Multiple sequence alignment - TraesCS1D01G383400

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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 TraesCS1D01G383400 chr1D 100.000 5155 0 0 500 5654 457976574 457971420 0.000000e+00 9520.0
1 TraesCS1D01G383400 chr1D 100.000 151 0 0 1 151 457977073 457976923 4.310000e-71 279.0
2 TraesCS1D01G383400 chr1B 93.471 3676 123 36 500 4127 628054692 628051086 0.000000e+00 5350.0
3 TraesCS1D01G383400 chr1B 93.493 753 46 2 4261 5013 628050646 628049897 0.000000e+00 1116.0
4 TraesCS1D01G383400 chr1B 89.848 394 32 8 4784 5176 628116126 628115740 3.040000e-137 499.0
5 TraesCS1D01G383400 chr1B 91.870 123 9 1 4127 4248 628050991 628050869 2.710000e-38 171.0
6 TraesCS1D01G383400 chr1B 84.066 182 13 9 5009 5185 628049818 628049648 1.630000e-35 161.0
7 TraesCS1D01G383400 chr1B 94.118 51 2 1 5207 5256 628113205 628113155 6.070000e-10 76.8
8 TraesCS1D01G383400 chr1B 100.000 37 0 0 4129 4165 628050690 628050654 1.020000e-07 69.4
9 TraesCS1D01G383400 chr1A 94.346 3219 107 30 500 3684 550446286 550443109 0.000000e+00 4867.0
10 TraesCS1D01G383400 chr1A 91.451 1661 95 28 3683 5320 550442996 550441360 0.000000e+00 2237.0
11 TraesCS1D01G383400 chr1A 82.604 937 97 31 2751 3663 560844106 560845000 0.000000e+00 767.0
12 TraesCS1D01G383400 chr1A 76.389 504 79 29 3825 4305 560845104 560845590 9.470000e-58 235.0
13 TraesCS1D01G383400 chr1A 88.889 144 6 3 6 149 550446437 550446304 9.740000e-38 169.0
14 TraesCS1D01G383400 chr2B 90.673 3356 183 51 852 4129 23110294 23106991 0.000000e+00 4344.0
15 TraesCS1D01G383400 chr2B 86.770 1799 166 40 1160 2910 360972700 360974474 0.000000e+00 1938.0
16 TraesCS1D01G383400 chr2B 81.200 1117 137 36 4127 5185 23106833 23105732 0.000000e+00 832.0
17 TraesCS1D01G383400 chr2B 75.257 1168 175 71 3727 4833 360979001 360980115 8.640000e-123 451.0
18 TraesCS1D01G383400 chr2B 88.827 358 37 3 3173 3529 360978621 360978976 2.420000e-118 436.0
19 TraesCS1D01G383400 chr2B 86.179 246 27 6 2930 3174 360978272 360978511 5.620000e-65 259.0
20 TraesCS1D01G383400 chr2A 85.817 2362 214 48 899 3174 387646778 387644452 0.000000e+00 2394.0
21 TraesCS1D01G383400 chr2A 76.034 1160 160 75 3730 4833 387643959 387642862 1.420000e-135 494.0
22 TraesCS1D01G383400 chr2A 89.076 357 39 0 3173 3529 387644344 387643988 1.450000e-120 444.0
23 TraesCS1D01G383400 chr2D 83.092 1242 139 40 899 2090 307028305 307027085 0.000000e+00 1064.0
