3.06
5655 14178 3.327172 TGGTCCCGGTTAACTTTGACATA 59.673 43.478 17.42 8.17 0.00 2.29
5656 14179 4.019141 TGGTCCCGGTTAACTTTGACATAT 60.019 41.667 17.42 0.00 0.00 1.78
5657 14180 4.334481 GGTCCCGGTTAACTTTGACATATG 59.666 45.833 17.42 0.00 0.00 1.78
5658 14181 4.939439 GTCCCGGTTAACTTTGACATATGT 59.061 41.667 8.43 8.43 0.00 2.29
5659 14182 5.413523 GTCCCGGTTAACTTTGACATATGTT 59.586 40.000 10.30 0.00 0.00 2.71
5660 14183 5.644636 TCCCGGTTAACTTTGACATATGTTC 59.355 40.000 10.30 4.23 0.00 3.18
5661 14184 5.163693 CCCGGTTAACTTTGACATATGTTCC 60.164 44.000 10.30 0.00 0.00 3.62
5662 14185 5.413213 CCGGTTAACTTTGACATATGTTCCA 59.587 40.000 10.30 1.13 0.00 3.53
5663 14186 6.311723 CGGTTAACTTTGACATATGTTCCAC 58.688 40.000 10.30 0.00 0.00 4.02
5664 14187 6.072948 CGGTTAACTTTGACATATGTTCCACA 60.073 38.462 10.30 0.00 0.00 4.17
5665 14188 7.520776 CGGTTAACTTTGACATATGTTCCACAA 60.521 37.037 10.30 6.70 0.00 3.33
5666 14189 8.138712 GGTTAACTTTGACATATGTTCCACAAA 58.861 33.333 10.30 13.69 0.00 2.83
5667 14190 9.522804 GTTAACTTTGACATATGTTCCACAAAA 57.477 29.630 10.30 4.24 0.00 2.44
5668 14191 9.522804 TTAACTTTGACATATGTTCCACAAAAC 57.477 29.630 10.30 0.00 0.00 2.43
5669 14192 7.106439 ACTTTGACATATGTTCCACAAAACA 57.894 32.000 10.30 0.00 42.92 2.83
5679 14202 7.722949 ATGTTCCACAAAACATAATCATCCT 57.277 32.000 0.62 0.00 45.61 3.24
5680 14203 7.537596 TGTTCCACAAAACATAATCATCCTT 57.462 32.000 0.00 0.00 34.31 3.36
5681 14204 7.601856 TGTTCCACAAAACATAATCATCCTTC 58.398 34.615 0.00 0.00 34.31 3.46
5682 14205 7.232330 TGTTCCACAAAACATAATCATCCTTCA 59.768 33.333 0.00 0.00 34.31 3.02
5683 14206 7.959658 TCCACAAAACATAATCATCCTTCAT 57.040 32.000 0.00 0.00 0.00 2.57
5684 14207 8.365060 TCCACAAAACATAATCATCCTTCATT 57.635 30.769 0.00 0.00 0.00 2.57
5685 14208 8.469200 TCCACAAAACATAATCATCCTTCATTC 58.531 33.333 0.00 0.00 0.00 2.67
5686 14209 8.252417 CCACAAAACATAATCATCCTTCATTCA 58.748 33.333 0.00 0.00 0.00 2.57
5687 14210 9.297586 CACAAAACATAATCATCCTTCATTCAG 57.702 33.333 0.00 0.00 0.00 3.02
5688 14211 9.028284 ACAAAACATAATCATCCTTCATTCAGT 57.972 29.630 0.00 0.00 0.00 3.41
5689 14212 9.865321 CAAAACATAATCATCCTTCATTCAGTT 57.135 29.630 0.00 0.00 0.00 3.16
5778 14301 6.036408 AGCTTTTCTTGTTGCTTTGCTTTTAG 59.964 34.615 0.00 0.00 30.96 1.85
5782 14305 7.749539 TTCTTGTTGCTTTGCTTTTAGTAAC 57.250 32.000 0.00 0.00 37.45 2.50
5888 14417 1.134521 AGTTTTGTGCTGACCTGTCGA 60.135 47.619 0.00 0.00 0.00 4.20
