Multiple sequence alignment - TraesCS6B01G137400

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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 TraesCS6B01G137400 chr6B 100.000 3758 0 0 1 3758 134837302 134841059 0.000000e+00 6940
1 TraesCS6B01G137400 chr6B 88.430 121 14 0 426 546 654731628 654731748 3.020000e-31 147
2 TraesCS6B01G137400 chr3D 89.850 1862 120 26 868 2689 134964489 134962657 0.000000e+00 2327
3 TraesCS6B01G137400 chr3D 93.003 786 37 4 1 786 579081187 579081954 0.000000e+00 1131
4 TraesCS6B01G137400 chr3D 84.204 861 88 20 2739 3573 134958137 134957299 0.000000e+00 793
5 TraesCS6B01G137400 chr3D 78.872 1188 173 49 1136 2291 533960114 533958973 0.000000e+00 732
6 TraesCS6B01G137400 chr3A 87.336 1982 168 33 868 2812 149717145 149715210 0.000000e+00 2193
7 TraesCS6B01G137400 chr3A 84.995 933 86 21 2847 3754 149715132 149714229 0.000000e+00 898
8 TraesCS6B01G137400 chr6D 90.753 1222 82 11 1645 2855 61003525 61004726 0.000000e+00 1602
9 TraesCS6B01G137400 chr6D 92.897 718 42 4 873 1581 61002807 61003524 0.000000e+00 1035
10 TraesCS6B01G137400 chr6D 86.277 787 76 12 2976 3757 61005032 61005791 0.000000e+00 826
11 TraesCS6B01G137400 chr6D 93.867 375 20 3 1 374 412485532 412485904 2.530000e-156 562
12 TraesCS6B01G137400 chr7B 95.685 788 26 5 1 786 476197838 476198619 0.000000e+00 1260
13 TraesCS6B01G137400 chr7B 76.316 912 163 29 1375 2261 3882045 3882928 4.460000e-119 438
14 TraesCS6B01G137400 chr7D 93.503 785 25 2 1 785 454835999 454835241 0.000000e+00 1144
15 TraesCS6B01G137400 chr7D 76.968 1194 196 43 1097 2261 63462297 63463440 3.210000e-170 608
16 TraesCS6B01G137400 chr7D 94.400 375 19 2 1 374 73176783 73176410 3.260000e-160 575
17 TraesCS6B01G137400 chr4B 79.656 1627 232 44 1115 2692 460156847 460155271 0.000000e+00 1079
18 TraesCS6B01G137400 chr4B 79.637 1434 222 44 882 2274 139572263 139570859 0.000000e+00 966
19 TraesCS6B01G137400 chr4B 81.880 1170 165 36 1116 2269 139593889 139592751 0.000000e+00 942
20 TraesCS6B01G137400 chr4B 78.567 1451 221 49 882 2272 139549302 139547882 0.000000e+00 874
21 TraesCS6B01G137400 chr4B 82.564 390 62 6 2306 2692 535330534 535330148 4.650000e-89 339
22 TraesCS6B01G137400 chr4B 77.667 600 81 19 1168 1718 139627401 139626806 2.180000e-82 316
23 TraesCS6B01G137400 chr4B 75.380 658 103 36 1189 1796 132056445 132055797 2.880000e-66 263
24 TraesCS6B01G137400 chr6A 91.781 730 57 2 865 1594 77607136 77607862 0.000000e+00 1013
25 TraesCS6B01G137400 chr6A 94.652 374 20 0 1 374 602674218 602673845 7.000000e-162 580
26 TraesCS6B01G137400 chr6A 94.652 374 19 1 1 374 83340730 83340358 2.520000e-161 579
27 TraesCS6B01G137400 chr6A 87.879 297 23 3 488 784 83332315 83332032 1.670000e-88 337
28 TraesCS6B01G137400 chr6A 92.614 176 12 1 366 541 602673408 602673234 6.230000e-63 252
29 TraesCS6B01G137400 chr4D 81.834 1167 172 27 1116 2273 98015647 98014512 0.000000e+00 944
30 TraesCS6B01G137400 chr4D 78.756 1431 230 43 887 2272 97962519 97961118 0.000000e+00 891
31 TraesCS6B01G137400 chr4D 79.004 1405 216 48 906 2272 97970276 97968913 0.000000e+00 887
32 TraesCS6B01G137400 chr4D 82.990 729 97 16 1560 2286 374041175 374040472 5.300000e-178 634
33 TraesCS6B01G137400 chr4D 84.383 397 58 3 2298 2692 98014423 98014029 1.640000e-103 387
34 TraesCS6B01G137400 chr4D 83.033 389 62 4 2306 2692 435197785 435197399 2.150000e-92 350
35 TraesCS6B01G137400 chr4D 79.552 357 44 19 1104 1432 98078744 98078389 1.050000e-55 228
36 TraesCS6B01G137400 chr4D 87.425 167 20 1 2095 2261 505357963 505357798 1.380000e-44 191
37 TraesCS6B01G137400 chr4A 81.234 1167 179 28 1116 2269 478191182 478192321 0.000000e+00 905
38 TraesCS6B01G137400 chr4A 84.343 396 60 2 2298 2692 478192415 478192809 1.640000e-103 387
39 TraesCS6B01G137400 chr4A 80.952 399 72 4 2296 2692 36606817 36606421 2.820000e-81 313
40 TraesCS6B01G137400 chr4A 79.582 431 65 14 2296 2712 90440415 90440836 1.710000e-73 287
