Multiple sequence alignment - TraesCS2B01G092400

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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 TraesCS2B01G092400 chr2B 100.000 4159 0 0 1 4159 53296983 53301141 0.000000e+00 7681
1 TraesCS2B01G092400 chr2B 80.396 2678 372 69 602 3214 53147213 53149802 0.000000e+00 1895
2 TraesCS2B01G092400 chr2B 78.512 2527 427 76 782 3243 53429384 53431859 0.000000e+00 1552
3 TraesCS2B01G092400 chr2B 82.869 1652 234 41 1032 2652 53406992 53408625 0.000000e+00 1437
4 TraesCS2B01G092400 chr2B 91.145 926 59 8 3247 4157 208210149 208209232 0.000000e+00 1234
5 TraesCS2B01G092400 chr2B 82.197 1056 145 11 1948 2993 53458772 53459794 0.000000e+00 869
6 TraesCS2B01G092400 chr2D 84.392 2236 287 33 797 3003 32469807 32472009 0.000000e+00 2139
7 TraesCS2B01G092400 chr2D 84.239 552 78 6 1 545 32467537 32468086 2.850000e-146 529
8 TraesCS2B01G092400 chr2D 80.822 146 28 0 1286 1431 13963553 13963408 9.450000e-22 115
9 TraesCS2B01G092400 chr2D 98.361 61 1 0 751 811 32468421 32468481 1.580000e-19 108
10 TraesCS2B01G092400 chr2A 82.110 2275 331 47 997 3223 35489082 35491328 0.000000e+00 1877
11 TraesCS2B01G092400 chr2A 88.288 222 12 2 3248 3456 3258299 3258079 1.920000e-63 254
12 TraesCS2B01G092400 chr7D 91.253 926 61 7 3248 4157 94089674 94090595 0.000000e+00 1243
13 TraesCS2B01G092400 chr7D 89.297 925 78 10 3248 4157 17388051 17387133 0.000000e+00 1140
14 TraesCS2B01G092400 chr7D 89.154 922 83 5 3248 4156 25026749 25025832 0.000000e+00 1133
15 TraesCS2B01G092400 chr5D 90.632 918 71 11 3248 4159 520162912 520162004 0.000000e+00 1205
16 TraesCS2B01G092400 chr5D 83.815 692 77 20 3247 3912 469520493 469519811 3.530000e-175 625
17 TraesCS2B01G092400 chr5D 85.261 536 70 7 18 547 224864895 224865427 1.020000e-150 544
18 TraesCS2B01G092400 chr5D 84.124 548 78 9 1 542 373778031 373778575 4.760000e-144 521
19 TraesCS2B01G092400 chr5D 83.848 551 79 9 4 547 404478489 404479036 2.220000e-142 516
20 TraesCS2B01G092400 chr3D 89.166 923 82 7 3250 4157 29371642 29370723 0.000000e+00 1134
21 TraesCS2B01G092400 chr3D 88.985 926 80 9 3248 4159 549369778 549368861 0.000000e+00 1125
22 TraesCS2B01G092400 chr3D 83.454 689 79 14 3248 3912 1204049 1204726 3.560000e-170 608
23 TraesCS2B01G092400 chr3D 85.353 553 72 8 1 547 171328557 171329106 7.810000e-157 564
24 TraesCS2B01G092400 chr3D 75.135 555 116 14 2130 2676 568412126 568411586 1.490000e-59 241
25 TraesCS2B01G092400 chr7B 88.663 935 83 14 3242 4159 529859793 529860721 0.000000e+00 1118
26 TraesCS2B01G092400 chr3B 88.780 918 93 9 3247 4159 29595741 29596653 0.000000e+00 1116
27 TraesCS2B01G092400 chr3B 84.477 554 77 8 1 547 561045730 561046281 4.730000e-149 538
28 TraesCS2B01G092400 chr3B 83.883 546 78 8 1 541 398966432 398966972 2.870000e-141 512
29 TraesCS2B01G092400 chr3B 83.628 226 20 4 3247 3456 793354381 793354605 3.280000e-46 196
30 TraesCS2B01G092400 chr1D 83.745 689 79 15 3248 3912 18771155 18770476 4.570000e-174 621
31 TraesCS2B01G092400 chr7A 83.333 690 79 18 3247 3912 694663571 694662894 4.600000e-169 604
32 TraesCS2B01G092400 chr6B 84.559 544 80 4 1 541 501776227 501776769 1.700000e-148 536
33 TraesCS2B01G092400 chr6B 80.682 176 33 1 1264 1438 1368812 1368987 7.250000e-28 135
34 TraesCS2B01G092400 chr6D 83.877 552 82 5 1 547 15861259 15861808 1.710000e-143 520
35 TraesCS2B01G092400 chr6D 79.805 307 54 4 1289 1594 97569977 97569678 2.520000e-52 217
36 TraesCS2B01G092400 chr6A 77.969 522 99 10 1073 1586 35150778 35150265 3.120000e-81 313
37 TraesCS2B01G092400 chrUn 80.992 242 20 9 3242 3459 82180561 82180322 7.150000e-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 TraesCS2B01G092400 chr2B 53296983 53301141 4158 False 7681.000000 7681 100.000000 1 4159 1 chr2B.!!$F2 4158
1 TraesCS2B01G092400 chr2B 53147213 53149802 2589 False 1895.000000 1895 80.396000 602 3214 1 chr2B.!!$F1 2612