5995 14541 1.680207 TCAGAGACATCGATGCTCCTG 59.320 52.381 29.75 26.94 34.02 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 2.776694 CAAGAATGTCTTGCTCGACG 57.223 50.000 5.13 0.00 46.03 5.12
25 26 2.171448 ACGGGATTCTTGAGGAGGATTG 59.829 50.000 0.00 0.00 0.00 2.67
44 45 3.533606 AGAGGAGGAACAATGATGACG 57.466 47.619 0.00 0.00 0.00 4.35
84 85 4.512914 GGGCAGGTGCTGGATCCC 62.513 72.222 9.90 0.00 41.70 3.85
98 99 3.986116 AAGAGGAGGGAGACGGGGC 62.986 68.421 0.00 0.00 0.00 5.80
101 102 0.753848 GAGGAAGAGGAGGGAGACGG 60.754 65.000 0.00 0.00 0.00 4.79
102 103 1.098712 CGAGGAAGAGGAGGGAGACG 61.099 65.000 0.00 0.00 0.00 4.18
114 115 4.214327 GAGGAGCCGGCGAGGAAG 62.214 72.222 23.20 0.00 45.00 3.46
122 123 0.682292 GAAGGATAAGGAGGAGCCGG 59.318 60.000 0.00 0.00 43.43 6.13
144 145 3.843027 AGTTCTGATTGATGGACCTCACT 59.157 43.478 0.00 0.00 0.00 3.41
164 165 1.002502 GGGGCGCCAGAAACTTAGT 60.003 57.895 30.85 0.00 0.00 2.24
167 168 2.197324 TTGGGGCGCCAGAAACTT 59.803 55.556 30.85 0.00 0.00 2.66
187 188 0.873312 CTCGACATGCCCTCACATCG 60.873 60.000 0.00 0.00 35.43 3.84
190 191 2.265739 GCTCGACATGCCCTCACA 59.734 61.111 0.00 0.00 0.00 3.58
203 204 1.227002 GGTCTCCTTTAGGCGCTCG 60.227 63.158 7.64 0.00 34.44 5.03
208 209 4.095036 CAGAAAATTCGGTCTCCTTTAGGC 59.905 45.833 0.00 0.00 34.44 3.93
219 220 2.427506 GGTGAGCTCAGAAAATTCGGT 58.572 47.619 18.89 0.00 0.00 4.69
225 226 1.202915 TGCATGGGTGAGCTCAGAAAA 60.203 47.619 18.89 3.55 0.00 2.29
237 238 1.574526 ATAGGTGTGCCTGCATGGGT 61.575 55.000 0.00 0.00 46.47 4.51
248 249 4.831710 TGGATGATCTGAGAGATAGGTGTG 59.168 45.833 0.00 0.00 34.53 3.82
253 786 7.668492 TGTGAAATGGATGATCTGAGAGATAG 58.332 38.462 0.00 0.00 34.53 2.08
262 795 2.092753 ACCGCTGTGAAATGGATGATCT 60.093 45.455 0.00 0.00 0.00 2.75
267 800 1.453155 GTGACCGCTGTGAAATGGAT 58.547 50.000 0.00 0.00 0.00 3.41
269 802 0.606401 AGGTGACCGCTGTGAAATGG 60.606 55.000 0.00 0.00 0.00 3.16
275 808 1.892819 ATCCTGAGGTGACCGCTGTG 61.893 60.000 6.95 1.15 0.00 3.66
276 809 1.608717 GATCCTGAGGTGACCGCTGT 61.609 60.000 6.95 0.00 0.00 4.40
280 813 0.174389 CACTGATCCTGAGGTGACCG 59.826 60.000 0.00 0.00 32.12 4.79
282 815 0.901124 AGCACTGATCCTGAGGTGAC 59.099 55.000 0.00 0.00 32.12 3.67
287 820 0.179078 GAGGCAGCACTGATCCTGAG 60.179 60.000 0.81 0.00 0.00 3.35
306 839 5.866075 CACAAGTCAGTGCAATCATTCTAG 58.134 41.667 0.00 0.00 32.04 2.43
332 865 2.548480 ACTAAAGGCAGAACACGCTTTC 59.452 45.455 0.00 0.00 0.00 2.62
