Multiple sequence alignment - TraesCS1A01G360500

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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 TraesCS1A01G360500 chr1A 100.000 4880 0 0 1 4880 541636882 541632003 0.000000e+00 9012.0
1 TraesCS1A01G360500 chr1A 90.093 646 50 8 3 642 541646543 541645906 0.000000e+00 826.0
2 TraesCS1A01G360500 chr1A 80.117 171 24 9 3012 3177 542360919 542361084 8.580000e-23 119.0
3 TraesCS1A01G360500 chr1D 93.281 3676 159 46 995 4618 445545401 445541762 0.000000e+00 5339.0
4 TraesCS1A01G360500 chr1D 96.364 275 8 2 381 654 445546165 445545892 7.450000e-123 451.0
5 TraesCS1A01G360500 chr1D 82.995 394 24 20 998 1350 318518837 318519228 2.830000e-82 316.0
6 TraesCS1A01G360500 chr1D 86.147 231 3 9 4660 4880 445541770 445541559 6.360000e-54 222.0
7 TraesCS1A01G360500 chr1D 95.506 89 3 1 685 772 445545890 445545802 1.830000e-29 141.0
8 TraesCS1A01G360500 chr1D 100.000 29 0 0 4717 4745 313214532 313214504 2.000000e-03 54.7
9 TraesCS1A01G360500 chr1B 89.176 3594 250 67 685 4210 608536725 608533203 0.000000e+00 4353.0
10 TraesCS1A01G360500 chr1B 85.037 401 33 12 269 668 608537082 608536708 2.760000e-102 383.0
11 TraesCS1A01G360500 chr1B 87.500 320 29 6 1461 1780 588394703 588394395 4.640000e-95 359.0
12 TraesCS1A01G360500 chr1B 81.400 457 42 15 998 1413 588395162 588394708 2.810000e-87 333.0
13 TraesCS1A01G360500 chr1B 81.773 406 64 10 2989 3388 610974355 610974756 1.010000e-86 331.0
14 TraesCS1A01G360500 chr1B 81.199 367 47 13 2436 2792 611133341 611133695 4.810000e-70 276.0
15 TraesCS1A01G360500 chr1B 100.000 59 0 0 4752 4810 608532660 608532602 5.160000e-20 110.0
16 TraesCS1A01G360500 chr1B 100.000 30 0 0 4717 4746 55943705 55943676 6.820000e-04 56.5
17 TraesCS1A01G360500 chr1B 100.000 30 0 0 4717 4746 55954958 55954929 6.820000e-04 56.5
18 TraesCS1A01G360500 chr1B 92.308 39 0 2 4706 4744 288805455 288805420 9.000000e-03 52.8
19 TraesCS1A01G360500 chr3B 82.495 457 37 20 998 1413 12172058 12172512 1.290000e-95 361.0
20 TraesCS1A01G360500 chr3B 85.000 160 20 4 1461 1619 12172517 12172673 5.060000e-35 159.0
21 TraesCS1A01G360500 chr4A 81.798 456 41 17 998 1413 654456865 654456412 1.300000e-90 344.0
22 TraesCS1A01G360500 chr4A 81.798 456 41 13 998 1413 654485662 654485209 1.300000e-90 344.0
23 TraesCS1A01G360500 chr4A 88.070 285 30 4 1467 1750 654456401 654456120 7.830000e-88 335.0
24 TraesCS1A01G360500 chr4A 88.070 285 30 4 1467 1750 654485198 654484917 7.830000e-88 335.0
25 TraesCS1A01G360500 chrUn 88.070 285 30 4 1461 1744 387519066 387519347 7.830000e-88 335.0
26 TraesCS1A01G360500 chrUn 100.000 30 0 0 4717 4746 480727127 480727156 6.820000e-04 56.5
27 TraesCS1A01G360500 chr2B 85.670 321 39 6 1461 1780 736694529 736694215 1.010000e-86 331.0
28 TraesCS1A01G360500 chr2B 82.653 294 39 10 3125 3413 736392044 736392330 2.920000e-62 250.0
29 TraesCS1A01G360500 chr2B 90.503 179 13 4 997 1174 736694943 736694768 2.940000e-57 233.0
30 TraesCS1A01G360500 chr7D 79.747 474 45 24 923 1350 172775635 172775167 3.690000e-76 296.0
31 TraesCS1A01G360500 chr7D 81.218 394 31 17 998 1350 176463386 176462995 1.340000e-70 278.0
32 TraesCS1A01G360500 chr7D 90.449 178 13 4 998 1174 110226835 110227009 1.060000e-56 231.0
33 TraesCS1A01G360500 chr5A 80.132 453 45 19 998 1410 116202060 116202507 3.690000e-76 296.0
34 TraesCS1A01G360500 chr5A 86.792 159 19 2 1461 1619 116202515 116202671 5.020000e-40 176.0
35 TraesCS1A01G360500 chr5D 81.726 394 29 15 998 1350 309193453 309193062 6.180000e-74 289.0
36 TraesCS1A01G360500 chr5D 80.964 394 31 17 998 1350 429180407 429180017 6.220000e-69 272.0
37 TraesCS1A01G360500 chr7B 84.496 258 27 10 923 1174 717672998 717672748 4.880000e-60 243.0
38 TraesCS1A01G360500 chr7B 92.593 135 10 0 1280 1414 699015738 699015604 1.390000e-45 195.0