41 TraesCS6B01G137400 chr4A 83.784 148 22 2 383 529 177786527 177786673 5.060000e-29 139
42 TraesCS6B01G137400 chr3B 91.187 556 38 7 703 1256 772133438 772133984 0.000000e+00 745
43 TraesCS6B01G137400 chr3B 86.207 203 28 0 2314 2516 706755905 706756107 1.760000e-53 220
44 TraesCS6B01G137400 chr3B 72.137 585 99 38 1186 1717 745540324 745540897 6.590000e-23 119
45 TraesCS6B01G137400 chr1A 87.040 679 59 19 591 1259 563281901 563281242 0.000000e+00 739
46 TraesCS6B01G137400 chr1A 83.256 215 26 9 559 764 217608747 217608534 4.960000e-44 189
47 TraesCS6B01G137400 chr2D 94.400 375 19 2 1 374 80482714 80483087 3.260000e-160 575
48 TraesCS6B01G137400 chr5A 91.429 420 24 3 366 785 109925956 109926363 1.960000e-157 566
49 TraesCS6B01G137400 chr5A 86.286 175 22 2 2088 2261 689630760 689630587 4.960000e-44 189
50 TraesCS6B01G137400 chr2B 93.867 375 22 1 1 374 132158441 132158815 7.050000e-157 564
51 TraesCS6B01G137400 chr5B 83.799 179 27 2 369 546 606484244 606484421 6.460000e-38 169


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 TraesCS6B01G137400 chr6B 134837302 134841059 3757 False 6940.000000 6940 100.000000 1 3758 1 chr6B.!!$F1 3757
1 TraesCS6B01G137400 chr3D 134962657 134964489 1832 True 2327.000000 2327 89.850000 868 2689 1 chr3D.!!$R2 1821
2 TraesCS6B01G137400 chr3D 579081187 579081954 767 False 1131.000000 1131 93.003000 1 786 1 chr3D.!!$F1 785
3 TraesCS6B01G137400 chr3D 134957299 134958137 838 True 793.000000 793 84.204000 2739 3573 1 chr3D.!!$R1 834
4 TraesCS6B01G137400 chr3D 533958973 533960114 1141 True 732.000000 732 78.872000 1136 2291 1 chr3D.!!$R3 1155
5 TraesCS6B01G137400 chr3A 149714229 149717145 2916 True 1545.500000 2193 86.165500 868 3754 2 chr3A.!!$R1 2886
6 TraesCS6B01G137400 chr6D 61002807 61005791 2984 False 1154.333333 1602 89.975667 873 3757 3 chr6D.!!$F2 2884
7 TraesCS6B01G137400 chr7B 476197838 476198619 781 False 1260.000000 1260 95.685000 1 786 1 chr7B.!!$F2 785
8 TraesCS6B01G137400 chr7B 3882045 3882928 883 False 438.000000 438 76.316000 1375 2261 1 chr7B.!!$F1 886
9 TraesCS6B01G137400 chr7D 454835241 454835999 758 True 1144.000000 1144 93.503000 1 785 1 chr7D.!!$R2 784
10 TraesCS6B01G137400 chr7D 63462297 63463440 1143 False 608.000000 608 76.968000 1097 2261 1 chr7D.!!$F1 1164
11 TraesCS6B01G137400 chr4B 460155271 460156847 1576 True 1079.000000 1079 79.656000 1115 2692 1 chr4B.!!$R6 1577
12 TraesCS6B01G137400 chr4B 139570859 139572263 1404 True 966.000000 966 79.637000 882 2274 1 chr4B.!!$R3 1392
13 TraesCS6B01G137400 chr4B 139592751 139593889 1138 True 942.000000 942 81.880000 1116 2269 1 chr4B.!!$R4 1153
14 TraesCS6B01G137400 chr4B 139547882 139549302 1420 True 874.000000 874 78.567000 882 2272 1 chr4B.!!$R2 1390
15 TraesCS6B01G137400 chr4B 139626806 139627401 595 True 316.000000 316 77.667000 1168 1718 1 chr4B.!!$R5 550
16 TraesCS6B01G137400 chr4B 132055797 132056445 648 True 263.000000 263 75.380000 1189 1796 1 chr4B.!!$R1 607
17 TraesCS6B01G137400 chr6A 77607136 77607862 726 False 1013.000000 1013 91.781000 865 1594 1 chr6A.!!$F1 729
18 TraesCS6B01G137400 chr6A 602673234 602674218 984 True 416.000000 580 93.633000 1 541 2 chr6A.!!$R3 540
19 TraesCS6B01G137400 chr4D 97961118 97962519 1401 True 891.000000 891 78.756000 887 2272 1 chr4D.!!$R1 1385
20 TraesCS6B01G137400 chr4D 97968913 97970276 1363 True 887.000000 887 79.004000 906 2272 1 chr4D.!!$R2 1366
21 TraesCS6B01G137400 chr4D 98014029 98015647 1618 True 665.500000 944 83.108500 1116 2692 2 chr4D.!!$R7 1576
22 TraesCS6B01G137400 chr4D 374040472 374041175 703 True 634.000000 634 82.990000 1560 2286 1 chr4D.!!$R4 726
23 TraesCS6B01G137400 chr4A 478191182 478192809 1627 False 646.000000 905 82.788500 1116 2692 2 chr4A.!!$F3 1576
24 TraesCS6B01G137400 chr3B 772133438 772133984 546 False 745.000000 745 91.187000 703 1256 1 chr3B.!!$F3 553