336 869 1.797025 AGACTAAAGGCAGAACACGC 58.203 50.000 0.00 0.00 0.00 5.34
338 871 7.413109 GCATTAGTTAGACTAAAGGCAGAACAC 60.413 40.741 16.34 0.00 43.16 3.32
364 897 6.595772 ACAATTATAGAAGAAAGAGCAGCG 57.404 37.500 0.00 0.00 0.00 5.18
396 929 5.464722 CAGTTCTGATGTGGATATGCACTAC 59.535 44.000 25.27 18.87 0.00 2.73
405 938 5.447778 AATTCTCCAGTTCTGATGTGGAT 57.552 39.130 8.50 0.00 39.66 3.41
406 939 4.916041 AATTCTCCAGTTCTGATGTGGA 57.084 40.909 7.93 7.93 38.07 4.02
407 940 5.474532 TCAAAATTCTCCAGTTCTGATGTGG 59.525 40.000 1.00 0.40 0.00 4.17
411 944 4.697352 CCGTCAAAATTCTCCAGTTCTGAT 59.303 41.667 1.00 0.00 0.00 2.90
412 945 4.065088 CCGTCAAAATTCTCCAGTTCTGA 58.935 43.478 1.00 0.00 0.00 3.27
413 946 3.189287 CCCGTCAAAATTCTCCAGTTCTG 59.811 47.826 0.00 0.00 0.00 3.02
414 947 3.181443 ACCCGTCAAAATTCTCCAGTTCT 60.181 43.478 0.00 0.00 0.00 3.01
415 948 3.146847 ACCCGTCAAAATTCTCCAGTTC 58.853 45.455 0.00 0.00 0.00 3.01
420 953 1.271707 TGGGACCCGTCAAAATTCTCC 60.272 52.381 5.91 0.00 0.00 3.71
432 965 1.489230 ACTTAGCCTAAATGGGACCCG 59.511 52.381 5.91 0.00 36.00 5.28
456 989 2.358582 TGCATCAACACCACTTTGTGAG 59.641 45.455 0.00 0.00 39.57 3.51
470 1003 5.334802 CCAACTTAGTGAATTCGTGCATCAA 60.335 40.000 0.04 0.00 0.00 2.57
537 1071 7.161404 TGACTAGAAAAGCTCTCTTATTGCAA 58.839 34.615 0.00 0.00 35.41 4.08
572 1106 7.303182 TGTGGAGAAAGAAGAGAATTAGTGA 57.697 36.000 0.00 0.00 0.00 3.41
605 1139 2.291605 GGCCCCACTTGGTTCTATCTTT 60.292 50.000 0.00 0.00 0.00 2.52
606 1140 1.285078 GGCCCCACTTGGTTCTATCTT 59.715 52.381 0.00 0.00 0.00 2.40
610 1144 2.074967 CAGGCCCCACTTGGTTCTA 58.925 57.895 0.00 0.00 0.00 2.10
706 1240 5.123027 GCCTCACTTGGTTCTATCTTTCTTG 59.877 44.000 0.00 0.00 0.00 3.02
727 1263 3.242492 AATGCATGGTGGTGGGCCT 62.242 57.895 4.53 0.00 35.27 5.19
749 1285 4.014065 GTCTGCGTAGGCGATTCC 57.986 61.111 0.00 0.00 44.10 3.01
767 1303 4.298332 CAAATGCTATTTTATCGGTGCCC 58.702 43.478 0.00 0.00 0.00 5.36
768 1304 3.735746 GCAAATGCTATTTTATCGGTGCC 59.264 43.478 0.00 0.00 38.21 5.01
773 1309 6.476380 ACCAACATGCAAATGCTATTTTATCG 59.524 34.615 6.97 0.00 42.66 2.92
775 1311 7.439056 GCTACCAACATGCAAATGCTATTTTAT 59.561 33.333 6.97 0.00 42.66 1.40
778 1314 5.105228 AGCTACCAACATGCAAATGCTATTT 60.105 36.000 6.97 0.00 42.66 1.40
784 1320 4.107622 GCTAAGCTACCAACATGCAAATG 58.892 43.478 0.00 0.00 0.00 2.32
793 1329 7.962964 TTACATATGATGCTAAGCTACCAAC 57.037 36.000 10.38 0.00 0.00 3.77