39 TraesCS1A01G360500 chr7B 92.481 133 10 0 1280 1412 693480501 693480369 1.790000e-44 191.0
40 TraesCS1A01G360500 chr2A 79.618 157 13 9 1157 1294 272309173 272309329 1.450000e-15 95.3
41 TraesCS1A01G360500 chr3A 97.297 37 1 0 4708 4744 36226842 36226878 4.080000e-06 63.9
42 TraesCS1A01G360500 chr4D 91.111 45 0 3 4706 4749 435644929 435644888 1.900000e-04 58.4
43 TraesCS1A01G360500 chr5B 100.000 30 0 0 4717 4746 394978647 394978618 6.820000e-04 56.5


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 TraesCS1A01G360500 chr1A 541632003 541636882 4879 True 9012.000000 9012 100.000000 1 4880 1 chr1A.!!$R1 4879
1 TraesCS1A01G360500 chr1A 541645906 541646543 637 True 826.000000 826 90.093000 3 642 1 chr1A.!!$R2 639
2 TraesCS1A01G360500 chr1D 445541559 445546165 4606 True 1538.250000 5339 92.824500 381 4880 4 chr1D.!!$R2 4499
3 TraesCS1A01G360500 chr1B 608532602 608537082 4480 True 1615.333333 4353 91.404333 269 4810 3 chr1B.!!$R5 4541
4 TraesCS1A01G360500 chr1B 588394395 588395162 767 True 346.000000 359 84.450000 998 1780 2 chr1B.!!$R4 782
5 TraesCS1A01G360500 chr3B 12172058 12172673 615 False 260.000000 361 83.747500 998 1619 2 chr3B.!!$F1 621
6 TraesCS1A01G360500 chr4A 654456120 654456865 745 True 339.500000 344 84.934000 998 1750 2 chr4A.!!$R1 752
7 TraesCS1A01G360500 chr4A 654484917 654485662 745 True 339.500000 344 84.934000 998 1750 2 chr4A.!!$R2 752
8 TraesCS1A01G360500 chr2B 736694215 736694943 728 True 282.000000 331 88.086500 997 1780 2 chr2B.!!$R1 783
9 TraesCS1A01G360500 chr5A 116202060 116202671 611 False 236.000000 296 83.462000 998 1619 2 chr5A.!!$F1 621

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
316 317 0.034477 CAAGCCCCCTTATCGGTTGT 60.034 55.000 0.00 0.00 0.00 3.32 F
679 687 0.035598 TCCGTCCCATCGCAAAGAAA 59.964 50.000 0.00 0.00 0.00 2.52 F
1702 1989 0.036022 GGACTCTTCAGGCTGTGCTT 59.964 55.000 15.27 0.00 0.00 3.91 F
1703 1990 1.437625 GACTCTTCAGGCTGTGCTTC 58.562 55.000 15.27 2.53 0.00 3.86 F
2792 3098 2.482864 GTGGGACATTGCACCTTTTTG 58.517 47.619 0.00 0.00 44.52 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1792 2079 0.687427 CCCAACCCCAATGACCCATC 60.687 60.0 0.00 0.0 0.00 3.51 R
1866 2159 0.739813 AGCCTATGCGTTGTCGGTTC 60.740 55.0 0.00 0.0 44.33 3.62 R
2692 2998 0.254178 TTCCTCTGCAGGGAAGCATC 59.746 55.0 24.49 0.0 44.68 3.91 R
3400 3714 0.524862 CCATCTGGTTCTGCAACTGC 59.475 55.0 0.00 0.0 42.50 4.40 R
4631 5005 0.033503 AGGGCCCGGTAGAAAAATGG 60.034 55.0 18.44 0.0 0.00 3.16 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 22 3.918566 TCCTCATGCCATCATTTCCATT 58.081 40.909 0.00 0.00 0.00 3.16
26 27 4.585581 TCATGCCATCATTTCCATTCGATT 59.414 37.500 0.00 0.00 0.00 3.34
30 31 4.025480 GCCATCATTTCCATTCGATTTTGC 60.025 41.667 0.00 0.00 0.00 3.68
43 44 2.032549 CGATTTTGCCTCGGATGTCATC 60.033 50.000 4.06 4.06 32.58 2.92
64 65 9.149225 GTCATCTATGGCTTTGATTCTAGTATG 57.851 37.037 0.00 0.00 0.00 2.39
151 152 4.024556 CAGATATCAACCAACGATGCTTCC 60.025 45.833 5.32 0.00 0.00 3.46
156 157 2.270352 ACCAACGATGCTTCCAAAGA 57.730 45.000 0.00 0.00 0.00 2.52
162 163 4.156455 ACGATGCTTCCAAAGACCATAT 57.844 40.909 0.00 0.00 0.00 1.78
163 164 5.290493 ACGATGCTTCCAAAGACCATATA 57.710 39.130 0.00 0.00 0.00 0.86
200 201 3.796844 GCAAACACTCTTTCTTTGGCTCC 60.797 47.826 0.00 0.00 0.00 4.70
247 248 0.100146 CAACCGCTCTACCTACGACC 59.900 60.000 0.00 0.00 0.00 4.79
254 255 3.306166 CGCTCTACCTACGACCATTTTTG 59.694 47.826 0.00 0.00 0.00 2.44
256 257 4.694037 GCTCTACCTACGACCATTTTTGTT 59.306 41.667 0.00 0.00 0.00 2.83
257 258 5.870978 GCTCTACCTACGACCATTTTTGTTA 59.129 40.000 0.00 0.00 0.00 2.41
258 259 6.537660 GCTCTACCTACGACCATTTTTGTTAT 59.462 38.462 0.00 0.00 0.00 1.89
260 261 8.851541 TCTACCTACGACCATTTTTGTTATTT 57.148 30.769 0.00 0.00 0.00 1.40
261 262 8.723311 TCTACCTACGACCATTTTTGTTATTTG 58.277 33.333 0.00 0.00 0.00 2.32