2 TraesCS2B01G092400 chr2B 53429384 53431859 2475 False 1552.000000 1552 78.512000 782 3243 1 chr2B.!!$F4 2461
3 TraesCS2B01G092400 chr2B 53406992 53408625 1633 False 1437.000000 1437 82.869000 1032 2652 1 chr2B.!!$F3 1620
4 TraesCS2B01G092400 chr2B 208209232 208210149 917 True 1234.000000 1234 91.145000 3247 4157 1 chr2B.!!$R1 910
5 TraesCS2B01G092400 chr2B 53458772 53459794 1022 False 869.000000 869 82.197000 1948 2993 1 chr2B.!!$F5 1045
6 TraesCS2B01G092400 chr2D 32467537 32472009 4472 False 925.333333 2139 88.997333 1 3003 3 chr2D.!!$F1 3002
7 TraesCS2B01G092400 chr2A 35489082 35491328 2246 False 1877.000000 1877 82.110000 997 3223 1 chr2A.!!$F1 2226
8 TraesCS2B01G092400 chr7D 94089674 94090595 921 False 1243.000000 1243 91.253000 3248 4157 1 chr7D.!!$F1 909
9 TraesCS2B01G092400 chr7D 17387133 17388051 918 True 1140.000000 1140 89.297000 3248 4157 1 chr7D.!!$R1 909
10 TraesCS2B01G092400 chr7D 25025832 25026749 917 True 1133.000000 1133 89.154000 3248 4156 1 chr7D.!!$R2 908
11 TraesCS2B01G092400 chr5D 520162004 520162912 908 True 1205.000000 1205 90.632000 3248 4159 1 chr5D.!!$R2 911
12 TraesCS2B01G092400 chr5D 469519811 469520493 682 True 625.000000 625 83.815000 3247 3912 1 chr5D.!!$R1 665
13 TraesCS2B01G092400 chr5D 224864895 224865427 532 False 544.000000 544 85.261000 18 547 1 chr5D.!!$F1 529
14 TraesCS2B01G092400 chr5D 373778031 373778575 544 False 521.000000 521 84.124000 1 542 1 chr5D.!!$F2 541
15 TraesCS2B01G092400 chr5D 404478489 404479036 547 False 516.000000 516 83.848000 4 547 1 chr5D.!!$F3 543
16 TraesCS2B01G092400 chr3D 29370723 29371642 919 True 1134.000000 1134 89.166000 3250 4157 1 chr3D.!!$R1 907
17 TraesCS2B01G092400 chr3D 549368861 549369778 917 True 1125.000000 1125 88.985000 3248 4159 1 chr3D.!!$R2 911
18 TraesCS2B01G092400 chr3D 1204049 1204726 677 False 608.000000 608 83.454000 3248 3912 1 chr3D.!!$F1 664
19 TraesCS2B01G092400 chr3D 171328557 171329106 549 False 564.000000 564 85.353000 1 547 1 chr3D.!!$F2 546
20 TraesCS2B01G092400 chr3D 568411586 568412126 540 True 241.000000 241 75.135000 2130 2676 1 chr3D.!!$R3 546
21 TraesCS2B01G092400 chr7B 529859793 529860721 928 False 1118.000000 1118 88.663000 3242 4159 1 chr7B.!!$F1 917
22 TraesCS2B01G092400 chr3B 29595741 29596653 912 False 1116.000000 1116 88.780000 3247 4159 1 chr3B.!!$F1 912
23 TraesCS2B01G092400 chr3B 561045730 561046281 551 False 538.000000 538 84.477000 1 547 1 chr3B.!!$F3 546
24 TraesCS2B01G092400 chr3B 398966432 398966972 540 False 512.000000 512 83.883000 1 541 1 chr3B.!!$F2 540
25 TraesCS2B01G092400 chr1D 18770476 18771155 679 True 621.000000 621 83.745000 3248 3912 1 chr1D.!!$R1 664
26 TraesCS2B01G092400 chr7A 694662894 694663571 677 True 604.000000 604 83.333000 3247 3912 1 chr7A.!!$R1 665
27 TraesCS2B01G092400 chr6B 501776227 501776769 542 False 536.000000 536 84.559000 1 541 1 chr6B.!!$F2 540
28 TraesCS2B01G092400 chr6D 15861259 15861808 549 False 520.000000 520 83.877000 1 547 1 chr6D.!!$F1 546
29 TraesCS2B01G092400 chr6A 35150265 35150778 513 True 313.000000 313 77.969000 1073 1586 1 chr6A.!!$R1 513

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
56 60 0.100503 GCAACGTGCTTTCCTGTGTT 59.899 50.0 0.00 0.00 40.96 3.32 F
849 2359 0.179097 GGTCTTCCCTGCTAGCTTCG 60.179 60.0 17.23 4.32 0.00 3.79 F
2508 4083 0.390735 GTACAAGGCGGAACACGGAT 60.391 55.0 0.00 0.00 44.51 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1270 2811 0.249120 CACCAACTCATGCTCCGGTA 59.751 55.000 0.0 0.0 0.0 4.02 R
2521 4096 0.036010 CTCCTCGGTCACCTTTGCAT 60.036 55.000 0.0 0.0 0.0 3.96 R
3405 5067 2.564721 AAAGCCCTGTTTGCCGAGC 61.565 57.895 0.0 0.0 0.0 5.03 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
21 23 0.936600 CGTTGCATGGTCGCATGATA 59.063 50.000 7.15 0.00 42.62 2.15
41 45 2.051334 TACATGCCATAGGGTGCAAC 57.949 50.000 0.00 0.00 41.50 4.17
53 57 1.724582 GGTGCAACGTGCTTTCCTGT 61.725 55.000 10.54 0.00 45.31 4.00