820 1356 6.985653 ATCTGCTGGAGAGCTATTTACTTA 57.014 37.500 4.88 0.00 46.39 2.24
834 1370 1.280133 CCACTCCTTCAATCTGCTGGA 59.720 52.381 0.00 0.00 0.00 3.86
835 1371 1.280133 TCCACTCCTTCAATCTGCTGG 59.720 52.381 0.00 0.00 0.00 4.85
846 1382 1.842562 CAGTCATCCCATCCACTCCTT 59.157 52.381 0.00 0.00 0.00 3.36
856 1392 1.491754 CATCCATGGTCAGTCATCCCA 59.508 52.381 12.58 0.00 0.00 4.37
880 1416 2.560542 AGTGCCTGCCTAGAGAATATCG 59.439 50.000 0.00 0.00 0.00 2.92
918 1454 0.601558 GGAGCAGCCATGGCAATATG 59.398 55.000 37.18 26.63 44.88 1.78
921 1457 1.756950 CAGGAGCAGCCATGGCAAT 60.757 57.895 37.18 22.61 44.88 3.56
922 1458 2.361992 CAGGAGCAGCCATGGCAA 60.362 61.111 37.18 0.00 44.88 4.52
968 1504 5.718130 TGGAAGCTCAGATCATGGAATTTTT 59.282 36.000 0.00 0.00 0.00 1.94
969 1505 5.266788 TGGAAGCTCAGATCATGGAATTTT 58.733 37.500 0.00 0.00 0.00 1.82
973 1509 3.614092 GTTGGAAGCTCAGATCATGGAA 58.386 45.455 0.00 0.00 0.00 3.53
986 1522 1.457346 CTCCATCACTGGTTGGAAGC 58.543 55.000 0.00 0.00 41.25 3.86
998 1534 2.046023 CCGTTGCAGCCTCCATCA 60.046 61.111 0.00 0.00 0.00 3.07
1183 1756 3.490759 CTGCACATGGTCGCCGAC 61.491 66.667 9.15 9.15 0.00 4.79
1184 1757 3.647649 CTCTGCACATGGTCGCCGA 62.648 63.158 0.00 0.00 0.00 5.54
1185 1758 3.190849 CTCTGCACATGGTCGCCG 61.191 66.667 0.00 0.00 0.00 6.46
1186 1759 2.821366 CCTCTGCACATGGTCGCC 60.821 66.667 0.00 0.00 0.00 5.54
1187 1760 2.821366 CCCTCTGCACATGGTCGC 60.821 66.667 0.00 0.00 0.00 5.19
1188 1761 2.809861 AAGCCCTCTGCACATGGTCG 62.810 60.000 0.00 0.00 44.83 4.79
1189 1762 1.001641 AAGCCCTCTGCACATGGTC 60.002 57.895 0.00 0.00 44.83 4.02
1311 1884 1.069765 CGTCTGCACCTTGTGGACT 59.930 57.895 0.00 0.00 37.04 3.85
1399 1972 3.865745 GCGCTGTAATAAGCTTCTCTCAA 59.134 43.478 0.00 0.00 41.24 3.02
1408 1981 0.947244 ATGCTGGCGCTGTAATAAGC 59.053 50.000 7.64 6.20 39.94 3.09
1462 2038 2.099756 TCATCTCACACGCCACAGATAG 59.900 50.000 0.00 0.00 0.00 2.08
1467 2043 0.105778 TTGTCATCTCACACGCCACA 59.894 50.000 0.00 0.00 0.00 4.17
1473 2055 3.931468 CCATCTCTGTTGTCATCTCACAC 59.069 47.826 0.00 0.00 0.00 3.82
1545 2139 2.409399 CTCGAGAAGCTCATCCCGA 58.591 57.895 6.58 0.00 0.00 5.14
1654 2248 6.627395 TTCGTATTGGTTCTCAATTGTGTT 57.373 33.333 5.13 0.00 43.04 3.32
1712 2309 3.230134 TCCTTGAGAACATTTGTTGGGG 58.770 45.455 0.00 0.00 38.56 4.96
1743 2340 0.251297 TTGTGGGGATGTCAAGCTGG 60.251 55.000 0.00 0.00 0.00 4.85