262 263 6.153756 ACCTACGACCATTTTTGTTATTTGC 58.846 36.000 0.00 0.00 0.00 3.68
263 264 5.285134 CCTACGACCATTTTTGTTATTTGCG 59.715 40.000 0.00 0.00 0.00 4.85
264 265 3.984633 ACGACCATTTTTGTTATTTGCGG 59.015 39.130 0.00 0.00 0.00 5.69
285 286 4.942483 CGGAATCTCTACCTACGACCATAT 59.058 45.833 0.00 0.00 0.00 1.78
286 287 6.111382 CGGAATCTCTACCTACGACCATATA 58.889 44.000 0.00 0.00 0.00 0.86
302 303 3.307059 CCATATAGCTACCCTGACAAGCC 60.307 52.174 0.00 0.00 36.92 4.35
313 314 0.912487 TGACAAGCCCCCTTATCGGT 60.912 55.000 0.00 0.00 26.81 4.69
316 317 0.034477 CAAGCCCCCTTATCGGTTGT 60.034 55.000 0.00 0.00 0.00 3.32
317 318 0.034477 AAGCCCCCTTATCGGTTGTG 60.034 55.000 0.00 0.00 0.00 3.33
318 319 2.119029 GCCCCCTTATCGGTTGTGC 61.119 63.158 0.00 0.00 0.00 4.57
427 428 6.483974 CGGATCTTACTATATCTCCGCATACT 59.516 42.308 0.00 0.00 39.16 2.12
473 480 2.546789 CGGAAAATCCCGCATTACTACC 59.453 50.000 0.00 0.00 43.25 3.18
654 662 0.109342 AATATTCCGGCAGGCAGGAG 59.891 55.000 12.73 0.00 41.06 3.69
655 663 2.403132 ATATTCCGGCAGGCAGGAGC 62.403 60.000 12.73 0.00 41.06 4.70
662 670 4.767255 CAGGCAGGAGCACCGTCC 62.767 72.222 5.80 5.80 44.61 4.79
666 674 4.436998 CAGGAGCACCGTCCGTCC 62.437 72.222 0.00 0.00 42.05 4.79
669 677 3.771160 GAGCACCGTCCGTCCCAT 61.771 66.667 0.00 0.00 0.00 4.00
670 678 3.718210 GAGCACCGTCCGTCCCATC 62.718 68.421 0.00 0.00 0.00 3.51
674 682 4.444838 CCGTCCGTCCCATCGCAA 62.445 66.667 0.00 0.00 0.00 4.85
675 683 2.433491 CGTCCGTCCCATCGCAAA 60.433 61.111 0.00 0.00 0.00 3.68
676 684 2.452813 CGTCCGTCCCATCGCAAAG 61.453 63.158 0.00 0.00 0.00 2.77
677 685 1.079405 GTCCGTCCCATCGCAAAGA 60.079 57.895 0.00 0.00 0.00 2.52
678 686 0.672401 GTCCGTCCCATCGCAAAGAA 60.672 55.000 0.00 0.00 0.00 2.52
679 687 0.035598 TCCGTCCCATCGCAAAGAAA 59.964 50.000 0.00 0.00 0.00 2.52
680 688 0.878416 CCGTCCCATCGCAAAGAAAA 59.122 50.000 0.00 0.00 0.00 2.29
681 689 1.268352 CCGTCCCATCGCAAAGAAAAA 59.732 47.619 0.00 0.00 0.00 1.94
772 781 3.699538 GTCCAAAGTCCAAACTCCAAACT 59.300 43.478 0.00 0.00 33.48 2.66
773 782 3.951680 TCCAAAGTCCAAACTCCAAACTC 59.048 43.478 0.00 0.00 33.48 3.01
774 783 3.068165 CCAAAGTCCAAACTCCAAACTCC 59.932 47.826 0.00 0.00 33.48 3.85
775 784 3.662759 AAGTCCAAACTCCAAACTCCA 57.337 42.857 0.00 0.00 33.48 3.86
776 785 3.662759 AGTCCAAACTCCAAACTCCAA 57.337 42.857 0.00 0.00 0.00 3.53
777 786 3.976015 AGTCCAAACTCCAAACTCCAAA 58.024 40.909 0.00 0.00 0.00 3.28
778 787 3.699538 AGTCCAAACTCCAAACTCCAAAC 59.300 43.478 0.00 0.00 0.00 2.93
779 788 3.028130 TCCAAACTCCAAACTCCAAACC 58.972 45.455 0.00 0.00 0.00 3.27
780 789 2.223711 CCAAACTCCAAACTCCAAACCG 60.224 50.000 0.00 0.00 0.00 4.44
781 790 1.687563 AACTCCAAACTCCAAACCGG 58.312 50.000 0.00 0.00 0.00 5.28
782 791 0.822121 ACTCCAAACTCCAAACCGGC 60.822 55.000 0.00 0.00 33.14 6.13
785 794 2.596338 AAACTCCAAACCGGCGGG 60.596 61.111 31.78 13.71 40.11 6.13
808 817 2.662070 CCCGTTCTTTCCCCGGCTA 61.662 63.158 0.00 0.00 40.38 3.93
809 818 1.525442 CCGTTCTTTCCCCGGCTAT 59.475 57.895 0.00 0.00 34.62 2.97
831 845 0.320374 TCCTATAAATCGCGGCCCAG 59.680 55.000 6.13 0.00 0.00 4.45
944 965 2.202892 CGCCGCTAGGGTTTCTCC 60.203 66.667 6.02 0.00 38.44 3.71
985 1210 2.825264 CAGAGCCCCGAATCTCCC 59.175 66.667 0.00 0.00 0.00 4.30
986 1211 1.764054 CAGAGCCCCGAATCTCCCT 60.764 63.158 0.00 0.00 0.00 4.20
987 1212 0.470080 CAGAGCCCCGAATCTCCCTA 60.470 60.000 0.00 0.00 0.00 3.53
988 1213 0.470268 AGAGCCCCGAATCTCCCTAC 60.470 60.000 0.00 0.00 0.00 3.18
989 1214 1.459730 AGCCCCGAATCTCCCTACC 60.460 63.158 0.00 0.00 0.00 3.18
990 1215 2.517798 GCCCCGAATCTCCCTACCC 61.518 68.421 0.00 0.00 0.00 3.69
991 1216 2.207924 CCCCGAATCTCCCTACCCG 61.208 68.421 0.00 0.00 0.00 5.28
992 1217 2.735237 CCGAATCTCCCTACCCGC 59.265 66.667 0.00 0.00 0.00 6.13
1077 1302 3.119096 GCAGGTTCGTTCGCTCCC 61.119 66.667 0.00 0.00 0.00 4.30
1219 1472 1.291272 GTGAGGTTTCCCGTAGCGT 59.709 57.895 0.00 0.00 35.12 5.07