25 TraesCS6B01G137400 chr1A 563281242 563281901 659 True 739.000000 739 87.040000 591 1259 1 chr1A.!!$R2 668

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
786 1239 0.312102 GGCGCAGATTAATGGCCTTC 59.688 55.0 10.83 0.00 40.59 3.46 F
1533 2116 0.317436 CGCTCGAGATCTTTCTCCCG 60.317 60.0 18.75 1.63 44.76 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2125 2792 0.035056 GCTTGGTACCATGGTGCTCT 60.035 55.0 28.95 4.95 0.0 4.09 R
2971 3764 0.172578 GCAAATGGGTTTACGAGGCC 59.827 55.0 0.00 0.00 0.0 5.19 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
208 209 5.789643 AGGTACACATGAAAAGTTGCAAT 57.210 34.783 0.59 0.00 0.00 3.56
260 262 4.102524 TGAAAAAGCTTCTACCAGAGACCA 59.897 41.667 0.00 0.00 32.31 4.02
337 339 0.796312 CGGCGTCATTTGCTACAACT 59.204 50.000 0.00 0.00 0.00 3.16
626 1073 2.766229 GGAGGGGAGAGGAGGTGC 60.766 72.222 0.00 0.00 0.00 5.01
630 1077 4.459089 GGGAGAGGAGGTGCGCAC 62.459 72.222 32.15 32.15 0.00 5.34
646 1099 2.824489 ACCGAGCGAGAGATGCGA 60.824 61.111 0.00 0.00 37.44 5.10
648 1101 1.007964 CCGAGCGAGAGATGCGATT 60.008 57.895 0.00 0.00 37.44 3.34
650 1103 0.317352 CGAGCGAGAGATGCGATTCA 60.317 55.000 0.00 0.00 37.44 2.57
651 1104 1.407434 GAGCGAGAGATGCGATTCAG 58.593 55.000 0.00 0.00 37.44 3.02
652 1105 0.597118 AGCGAGAGATGCGATTCAGC 60.597 55.000 0.00 0.00 37.44 4.26
653 1106 1.874386 GCGAGAGATGCGATTCAGCG 61.874 60.000 0.00 0.00 40.67 5.18
654 1107 0.317352 CGAGAGATGCGATTCAGCGA 60.317 55.000 0.00 0.00 40.67 4.93
655 1108 1.665448 CGAGAGATGCGATTCAGCGAT 60.665 52.381 0.00 0.00 40.67 4.58
656 1109 1.984990 GAGAGATGCGATTCAGCGATC 59.015 52.381 0.00 0.00 40.67 3.69
660 1113 1.140804 TGCGATTCAGCGATCGGAA 59.859 52.632 18.30 12.99 44.91 4.30
673 1126 1.964448 TCGGAAGAAGAAGCAGCGA 59.036 52.632 0.00 0.00 37.03 4.93
675 1128 1.691215 CGGAAGAAGAAGCAGCGAGC 61.691 60.000 0.00 0.00 46.19 5.03
706 1159 1.582610 TTTTTGCCAGATCCGACGGC 61.583 55.000 9.66 6.19 46.43 5.68
711 1164 4.530857 CAGATCCGACGGCCCACC 62.531 72.222 9.66 0.00 0.00 4.61
731 1184 2.618709 CCCGACTTAAATCCAATGGCTC 59.381 50.000 0.00 0.00 0.00 4.70
732 1185 2.618709 CCGACTTAAATCCAATGGCTCC 59.381 50.000 0.00 0.00 0.00 4.70
781 1234 2.639286 GCCGGCGCAGATTAATGG 59.361 61.111 12.58 0.00 34.03 3.16
786 1239 0.312102 GGCGCAGATTAATGGCCTTC 59.688 55.000 10.83 0.00 40.59 3.46
787 1240 1.312815 GCGCAGATTAATGGCCTTCT 58.687 50.000 3.32 0.00 0.00 2.85
788 1241 1.678101 GCGCAGATTAATGGCCTTCTT 59.322 47.619 3.32 0.00 0.00 2.52
789 1242 2.099756 GCGCAGATTAATGGCCTTCTTT 59.900 45.455 3.32 0.00 0.00 2.52
790 1243 3.429410 GCGCAGATTAATGGCCTTCTTTT 60.429 43.478 3.32 0.00 0.00 2.27
791 1244 4.202010 GCGCAGATTAATGGCCTTCTTTTA 60.202 41.667 3.32 0.00 0.00 1.52
792 1245 5.507985 GCGCAGATTAATGGCCTTCTTTTAT 60.508 40.000 3.32 0.00 0.00 1.40
793 1246 6.507023 CGCAGATTAATGGCCTTCTTTTATT 58.493 36.000 3.32 0.00 0.00 1.40
794 1247 6.418819 CGCAGATTAATGGCCTTCTTTTATTG 59.581 38.462 3.32 0.00 0.00 1.90
795 1248 7.491682 GCAGATTAATGGCCTTCTTTTATTGA 58.508 34.615 3.32 0.00 0.00 2.57
796 1249 7.650903 GCAGATTAATGGCCTTCTTTTATTGAG 59.349 37.037 3.32 0.00 0.00 3.02
808 1261 5.428253 TCTTTTATTGAGAGGGTTCGATGG 58.572 41.667 0.00 0.00 0.00 3.51
816 1269 3.379452 AGAGGGTTCGATGGATCTTTCT 58.621 45.455 0.00 0.00 0.00 2.52
842 1295 1.280457 CCTCTCAAACCCCACTAGCT 58.720 55.000 0.00 0.00 0.00 3.32
845 1298 0.984230 CTCAAACCCCACTAGCTCCA 59.016 55.000 0.00 0.00 0.00 3.86
917 1373 2.704572 CAATTTCCTCTCCTTCGCTGT 58.295 47.619 0.00 0.00 0.00 4.40
918 1374 3.077359 CAATTTCCTCTCCTTCGCTGTT 58.923 45.455 0.00 0.00 0.00 3.16
919 1375 2.457366 TTTCCTCTCCTTCGCTGTTC 57.543 50.000 0.00 0.00 0.00 3.18
920 1376 1.633774 TTCCTCTCCTTCGCTGTTCT 58.366 50.000 0.00 0.00 0.00 3.01
921 1377 2.509166 TCCTCTCCTTCGCTGTTCTA 57.491 50.000 0.00 0.00 0.00 2.10
927 1396 1.819288 TCCTTCGCTGTTCTACTCCAG 59.181 52.381 0.00 0.00 0.00 3.86
1533 2116 0.317436 CGCTCGAGATCTTTCTCCCG 60.317 60.000 18.75 1.63 44.76 5.14