24 TraesCS1D01G383400 chr2D 89.202 426 31 8 2751 3174 307027070 307026658 8.400000e-143 518.0
25 TraesCS1D01G383400 chr2D 75.755 1159 170 69 3730 4833 307026164 307025062 1.100000e-131 481.0
26 TraesCS1D01G383400 chr2D 89.916 357 35 1 3173 3528 307026550 307026194 5.160000e-125 459.0
27 TraesCS1D01G383400 chr3A 86.207 58 7 1 5597 5654 443811283 443811339 1.700000e-05 62.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1D01G383400 chr1D 457971420 457977073 5653 True 4899.500000 9520 100.000000 1 5654 2 chr1D.!!$R1 5653
1 TraesCS1D01G383400 chr1B 628049648 628054692 5044 True 1373.480000 5350 92.580000 500 5185 5 chr1B.!!$R1 4685
2 TraesCS1D01G383400 chr1B 628113155 628116126 2971 True 287.900000 499 91.983000 4784 5256 2 chr1B.!!$R2 472
3 TraesCS1D01G383400 chr1A 550441360 550446437 5077 True 2424.333333 4867 91.562000 6 5320 3 chr1A.!!$R1 5314
4 TraesCS1D01G383400 chr1A 560844106 560845590 1484 False 501.000000 767 79.496500 2751 4305 2 chr1A.!!$F1 1554
5 TraesCS1D01G383400 chr2B 23105732 23110294 4562 True 2588.000000 4344 85.936500 852 5185 2 chr2B.!!$R1 4333
6 TraesCS1D01G383400 chr2B 360972700 360980115 7415 False 771.000000 1938 84.258250 1160 4833 4 chr2B.!!$F1 3673
7 TraesCS1D01G383400 chr2A 387642862 387646778 3916 True 1110.666667 2394 83.642333 899 4833 3 chr2A.!!$R1 3934
8 TraesCS1D01G383400 chr2D 307025062 307028305 3243 True 630.500000 1064 84.491250 899 4833 4 chr2D.!!$R1 3934

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
127 128 0.461339 AGCGCAACCGTTATTCCGAT 60.461 50.000 11.47 0.0 36.67 4.18 F
1590 1634 0.762418 TCGGGGACACACTTGATTGT 59.238 50.000 0.00 0.0 0.00 2.71 F
1592 1636 1.535462 CGGGGACACACTTGATTGTTC 59.465 52.381 0.00 0.0 0.00 3.18 F
2597 2718 1.398390 GCTGGATTTTCTAGTGCCACG 59.602 52.381 0.00 0.0 0.00 4.94 F
3393 7422 4.042809 TCTTCCTTTCTGTTCCTTGCCATA 59.957 41.667 0.00 0.0 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1737 1835 0.251354 GCCTCTGCAGGTGAATCAGA 59.749 55.00 15.13 0.00 42.74 3.27 R
2597 2718 1.583054 AGCCAACACGAAACTGAGAC 58.417 50.00 0.00 0.00 0.00 3.36 R
2942 6849 5.077134 AGGAAAAATAAGCATGAGGTTGC 57.923 39.13 0.00 0.00 43.09 4.17 R
3801 7977 1.355971 CGTTACTGCAGCATAACGGT 58.644 50.00 28.59 13.23 46.21 4.83 R
4701 9384 0.322546 GCTGGGACCAAGGAACGATT 60.323 55.00 0.00 0.00 0.00 3.34 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
24 25 3.992317 GTCCCTATCGCCGCCTCC 61.992 72.222 0.00 0.00 0.00 4.30