1746 2343 1.205417 CCATTTGTGGGGATGTCAAGC 59.795 52.381 0.00 0.00 0.00 4.01
1751 2348 1.682005 CCGCCATTTGTGGGGATGT 60.682 57.895 12.46 0.00 43.67 3.06
1792 2407 5.250543 TCCCAAGGTACAATCTGAGAATTGA 59.749 40.000 10.23 0.00 38.64 2.57
1797 2412 3.907474 TGTTCCCAAGGTACAATCTGAGA 59.093 43.478 0.00 0.00 30.31 3.27
1833 2448 6.576778 ATGGTTTAGGAACAGGTAGCTTAT 57.423 37.500 0.00 0.00 37.51 1.73
2114 4327 0.673437 CTCAACCCCACAAACGCATT 59.327 50.000 0.00 0.00 0.00 3.56
2564 4786 2.695666 TCCTTATCAAGCTTCCTCTCCG 59.304 50.000 0.00 0.00 0.00 4.63
2830 5061 1.079888 CCAACGGATTTTGCTGGGC 60.080 57.895 0.00 0.00 0.00 5.36
2864 5095 2.065899 TTGGCTACTTTGGCACTTGT 57.934 45.000 0.00 0.00 42.23 3.16
3132 5375 9.097257 GAAGAATCTCTATCTTGGTTCTTCTTG 57.903 37.037 16.70 0.00 43.81 3.02
3157 5400 0.036732 GCTCCATGACTTGTGTGGGA 59.963 55.000 0.00 0.00 33.78 4.37
3383 5635 5.864418 TCCGTGCTATTATTAGTGGACTT 57.136 39.130 0.00 0.00 0.00 3.01
3605 7045 2.312390 GTTGCCCCCTTGTAACTTGAA 58.688 47.619 0.00 0.00 0.00 2.69
3611 7051 2.383855 GCATATGTTGCCCCCTTGTAA 58.616 47.619 4.29 0.00 46.15 2.41
3920 7360 0.310543 TGGATTGTCGTGCAGCAAAC 59.689 50.000 0.00 0.00 0.00 2.93
4157 10183 3.614092 ACTGTCCAGTAGAAATGGCATG 58.386 45.455 0.00 0.00 40.43 4.06
4215 10241 5.980715 CACCAATTAACCAAAGTACCAACAC 59.019 40.000 0.00 0.00 0.00 3.32
4416 11355 2.171003 CCTTCCATCCCCTGTTCAAAC 58.829 52.381 0.00 0.00 0.00 2.93
4450 11389 2.327200 TCTTGCATCTGCTGATCCTG 57.673 50.000 2.65 0.00 42.66 3.86
4465 11404 5.139435 TCAGTAGACCAAGTGACATCTTG 57.861 43.478 9.50 9.50 42.86 3.02
4851 13319 7.094634 GGCATACAAAGAATCAAAACTCAGAGA 60.095 37.037 3.79 0.00 0.00 3.10
4932 13405 4.739046 CTGCACAGACAGTTAAAGGAAG 57.261 45.455 0.00 0.00 32.78 3.46
4979 13452 6.664816 TCTCCAACAGCCATCAAATTTCTAAT 59.335 34.615 0.00 0.00 0.00 1.73
5400 13889 6.061441 CCATTAGTATGTAAACATGCCAGGA 58.939 40.000 5.85 0.00 39.36 3.86
5456 13945 2.176273 CATAGCAGTCTGGCACGCC 61.176 63.158 0.00 0.00 35.83 5.68
5487 13987 4.409574 AGCACTTGATCATCTTCAGGAGAT 59.590 41.667 0.00 0.00 46.12 2.75
5488 13988 3.773667 AGCACTTGATCATCTTCAGGAGA 59.226 43.478 0.00 0.00 39.13 3.71
5529 14029 7.686438 TGATACAGCACAACTACAAATTGAT 57.314 32.000 0.00 0.00 0.00 2.57
5531 14031 7.529158 TCATGATACAGCACAACTACAAATTG 58.471 34.615 0.00 0.00 0.00 2.32
5549 14049 7.112122 ACATGCCTGAAAGTTTACTCATGATA 58.888 34.615 18.42 0.00 35.41 2.15