56 60 0.100503 GCAACGTGCTTTCCTGTGTT 59.899 50.000 0.00 0.00 40.96 3.32
59 63 3.617669 CAACGTGCTTTCCTGTGTTAAG 58.382 45.455 0.00 0.00 0.00 1.85
74 78 5.659463 TGTGTTAAGCTTTTCATGCACTTT 58.341 33.333 3.20 0.00 0.00 2.66
102 106 4.475135 GGCGGCCCTCTTGTCCTC 62.475 72.222 8.12 0.00 0.00 3.71
112 116 3.523564 CCCTCTTGTCCTCCCTATGAAAA 59.476 47.826 0.00 0.00 0.00 2.29
113 117 4.018415 CCCTCTTGTCCTCCCTATGAAAAA 60.018 45.833 0.00 0.00 0.00 1.94
139 143 1.744320 TACGGCTAGCCATGCATCGT 61.744 55.000 32.47 23.10 35.37 3.73
272 277 3.000819 TCCGCCATGGAGGTCGTT 61.001 61.111 30.94 0.00 43.74 3.85
276 281 1.431488 CGCCATGGAGGTCGTTGATG 61.431 60.000 18.40 0.00 40.61 3.07
295 300 3.001406 GGGGCGGAGTGTACCTGT 61.001 66.667 0.00 0.00 0.00 4.00
386 391 0.606401 CCGACAATGGCTCTGTGGTT 60.606 55.000 0.00 0.00 0.00 3.67
411 416 4.595538 ACGAACAACAGCGGCGGA 62.596 61.111 9.78 0.00 0.00 5.54
412 417 4.072088 CGAACAACAGCGGCGGAC 62.072 66.667 9.78 0.00 0.00 4.79
447 452 1.305549 ATGCAAAGCAAGGGGGAGG 60.306 57.895 0.00 0.00 43.62 4.30
473 481 4.689062 AGAGTGGAAGGAAATAGGACTGA 58.311 43.478 0.00 0.00 0.00 3.41
480 488 2.592512 AGGAAATAGGACTGAGGGAGGA 59.407 50.000 0.00 0.00 0.00 3.71
493 504 2.386935 GGAGGAGGATTGGGTGGGG 61.387 68.421 0.00 0.00 0.00 4.96
511 523 2.857744 GCGGGGTATCGGAGTCCTG 61.858 68.421 7.77 0.92 0.00 3.86
517 529 1.278238 GTATCGGAGTCCTGCGTTTG 58.722 55.000 7.77 0.00 44.84 2.93
518 530 0.892755 TATCGGAGTCCTGCGTTTGT 59.107 50.000 7.77 0.00 44.84 2.83
528 541 1.227704 TGCGTTTGTGTGTCCGGAT 60.228 52.632 7.81 0.00 0.00 4.18
530 543 0.309612 GCGTTTGTGTGTCCGGATTT 59.690 50.000 7.81 0.00 0.00 2.17
562 683 3.135348 TCTCACATTGGAGATGCCCTTAG 59.865 47.826 0.00 0.00 38.95 2.18
563 684 1.952296 CACATTGGAGATGCCCTTAGC 59.048 52.381 0.00 0.00 44.14 3.09
582 703 9.626045 CCCTTAGCAGTAAATAGTTTTTCTTTG 57.374 33.333 0.00 0.00 0.00 2.77
591 712 9.290483 GTAAATAGTTTTTCTTTGGCTGATAGC 57.710 33.333 0.00 0.00 41.46 2.97
603 724 7.658982 TCTTTGGCTGATAGCACTATAGAATTG 59.341 37.037 6.78 0.00 44.75 2.32
609 730 6.997655 TGATAGCACTATAGAATTGGACCTG 58.002 40.000 6.78 0.00 0.00 4.00
613 734 6.084738 AGCACTATAGAATTGGACCTGGATA 58.915 40.000 6.78 0.00 0.00 2.59
634 757 6.149640 GGATACAAGGAAAGACCAAAAGACTC 59.850 42.308 0.00 0.00 42.04 3.36
650 773 0.188587 ACTCAGATGGGATCGGCCTA 59.811 55.000 0.00 0.00 36.66 3.93
693 819 0.331954 AGACTAGCTCGGGGTCTTCA 59.668 55.000 0.00 0.00 37.04 3.02
694 820 1.183549 GACTAGCTCGGGGTCTTCAA 58.816 55.000 0.00 0.00 0.00 2.69
697 823 2.168728 ACTAGCTCGGGGTCTTCAATTC 59.831 50.000 0.00 0.00 0.00 2.17
702 828 3.462021 CTCGGGGTCTTCAATTCATCTC 58.538 50.000 0.00 0.00 0.00 2.75
706 832 5.188948 TCGGGGTCTTCAATTCATCTCTTTA 59.811 40.000 0.00 0.00 0.00 1.85
711 837 8.743714 GGGTCTTCAATTCATCTCTTTATTTGT 58.256 33.333 0.00 0.00 0.00 2.83
717 843 8.522830 TCAATTCATCTCTTTATTTGTTCCCAC 58.477 33.333 0.00 0.00 0.00 4.61
726 852 7.010160 TCTTTATTTGTTCCCACTTGGATTCT 58.990 34.615 0.00 0.00 44.66 2.40
727 853 7.508977 TCTTTATTTGTTCCCACTTGGATTCTT 59.491 33.333 0.00 0.00 44.66 2.52
849 2359 0.179097 GGTCTTCCCTGCTAGCTTCG 60.179 60.000 17.23 4.32 0.00 3.79
850 2360 0.818296 GTCTTCCCTGCTAGCTTCGA 59.182 55.000 17.23 5.21 0.00 3.71
936 2460 7.859613 AAGTCATAATATCGTCGACTGAATG 57.140 36.000 14.70 12.12 37.04 2.67
952 2476 6.579666 ACTGAATGCTTGAATTAGCTTTGA 57.420 33.333 6.18 0.00 41.76 2.69
955 2479 6.260377 TGAATGCTTGAATTAGCTTTGATCG 58.740 36.000 6.18 0.00 41.76 3.69
988 2514 3.728864 CGCATTAGCTTTCTTTGCGTCAT 60.729 43.478 15.65 0.00 43.05 3.06
991 2517 2.977405 AGCTTTCTTTGCGTCATGTC 57.023 45.000 0.00 0.00 35.28 3.06
1109 2641 4.931292 TGGGGAATCCAGGTGCTA 57.069 55.556 0.09 0.00 41.46 3.49
1172 2704 2.956964 GAGATCCGCCGTCGCAAG 60.957 66.667 0.00 0.00 34.03 4.01
1215 2747 2.598099 TGTGGTCGGCGTACCTGA 60.598 61.111 22.60 11.02 40.44 3.86
1225 2757 1.441729 CGTACCTGATGGCCGACAT 59.558 57.895 0.00 0.00 44.18 3.06