29 30 4.280494 TATCGCCGCCTCCGCTTC 62.280 66.667 0.00 0.00 0.00 3.86
85 86 4.452733 GACGAGCTTCCCCCACGG 62.453 72.222 0.00 0.00 0.00 4.94
105 106 3.801997 CCCCCTTCTCCAGCGCAT 61.802 66.667 11.47 0.00 0.00 4.73
106 107 2.203126 CCCCTTCTCCAGCGCATC 60.203 66.667 11.47 0.00 0.00 3.91
107 108 2.203126 CCCTTCTCCAGCGCATCC 60.203 66.667 11.47 0.00 0.00 3.51
108 109 2.586245 CCTTCTCCAGCGCATCCA 59.414 61.111 11.47 0.00 0.00 3.41
126 127 1.079681 AGCGCAACCGTTATTCCGA 60.080 52.632 11.47 0.00 36.67 4.55
127 128 0.461339 AGCGCAACCGTTATTCCGAT 60.461 50.000 11.47 0.00 36.67 4.18
537 538 1.594269 CGTTGTCGACGTTGGTCTCG 61.594 60.000 11.62 3.05 46.49 4.04
581 582 4.097741 TGGTGGATTTCGGCTTGATAATTG 59.902 41.667 0.00 0.00 0.00 2.32
740 742 6.037786 TCACCACCACAAACAAAAACATAA 57.962 33.333 0.00 0.00 0.00 1.90
758 760 2.584492 AACAGCAGTTTGGAGTTTGC 57.416 45.000 0.00 0.00 33.11 3.68
767 769 2.356665 TTGGAGTTTGCACAGGCTTA 57.643 45.000 0.00 0.00 41.91 3.09
781 783 9.489084 TTGCACAGGCTTATTGTATATTAGTAG 57.511 33.333 0.00 0.00 41.91 2.57
782 784 8.647796 TGCACAGGCTTATTGTATATTAGTAGT 58.352 33.333 0.00 0.00 41.91 2.73
889 891 5.710567 ACCCTATCTGTAGTTTTTGCCTTTC 59.289 40.000 0.00 0.00 0.00 2.62
1012 1020 4.142160 TGGACGAGATAATGGTGAGTTCAG 60.142 45.833 0.00 0.00 0.00 3.02
1046 1058 5.528690 TGTTAAGCAGCTAGGCAATCTTATG 59.471 40.000 0.00 0.00 35.83 1.90
1203 1217 2.511659 TCTGTGTCTACTGCGTAACCT 58.488 47.619 0.00 0.00 0.00 3.50
1210 1224 4.271533 TGTCTACTGCGTAACCTTGTTTTG 59.728 41.667 0.00 0.00 0.00 2.44
1427 1441 7.550551 TGTGATCAAACTCATAAATCTCCACTC 59.449 37.037 0.00 0.00 0.00 3.51
1428 1442 7.768120 GTGATCAAACTCATAAATCTCCACTCT 59.232 37.037 0.00 0.00 0.00 3.24
1429 1443 8.981659 TGATCAAACTCATAAATCTCCACTCTA 58.018 33.333 0.00 0.00 0.00 2.43
1430 1444 9.995003 GATCAAACTCATAAATCTCCACTCTAT 57.005 33.333 0.00 0.00 0.00 1.98
1431 1445 9.775854 ATCAAACTCATAAATCTCCACTCTATG 57.224 33.333 0.00 0.00 0.00 2.23
1433 1447 9.388506 CAAACTCATAAATCTCCACTCTATGTT 57.611 33.333 0.00 0.00 0.00 2.71
1484 1528 6.691255 TTGTGTGGTTAGGGTAATAACTCT 57.309 37.500 0.00 0.00 40.50 3.24
1539 1583 7.908601 CCAGAACAGTGTTTACTAGTTTGAAAC 59.091 37.037 10.45 6.75 34.74 2.78
1584 1628 0.768622 TGGATTTCGGGGACACACTT 59.231 50.000 0.00 0.00 0.00 3.16
1585 1629 1.165270 GGATTTCGGGGACACACTTG 58.835 55.000 0.00 0.00 0.00 3.16
1586 1630 1.271163 GGATTTCGGGGACACACTTGA 60.271 52.381 0.00 0.00 0.00 3.02
1590 1634 0.762418 TCGGGGACACACTTGATTGT 59.238 50.000 0.00 0.00 0.00 2.71