1231 1484 2.031857 CCCGTAGCGTCTCTGTCTTATC 60.032 54.545 0.00 0.00 0.00 1.75
1235 1488 1.944024 AGCGTCTCTGTCTTATCTCGG 59.056 52.381 0.00 0.00 0.00 4.63
1236 1489 1.941294 GCGTCTCTGTCTTATCTCGGA 59.059 52.381 0.00 0.00 0.00 4.55
1278 1550 1.210155 GTTGTGCTGATTCGGTGCC 59.790 57.895 0.00 0.00 0.00 5.01
1521 1798 1.004504 GTGCGATTTCTGCGATTCTCC 60.005 52.381 0.00 0.00 34.24 3.71
1535 1812 2.434884 CTCCGATGCCACTTGCGT 60.435 61.111 0.00 0.00 45.60 5.24
1540 1817 0.647410 CGATGCCACTTGCGTTAGAG 59.353 55.000 0.00 0.00 45.60 2.43
1547 1830 2.607187 CACTTGCGTTAGAGGGTACAG 58.393 52.381 0.00 0.00 0.00 2.74
1551 1838 1.621814 TGCGTTAGAGGGTACAGCTTT 59.378 47.619 0.00 0.00 0.00 3.51
1555 1842 4.171754 CGTTAGAGGGTACAGCTTTGTAC 58.828 47.826 7.54 7.54 42.72 2.90
1562 1849 3.057315 GGGTACAGCTTTGTACGTACTGA 60.057 47.826 25.12 12.07 43.96 3.41
1563 1850 4.549458 GGTACAGCTTTGTACGTACTGAA 58.451 43.478 25.12 17.92 43.96 3.02
1566 1853 3.800506 ACAGCTTTGTACGTACTGAACAC 59.199 43.478 25.12 12.63 32.67 3.32
1582 1869 1.726853 ACACTGATAAGACGGCTTGC 58.273 50.000 15.55 6.24 35.56 4.01
1637 1924 3.192844 GCCATGATTGATTGCTATCCTGG 59.807 47.826 5.67 0.00 41.42 4.45
1664 1951 5.675538 AGCAAGGACTGTTGAATATAGGTC 58.324 41.667 0.00 0.00 0.00 3.85
1687 1974 3.596214 CACGGTTGCTTATTAGTGGACT 58.404 45.455 0.00 0.00 0.00 3.85
1702 1989 0.036022 GGACTCTTCAGGCTGTGCTT 59.964 55.000 15.27 0.00 0.00 3.91
1703 1990 1.437625 GACTCTTCAGGCTGTGCTTC 58.562 55.000 15.27 2.53 0.00 3.86
1781 2068 6.550481 TCCCCTGATAACCGTTTTAACTTTTT 59.450 34.615 0.00 0.00 0.00 1.94
1866 2159 4.764679 TCAAAGACATTCATGTTTCCCG 57.235 40.909 0.00 0.00 41.95 5.14
1922 2215 9.598517 TTGAAGCTTTATTCATTCTTTGTTTGT 57.401 25.926 0.00 0.00 38.90 2.83
2003 2297 2.543012 CAGCTCTATCACCGATTTGCTG 59.457 50.000 0.00 0.00 40.17 4.41
2025 2319 7.225341 TGCTGCTCATTAGATTGTAGTGTAATG 59.775 37.037 0.00 0.00 36.93 1.90
2070 2364 6.367969 GGTATCATATAAAACGGTACTGGCTG 59.632 42.308 6.65 0.00 0.00 4.85
2088 2383 3.126171 GGCTGTTTTTGGAAAACACAACC 59.874 43.478 13.28 11.49 35.45 3.77
2268 2565 5.365619 ACCACTGTACTCAAAGGTAAACTG 58.634 41.667 0.00 0.00 31.81 3.16
2274 2578 4.853924 ACTCAAAGGTAAACTGCCAATG 57.146 40.909 0.00 0.00 0.00 2.82
2310 2615 2.875296 TGCTGTTTTATCCTGTTGCCT 58.125 42.857 0.00 0.00 0.00 4.75
2394 2699 7.831193 ACTGCTCAACTTGGATATACAGAAATT 59.169 33.333 0.00 0.00 0.00 1.82
2428 2733 4.949238 TGCATGGTTCATACAATACAAGCT 59.051 37.500 0.00 0.00 0.00 3.74
2692 2998 9.469807 CTCTAGCTGTCTTTAACCTTGTATATG 57.530 37.037 0.00 0.00 0.00 1.78
2792 3098 2.482864 GTGGGACATTGCACCTTTTTG 58.517 47.619 0.00 0.00 44.52 2.44
2822 3129 6.006449 ACTTGTCTTTAGATCCATTTGCACT 58.994 36.000 0.00 0.00 0.00 4.40
3052 3362 3.454858 TGAACCAATCCTAGAGAAGGCT 58.545 45.455 0.00 0.00 46.10 4.58
3121 3431 4.455533 TGATTGTTCCACTAATGTGTCTGC 59.544 41.667 0.00 0.00 42.34 4.26
3328 3639 8.275758 TGATGAGGATACAGTAAGTTAGACTCT 58.724 37.037 0.00 0.00 41.41 3.24
3366 3680 6.932901 AATGTTTGAAATTATGTGTGAGCG 57.067 33.333 0.00 0.00 0.00 5.03
3378 3692 8.831715 ATTATGTGTGAGCGTGATTTGATATA 57.168 30.769 0.00 0.00 0.00 0.86
3383 3697 6.090088 GTGTGAGCGTGATTTGATATATCTCC 59.910 42.308 13.79 1.78 0.00 3.71
3400 3714 4.428294 TCTCCCATTTCAATAGGCTGAG 57.572 45.455 0.00 0.00 0.00 3.35
3415 3729 0.873054 CTGAGCAGTTGCAGAACCAG 59.127 55.000 6.90 2.34 45.16 4.00
3509 3823 8.251750 TGTTTGTTCTCTGTTCTAAATATCCG 57.748 34.615 0.00 0.00 0.00 4.18
3510 3824 6.903883 TTGTTCTCTGTTCTAAATATCCGC 57.096 37.500 0.00 0.00 0.00 5.54
3573 3887 2.964464 TCCACATGCTGTTTCATGGTTT 59.036 40.909 8.38 0.00 46.02 3.27
3717 4031 5.362717 TGACGATGGTGATAAGAAGGTATGT 59.637 40.000 0.00 0.00 0.00 2.29
3718 4032 6.127168 TGACGATGGTGATAAGAAGGTATGTT 60.127 38.462 0.00 0.00 0.00 2.71
3737 4051 5.036117 TGTTAGCCTCTGAGAGTTGTTTT 57.964 39.130 8.88 0.00 0.00 2.43