1255 2787 4.584638 TTTACACTCTGGGCCATATGTT 57.415 40.909 18.94 3.10 0.00 2.71
1270 2811 4.517285 CATATGTTGGTGACTAGCAGGTT 58.483 43.478 0.00 0.00 35.44 3.50
1271 2812 5.396324 CCATATGTTGGTGACTAGCAGGTTA 60.396 44.000 1.24 0.00 40.99 2.85
1322 2863 0.737715 CGTTCCTGCTACTGCACCTC 60.738 60.000 0.00 0.00 45.31 3.85
1325 2866 2.510238 CTGCTACTGCACCTCGGC 60.510 66.667 0.00 0.00 45.31 5.54
1355 2896 1.204146 ACATCACCGCCTACTCCATT 58.796 50.000 0.00 0.00 0.00 3.16
1364 2905 2.158900 CGCCTACTCCATTGAGGACAAT 60.159 50.000 0.00 0.00 46.10 2.71
1368 2909 1.909302 ACTCCATTGAGGACAATCGGT 59.091 47.619 0.00 0.00 43.76 4.69
1379 2920 2.281484 AATCGGTTGTGGCTGCGT 60.281 55.556 0.00 0.00 0.00 5.24
1417 2958 4.479993 GCAGGTCCTCGCAGCCAT 62.480 66.667 8.05 0.00 0.00 4.40
1418 2959 3.094062 GCAGGTCCTCGCAGCCATA 62.094 63.158 8.05 0.00 0.00 2.74
1439 2980 6.599638 CCATATATGTCCTCTACGAGTCATCA 59.400 42.308 11.73 0.00 0.00 3.07
1446 2987 5.066634 GTCCTCTACGAGTCATCAATCTTCA 59.933 44.000 0.00 0.00 0.00 3.02
1496 3037 2.620367 GGCCACCATCCTCATGTTTGTA 60.620 50.000 0.00 0.00 0.00 2.41
1608 3150 1.111277 GTTGCACTTTGTGAACCCCT 58.889 50.000 1.52 0.00 35.23 4.79
1621 3163 4.960469 TGTGAACCCCTATACTACCAGAAG 59.040 45.833 0.00 0.00 0.00 2.85
1646 3194 1.748879 GCCGGCACCATTTCTAGCA 60.749 57.895 24.80 0.00 0.00 3.49
1660 3208 5.929697 TTTCTAGCACATGACTTGTTGAG 57.070 39.130 0.00 0.00 36.00 3.02
1746 3297 3.384168 AGCTGGGAGGACATGTACAATA 58.616 45.455 11.55 0.00 0.00 1.90
1756 3307 5.538813 AGGACATGTACAATATAGCCGAGAA 59.461 40.000 11.55 0.00 0.00 2.87
1835 3386 4.175337 GGGCACTGCATCCGCCTA 62.175 66.667 17.66 0.00 45.50 3.93
1903 3454 7.393234 CCTTGGATTAAGTGACAAAGATGGTTA 59.607 37.037 0.00 0.00 34.45 2.85
1906 3457 7.721842 TGGATTAAGTGACAAAGATGGTTACAA 59.278 33.333 0.00 0.00 0.00 2.41
1971 3522 0.390860 CGTCCTGGAGATCACATCCC 59.609 60.000 0.00 0.00 35.86 3.85
1979 3530 2.037901 GAGATCACATCCCTGCTGAGA 58.962 52.381 0.00 0.00 0.00 3.27
1998 3549 2.353958 CCATGTGCTCCAGCTGGT 59.646 61.111 31.58 9.23 42.66 4.00
2030 3590 1.939974 TGATCACATTAGCTCGTGGC 58.060 50.000 10.07 4.99 42.19 5.01
2032 3592 0.541392 ATCACATTAGCTCGTGGCCA 59.459 50.000 0.00 0.00 43.05 5.36
2034 3594 0.673333 CACATTAGCTCGTGGCCACA 60.673 55.000 34.16 20.21 43.05 4.17
2055 3615 6.527023 CCACACTGTTGTTAGTAGACGATTAG 59.473 42.308 0.00 0.00 31.66 1.73
2090 3653 2.233431 TCCTGCATTTTTATGTGGGCAC 59.767 45.455 0.00 0.00 0.00 5.01
2106 3669 1.089920 GCACCTCGTCAGATTTGCAT 58.910 50.000 0.00 0.00 35.36 3.96
2108 3671 2.730090 GCACCTCGTCAGATTTGCATTG 60.730 50.000 0.00 0.00 35.36 2.82
2110 3673 1.202222 CCTCGTCAGATTTGCATTGCC 60.202 52.381 6.12 0.00 0.00 4.52
2113 3676 1.530441 CGTCAGATTTGCATTGCCGAG 60.530 52.381 6.12 0.00 0.00 4.63
2115 3678 1.739466 TCAGATTTGCATTGCCGAGAC 59.261 47.619 6.12 0.00 0.00 3.36
2126 3689 4.693283 CATTGCCGAGACTAGGAATACAA 58.307 43.478 5.69 0.64 0.00 2.41
2128 3694 5.353394 TTGCCGAGACTAGGAATACAAAT 57.647 39.130 5.69 0.00 0.00 2.32
2134 3700 6.924060 CCGAGACTAGGAATACAAATAAGGTG 59.076 42.308 0.00 0.00 0.00 4.00
2258 3824 2.645802 TGGAACACACTGGTTTACACC 58.354 47.619 0.00 0.00 44.56 4.16
2271 3837 1.888215 TTACACCTCGTCGTCTGTCT 58.112 50.000 0.00 0.00 0.00 3.41
2291 3857 0.807667 CCGTCTCGGCAGATTTCAGG 60.808 60.000 0.00 0.00 41.17 3.86
2321 3887 0.402121 AGGAACAACTGAGGGGAAGC 59.598 55.000 0.00 0.00 0.00 3.86
2343 3912 2.144680 GGCGTCGACGAAGAGAACG 61.145 63.158 39.74 12.71 43.02 3.95
2345 3914 2.144680 CGTCGACGAAGAGAACGCC 61.145 63.158 33.35 0.00 43.02 5.68
2348 3917 1.863880 CGACGAAGAGAACGCCGAG 60.864 63.158 0.00 0.00 38.71 4.63
2389 3958 1.672356 GGGCAGCGCTGAAGAAGAA 60.672 57.895 40.21 0.00 0.00 2.52
2402 3974 6.060788 GCTGAAGAAGAAGGGATTGTATGAT 58.939 40.000 0.00 0.00 0.00 2.45
2405 3977 7.050377 TGAAGAAGAAGGGATTGTATGATGAC 58.950 38.462 0.00 0.00 0.00 3.06
2406 3978 5.605534 AGAAGAAGGGATTGTATGATGACG 58.394 41.667 0.00 0.00 0.00 4.35