1583 2166 2.439701 CCGACTCTACCTCGGCCA 60.440 66.667 2.24 0.00 44.04 5.36
1590 2173 0.755698 TCTACCTCGGCCACTGGATC 60.756 60.000 2.24 0.00 0.00 3.36
1736 2323 0.824182 ACGCTATCTCTCGAAGGGGG 60.824 60.000 3.56 0.00 0.00 5.40
1807 2425 0.876342 GATCATCGGGTGCTCGGTTC 60.876 60.000 0.00 0.00 0.00 3.62
1898 2519 2.591429 TGACGGCAACTGCACCAG 60.591 61.111 3.76 0.00 44.36 4.00
1902 2523 2.034066 GGCAACTGCACCAGGCTA 59.966 61.111 3.76 0.00 45.15 3.93
1953 2574 3.591527 TGTTGGGATACTTGGAGTTGGAT 59.408 43.478 0.00 0.00 0.00 3.41
1954 2575 4.044065 TGTTGGGATACTTGGAGTTGGATT 59.956 41.667 0.00 0.00 0.00 3.01
1980 2604 1.433879 CGTCCTAGAGGTCGGCAAG 59.566 63.158 7.25 0.00 41.75 4.01
2011 2647 4.701651 TCAAGGTGCCACATCTTTCTATTG 59.298 41.667 0.00 0.00 31.84 1.90
2072 2723 4.148128 TGGCATCTTCCTTCTCTGAATC 57.852 45.455 0.00 0.00 0.00 2.52
2082 2733 2.787473 TCTCTGAATCGGGTGCATTT 57.213 45.000 0.00 0.00 0.00 2.32
2086 2737 1.811965 CTGAATCGGGTGCATTTGTGA 59.188 47.619 0.00 0.00 0.00 3.58
2093 2760 1.490621 GGTGCATTTGTGAACTGTGC 58.509 50.000 0.00 0.00 36.39 4.57
2125 2792 2.449518 TGGGACAAGGGTGAGCCA 60.450 61.111 2.50 0.00 32.40 4.75
2272 2939 1.801178 GAAGTCCCTGACGCTTCTTTG 59.199 52.381 0.00 0.00 37.67 2.77
2331 3064 4.272504 TCGAATTTTCAGTCTGCGAAAACT 59.727 37.500 0.00 0.00 43.17 2.66
2381 3114 1.681486 TTCTGGCACGAGTGTGGTGA 61.681 55.000 5.07 0.00 46.51 4.02
2559 3295 2.668280 GCGGTCCAAACTGTCGAGC 61.668 63.158 0.00 0.00 34.00 5.03
2560 3296 1.006102 CGGTCCAAACTGTCGAGCT 60.006 57.895 0.00 0.00 0.00 4.09
2623 3359 3.285484 GTCACCGTACCTTCTGATCCTA 58.715 50.000 0.00 0.00 0.00 2.94
2627 3363 4.401519 CACCGTACCTTCTGATCCTAAAGA 59.598 45.833 0.00 0.00 0.00 2.52
2659 3395 4.950050 TCGGAGCTTCAAAATAGGATCTC 58.050 43.478 0.00 0.00 0.00 2.75
2661 3397 4.061596 GGAGCTTCAAAATAGGATCTCGG 58.938 47.826 0.00 0.00 0.00 4.63
2692 3428 2.614983 GACGACCCTTTTGCAAACTACA 59.385 45.455 12.39 0.00 0.00 2.74
2694 3430 2.616842 CGACCCTTTTGCAAACTACAGT 59.383 45.455 12.39 5.34 0.00 3.55
2695 3431 3.810941 CGACCCTTTTGCAAACTACAGTA 59.189 43.478 12.39 0.00 0.00 2.74
2696 3432 4.319261 CGACCCTTTTGCAAACTACAGTAC 60.319 45.833 12.39 0.19 0.00 2.73
2697 3433 4.788679 ACCCTTTTGCAAACTACAGTACT 58.211 39.130 12.39 0.00 0.00 2.73
2698 3434 5.932455 ACCCTTTTGCAAACTACAGTACTA 58.068 37.500 12.39 0.00 0.00 1.82
2712 3448 4.058817 ACAGTACTAAAGTCACAGCAAGC 58.941 43.478 0.00 0.00 0.00 4.01
2718 3454 0.940126 AAGTCACAGCAAGCGAACTG 59.060 50.000 0.00 1.95 39.86 3.16
2729 3465 2.650163 GCGAACTGCAGTACCTACG 58.350 57.895 22.01 19.76 45.45 3.51
2730 3466 0.109412 GCGAACTGCAGTACCTACGT 60.109 55.000 22.01 1.33 45.45 3.57
2731 3467 1.131126 GCGAACTGCAGTACCTACGTA 59.869 52.381 22.01 0.00 45.45 3.57
2732 3468 2.790468 GCGAACTGCAGTACCTACGTAG 60.790 54.545 22.01 15.92 45.45 3.51
2733 3469 5.852548 GCGAACTGCAGTACCTACGTAGG 62.853 56.522 34.98 34.98 45.99 3.18
2734 3470 2.795231 ACTGCAGTACCTACGTAGGA 57.205 50.000 41.26 24.70 46.63 2.94
2773 3509 5.947443 CAAAGTAAATTGCTCTGGAAGGAG 58.053 41.667 0.00 0.00 36.50 3.69
2779 3515 0.397941 TGCTCTGGAAGGAGGTTGTG 59.602 55.000 0.00 0.00 34.21 3.33
2786 3522 5.030147 TCTGGAAGGAGGTTGTGTATGTAT 58.970 41.667 0.00 0.00 0.00 2.29
2819 3564 4.252971 CGGAATGTTCTGGTATCCGTAT 57.747 45.455 4.45 0.00 45.96 3.06
2820 3565 4.235360 CGGAATGTTCTGGTATCCGTATC 58.765 47.826 4.45 0.00 45.96 2.24
2863 3642 2.673258 TGTGTTGGACAGAGGTGTAGA 58.327 47.619 0.00 0.00 36.88 2.59
2883 3662 0.174845 AAAGTACAGCGGCGCAGATA 59.825 50.000 35.02 19.37 0.00 1.98
2895 3674 3.924238 GCAGATAATGTTGTGCGGG 57.076 52.632 0.00 0.00 0.00 6.13
2897 3676 1.202177 GCAGATAATGTTGTGCGGGTG 60.202 52.381 0.00 0.00 0.00 4.61
2953 3732 4.729552 AGATGGCTTGCTTGGGATAATA 57.270 40.909 0.00 0.00 0.00 0.98
2954 3733 5.065613 AGATGGCTTGCTTGGGATAATAA 57.934 39.130 0.00 0.00 0.00 1.40
2956 3735 5.713861 AGATGGCTTGCTTGGGATAATAATC 59.286 40.000 0.00 0.00 0.00 1.75