1592 1636 1.535462 CGGGGACACACTTGATTGTTC 59.465 52.381 0.00 0.00 0.00 3.18
1593 1637 2.810400 CGGGGACACACTTGATTGTTCT 60.810 50.000 0.00 0.00 0.00 3.01
1606 1654 7.377928 CACTTGATTGTTCTTTTCATGTCTGAC 59.622 37.037 0.00 0.00 0.00 3.51
1708 1771 2.494073 CAACCAGAGACTAGTCCCTCAC 59.506 54.545 19.38 6.42 32.07 3.51
1872 1972 5.579047 TGGTTCATGTGGAAAATATGGTCT 58.421 37.500 0.00 0.00 37.23 3.85
2597 2718 1.398390 GCTGGATTTTCTAGTGCCACG 59.602 52.381 0.00 0.00 0.00 4.94
2898 3024 7.096189 GCCTTCGAAAAATGAAAGAAAGGTAAC 60.096 37.037 0.00 0.00 0.00 2.50
2964 6871 5.077134 GCAACCTCATGCTTATTTTTCCT 57.923 39.130 0.00 0.00 43.06 3.36
3015 6926 5.946298 TGCTGAAACTTGATTCATCACATC 58.054 37.500 0.00 0.00 38.55 3.06
3393 7422 4.042809 TCTTCCTTTCTGTTCCTTGCCATA 59.957 41.667 0.00 0.00 0.00 2.74
3429 7458 4.623932 AAAGCACATGACTACTCCTTGA 57.376 40.909 0.00 0.00 0.00 3.02
3516 7545 7.748847 TGTGTTCTTTCTGACTGTTTCTAAAC 58.251 34.615 0.00 0.00 39.33 2.01
3686 7848 7.775561 CCACTTCCCAGAGCTTAATATTTAGTT 59.224 37.037 3.60 0.00 0.00 2.24
3728 7903 7.574021 TCCTTATATCTATGTTTCCCTGCAT 57.426 36.000 0.00 0.00 0.00 3.96
3738 7913 6.715347 ATGTTTCCCTGCATATTTAGGTTC 57.285 37.500 0.00 0.00 31.99 3.62
3840 8021 8.389603 AGTAACGAACTCTCTTAAGTATCTTCG 58.610 37.037 18.10 18.10 30.33 3.79
3865 8046 9.674208 CGCATTGTTGTTTATATTTTGATTCAC 57.326 29.630 0.00 0.00 0.00 3.18
3896 8077 7.916977 TCTTTTATGATATTCATGCACTGCAAC 59.083 33.333 8.03 0.00 43.62 4.17
4234 8873 2.221169 TGCTGCACCAGTAGAAAGTTG 58.779 47.619 0.00 0.00 33.43 3.16
4258 8899 4.739046 AGATTTTGCTTCTGTGAAGTCG 57.261 40.909 8.78 0.00 0.00 4.18
4310 8951 4.925068 AGTTTTACCTATGCTACCGTACG 58.075 43.478 8.69 8.69 0.00 3.67
4324 8965 5.403166 GCTACCGTACGTCATTGCATATTTA 59.597 40.000 15.21 0.00 0.00 1.40
4428 9096 5.939764 ATCAGTAGGTTGTAGCATCTTCA 57.060 39.130 0.00 0.00 0.00 3.02
4632 9310 0.804989 CTGAGACGGGCACATTTTCC 59.195 55.000 0.00 0.00 0.00 3.13
4681 9359 6.008960 AGCTTGGAATCTGAAGATGAAAAGT 58.991 36.000 0.00 0.00 34.49 2.66
4691 9374 4.041567 TGAAGATGAAAAGTGCCTGAGGTA 59.958 41.667 0.00 0.00 0.00 3.08
4701 9384 1.078823 TGCCTGAGGTAAGAAGAGGGA 59.921 52.381 0.00 0.00 0.00 4.20
4757 9440 1.064060 GCACACAACGCTCAAGAGTTT 59.936 47.619 0.00 0.00 35.92 2.66
4897 9596 3.508762 CAACGTTACCTATGCTTCGAGT 58.491 45.455 0.00 0.00 0.00 4.18
4929 9629 2.762535 TCTAGAAAACCCGCTGGAAG 57.237 50.000 0.00 0.00 34.81 3.46
4956 9657 5.534207 TTGTTGAAATGTCTTGCCTGAAT 57.466 34.783 0.00 0.00 0.00 2.57