2407 3979 5.363868 AGAAGAAGGGATTGTATGATGACGA 59.636 40.000 0.00 0.00 0.00 4.20
2412 3984 4.162320 AGGGATTGTATGATGACGAGTTGT 59.838 41.667 0.00 0.00 0.00 3.32
2442 4017 1.004440 GTGGACACTGAGCTGGACC 60.004 63.158 0.00 0.00 0.00 4.46
2505 4080 1.289109 CTGGTACAAGGCGGAACACG 61.289 60.000 0.00 0.00 42.58 4.49
2508 4083 0.390735 GTACAAGGCGGAACACGGAT 60.391 55.000 0.00 0.00 44.51 4.18
2606 4181 0.608130 TGCCTGACAATGCTAGTCGT 59.392 50.000 0.00 0.00 38.83 4.34
2655 4230 6.058553 AGGTGATCAATGATCTGAAACTGA 57.941 37.500 22.10 0.00 39.56 3.41
2683 4258 3.072184 AGCTCGGCTGAGGATTTAATCAT 59.928 43.478 23.87 0.00 42.79 2.45
2687 4262 4.576053 TCGGCTGAGGATTTAATCATGTTG 59.424 41.667 7.29 0.00 0.00 3.33
2688 4263 4.261322 CGGCTGAGGATTTAATCATGTTGG 60.261 45.833 7.29 0.00 0.00 3.77
2693 4268 6.411376 TGAGGATTTAATCATGTTGGTACGT 58.589 36.000 7.29 0.00 0.00 3.57
2694 4269 7.557724 TGAGGATTTAATCATGTTGGTACGTA 58.442 34.615 7.29 0.00 0.00 3.57
2708 4283 3.688136 CGTAACCACGGAGATGCG 58.312 61.111 0.00 0.00 44.59 4.73
2712 4287 2.607668 TAACCACGGAGATGCGCTCG 62.608 60.000 9.73 7.51 44.91 5.03
2738 4343 2.815647 CGAGCTCAACCTTCCGGC 60.816 66.667 15.40 0.00 0.00 6.13
2764 4369 4.509230 TGCTGATACAATCGAAGAGAATGC 59.491 41.667 0.00 0.00 43.63 3.56
2770 4375 8.309656 TGATACAATCGAAGAGAATGCTGATAT 58.690 33.333 0.00 0.00 43.63 1.63
2798 4403 6.813649 TCATAGAGAATGAAACTTTCGACAGG 59.186 38.462 3.23 0.00 41.75 4.00
2811 4416 0.461548 CGACAGGGCATCTCAGCTTA 59.538 55.000 0.00 0.00 34.17 3.09
2866 4480 1.100510 GGCATGCTGAAGCTGATCAA 58.899 50.000 18.92 0.00 42.66 2.57
2889 4503 0.837691 AGTGTGGGTGGAGATGCTGA 60.838 55.000 0.00 0.00 0.00 4.26
2927 4541 1.147824 CAGGCCGGATTCTCATGCT 59.852 57.895 5.05 0.00 0.00 3.79
2934 4548 2.363680 CCGGATTCTCATGCTAGACAGT 59.636 50.000 0.00 0.00 0.00 3.55
2968 4582 1.404181 CGAGATCACCACCATCGTTGT 60.404 52.381 0.00 0.00 0.00 3.32
3003 4618 8.742777 TGGAATACTTGAAATCTGATTTTCTGG 58.257 33.333 16.14 9.81 36.71 3.86
3016 4631 6.542370 TCTGATTTTCTGGAGTTCGAAAAAGT 59.458 34.615 0.00 0.00 41.00 2.66
3023 4638 4.699637 TGGAGTTCGAAAAAGTAGAGCAA 58.300 39.130 0.00 0.00 0.00 3.91
3050 4665 0.035439 AGTTGGGGATGCCGTAACAG 60.035 55.000 19.28 0.00 0.00 3.16
3052 4667 0.402504 TTGGGGATGCCGTAACAGTT 59.597 50.000 0.00 0.00 0.00 3.16
3064 4679 4.689345 GCCGTAACAGTTACACTCTGAATT 59.311 41.667 20.99 0.00 35.89 2.17
3089 4706 7.862741 TTAATTAGGTGTAGTAATGCGATCG 57.137 36.000 11.69 11.69 0.00 3.69
3106 4723 1.704641 TCGCACCACCATAGATAGCT 58.295 50.000 0.00 0.00 0.00 3.32
3192 4815 4.860802 ATCCATTATCGGGCATTATCCA 57.139 40.909 0.00 0.00 0.00 3.41
3193 4816 3.950397 TCCATTATCGGGCATTATCCAC 58.050 45.455 0.00 0.00 0.00 4.02
3196 4819 5.249622 TCCATTATCGGGCATTATCCACTTA 59.750 40.000 0.00 0.00 0.00 2.24
3214 4837 4.273480 CACTTATGCTTGGATTAACTCGGG 59.727 45.833 0.00 0.00 0.00 5.14
3244 4869 0.174617 CACCGGCTCTTCTTCCTCTC 59.825 60.000 0.00 0.00 0.00 3.20
3258 4883 4.017037 TCTTCCTCTCCTCACTACTGGAAT 60.017 45.833 0.00 0.00 32.61 3.01
3290 4915 2.743636 CCGAGTGTTAGGCTCTTTGA 57.256 50.000 0.00 0.00 0.00 2.69
3394 5056 3.381908 TGTTATGGACAAAACGCTTGGTT 59.618 39.130 3.21 0.00 34.96 3.67
3405 5067 5.771602 AAACGCTTGGTTAAACAACAAAG 57.228 34.783 0.61 0.00 38.08 2.77
3578 5245 3.214328 AGTTGTTCATTTTGACGAGGCT 58.786 40.909 0.00 0.00 0.00 4.58
3728 5396 3.906720 TCCCAACTTAGACACATAGGC 57.093 47.619 0.00 0.00 0.00 3.93
3759 5427 5.521735 TGACATTACAAACAATGTTGCCAAC 59.478 36.000 0.00 0.00 46.53 3.77
3772 5440 4.894784 TGTTGCCAACTAGAGTTTCCTAG 58.105 43.478 9.30 0.00 41.36 3.02
3774 5442 2.838202 TGCCAACTAGAGTTTCCTAGGG 59.162 50.000 9.46 0.00 40.24 3.53
3914 5592 5.841810 ACCATATTTTATGCACAATTCCCG 58.158 37.500 0.00 0.00 0.00 5.14
3925 5604 4.096231 TGCACAATTCCCGAGTTTCATATG 59.904 41.667 0.00 0.00 0.00 1.78
3930 5609 7.062138 CACAATTCCCGAGTTTCATATGTTTTG 59.938 37.037 1.90 0.00 0.00 2.44
4113 5792 4.722526 TTTGAGAGATTCAACCCCTTGA 57.277 40.909 0.00 0.00 45.22 3.02