2957 3736 5.065613 TGGCTTGCTTGGGATAATAATCT 57.934 39.130 0.00 0.00 32.29 2.40
2958 3737 4.828939 TGGCTTGCTTGGGATAATAATCTG 59.171 41.667 0.00 0.00 32.29 2.90
2959 3738 4.321527 GGCTTGCTTGGGATAATAATCTGC 60.322 45.833 0.00 0.00 32.29 4.26
2960 3739 4.522022 GCTTGCTTGGGATAATAATCTGCT 59.478 41.667 0.00 0.00 32.29 4.24
2971 3764 6.092807 GGATAATAATCTGCTAAAAGGAGGCG 59.907 42.308 0.00 0.00 34.13 5.52
2973 3766 0.464554 ATCTGCTAAAAGGAGGCGGC 60.465 55.000 0.00 0.00 34.13 6.53
3005 4013 2.669878 TTGCCCCCTTTGCAATCTC 58.330 52.632 0.00 0.00 43.36 2.75
3033 4041 3.255642 GGAAACTGCAAGCCACTTATGAA 59.744 43.478 0.00 0.00 37.60 2.57
3102 4115 6.783892 ACCGACCAAAAATGATCAAAAATG 57.216 33.333 0.00 0.00 0.00 2.32
3103 4116 6.520272 ACCGACCAAAAATGATCAAAAATGA 58.480 32.000 0.00 0.00 0.00 2.57
3123 4136 0.523072 ACATGAGCGCGAAAATTGCT 59.477 45.000 12.10 0.00 42.73 3.91
3124 4137 1.068333 ACATGAGCGCGAAAATTGCTT 60.068 42.857 12.10 0.00 39.49 3.91
3125 4138 1.580704 CATGAGCGCGAAAATTGCTTC 59.419 47.619 12.10 0.00 39.49 3.86
3143 4156 2.093306 TCACGGAAAGCATGGTGTAG 57.907 50.000 0.00 0.00 0.00 2.74
3144 4157 1.086696 CACGGAAAGCATGGTGTAGG 58.913 55.000 0.00 0.00 0.00 3.18
3153 4166 1.202698 GCATGGTGTAGGCTAGAAGGG 60.203 57.143 0.00 0.00 32.24 3.95
3156 4169 2.398588 TGGTGTAGGCTAGAAGGGATG 58.601 52.381 0.00 0.00 0.00 3.51
3158 4171 3.243724 GGTGTAGGCTAGAAGGGATGAT 58.756 50.000 0.00 0.00 0.00 2.45
3164 4177 6.720288 TGTAGGCTAGAAGGGATGATAGTAAC 59.280 42.308 0.00 0.00 0.00 2.50
3281 4295 5.180117 GCTCATGTGCACTAGAAGAAGAAAA 59.820 40.000 19.41 0.00 0.00 2.29
3303 4317 1.755179 ATCCCGGCAATTTGTCTCTG 58.245 50.000 0.00 0.00 0.00 3.35
3305 4319 0.322456 CCCGGCAATTTGTCTCTGGA 60.322 55.000 0.00 0.00 0.00 3.86
3405 4419 5.371115 TTTCTACAAATTTGAAGCCCTCG 57.629 39.130 24.64 0.00 0.00 4.63
3414 4428 3.973206 TTGAAGCCCTCGAGACATTAA 57.027 42.857 15.71 0.00 0.00 1.40
3419 4433 0.921347 CCCTCGAGACATTAAACGCG 59.079 55.000 15.71 3.53 0.00 6.01
3453 4467 6.928492 GCCTTTCTTTTCCATTGATTGTACAA 59.072 34.615 11.41 11.41 0.00 2.41
3484 4498 8.986477 AATTAAAGATATGCTTTGTGTGTTCC 57.014 30.769 0.00 0.00 46.03 3.62
3497 4511 4.753516 GTGTGTTCCACATTTTGAAACG 57.246 40.909 0.00 0.00 46.32 3.60
3498 4512 3.549873 GTGTGTTCCACATTTTGAAACGG 59.450 43.478 0.00 0.00 46.32 4.44
3503 4517 1.041726 CACATTTTGAAACGGACGCG 58.958 50.000 3.53 3.53 0.00 6.01
3516 4534 3.562505 ACGGACGCGTCATAATTAGATC 58.437 45.455 37.26 16.77 0.00 2.75
3534 4552 5.189659 AGATCGTTATGCAGAGTAGGAAC 57.810 43.478 0.00 0.00 0.00 3.62
3580 4599 9.929180 GTTATTCATCATAAGCTAGTCCATACA 57.071 33.333 0.00 0.00 0.00 2.29
3581 4600 9.929180 TTATTCATCATAAGCTAGTCCATACAC 57.071 33.333 0.00 0.00 0.00 2.90
3582 4601 7.603180 TTCATCATAAGCTAGTCCATACACT 57.397 36.000 0.00 0.00 0.00 3.55
3583 4602 6.986250 TCATCATAAGCTAGTCCATACACTG 58.014 40.000 0.00 0.00 0.00 3.66
3584 4603 6.777580 TCATCATAAGCTAGTCCATACACTGA 59.222 38.462 0.00 0.00 0.00 3.41
3585 4604 7.287696 TCATCATAAGCTAGTCCATACACTGAA 59.712 37.037 0.00 0.00 0.00 3.02
3586 4605 7.418337 TCATAAGCTAGTCCATACACTGAAA 57.582 36.000 0.00 0.00 0.00 2.69
3587 4606 7.847096 TCATAAGCTAGTCCATACACTGAAAA 58.153 34.615 0.00 0.00 0.00 2.29
3588 4607 7.981789 TCATAAGCTAGTCCATACACTGAAAAG 59.018 37.037 0.00 0.00 0.00 2.27
3589 4608 6.360370 AAGCTAGTCCATACACTGAAAAGA 57.640 37.500 0.00 0.00 0.00 2.52
3590 4609 6.360370 AGCTAGTCCATACACTGAAAAGAA 57.640 37.500 0.00 0.00 0.00 2.52
3591 4610 6.402222 AGCTAGTCCATACACTGAAAAGAAG 58.598 40.000 0.00 0.00 0.00 2.85
3592 4611 6.014156 AGCTAGTCCATACACTGAAAAGAAGT 60.014 38.462 0.00 0.00 0.00 3.01
3656 4693 7.538575 ACATCCCGATTTTCAGAATGTTTAAG 58.461 34.615 0.00 0.00 37.40 1.85
3700 4739 7.734942 AGGCCAGAAAATTCTTTGTTTAATCA 58.265 30.769 5.01 0.00 34.74 2.57
3721 4760 8.970859 AATCAAGCTATTAGCATAAGTTGAGT 57.029 30.769 17.59 13.29 45.56 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 5.609423 TGTAGCTTTTTGCATTCATGGTTT 58.391 33.333 0.00 0.00 45.94 3.27