5013 9735 4.326548 GCGAGTTGAGCTTTAAACGAGTAT 59.673 41.667 12.72 0.00 0.00 2.12
5060 9871 4.077108 TGATTGCAGTTCTGCTTCATCTT 58.923 39.130 22.44 3.32 35.49 2.40
5188 10005 9.768662 TTAGGGGTATTATTATGAGTTTTCGAC 57.231 33.333 0.00 0.00 0.00 4.20
5189 10006 7.222161 AGGGGTATTATTATGAGTTTTCGACC 58.778 38.462 0.00 0.00 0.00 4.79
5190 10007 6.993902 GGGGTATTATTATGAGTTTTCGACCA 59.006 38.462 0.00 0.00 0.00 4.02
5192 10009 7.713942 GGGTATTATTATGAGTTTTCGACCAGT 59.286 37.037 0.00 0.00 0.00 4.00
5211 10039 8.074972 CGACCAGTAAATATTACCAGACTACTC 58.925 40.741 0.00 0.00 0.00 2.59
5249 12571 6.579865 TCTTAAGTGGAATTTCGAGGGTATC 58.420 40.000 1.63 0.00 0.00 2.24
5275 12597 2.672996 GGCTCTTTCGCTGGCCAA 60.673 61.111 7.01 0.00 43.59 4.52
5304 12626 3.412408 GCACCCTCTCCTTCCCCC 61.412 72.222 0.00 0.00 0.00 5.40
5306 12628 3.612607 ACCCTCTCCTTCCCCCGT 61.613 66.667 0.00 0.00 0.00 5.28
5318 12640 4.614036 CCCCGTGCCCCCTTTGTT 62.614 66.667 0.00 0.00 0.00 2.83
5319 12641 2.437002 CCCGTGCCCCCTTTGTTA 59.563 61.111 0.00 0.00 0.00 2.41
5320 12642 1.000145 CCCGTGCCCCCTTTGTTAT 60.000 57.895 0.00 0.00 0.00 1.89
5321 12643 1.319614 CCCGTGCCCCCTTTGTTATG 61.320 60.000 0.00 0.00 0.00 1.90
5322 12644 0.610785 CCGTGCCCCCTTTGTTATGT 60.611 55.000 0.00 0.00 0.00 2.29
5323 12645 1.253100 CGTGCCCCCTTTGTTATGTT 58.747 50.000 0.00 0.00 0.00 2.71
5324 12646 1.616374 CGTGCCCCCTTTGTTATGTTT 59.384 47.619 0.00 0.00 0.00 2.83
5325 12647 2.036604 CGTGCCCCCTTTGTTATGTTTT 59.963 45.455 0.00 0.00 0.00 2.43
5326 12648 3.493524 CGTGCCCCCTTTGTTATGTTTTT 60.494 43.478 0.00 0.00 0.00 1.94
5327 12649 3.812609 GTGCCCCCTTTGTTATGTTTTTG 59.187 43.478 0.00 0.00 0.00 2.44
5328 12650 2.811431 GCCCCCTTTGTTATGTTTTTGC 59.189 45.455 0.00 0.00 0.00 3.68
5329 12651 3.407698 CCCCCTTTGTTATGTTTTTGCC 58.592 45.455 0.00 0.00 0.00 4.52
5330 12652 3.072330 CCCCCTTTGTTATGTTTTTGCCT 59.928 43.478 0.00 0.00 0.00 4.75
5331 12653 4.445592 CCCCCTTTGTTATGTTTTTGCCTT 60.446 41.667 0.00 0.00 0.00 4.35
5332 12654 5.129634 CCCCTTTGTTATGTTTTTGCCTTT 58.870 37.500 0.00 0.00 0.00 3.11
5333 12655 5.592282 CCCCTTTGTTATGTTTTTGCCTTTT 59.408 36.000 0.00 0.00 0.00 2.27
5334 12656 6.768381 CCCCTTTGTTATGTTTTTGCCTTTTA 59.232 34.615 0.00 0.00 0.00 1.52
5335 12657 7.254966 CCCCTTTGTTATGTTTTTGCCTTTTAC 60.255 37.037 0.00 0.00 0.00 2.01
5336 12658 7.497579 CCCTTTGTTATGTTTTTGCCTTTTACT 59.502 33.333 0.00 0.00 0.00 2.24
5337 12659 8.547894 CCTTTGTTATGTTTTTGCCTTTTACTC 58.452 33.333 0.00 0.00 0.00 2.59