4130 5809 5.104776 CCCCTTGAGAAGAATAGTCATGTCA 60.105 44.000 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 23 2.586425 GTTGCACCCTATGGCATGTAT 58.414 47.619 10.98 0.00 40.17 2.29
28 30 3.187058 GCACGTTGCACCCTATGG 58.813 61.111 5.30 0.00 44.26 2.74
41 45 1.873591 AGCTTAACACAGGAAAGCACG 59.126 47.619 8.78 0.00 46.35 5.34
53 57 6.147864 AGAAAGTGCATGAAAAGCTTAACA 57.852 33.333 0.00 3.47 0.00 2.41
56 60 4.218417 GGGAGAAAGTGCATGAAAAGCTTA 59.782 41.667 0.00 0.00 0.00 3.09
59 63 2.297033 TGGGAGAAAGTGCATGAAAAGC 59.703 45.455 0.00 0.00 0.00 3.51
112 116 1.045407 TGGCTAGCCGTATCCGATTT 58.955 50.000 28.28 0.00 39.42 2.17
113 117 1.066858 CATGGCTAGCCGTATCCGATT 60.067 52.381 28.00 1.48 39.42 3.34
114 118 0.532573 CATGGCTAGCCGTATCCGAT 59.467 55.000 28.00 11.38 39.42 4.18
115 119 1.964448 CATGGCTAGCCGTATCCGA 59.036 57.895 28.00 9.29 39.42 4.55
139 143 3.587061 ACCATGGAGGATGAGTTGTTGTA 59.413 43.478 21.47 0.00 41.22 2.41
272 277 1.001120 TACACTCCGCCCCTCATCA 59.999 57.895 0.00 0.00 0.00 3.07
276 281 2.363925 AGGTACACTCCGCCCCTC 60.364 66.667 0.00 0.00 0.00 4.30
295 300 0.032952 GCCTTGGAGTCGTGTGTACA 59.967 55.000 0.00 0.00 0.00 2.90
301 306 1.151668 CTTTCAGCCTTGGAGTCGTG 58.848 55.000 0.00 0.00 0.00 4.35
322 327 4.719369 GCTCGCCGTTCCGACAGT 62.719 66.667 0.00 0.00 33.12 3.55
386 391 1.495584 GCTGTTGTTCGTCTTCGGCA 61.496 55.000 0.00 0.00 37.69 5.69
411 416 2.569218 ATCCGCACCCTCTACCTCGT 62.569 60.000 0.00 0.00 0.00 4.18
412 417 1.828660 ATCCGCACCCTCTACCTCG 60.829 63.158 0.00 0.00 0.00 4.63
447 452 4.101274 GTCCTATTTCCTTCCACTCTACCC 59.899 50.000 0.00 0.00 0.00 3.69
473 481 1.308216 CCACCCAATCCTCCTCCCT 60.308 63.158 0.00 0.00 0.00 4.20
493 504 2.521224 AGGACTCCGATACCCCGC 60.521 66.667 0.00 0.00 0.00 6.13
511 523 0.309612 AAATCCGGACACACAAACGC 59.690 50.000 6.12 0.00 0.00 4.84
528 541 2.270352 ATGTGAGAGGTTTGCGGAAA 57.730 45.000 0.00 0.00 0.00 3.13
530 543 1.522668 CAATGTGAGAGGTTTGCGGA 58.477 50.000 0.00 0.00 0.00 5.54
562 683 7.145323 TCAGCCAAAGAAAAACTATTTACTGC 58.855 34.615 0.00 0.00 0.00 4.40
565 686 9.290483 GCTATCAGCCAAAGAAAAACTATTTAC 57.710 33.333 0.00 0.00 34.48 2.01
566 687 9.019656 TGCTATCAGCCAAAGAAAAACTATTTA 57.980 29.630 0.00 0.00 41.51 1.40
567 688 7.814587 GTGCTATCAGCCAAAGAAAAACTATTT 59.185 33.333 0.00 0.00 41.51 1.40
568 689 7.177392 AGTGCTATCAGCCAAAGAAAAACTATT 59.823 33.333 0.00 0.00 41.51 1.73
569 690 6.660949 AGTGCTATCAGCCAAAGAAAAACTAT 59.339 34.615 0.00 0.00 41.51 2.12
570 691 6.003950 AGTGCTATCAGCCAAAGAAAAACTA 58.996 36.000 0.00 0.00 41.51 2.24
571 692 4.829492 AGTGCTATCAGCCAAAGAAAAACT 59.171 37.500 0.00 0.00 41.51 2.66
572 693 5.126396 AGTGCTATCAGCCAAAGAAAAAC 57.874 39.130 0.00 0.00 41.51 2.43
573 694 8.046708 TCTATAGTGCTATCAGCCAAAGAAAAA 58.953 33.333 0.00 0.00 41.51 1.94
582 703 5.872070 GTCCAATTCTATAGTGCTATCAGCC 59.128 44.000 0.00 0.00 41.51 4.85
591 712 7.303182 TGTATCCAGGTCCAATTCTATAGTG 57.697 40.000 0.00 0.00 0.00 2.74
603 724 3.370633 GGTCTTTCCTTGTATCCAGGTCC 60.371 52.174 0.00 0.00 0.00 4.46
609 730 6.004574 AGTCTTTTGGTCTTTCCTTGTATCC 58.995 40.000 0.00 0.00 37.07 2.59
613 734 4.855340 TGAGTCTTTTGGTCTTTCCTTGT 58.145 39.130 0.00 0.00 37.07 3.16
626 747 2.420687 GCCGATCCCATCTGAGTCTTTT 60.421 50.000 0.00 0.00 0.00 2.27
634 757 0.605589 GAGTAGGCCGATCCCATCTG 59.394 60.000 0.00 0.00 34.51 2.90
693 819 8.655935 AGTGGGAACAAATAAAGAGATGAATT 57.344 30.769 0.00 0.00 46.06 2.17
694 820 8.526147 CAAGTGGGAACAAATAAAGAGATGAAT 58.474 33.333 0.00 0.00 46.06 2.57
697 823 6.434028 TCCAAGTGGGAACAAATAAAGAGATG 59.566 38.462 0.00 0.00 44.80 2.90
726 852 9.275231 CGTTACGCAACCACAAATAAATTATAA 57.725 29.630 0.00 0.00 0.00 0.98
727 853 8.449397 ACGTTACGCAACCACAAATAAATTATA 58.551 29.630 4.09 0.00 0.00 0.98
738 864 3.615368 CGACGTTACGCAACCACA 58.385 55.556 4.09 0.00 0.00 4.17
936 2460 6.582295 TGTTTTCGATCAAAGCTAATTCAAGC 59.418 34.615 0.00 0.00 43.11 4.01
955 2479 5.915196 AGAAAGCTAATGCGAACTTGTTTTC 59.085 36.000 0.00 0.00 45.42 2.29