3738 4052 4.816385 TGTTAGCCTCTGAGAGTTGTTTTG 59.184 41.667 8.88 0.00 0.00 2.44
3751 4065 6.296026 AGAGTTGTTTTGTGCTCCTGTTATA 58.704 36.000 0.00 0.00 0.00 0.98
3760 4074 8.856153 TTTGTGCTCCTGTTATAGTTTGAATA 57.144 30.769 0.00 0.00 0.00 1.75
3775 4089 9.739276 ATAGTTTGAATAGTTCAGTCCATTCAA 57.261 29.630 4.86 4.86 42.57 2.69
3881 4196 1.139654 AGAGTGCAAGCAACAGTGAGA 59.860 47.619 0.00 0.00 0.00 3.27
3893 4208 2.183679 ACAGTGAGATCCTTCCCAGAC 58.816 52.381 0.00 0.00 0.00 3.51
3946 4261 3.054875 TGGTTCTGCTTGATGCTATGTCT 60.055 43.478 0.00 0.00 43.37 3.41
3985 4300 0.033208 GCCAGTGGGGGATTGATTGA 60.033 55.000 12.15 0.00 37.04 2.57
3989 4304 2.756760 CAGTGGGGGATTGATTGAGTTG 59.243 50.000 0.00 0.00 0.00 3.16
4112 4428 1.416373 CTGCGAGTGATCATCGATGG 58.584 55.000 24.61 8.26 42.76 3.51
4117 4433 0.107456 AGTGATCATCGATGGTGCCC 59.893 55.000 24.61 7.21 0.00 5.36
4143 4459 2.740447 GGTAGTCCTACTTGTTTTGCCG 59.260 50.000 4.58 0.00 36.36 5.69
4156 4472 3.812053 TGTTTTGCCGGGAAATTTTGATG 59.188 39.130 22.56 0.00 0.00 3.07
4172 4488 9.855021 AAATTTTGATGTACTAGGTATTTGTGC 57.145 29.630 0.00 0.00 0.00 4.57
4233 4549 1.327690 TGGCTATTTCTCGGGTCGCT 61.328 55.000 0.00 0.00 0.00 4.93
4249 4565 3.003378 GGTCGCTGCTGAAACTAAACTTT 59.997 43.478 0.00 0.00 0.00 2.66
4270 4586 0.729690 GTCGAAAGGCCTGATCAAGC 59.270 55.000 5.69 7.83 0.00 4.01
4316 4647 1.208535 TGGAACACTCGTTGTCCAGTT 59.791 47.619 0.00 0.00 37.51 3.16
4331 4662 1.067635 CCAGTTTGGAGGGCAAAATCG 60.068 52.381 0.00 0.00 40.96 3.34
4374 4705 6.735130 CCTTTTGGTTTCACTGTTTAGTAGG 58.265 40.000 0.00 0.00 33.05 3.18
4375 4706 6.544564 CCTTTTGGTTTCACTGTTTAGTAGGA 59.455 38.462 0.00 0.00 33.05 2.94
4376 4707 7.067737 CCTTTTGGTTTCACTGTTTAGTAGGAA 59.932 37.037 0.00 0.00 33.05 3.36
4377 4708 6.930667 TTGGTTTCACTGTTTAGTAGGAAC 57.069 37.500 0.00 0.00 34.74 3.62
4378 4709 5.991861 TGGTTTCACTGTTTAGTAGGAACA 58.008 37.500 0.00 0.00 34.74 3.18
4379 4710 5.818857 TGGTTTCACTGTTTAGTAGGAACAC 59.181 40.000 0.00 0.00 34.74 3.32
4380 4711 6.053650 GGTTTCACTGTTTAGTAGGAACACT 58.946 40.000 0.00 0.00 34.74 3.55
4381 4712 6.018180 GGTTTCACTGTTTAGTAGGAACACTG 60.018 42.308 0.00 0.00 34.74 3.66
4385 4716 6.774170 TCACTGTTTAGTAGGAACACTGACTA 59.226 38.462 0.00 0.00 34.74 2.59
4387 4718 8.737175 CACTGTTTAGTAGGAACACTGACTATA 58.263 37.037 0.00 0.00 34.74 1.31
4389 4720 8.640063 TGTTTAGTAGGAACACTGACTATACA 57.360 34.615 0.00 0.00 35.42 2.29
4390 4721 9.251440 TGTTTAGTAGGAACACTGACTATACAT 57.749 33.333 0.00 0.00 33.93 2.29
4393 4724 4.308899 AGGAACACTGACTATACATCGC 57.691 45.455 0.00 0.00 0.00 4.58
4431 4762 2.225963 GACTCTACGCGTGGTATGCTAT 59.774 50.000 24.59 0.87 0.00 2.97
4598 4954 1.199615 GAGGTTTGGAGAGGGAGGAG 58.800 60.000 0.00 0.00 0.00 3.69
4599 4955 0.793617 AGGTTTGGAGAGGGAGGAGA 59.206 55.000 0.00 0.00 0.00 3.71
4616 4990 3.660177 AGGAGAGGATCATAGACCAGCTA 59.340 47.826 0.00 0.00 37.82 3.32
4630 5004 1.599419 CCAGCTACCGTTTTTGCACAC 60.599 52.381 0.00 0.00 0.00 3.82
4631 5005 0.666374 AGCTACCGTTTTTGCACACC 59.334 50.000 0.00 0.00 0.00 4.16
4683 5057 5.941948 ACACTACTTGTCATGGTTTTAGC 57.058 39.130 0.00 0.00 29.79 3.09
4818 5326 2.481289 ACTCCTTGAGCTACAAAGGC 57.519 50.000 14.68 0.00 38.08 4.35
4843 5351 4.772231 CTGCCCTGCCCTGCCATT 62.772 66.667 0.00 0.00 0.00 3.16
4844 5352 4.319949 TGCCCTGCCCTGCCATTT 62.320 61.111 0.00 0.00 0.00 2.32
4845 5353 3.004946 GCCCTGCCCTGCCATTTT 61.005 61.111 0.00 0.00 0.00 1.82
4846 5354 2.983791 CCCTGCCCTGCCATTTTG 59.016 61.111 0.00 0.00 0.00 2.44
4847 5355 1.914764 CCCTGCCCTGCCATTTTGT 60.915 57.895 0.00 0.00 0.00 2.83
4848 5356 0.614415 CCCTGCCCTGCCATTTTGTA 60.614 55.000 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.605726 ATGGAAATGATGGCATGAGGA 57.394 42.857 3.81 0.00 34.26 3.71
7 8 4.025480 GCAAAATCGAATGGAAATGATGGC 60.025 41.667 0.00 0.00 0.00 4.40
21 22 1.066502 TGACATCCGAGGCAAAATCGA 60.067 47.619 0.00 0.00 42.76 3.59