233 235 7.324178 GTCTCTGGTAGAAGCTTTTTCATCTA 58.676 38.462 0.00 0.00 35.47 1.98
260 262 4.812626 CAGCATTTTGGTTGAAGCTTTCTT 59.187 37.500 0.00 0.00 34.68 2.52
337 339 2.156891 GTCGCAACAAATTGAGTCGCTA 59.843 45.455 0.00 0.00 38.15 4.26
628 1075 2.399511 ATCGCATCTCTCGCTCGGTG 62.400 60.000 0.00 0.00 0.00 4.94
629 1076 1.729470 AATCGCATCTCTCGCTCGGT 61.729 55.000 0.00 0.00 0.00 4.69
630 1077 1.001240 GAATCGCATCTCTCGCTCGG 61.001 60.000 0.00 0.00 0.00 4.63
638 1091 0.707276 CGATCGCTGAATCGCATCTC 59.293 55.000 0.26 0.00 41.71 2.75
643 1096 0.595053 TCTTCCGATCGCTGAATCGC 60.595 55.000 10.32 0.00 45.56 4.58
646 1099 3.452474 CTTCTTCTTCCGATCGCTGAAT 58.548 45.455 10.32 0.00 0.00 2.57
648 1101 1.469940 GCTTCTTCTTCCGATCGCTGA 60.470 52.381 10.32 4.20 0.00 4.26
650 1103 0.532573 TGCTTCTTCTTCCGATCGCT 59.467 50.000 10.32 0.00 0.00 4.93
651 1104 0.926846 CTGCTTCTTCTTCCGATCGC 59.073 55.000 10.32 0.00 0.00 4.58
652 1105 0.926846 GCTGCTTCTTCTTCCGATCG 59.073 55.000 8.51 8.51 0.00 3.69
653 1106 0.926846 CGCTGCTTCTTCTTCCGATC 59.073 55.000 0.00 0.00 0.00 3.69
654 1107 0.532573 TCGCTGCTTCTTCTTCCGAT 59.467 50.000 0.00 0.00 0.00 4.18
655 1108 0.109086 CTCGCTGCTTCTTCTTCCGA 60.109 55.000 0.00 0.00 0.00 4.55
656 1109 1.691215 GCTCGCTGCTTCTTCTTCCG 61.691 60.000 0.00 0.00 38.95 4.30
657 1110 1.365368 GGCTCGCTGCTTCTTCTTCC 61.365 60.000 0.00 0.00 42.39 3.46
660 1113 0.952984 GTTGGCTCGCTGCTTCTTCT 60.953 55.000 0.00 0.00 42.39 2.85
668 1121 1.358759 AAAAACGGTTGGCTCGCTG 59.641 52.632 0.00 0.00 0.00 5.18
669 1122 3.836151 AAAAACGGTTGGCTCGCT 58.164 50.000 0.00 0.00 0.00 4.93
693 1146 4.530857 GTGGGCCGTCGGATCTGG 62.531 72.222 17.49 0.00 0.00 3.86
694 1147 4.530857 GGTGGGCCGTCGGATCTG 62.531 72.222 17.49 0.00 0.00 2.90
701 1154 2.453379 TTTAAGTCGGGTGGGCCGTC 62.453 60.000 0.00 0.00 34.97 4.79
706 1159 2.500392 TTGGATTTAAGTCGGGTGGG 57.500 50.000 0.00 0.00 0.00 4.61
711 1164 2.618709 GGAGCCATTGGATTTAAGTCGG 59.381 50.000 6.95 0.00 0.00 4.79
714 1167 3.279434 GTCGGAGCCATTGGATTTAAGT 58.721 45.455 6.95 0.00 0.00 2.24
715 1168 2.287915 CGTCGGAGCCATTGGATTTAAG 59.712 50.000 6.95 0.00 0.00 1.85
717 1170 1.948104 CGTCGGAGCCATTGGATTTA 58.052 50.000 6.95 0.00 0.00 1.40
719 1172 1.819632 GCGTCGGAGCCATTGGATT 60.820 57.895 6.95 0.00 0.00 3.01
769 1222 4.376340 AAAAGAAGGCCATTAATCTGCG 57.624 40.909 5.01 0.00 0.00 5.18
778 1231 4.017130 ACCCTCTCAATAAAAGAAGGCCAT 60.017 41.667 5.01 0.00 28.85 4.40
781 1234 4.095036 CGAACCCTCTCAATAAAAGAAGGC 59.905 45.833 0.00 0.00 28.85 4.35
786 1239 5.428253 TCCATCGAACCCTCTCAATAAAAG 58.572 41.667 0.00 0.00 0.00 2.27
787 1240 5.429681 TCCATCGAACCCTCTCAATAAAA 57.570 39.130 0.00 0.00 0.00 1.52
788 1241 5.366768 AGATCCATCGAACCCTCTCAATAAA 59.633 40.000 0.00 0.00 0.00 1.40
789 1242 4.901849 AGATCCATCGAACCCTCTCAATAA 59.098 41.667 0.00 0.00 0.00 1.40
790 1243 4.483950 AGATCCATCGAACCCTCTCAATA 58.516 43.478 0.00 0.00 0.00 1.90
791 1244 3.312890 AGATCCATCGAACCCTCTCAAT 58.687 45.455 0.00 0.00 0.00 2.57
792 1245 2.752030 AGATCCATCGAACCCTCTCAA 58.248 47.619 0.00 0.00 0.00 3.02
793 1246 2.461300 AGATCCATCGAACCCTCTCA 57.539 50.000 0.00 0.00 0.00 3.27
794 1247 3.386402 AGAAAGATCCATCGAACCCTCTC 59.614 47.826 0.00 0.00 0.00 3.20
795 1248 3.379452 AGAAAGATCCATCGAACCCTCT 58.621 45.455 0.00 0.00 0.00 3.69
796 1249 3.723260 GAGAAAGATCCATCGAACCCTC 58.277 50.000 0.00 0.00 0.00 4.30
808 1261 2.761208 TGAGAGGGTTCCGAGAAAGATC 59.239 50.000 0.00 0.00 0.00 2.75
816 1269 1.486145 GGGGTTTGAGAGGGTTCCGA 61.486 60.000 0.00 0.00 0.00 4.55
858 1312 2.686915 CAAATGTCATGGGGCTTCTCTC 59.313 50.000 0.00 0.00 0.00 3.20
917 1373 0.039180 TGGAGCGGACTGGAGTAGAA 59.961 55.000 0.00 0.00 0.00 2.10
918 1374 0.680280 GTGGAGCGGACTGGAGTAGA 60.680 60.000 0.00 0.00 0.00 2.59
919 1375 0.681564 AGTGGAGCGGACTGGAGTAG 60.682 60.000 0.00 0.00 0.00 2.57
920 1376 0.680280 GAGTGGAGCGGACTGGAGTA 60.680 60.000 0.00 0.00 0.00 2.59