5551 14051 5.316167 ACATGCCTGAAAGTTTACTCATGA 58.684 37.500 18.42 0.00 35.41 3.07
5555 14055 5.689383 TTGACATGCCTGAAAGTTTACTC 57.311 39.130 0.00 0.00 0.00 2.59
5559 14059 5.058490 CCAAATTGACATGCCTGAAAGTTT 58.942 37.500 0.00 0.00 0.00 2.66
5560 14060 4.101430 ACCAAATTGACATGCCTGAAAGTT 59.899 37.500 0.00 0.00 0.00 2.66
5566 14066 1.673626 GCCACCAAATTGACATGCCTG 60.674 52.381 0.00 0.00 0.00 4.85
5568 14068 0.609662 AGCCACCAAATTGACATGCC 59.390 50.000 0.00 0.00 0.00 4.40
5595 14095 4.700213 AGCATACATGGTCAACTTTGGTAC 59.300 41.667 0.00 0.00 32.13 3.34
5597 14097 3.507233 CAGCATACATGGTCAACTTTGGT 59.493 43.478 0.00 0.00 36.17 3.67
5598 14098 3.507233 ACAGCATACATGGTCAACTTTGG 59.493 43.478 0.00 0.00 36.17 3.28
5601 14101 3.507233 CCAACAGCATACATGGTCAACTT 59.493 43.478 0.00 0.00 36.17 2.66
5606 14106 3.282021 ACATCCAACAGCATACATGGTC 58.718 45.455 0.00 0.00 36.17 4.02
5616 14116 3.815401 GGACCACATATACATCCAACAGC 59.185 47.826 0.00 0.00 0.00 4.40
5617 14117 4.389374 GGGACCACATATACATCCAACAG 58.611 47.826 0.00 0.00 0.00 3.16
5626 14126 4.677673 AGTTAACCGGGACCACATATAC 57.322 45.455 6.32 0.00 0.00 1.47
5628 14128 4.019141 TCAAAGTTAACCGGGACCACATAT 60.019 41.667 6.32 0.00 0.00 1.78
5632 14132 1.875514 GTCAAAGTTAACCGGGACCAC 59.124 52.381 6.32 0.00 0.00 4.16
5640 14140 7.209471 TGTGGAACATATGTCAAAGTTAACC 57.791 36.000 9.23 3.17 45.67 2.85
5657 14180 7.601856 TGAAGGATGATTATGTTTTGTGGAAC 58.398 34.615 0.00 0.00 37.35 3.62
5658 14181 7.773489 TGAAGGATGATTATGTTTTGTGGAA 57.227 32.000 0.00 0.00 0.00 3.53
5659 14182 7.959658 ATGAAGGATGATTATGTTTTGTGGA 57.040 32.000 0.00 0.00 0.00 4.02
5660 14183 8.252417 TGAATGAAGGATGATTATGTTTTGTGG 58.748 33.333 0.00 0.00 0.00 4.17
5661 14184 9.297586 CTGAATGAAGGATGATTATGTTTTGTG 57.702 33.333 0.00 0.00 0.00 3.33
5662 14185 9.028284 ACTGAATGAAGGATGATTATGTTTTGT 57.972 29.630 0.00 0.00 0.00 2.83
5663 14186 9.865321 AACTGAATGAAGGATGATTATGTTTTG 57.135 29.630 0.00 0.00 0.00 2.44
5778 14301 9.413048 GTATACTAGCATGAGGATTCAAGTTAC 57.587 37.037 0.00 0.00 36.78 2.50
5782 14305 6.914259 TCGTATACTAGCATGAGGATTCAAG 58.086 40.000 0.00 0.00 36.78 3.02
5847 14374 4.816925 ACTAGAACCAAGCTGTTTTCACTC 59.183 41.667 0.00 0.00 0.00 3.51
5850 14377 6.071616 ACAAAACTAGAACCAAGCTGTTTTCA 60.072 34.615 0.00 0.00 36.07 2.69
5888 14417 1.134340 TGTTGACCAGCACGTAGGTTT 60.134 47.619 7.79 0.00 38.50 3.27


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

AutoCloner maintained by Alex Coulton.