26 27 3.494924 CCATAGATGACATCCGAGGCAAA 60.495 47.826 11.92 0.00 0.00 3.68
30 31 1.898472 AGCCATAGATGACATCCGAGG 59.102 52.381 11.92 11.61 0.00 4.63
43 44 7.601886 CCAGACATACTAGAATCAAAGCCATAG 59.398 40.741 0.00 0.00 0.00 2.23
116 117 1.620323 TGATATCTGATGGAGTGGGCG 59.380 52.381 3.98 0.00 0.00 6.13
122 123 4.948847 TCGTTGGTTGATATCTGATGGAG 58.051 43.478 3.98 0.00 0.00 3.86
162 163 9.515226 AGAGTGTTTGCTAAATTGTTAGGATTA 57.485 29.630 0.00 0.00 37.49 1.75
163 164 8.409358 AGAGTGTTTGCTAAATTGTTAGGATT 57.591 30.769 0.00 0.00 37.49 3.01
200 201 3.041940 GGTGAGGTGACGTTGGCG 61.042 66.667 0.00 0.00 44.93 5.69
205 206 4.295119 GTGCGGGTGAGGTGACGT 62.295 66.667 0.00 0.00 0.00 4.34
223 224 2.603953 GTAGGTAGAGCGGTTGTTGAC 58.396 52.381 0.00 0.00 0.00 3.18
247 248 7.816945 AGAGATTCCGCAAATAACAAAAATG 57.183 32.000 0.00 0.00 0.00 2.32
254 255 5.401674 CGTAGGTAGAGATTCCGCAAATAAC 59.598 44.000 0.00 0.00 0.00 1.89
256 257 4.823442 TCGTAGGTAGAGATTCCGCAAATA 59.177 41.667 0.00 0.00 0.00 1.40
257 258 3.635373 TCGTAGGTAGAGATTCCGCAAAT 59.365 43.478 0.00 0.00 0.00 2.32
258 259 3.018856 TCGTAGGTAGAGATTCCGCAAA 58.981 45.455 0.00 0.00 0.00 3.68
260 261 1.945394 GTCGTAGGTAGAGATTCCGCA 59.055 52.381 0.00 0.00 0.00 5.69
261 262 1.266446 GGTCGTAGGTAGAGATTCCGC 59.734 57.143 0.00 0.00 0.00 5.54
262 263 2.569059 TGGTCGTAGGTAGAGATTCCG 58.431 52.381 0.00 0.00 0.00 4.30
263 264 6.038492 GCTATATGGTCGTAGGTAGAGATTCC 59.962 46.154 0.00 0.00 0.00 3.01
264 265 6.824704 AGCTATATGGTCGTAGGTAGAGATTC 59.175 42.308 0.00 0.00 0.00 2.52
285 286 0.981277 GGGGCTTGTCAGGGTAGCTA 60.981 60.000 0.00 0.00 35.30 3.32
286 287 2.301738 GGGGCTTGTCAGGGTAGCT 61.302 63.158 0.00 0.00 35.30 3.32
302 303 0.748005 CTGGCACAACCGATAAGGGG 60.748 60.000 0.00 0.00 46.96 4.79
336 337 2.776072 GTCGTTTCACCGCCGATG 59.224 61.111 0.00 0.00 32.68 3.84
427 428 5.761234 GGTTACTATTACATGCCGGATTTGA 59.239 40.000 5.05 0.00 0.00 2.69
473 480 2.653702 GAGATCCTCATCGGGGCG 59.346 66.667 0.00 0.00 33.75 6.13
657 665 3.943479 TTTGCGATGGGACGGACGG 62.943 63.158 0.00 0.00 32.82 4.79
658 666 2.433491 TTTGCGATGGGACGGACG 60.433 61.111 0.00 0.00 32.82 4.79
659 667 0.672401 TTCTTTGCGATGGGACGGAC 60.672 55.000 0.00 0.00 32.82 4.79
660 668 0.035598 TTTCTTTGCGATGGGACGGA 59.964 50.000 0.00 0.00 0.00 4.69
661 669 0.878416 TTTTCTTTGCGATGGGACGG 59.122 50.000 0.00 0.00 0.00 4.79
662 670 2.697431 TTTTTCTTTGCGATGGGACG 57.303 45.000 0.00 0.00 0.00 4.79
680 688 0.883370 GACGGACGGTGCTCCTTTTT 60.883 55.000 2.85 0.00 0.00 1.94
681 689 1.301479 GACGGACGGTGCTCCTTTT 60.301 57.895 2.85 0.00 0.00 2.27
682 690 2.156051 GAGACGGACGGTGCTCCTTT 62.156 60.000 2.85 0.00 0.00 3.11
683 691 2.600769 AGACGGACGGTGCTCCTT 60.601 61.111 2.85 0.00 0.00 3.36
746 755 2.484947 GGAGTTTGGACTTTGGACTCGT 60.485 50.000 0.00 0.00 38.04 4.18
801 810 3.068307 CGATTTATAGGAGGATAGCCGGG 59.932 52.174 2.18 0.00 39.96 5.73
802 811 3.491104 GCGATTTATAGGAGGATAGCCGG 60.491 52.174 0.00 0.00 39.96 6.13
803 812 3.707793 GCGATTTATAGGAGGATAGCCG 58.292 50.000 0.00 0.00 39.96 5.52
804 813 3.491104 CCGCGATTTATAGGAGGATAGCC 60.491 52.174 8.23 0.00 0.00 3.93
805 814 3.707793 CCGCGATTTATAGGAGGATAGC 58.292 50.000 8.23 0.00 0.00 2.97
806 815 3.491104 GGCCGCGATTTATAGGAGGATAG 60.491 52.174 8.23 0.00 0.00 2.08
808 817 1.207329 GGCCGCGATTTATAGGAGGAT 59.793 52.381 8.23 0.00 0.00 3.24
809 818 0.606604 GGCCGCGATTTATAGGAGGA 59.393 55.000 8.23 0.00 0.00 3.71
971 996 1.459730 GGTAGGGAGATTCGGGGCT 60.460 63.158 0.00 0.00 0.00 5.19
972 997 2.517798 GGGTAGGGAGATTCGGGGC 61.518 68.421 0.00 0.00 0.00 5.80
973 998 2.207924 CGGGTAGGGAGATTCGGGG 61.208 68.421 0.00 0.00 0.00 5.73
1080 1305 4.811364 GCAGCAAGGGGGAGAGGC 62.811 72.222 0.00 0.00 0.00 4.70
1085 1315 2.115910 CAACAGCAGCAAGGGGGA 59.884 61.111 0.00 0.00 0.00 4.81
1219 1472 4.447290 CAGAGTCCGAGATAAGACAGAGA 58.553 47.826 0.00 0.00 35.38 3.10