5338 12660 9.313118 CTTTGTTATGTTTTTGCCTTTTACTCT 57.687 29.630 0.00 0.00 0.00 3.24
5339 12661 9.660180 TTTGTTATGTTTTTGCCTTTTACTCTT 57.340 25.926 0.00 0.00 0.00 2.85
5353 12675 9.331106 GCCTTTTACTCTTATTTTCTCTTTTCG 57.669 33.333 0.00 0.00 0.00 3.46
5385 12707 8.801882 ATTCTACAAACTTATTCGGGATTTCA 57.198 30.769 0.00 0.00 0.00 2.69
5386 12708 8.624367 TTCTACAAACTTATTCGGGATTTCAA 57.376 30.769 0.00 0.00 0.00 2.69
5387 12709 8.624367 TCTACAAACTTATTCGGGATTTCAAA 57.376 30.769 0.00 0.00 0.00 2.69
5388 12710 9.069082 TCTACAAACTTATTCGGGATTTCAAAA 57.931 29.630 0.00 0.00 0.00 2.44
5389 12711 7.940178 ACAAACTTATTCGGGATTTCAAAAC 57.060 32.000 0.00 0.00 0.00 2.43
5390 12712 7.493367 ACAAACTTATTCGGGATTTCAAAACA 58.507 30.769 0.00 0.00 0.00 2.83
5391 12713 7.982354 ACAAACTTATTCGGGATTTCAAAACAA 59.018 29.630 0.00 0.00 0.00 2.83
5392 12714 8.987890 CAAACTTATTCGGGATTTCAAAACAAT 58.012 29.630 0.00 0.00 0.00 2.71
5393 12715 9.554395 AAACTTATTCGGGATTTCAAAACAATT 57.446 25.926 0.00 0.00 0.00 2.32
5394 12716 8.757164 ACTTATTCGGGATTTCAAAACAATTC 57.243 30.769 0.00 0.00 0.00 2.17
5395 12717 7.817478 ACTTATTCGGGATTTCAAAACAATTCC 59.183 33.333 0.00 0.00 0.00 3.01
5396 12718 5.537300 TTCGGGATTTCAAAACAATTCCA 57.463 34.783 0.00 0.00 29.19 3.53
5397 12719 5.537300 TCGGGATTTCAAAACAATTCCAA 57.463 34.783 0.00 0.00 29.19 3.53
5398 12720 5.918608 TCGGGATTTCAAAACAATTCCAAA 58.081 33.333 0.00 0.00 29.19 3.28
5399 12721 6.529220 TCGGGATTTCAAAACAATTCCAAAT 58.471 32.000 0.00 0.00 29.19 2.32
5400 12722 6.995091 TCGGGATTTCAAAACAATTCCAAATT 59.005 30.769 0.00 0.00 29.19 1.82
5401 12723 7.500559 TCGGGATTTCAAAACAATTCCAAATTT 59.499 29.630 0.00 0.00 29.19 1.82
5402 12724 7.802720 CGGGATTTCAAAACAATTCCAAATTTC 59.197 33.333 0.00 0.00 29.19 2.17
5403 12725 8.628280 GGGATTTCAAAACAATTCCAAATTTCA 58.372 29.630 0.00 0.00 30.24 2.69
5531 12853 9.656040 TTTATTGATTCAATTTTCATCCACTGG 57.344 29.630 16.62 0.00 35.54 4.00
5532 12854 6.669125 TTGATTCAATTTTCATCCACTGGT 57.331 33.333 0.00 0.00 0.00 4.00
5533 12855 6.669125 TGATTCAATTTTCATCCACTGGTT 57.331 33.333 0.00 0.00 0.00 3.67
5534 12856 6.690530 TGATTCAATTTTCATCCACTGGTTC 58.309 36.000 0.00 0.00 0.00 3.62
5535 12857 6.267242 TGATTCAATTTTCATCCACTGGTTCA 59.733 34.615 0.00 0.00 0.00 3.18
5536 12858 6.477053 TTCAATTTTCATCCACTGGTTCAA 57.523 33.333 0.00 0.00 0.00 2.69
5537 12859 6.477053 TCAATTTTCATCCACTGGTTCAAA 57.523 33.333 0.00 0.00 0.00 2.69
5538 12860 7.065120 TCAATTTTCATCCACTGGTTCAAAT 57.935 32.000 0.00 0.00 0.00 2.32