921 1377 1.979693 GAGTGGAGCGGACTGGAGT 60.980 63.158 0.00 0.00 0.00 3.85
927 1396 2.219325 CTCTGTGGAGTGGAGCGGAC 62.219 65.000 0.00 0.00 35.03 4.79
1533 2116 3.274288 CATGCCTAAGAAGAAGGTGGAC 58.726 50.000 0.00 0.00 36.43 4.02
1583 2166 1.605058 CGTGACGGGGAAGATCCAGT 61.605 60.000 0.00 0.00 38.64 4.00
1621 2204 2.356667 GAGGTTGGGGAAGCAGGG 59.643 66.667 0.00 0.00 0.00 4.45
1736 2323 2.899339 GGCAATGCTCGAGCCTCC 60.899 66.667 33.23 23.08 44.92 4.30
1807 2425 3.813529 GTCCACCACGAAGATTTCTTG 57.186 47.619 0.00 0.00 36.11 3.02
1922 2543 1.004628 AGTATCCCAACATGTGCAGCA 59.995 47.619 0.00 0.00 0.00 4.41
1953 2574 0.970937 CCTCTAGGACGTGCCCTGAA 60.971 60.000 2.38 0.00 37.10 3.02
1954 2575 1.379977 CCTCTAGGACGTGCCCTGA 60.380 63.158 2.38 0.00 37.10 3.86
1980 2604 1.098050 GTGGCACCTTGATGATGGTC 58.902 55.000 6.29 0.00 33.75 4.02
2011 2647 6.531594 GCTTAGGAATTTGTTTACATTGAGCC 59.468 38.462 0.00 0.00 0.00 4.70
2072 2723 0.667993 ACAGTTCACAAATGCACCCG 59.332 50.000 0.00 0.00 0.00 5.28
2082 2733 2.811855 CAATTGCAAGCACAGTTCACA 58.188 42.857 4.94 0.00 0.00 3.58
2125 2792 0.035056 GCTTGGTACCATGGTGCTCT 60.035 55.000 28.95 4.95 0.00 4.09
2272 2939 3.665675 ATGGCGCAGACGGAAGACC 62.666 63.158 10.83 0.00 41.59 3.85
2331 3064 0.462581 GCTTGCCAGTGGATCGATCA 60.463 55.000 25.93 10.23 0.00 2.92
2381 3114 0.385751 CGACCGGATGCACTCTATGT 59.614 55.000 9.46 0.00 0.00 2.29
2543 3279 0.868406 CAAGCTCGACAGTTTGGACC 59.132 55.000 0.00 0.00 37.23 4.46
2559 3295 1.964373 CCGTTTCACCGACCCCAAG 60.964 63.158 0.00 0.00 0.00 3.61
2560 3296 2.111460 CCGTTTCACCGACCCCAA 59.889 61.111 0.00 0.00 0.00 4.12
2583 3319 1.000955 ACCAGCACTGTAGAGGTTTCG 59.999 52.381 0.00 0.00 0.00 3.46
2623 3359 2.040412 AGCTCCGAATGGAACCTTCTTT 59.960 45.455 0.00 0.00 45.87 2.52
2627 3363 1.351017 TGAAGCTCCGAATGGAACCTT 59.649 47.619 0.00 0.00 45.87 3.50
2659 3395 1.566018 GGGTCGTCAGCAGAAAACCG 61.566 60.000 5.44 0.00 33.49 4.44
2661 3397 1.594331 AAGGGTCGTCAGCAGAAAAC 58.406 50.000 0.00 0.00 0.00 2.43
2692 3428 3.005472 TCGCTTGCTGTGACTTTAGTACT 59.995 43.478 0.00 0.00 0.00 2.73
2694 3430 3.653539 TCGCTTGCTGTGACTTTAGTA 57.346 42.857 0.00 0.00 0.00 1.82
2695 3431 2.526304 TCGCTTGCTGTGACTTTAGT 57.474 45.000 0.00 0.00 0.00 2.24
2696 3432 2.802816 AGTTCGCTTGCTGTGACTTTAG 59.197 45.455 0.00 0.00 34.56 1.85
2697 3433 2.543848 CAGTTCGCTTGCTGTGACTTTA 59.456 45.455 0.00 0.00 34.56 1.85
2698 3434 1.331756 CAGTTCGCTTGCTGTGACTTT 59.668 47.619 0.00 0.00 34.56 2.66
2712 3448 2.223203 CCTACGTAGGTACTGCAGTTCG 60.223 54.545 30.04 21.57 42.67 3.95
2718 3454 7.173907 TGAAATATACTCCTACGTAGGTACTGC 59.826 40.741 34.80 14.00 44.02 4.40
2720 3456 9.447157 GATGAAATATACTCCTACGTAGGTACT 57.553 37.037 34.80 22.21 44.02 2.73
2721 3457 8.672815 GGATGAAATATACTCCTACGTAGGTAC 58.327 40.741 34.80 13.19 44.02 3.34
2722 3458 8.609483 AGGATGAAATATACTCCTACGTAGGTA 58.391 37.037 34.80 23.75 44.02 3.08
2723 3459 7.393796 CAGGATGAAATATACTCCTACGTAGGT 59.606 40.741 34.80 22.49 41.15 3.08
2724 3460 7.628794 GCAGGATGAAATATACTCCTACGTAGG 60.629 44.444 32.05 32.05 41.57 3.18
2726 3462 6.717997 TGCAGGATGAAATATACTCCTACGTA 59.282 38.462 0.00 0.00 39.69 3.57
2727 3463 5.538813 TGCAGGATGAAATATACTCCTACGT 59.461 40.000 0.00 0.00 39.69 3.57
2728 3464 6.025749 TGCAGGATGAAATATACTCCTACG 57.974 41.667 0.00 0.00 39.69 3.51
2729 3465 7.934120 ACTTTGCAGGATGAAATATACTCCTAC 59.066 37.037 0.00 0.00 39.69 3.18
2730 3466 8.034313 ACTTTGCAGGATGAAATATACTCCTA 57.966 34.615 0.00 0.00 39.69 2.94
2731 3467 6.904626 ACTTTGCAGGATGAAATATACTCCT 58.095 36.000 0.00 0.00 39.69 3.69
2732 3468 8.677148 TTACTTTGCAGGATGAAATATACTCC 57.323 34.615 0.00 0.00 39.69 3.85
2773 3509 3.315191 GCCATGGTCATACATACACAACC 59.685 47.826 14.67 0.00 0.00 3.77
2779 3515 1.156736 GCCGCCATGGTCATACATAC 58.843 55.000 14.67 0.00 41.21 2.39
2786 3522 4.108299 ATTCCGCCGCCATGGTCA 62.108 61.111 14.67 0.00 41.21 4.02
2819 3564 8.647796 ACAAATGGTGATATCTAGTAATTCCGA 58.352 33.333 3.98 0.00 0.00 4.55