988 2514 7.286215 ACTTTCTAAGTACAGTTGCTAGACA 57.714 36.000 0.00 0.00 40.69 3.41
991 2517 6.380190 ACGACTTTCTAAGTACAGTTGCTAG 58.620 40.000 0.00 0.00 43.03 3.42
1145 2677 4.732106 CGGATCTCTGCCGTTACC 57.268 61.111 0.00 0.00 43.66 2.85
1172 2704 0.391263 CCCTTAACACGCCAGAGTCC 60.391 60.000 0.00 0.00 0.00 3.85
1225 2757 1.403647 CCAGAGTGTAAATCGCCGTCA 60.404 52.381 0.00 0.00 35.11 4.35
1235 2767 3.371487 CCAACATATGGCCCAGAGTGTAA 60.371 47.826 7.80 0.00 43.80 2.41
1255 2787 0.892755 CGGTAACCTGCTAGTCACCA 59.107 55.000 0.73 0.00 0.00 4.17
1262 2794 0.464036 CATGCTCCGGTAACCTGCTA 59.536 55.000 0.00 0.00 0.00 3.49
1270 2811 0.249120 CACCAACTCATGCTCCGGTA 59.751 55.000 0.00 0.00 0.00 4.02
1271 2812 1.003355 CACCAACTCATGCTCCGGT 60.003 57.895 0.00 0.00 0.00 5.28
1322 2863 2.047274 ATGTTGTCCTGACCGCCG 60.047 61.111 0.00 0.00 0.00 6.46
1325 2866 1.014044 CGGTGATGTTGTCCTGACCG 61.014 60.000 0.00 0.00 37.51 4.79
1355 2896 0.605319 GCCACAACCGATTGTCCTCA 60.605 55.000 0.00 0.00 46.46 3.86
1364 2905 4.228567 TGACGCAGCCACAACCGA 62.229 61.111 0.00 0.00 0.00 4.69
1368 2909 2.591429 CAGGTGACGCAGCCACAA 60.591 61.111 4.43 0.00 36.31 3.33
1379 2920 1.064758 ACCACAAAACTCTGCAGGTGA 60.065 47.619 15.13 0.00 29.58 4.02
1439 2980 1.675641 GCGGCCACCTGTGAAGATT 60.676 57.895 2.24 0.00 0.00 2.40
1496 3037 2.557317 CCGTACTTGACAACACCAACT 58.443 47.619 0.00 0.00 0.00 3.16
1586 3127 2.303175 GGGTTCACAAAGTGCAACCTA 58.697 47.619 20.34 0.00 40.29 3.08
1627 3169 2.823829 GCTAGAAATGGTGCCGGCG 61.824 63.158 23.90 0.00 0.00 6.46
1646 3194 2.413837 GGTACGCTCAACAAGTCATGT 58.586 47.619 0.00 0.00 46.82 3.21
1660 3208 2.311124 AAGTAGATGCTTGGGTACGC 57.689 50.000 2.35 2.35 0.00 4.42
1871 3422 7.505585 TCTTTGTCACTTAATCCAAGGAACAAT 59.494 33.333 0.00 0.00 39.98 2.71
1874 3425 6.877611 TCTTTGTCACTTAATCCAAGGAAC 57.122 37.500 0.00 0.00 38.70 3.62
1875 3426 6.434028 CCATCTTTGTCACTTAATCCAAGGAA 59.566 38.462 0.00 0.00 38.70 3.36
1876 3427 5.945784 CCATCTTTGTCACTTAATCCAAGGA 59.054 40.000 0.00 0.00 38.70 3.36
1903 3454 2.672478 GCAGCGACATCTACTCTGTTGT 60.672 50.000 0.00 0.00 31.74 3.32
1906 3457 0.457851 GGCAGCGACATCTACTCTGT 59.542 55.000 0.00 0.00 0.00 3.41
1971 3522 3.499050 GCACATGGCTCTCAGCAG 58.501 61.111 0.00 0.00 44.75 4.24
1998 3549 3.421919 TGTGATCATTTGCTGGAGTGA 57.578 42.857 0.00 0.00 0.00 3.41
2030 3590 4.233123 TCGTCTACTAACAACAGTGTGG 57.767 45.455 0.00 0.00 38.27 4.17
2032 3592 7.211966 ACTAATCGTCTACTAACAACAGTGT 57.788 36.000 0.00 0.00 40.75 3.55
2066 3626 4.341806 TGCCCACATAAAAATGCAGGATAG 59.658 41.667 0.00 0.00 0.00 2.08
2079 3639 0.249120 CTGACGAGGTGCCCACATAA 59.751 55.000 0.40 0.00 0.00 1.90
2090 3653 1.202222 GGCAATGCAAATCTGACGAGG 60.202 52.381 7.79 0.00 0.00 4.63
2101 3664 0.901827 TCCTAGTCTCGGCAATGCAA 59.098 50.000 7.79 0.00 0.00 4.08
2106 3669 4.811969 TTTGTATTCCTAGTCTCGGCAA 57.188 40.909 0.00 0.00 0.00 4.52
2108 3671 5.927115 CCTTATTTGTATTCCTAGTCTCGGC 59.073 44.000 0.00 0.00 0.00 5.54
2110 3673 6.421202 GCACCTTATTTGTATTCCTAGTCTCG 59.579 42.308 0.00 0.00 0.00 4.04
2113 3676 6.483640 CCAGCACCTTATTTGTATTCCTAGTC 59.516 42.308 0.00 0.00 0.00 2.59
2115 3678 6.357367 ACCAGCACCTTATTTGTATTCCTAG 58.643 40.000 0.00 0.00 0.00 3.02
2126 3689 1.077716 GCCCGACCAGCACCTTATT 60.078 57.895 0.00 0.00 0.00 1.40
2128 3694 2.925706 TGCCCGACCAGCACCTTA 60.926 61.111 0.00 0.00 34.69 2.69
2164 3730 2.094675 AGTGGCTGCACATGTAAATCC 58.905 47.619 0.00 0.00 0.00 3.01
2258 3824 1.015085 AGACGGAGACAGACGACGAG 61.015 60.000 0.00 0.00 0.00 4.18
2291 3857 0.039708 GTTGTTCCTTCAGCAGCAGC 60.040 55.000 0.00 0.00 42.56 5.25
2343 3912 0.169009 GAGTTTTGGATGTGCTCGGC 59.831 55.000 0.00 0.00 0.00 5.54
2345 3914 1.136252 CGTGAGTTTTGGATGTGCTCG 60.136 52.381 0.00 0.00 0.00 5.03
2348 3917 0.240945 CCCGTGAGTTTTGGATGTGC 59.759 55.000 0.00 0.00 0.00 4.57
2389 3958 4.162320 ACAACTCGTCATCATACAATCCCT 59.838 41.667 0.00 0.00 0.00 4.20