1231 1484 3.262420 CATAAACAACCCAGAGTCCGAG 58.738 50.000 0.00 0.00 0.00 4.63
1235 1488 2.488153 GCCACATAAACAACCCAGAGTC 59.512 50.000 0.00 0.00 0.00 3.36
1236 1489 2.514803 GCCACATAAACAACCCAGAGT 58.485 47.619 0.00 0.00 0.00 3.24
1278 1550 4.996113 GTGTTCTGCACAACCACG 57.004 55.556 2.18 0.00 46.91 4.94
1547 1830 4.046462 TCAGTGTTCAGTACGTACAAAGC 58.954 43.478 26.55 15.83 0.00 3.51
1551 1838 6.605849 GTCTTATCAGTGTTCAGTACGTACA 58.394 40.000 26.55 6.23 0.00 2.90
1555 1842 4.096311 CCGTCTTATCAGTGTTCAGTACG 58.904 47.826 0.00 0.00 0.00 3.67
1562 1849 2.076863 GCAAGCCGTCTTATCAGTGTT 58.923 47.619 0.00 0.00 0.00 3.32
1563 1850 1.276421 AGCAAGCCGTCTTATCAGTGT 59.724 47.619 0.00 0.00 0.00 3.55
1566 1853 2.015736 ACAGCAAGCCGTCTTATCAG 57.984 50.000 0.00 0.00 0.00 2.90
1637 1924 1.597742 TTCAACAGTCCTTGCTCAGC 58.402 50.000 0.00 0.00 0.00 4.26
1687 1974 1.051008 TCAGAAGCACAGCCTGAAGA 58.949 50.000 0.00 0.00 34.38 2.87
1702 1989 4.041321 CCTAGAATCATGGCAGGAATCAGA 59.959 45.833 18.29 5.94 0.00 3.27
1703 1990 4.041321 TCCTAGAATCATGGCAGGAATCAG 59.959 45.833 18.29 12.79 32.49 2.90
1781 2068 5.424757 CCAATGACCCATCGTTAAGAGTAA 58.575 41.667 0.00 0.00 32.53 2.24
1782 2069 4.141801 CCCAATGACCCATCGTTAAGAGTA 60.142 45.833 0.00 0.00 32.53 2.59
1792 2079 0.687427 CCCAACCCCAATGACCCATC 60.687 60.000 0.00 0.00 0.00 3.51
1798 2088 0.996583 GTCCTACCCAACCCCAATGA 59.003 55.000 0.00 0.00 0.00 2.57
1866 2159 0.739813 AGCCTATGCGTTGTCGGTTC 60.740 55.000 0.00 0.00 44.33 3.62
1922 2215 8.740123 TCACAAAGTGTAGAAACAGGAAAATA 57.260 30.769 0.00 0.00 35.91 1.40
2003 2297 7.928706 AGGACATTACACTACAATCTAATGAGC 59.071 37.037 0.00 0.00 32.93 4.26
2070 2364 6.592220 ACATACTGGTTGTGTTTTCCAAAAAC 59.408 34.615 8.07 8.07 0.00 2.43
2116 2412 5.255397 AGAAATCCACCACCAGATACAAA 57.745 39.130 0.00 0.00 0.00 2.83
2268 2565 0.878416 TAACAAGCACCGACATTGGC 59.122 50.000 0.00 0.00 0.00 4.52
2274 2578 2.031157 ACAGCAAATAACAAGCACCGAC 60.031 45.455 0.00 0.00 0.00 4.79
2310 2615 6.477688 CGTTACAGGAGTCAAAAGTGAAGTTA 59.522 38.462 0.00 0.00 34.87 2.24
2356 2661 3.441572 AGTTGAGCAGTTATTGTCATGGC 59.558 43.478 0.00 0.00 0.00 4.40
2394 2699 7.890515 TGTATGAACCATGCAAAATAGAAACA 58.109 30.769 0.00 0.00 33.87 2.83
2428 2733 7.555195 ACAGCATCAAATATGATTCAAGACAGA 59.445 33.333 0.00 0.00 43.89 3.41
2671 2977 7.227512 AGCATCATATACAAGGTTAAAGACAGC 59.772 37.037 0.00 0.00 0.00 4.40
2692 2998 0.254178 TTCCTCTGCAGGGAAGCATC 59.746 55.000 24.49 0.00 44.68 3.91
2792 3098 7.872113 AATGGATCTAAAGACAAGTTGGATC 57.128 36.000 7.96 8.17 40.42 3.36
3004 3314 4.932799 TCATCGATCATGTGGTACGTTTTT 59.067 37.500 0.00 0.00 33.66 1.94
3343 3654 6.363088 CACGCTCACACATAATTTCAAACATT 59.637 34.615 0.00 0.00 0.00 2.71
3344 3655 5.858049 CACGCTCACACATAATTTCAAACAT 59.142 36.000 0.00 0.00 0.00 2.71
3356 3670 7.157347 AGATATATCAAATCACGCTCACACAT 58.843 34.615 15.08 0.00 0.00 3.21
3378 3692 4.749166 GCTCAGCCTATTGAAATGGGAGAT 60.749 45.833 9.43 0.00 39.21 2.75
3383 3697 3.285484 ACTGCTCAGCCTATTGAAATGG 58.715 45.455 0.00 0.00 0.00 3.16
3400 3714 0.524862 CCATCTGGTTCTGCAACTGC 59.475 55.000 0.00 0.00 42.50 4.40
3415 3729 5.757320 CCCGATATCATAATCTTGCTCCATC 59.243 44.000 3.12 0.00 0.00 3.51
3509 3823 1.923356 TCTGGGAAACAAGAATGGGC 58.077 50.000 0.00 0.00 0.00 5.36
3510 3824 3.973425 AGATCTGGGAAACAAGAATGGG 58.027 45.455 0.00 0.00 0.00 4.00
3573 3887 1.304962 TTGAGCGGCCTCTCCAGTA 60.305 57.895 19.93 0.00 38.93 2.74
3717 4031 4.816385 CACAAAACAACTCTCAGAGGCTAA 59.184 41.667 6.64 0.00 33.35 3.09
3718 4032 4.380531 CACAAAACAACTCTCAGAGGCTA 58.619 43.478 6.64 0.00 33.35 3.93
3737 4051 7.620880 ACTATTCAAACTATAACAGGAGCACA 58.379 34.615 0.00 0.00 0.00 4.57
3738 4052 8.494016 AACTATTCAAACTATAACAGGAGCAC 57.506 34.615 0.00 0.00 0.00 4.40
3760 4074 7.099120 GGCAAAATATTTGAATGGACTGAACT 58.901 34.615 0.39 0.00 0.00 3.01