2820 3565 8.833231 ACAAATGGTGATATCTAGTAATTCCG 57.167 34.615 3.98 0.00 0.00 4.30
2863 3642 0.673644 ATCTGCGCCGCTGTACTTTT 60.674 50.000 11.67 0.00 0.00 2.27
2894 3673 3.961838 TACCACCGCGGAATGCACC 62.962 63.158 35.90 0.00 46.97 5.01
2895 3674 2.435234 TACCACCGCGGAATGCAC 60.435 61.111 35.90 0.00 46.97 4.57
2897 3676 2.125269 AGTACCACCGCGGAATGC 60.125 61.111 35.90 19.32 38.63 3.56
2908 3687 4.202377 TGGAATTCCAAAAGACGAGTACCA 60.202 41.667 25.13 0.00 44.35 3.25
2953 3732 2.019156 GCCGCCTCCTTTTAGCAGATT 61.019 52.381 0.00 0.00 0.00 2.40
2954 3733 0.464554 GCCGCCTCCTTTTAGCAGAT 60.465 55.000 0.00 0.00 0.00 2.90
2956 3735 2.115291 GGCCGCCTCCTTTTAGCAG 61.115 63.158 0.71 0.00 0.00 4.24
2957 3736 2.045340 GGCCGCCTCCTTTTAGCA 60.045 61.111 0.71 0.00 0.00 3.49
2958 3737 1.820056 GAGGCCGCCTCCTTTTAGC 60.820 63.158 26.79 1.26 44.36 3.09
2959 3738 4.542075 GAGGCCGCCTCCTTTTAG 57.458 61.111 26.79 0.00 44.36 1.85
2971 3764 0.172578 GCAAATGGGTTTACGAGGCC 59.827 55.000 0.00 0.00 0.00 5.19
2973 3766 0.815095 GGGCAAATGGGTTTACGAGG 59.185 55.000 0.00 0.00 0.00 4.63
2977 3985 1.651737 AAGGGGGCAAATGGGTTTAC 58.348 50.000 0.00 0.00 0.00 2.01
2981 3989 2.223443 GCAAAGGGGGCAAATGGGT 61.223 57.895 0.00 0.00 0.00 4.51
3005 4013 1.576421 GCTTGCAGTTTCCTGTCCG 59.424 57.895 0.00 0.00 41.02 4.79
3022 4030 3.019564 AGGCAATGAGTTCATAAGTGGC 58.980 45.455 9.55 9.55 37.40 5.01
3033 4041 1.064463 CCCATACACCAGGCAATGAGT 60.064 52.381 0.00 0.00 0.00 3.41
3102 4115 1.318491 GCAATTTTCGCGCTCATGTTC 59.682 47.619 5.56 0.00 0.00 3.18
3103 4116 1.068333 AGCAATTTTCGCGCTCATGTT 60.068 42.857 5.56 0.00 0.00 2.71
3123 4136 2.422597 CTACACCATGCTTTCCGTGAA 58.577 47.619 4.78 0.00 31.89 3.18
3124 4137 1.338674 CCTACACCATGCTTTCCGTGA 60.339 52.381 4.78 0.00 31.89 4.35
3125 4138 1.086696 CCTACACCATGCTTTCCGTG 58.913 55.000 0.00 0.00 0.00 4.94
3143 4156 4.838986 TGGTTACTATCATCCCTTCTAGCC 59.161 45.833 0.00 0.00 0.00 3.93
3144 4157 6.420913 TTGGTTACTATCATCCCTTCTAGC 57.579 41.667 0.00 0.00 0.00 3.42
3151 4164 5.564550 AGATGCATTGGTTACTATCATCCC 58.435 41.667 0.00 0.00 31.80 3.85
3156 4169 9.066892 TGGATTTTAGATGCATTGGTTACTATC 57.933 33.333 0.00 0.00 0.00 2.08
3158 4171 8.995027 ATGGATTTTAGATGCATTGGTTACTA 57.005 30.769 0.00 0.00 0.00 1.82
3258 4272 6.791887 TTTTCTTCTTCTAGTGCACATGAG 57.208 37.500 21.04 13.02 0.00 2.90
3281 4295 3.056607 CAGAGACAAATTGCCGGGATTTT 60.057 43.478 9.71 9.71 0.00 1.82
3305 4319 3.834231 AGAAATTTTAGGTGCCATGTGCT 59.166 39.130 7.54 0.00 42.00 4.40
3380 4394 6.868339 CGAGGGCTTCAAATTTGTAGAAAATT 59.132 34.615 24.14 7.81 0.00 1.82
3403 4417 7.618547 GCATTTATATCGCGTTTAATGTCTCGA 60.619 37.037 5.77 0.00 0.00 4.04
3405 4419 6.736853 GGCATTTATATCGCGTTTAATGTCTC 59.263 38.462 5.77 2.53 0.00 3.36
3414 4428 5.751243 AAGAAAGGCATTTATATCGCGTT 57.249 34.783 5.77 0.00 35.44 4.84
3484 4498 1.041726 CGCGTCCGTTTCAAAATGTG 58.958 50.000 0.00 0.00 0.00 3.21
3497 4511 3.562505 ACGATCTAATTATGACGCGTCC 58.437 45.455 34.34 18.00 0.00 4.79
3498 4512 6.674520 CATAACGATCTAATTATGACGCGTC 58.325 40.000 31.66 31.66 39.96 5.19
3503 4517 8.749841 ACTCTGCATAACGATCTAATTATGAC 57.250 34.615 18.29 12.57 39.96 3.06
3516 4534 2.159282 ACGGTTCCTACTCTGCATAACG 60.159 50.000 0.00 0.00 0.00 3.18
3554 4573 9.929180 TGTATGGACTAGCTTATGATGAATAAC 57.071 33.333 0.00 0.00 0.00 1.89
3593 4612 3.751175 TGTGGTCTGTAGCAAAGTAATGC 59.249 43.478 0.00 0.00 46.78 3.56
3594 4613 5.940192 TTGTGGTCTGTAGCAAAGTAATG 57.060 39.130 0.00 0.00 34.25 1.90
3595 4614 6.952773 TTTTGTGGTCTGTAGCAAAGTAAT 57.047 33.333 0.00 0.00 34.25 1.89
3596 4615 6.183360 CCTTTTTGTGGTCTGTAGCAAAGTAA 60.183 38.462 0.00 0.00 34.25 2.24
3597 4616 5.298276 CCTTTTTGTGGTCTGTAGCAAAGTA 59.702 40.000 0.00 0.00 34.25 2.24
3675 4713 7.734942 TGATTAAACAAAGAATTTTCTGGCCT 58.265 30.769 3.32 0.00 35.03 5.19


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

AutoCloner maintained by Alex Coulton.