2402 3974 1.227823 CCAGGCCAACAACTCGTCA 60.228 57.895 5.01 0.00 0.00 4.35
2405 3977 2.328099 GCTCCAGGCCAACAACTCG 61.328 63.158 5.01 0.00 34.27 4.18
2406 3978 2.328099 CGCTCCAGGCCAACAACTC 61.328 63.158 5.01 0.00 37.74 3.01
2407 3979 2.281761 CGCTCCAGGCCAACAACT 60.282 61.111 5.01 0.00 37.74 3.16
2412 3984 4.329545 GTCCACGCTCCAGGCCAA 62.330 66.667 5.01 0.00 37.74 4.52
2442 4017 1.227205 GCCAGACGAGGATGCTCTG 60.227 63.158 12.78 8.40 32.66 3.35
2521 4096 0.036010 CTCCTCGGTCACCTTTGCAT 60.036 55.000 0.00 0.00 0.00 3.96
2606 4181 7.935520 TGTTGCACAGTTCAATATACTTTTGA 58.064 30.769 0.00 0.00 0.00 2.69
2643 4218 5.006165 CCGAGCTGTATTTCAGTTTCAGATC 59.994 44.000 0.00 0.00 45.23 2.75
2693 4268 1.141019 GAGCGCATCTCCGTGGTTA 59.859 57.895 11.47 0.00 35.77 2.85
2694 4269 2.125512 GAGCGCATCTCCGTGGTT 60.126 61.111 11.47 0.00 35.77 3.67
2717 4292 1.079057 GGAAGGTTGAGCTCGTCCC 60.079 63.158 19.10 13.80 0.00 4.46
2738 4343 6.594284 TTCTCTTCGATTGTATCAGCATTG 57.406 37.500 0.00 0.00 0.00 2.82
2770 4375 9.869757 TGTCGAAAGTTTCATTCTCTATGATTA 57.130 29.630 15.67 0.00 42.69 1.75
2789 4394 0.391661 GCTGAGATGCCCTGTCGAAA 60.392 55.000 0.00 0.00 0.00 3.46
2792 4397 0.461548 TAAGCTGAGATGCCCTGTCG 59.538 55.000 0.00 0.00 0.00 4.35
2798 4403 0.179100 TCGTGCTAAGCTGAGATGCC 60.179 55.000 0.74 0.00 0.00 4.40
2827 4432 2.288666 CGGTATCAGGTGTTTCCATGG 58.711 52.381 4.97 4.97 39.02 3.66
2844 4455 2.547640 ATCAGCTTCAGCATGCCGGT 62.548 55.000 15.66 3.33 45.16 5.28
2846 4457 1.093496 TGATCAGCTTCAGCATGCCG 61.093 55.000 15.66 3.71 45.16 5.69
2847 4458 1.100510 TTGATCAGCTTCAGCATGCC 58.899 50.000 15.66 0.00 45.16 4.40
2848 4459 1.202268 GGTTGATCAGCTTCAGCATGC 60.202 52.381 10.51 10.51 45.16 4.06
2866 4480 0.401738 CATCTCCACCCACACTTGGT 59.598 55.000 0.00 0.00 42.10 3.67
2927 4541 0.666274 CGCCGTTGCTCAACTGTCTA 60.666 55.000 10.56 0.00 39.08 2.59
2968 4582 7.010160 AGATTTCAAGTATTCCACCAAAAGGA 58.990 34.615 0.00 0.00 0.00 3.36
3003 4618 6.529696 CATCTTGCTCTACTTTTTCGAACTC 58.470 40.000 0.00 0.00 0.00 3.01
3023 4638 0.106819 GCATCCCCAACTCAGCATCT 60.107 55.000 0.00 0.00 0.00 2.90
3064 4679 7.095940 GCGATCGCATTACTACACCTAATTAAA 60.096 37.037 33.89 0.00 41.49 1.52
3071 4688 2.135664 GCGATCGCATTACTACACCT 57.864 50.000 33.89 0.00 41.49 4.00
3085 4702 2.232452 AGCTATCTATGGTGGTGCGATC 59.768 50.000 0.00 0.00 0.00 3.69
3089 4706 1.694150 TGGAGCTATCTATGGTGGTGC 59.306 52.381 0.00 0.00 0.00 5.01
3178 4796 3.009473 AGCATAAGTGGATAATGCCCGAT 59.991 43.478 3.08 0.00 45.66 4.18
3192 4815 4.451900 CCCGAGTTAATCCAAGCATAAGT 58.548 43.478 0.00 0.00 0.00 2.24
3193 4816 3.251004 GCCCGAGTTAATCCAAGCATAAG 59.749 47.826 0.00 0.00 0.00 1.73
3196 4819 1.680338 GCCCGAGTTAATCCAAGCAT 58.320 50.000 0.00 0.00 0.00 3.79
3231 4856 4.640201 CAGTAGTGAGGAGAGGAAGAAGAG 59.360 50.000 0.00 0.00 0.00 2.85
3258 4883 2.650322 ACACTCGGCAAAGAGGAAAAA 58.350 42.857 7.77 0.00 42.31 1.94
3290 4915 0.810031 GCCCGACATAATGCACTCGT 60.810 55.000 0.00 0.00 0.00 4.18
3394 5056 3.119459 TGTTTGCCGAGCTTTGTTGTTTA 60.119 39.130 0.00 0.00 0.00 2.01
3405 5067 2.564721 AAAGCCCTGTTTGCCGAGC 61.565 57.895 0.00 0.00 0.00 5.03
3578 5245 9.447157 AAAAAGTTCTCAACATGGAAATTTTCA 57.553 25.926 15.80 0.54 43.74 2.69
3714 5381 3.377346 AGATGCGCCTATGTGTCTAAG 57.623 47.619 4.18 0.00 0.00 2.18
3728 5396 5.858049 ACATTGTTTGTAATGTCAAGATGCG 59.142 36.000 0.00 0.00 45.49 4.73
3759 5427 7.001099 TGTACAAAACCCTAGGAAACTCTAG 57.999 40.000 11.48 0.00 43.67 2.43
3925 5604 9.366513 CGAAAAGTAGCTAGAAAACTACAAAAC 57.633 33.333 0.00 0.00 41.01 2.43
3930 5609 6.145048 TGTGCGAAAAGTAGCTAGAAAACTAC 59.855 38.462 0.00 0.00 39.25 2.73
3946 5625 8.920665 CCATAAAGTCATTTAAATGTGCGAAAA 58.079 29.630 23.95 4.07 37.65 2.29
3999 5678 3.480470 AGCTATCACACACTTGCAGTTT 58.520 40.909 0.00 0.00 0.00 2.66
4130 5809 4.946478 TCCAAAACGGGTCAAAATGATT 57.054 36.364 0.00 0.00 34.36 2.57


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

AutoCloner maintained by Alex Coulton.