3771 4085 9.962783 CAAAGGAAAAATGGCAAAATATTTGAA 57.037 25.926 0.39 0.00 0.00 2.69
3774 4088 9.747293 CAACAAAGGAAAAATGGCAAAATATTT 57.253 25.926 0.00 0.00 0.00 1.40
3775 4089 9.129532 TCAACAAAGGAAAAATGGCAAAATATT 57.870 25.926 0.00 0.00 0.00 1.28
3861 4176 1.139654 TCTCACTGTTGCTTGCACTCT 59.860 47.619 0.00 0.00 0.00 3.24
3881 4196 2.239681 AGTCTTCGTCTGGGAAGGAT 57.760 50.000 2.81 0.00 42.88 3.24
3893 4208 5.862924 TCAGCCAAGAAAAATAGTCTTCG 57.137 39.130 0.00 0.00 32.96 3.79
3946 4261 2.846193 CTCCTCGGAACCAAACTCAAA 58.154 47.619 0.00 0.00 0.00 2.69
3985 4300 2.764010 GGTTCTTCCACAAAACCCAACT 59.236 45.455 0.00 0.00 37.13 3.16
3989 4304 0.671796 CCGGTTCTTCCACAAAACCC 59.328 55.000 0.00 0.00 39.43 4.11
4025 4340 5.729718 ACCAGTATATAATACCATGTCCCCC 59.270 44.000 0.00 0.00 0.00 5.40
4112 4428 0.609662 TAGGACTACCAAACGGGCAC 59.390 55.000 0.00 0.00 42.05 5.01
4117 4433 5.744490 CAAAACAAGTAGGACTACCAAACG 58.256 41.667 5.90 0.00 38.94 3.60
4156 4472 1.257155 GCGCGCACAAATACCTAGTAC 59.743 52.381 29.10 0.00 0.00 2.73
4172 4488 3.116063 TGAAACAATGAATGTAGCGCG 57.884 42.857 0.00 0.00 42.99 6.86
4213 4529 0.461339 GCGACCCGAGAAATAGCCAA 60.461 55.000 0.00 0.00 0.00 4.52
4233 4549 5.804692 TCGACAAAAGTTTAGTTTCAGCA 57.195 34.783 0.00 0.00 0.00 4.41
4249 4565 2.426522 CTTGATCAGGCCTTTCGACAA 58.573 47.619 0.00 5.01 0.00 3.18
4265 4581 2.430332 CCAGTGAAACCAAAAGGCTTGA 59.570 45.455 0.00 0.00 37.80 3.02
4270 4586 4.464069 TGAAACCAGTGAAACCAAAAGG 57.536 40.909 0.00 0.00 37.80 3.11
4316 4647 2.091541 GACATCGATTTTGCCCTCCAA 58.908 47.619 0.00 0.00 0.00 3.53
4323 4654 2.160219 TCACAGCAGACATCGATTTTGC 59.840 45.455 14.51 14.51 35.09 3.68
4331 4662 5.886960 AAGGTTTAATCACAGCAGACATC 57.113 39.130 0.00 0.00 0.00 3.06
4363 4694 8.737175 TGTATAGTCAGTGTTCCTACTAAACAG 58.263 37.037 0.00 0.00 37.30 3.16
4370 4701 5.213675 GCGATGTATAGTCAGTGTTCCTAC 58.786 45.833 0.00 0.00 0.00 3.18
4371 4702 4.024302 CGCGATGTATAGTCAGTGTTCCTA 60.024 45.833 0.00 0.00 0.00 2.94
4373 4704 3.043586 CGCGATGTATAGTCAGTGTTCC 58.956 50.000 0.00 0.00 0.00 3.62
4374 4705 3.043586 CCGCGATGTATAGTCAGTGTTC 58.956 50.000 8.23 0.00 0.00 3.18
4375 4706 2.686405 TCCGCGATGTATAGTCAGTGTT 59.314 45.455 8.23 0.00 0.00 3.32
4376 4707 2.290916 CTCCGCGATGTATAGTCAGTGT 59.709 50.000 8.23 0.00 0.00 3.55
4377 4708 2.350868 CCTCCGCGATGTATAGTCAGTG 60.351 54.545 8.23 0.00 0.00 3.66
4378 4709 1.880675 CCTCCGCGATGTATAGTCAGT 59.119 52.381 8.23 0.00 0.00 3.41
4379 4710 1.200252 CCCTCCGCGATGTATAGTCAG 59.800 57.143 8.23 0.00 0.00 3.51
4380 4711 1.244816 CCCTCCGCGATGTATAGTCA 58.755 55.000 8.23 0.00 0.00 3.41
4381 4712 1.245732 ACCCTCCGCGATGTATAGTC 58.754 55.000 8.23 0.00 0.00 2.59
4385 4716 3.660865 GATTTTACCCTCCGCGATGTAT 58.339 45.455 8.23 0.00 0.00 2.29
4387 4718 1.805120 CGATTTTACCCTCCGCGATGT 60.805 52.381 8.23 0.80 0.00 3.06
4389 4720 0.249741 CCGATTTTACCCTCCGCGAT 60.250 55.000 8.23 0.00 0.00 4.58
4390 4721 1.142314 CCGATTTTACCCTCCGCGA 59.858 57.895 8.23 0.00 0.00 5.87
4393 4724 1.755380 AGTCTCCGATTTTACCCTCCG 59.245 52.381 0.00 0.00 0.00 4.63
4431 4762 4.556697 TCCTGCCTTAATCAGTATCAGGA 58.443 43.478 4.15 4.15 44.26 3.86
4598 4954 2.490115 CGGTAGCTGGTCTATGATCCTC 59.510 54.545 0.00 0.00 0.00 3.71
4599 4955 2.158445 ACGGTAGCTGGTCTATGATCCT 60.158 50.000 0.00 0.00 0.00 3.24
4616 4990 0.827368 AATGGGTGTGCAAAAACGGT 59.173 45.000 0.00 0.00 0.00 4.83
4630 5004 1.040893 GGGCCCGGTAGAAAAATGGG 61.041 60.000 5.69 0.00 43.02 4.00
4631 5005 0.033503 AGGGCCCGGTAGAAAAATGG 60.034 55.000 18.44 0.00 0.00 3.16
4658 5032 6.856426 GCTAAAACCATGACAAGTAGTGTTTC 59.144 38.462 0.00 0.00 41.96 2.78
4683 5057 8.550376 CCATGGTTTTTGTTCTCATTTAAACTG 58.450 33.333 2.57 0.00 0.00 3.16
4836 5344 7.849804 ATCTTGTACTACTACAAAATGGCAG 57.150 36.000 0.00 0.00 41.40 4.85
4848 5356 8.808092 GCCTTCCTATGAATATCTTGTACTACT 58.192 37.037 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.