5539 12861 8.187913 TCAATTTTCATCCACTGGTTCAAATA 57.812 30.769 0.00 0.00 0.00 1.40
5540 12862 8.646004 TCAATTTTCATCCACTGGTTCAAATAA 58.354 29.630 0.00 0.00 0.00 1.40
5541 12863 9.439500 CAATTTTCATCCACTGGTTCAAATAAT 57.561 29.630 0.00 0.00 0.00 1.28
5542 12864 9.439500 AATTTTCATCCACTGGTTCAAATAATG 57.561 29.630 0.00 0.00 0.00 1.90
5543 12865 7.537596 TTTCATCCACTGGTTCAAATAATGT 57.462 32.000 0.00 0.00 0.00 2.71
5544 12866 7.537596 TTCATCCACTGGTTCAAATAATGTT 57.462 32.000 0.00 0.00 0.00 2.71
5545 12867 7.537596 TCATCCACTGGTTCAAATAATGTTT 57.462 32.000 0.00 0.00 0.00 2.83
5546 12868 8.642935 TCATCCACTGGTTCAAATAATGTTTA 57.357 30.769 0.00 0.00 0.00 2.01
5547 12869 9.253832 TCATCCACTGGTTCAAATAATGTTTAT 57.746 29.630 0.00 0.00 0.00 1.40
5548 12870 9.874205 CATCCACTGGTTCAAATAATGTTTATT 57.126 29.630 0.00 0.00 0.00 1.40
5550 12872 9.083422 TCCACTGGTTCAAATAATGTTTATTCA 57.917 29.630 0.00 0.00 0.00 2.57
5551 12873 9.874205 CCACTGGTTCAAATAATGTTTATTCAT 57.126 29.630 0.00 0.00 0.00 2.57
5569 12891 8.595781 TTATTCATTACGAAAAATGTTCTCGC 57.404 30.769 0.00 0.00 37.94 5.03
5570 12892 5.599359 TCATTACGAAAAATGTTCTCGCA 57.401 34.783 0.00 0.00 37.94 5.10
5571 12893 6.176975 TCATTACGAAAAATGTTCTCGCAT 57.823 33.333 0.00 0.00 37.94 4.73
5572 12894 6.607689 TCATTACGAAAAATGTTCTCGCATT 58.392 32.000 0.00 0.00 40.43 3.56
5574 12896 8.231161 TCATTACGAAAAATGTTCTCGCATTTA 58.769 29.630 4.74 0.00 45.17 1.40
5575 12897 8.845648 CATTACGAAAAATGTTCTCGCATTTAA 58.154 29.630 4.74 0.00 45.17 1.52
5576 12898 6.669485 ACGAAAAATGTTCTCGCATTTAAC 57.331 33.333 4.74 2.62 45.17 2.01
5577 12899 6.202937 ACGAAAAATGTTCTCGCATTTAACA 58.797 32.000 4.74 0.00 45.17 2.41
5578 12900 6.693545 ACGAAAAATGTTCTCGCATTTAACAA 59.306 30.769 4.74 0.00 45.17 2.83
5579 12901 7.221067 ACGAAAAATGTTCTCGCATTTAACAAA 59.779 29.630 4.74 0.00 45.17 2.83
5580 12902 8.053072 CGAAAAATGTTCTCGCATTTAACAAAA 58.947 29.630 4.74 0.00 45.17 2.44
5581 12903 9.695884 GAAAAATGTTCTCGCATTTAACAAAAA 57.304 25.926 4.74 0.00 45.17 1.94
5583 12905 9.649024 AAAATGTTCTCGCATTTAACAAAAATG 57.351 25.926 6.18 6.18 45.17 2.32
5584 12906 7.945033 ATGTTCTCGCATTTAACAAAAATGT 57.055 28.000 11.03 0.00 39.25 2.71
5585 12907 7.763172 TGTTCTCGCATTTAACAAAAATGTT 57.237 28.000 11.03 0.00 39.25 2.71
5586 12908 7.836512 TGTTCTCGCATTTAACAAAAATGTTC 58.163 30.769 11.03 0.00 39.25 3.18
5587 12909 7.489435 TGTTCTCGCATTTAACAAAAATGTTCA 59.511 29.630 11.03 0.00 39.25 3.18
5588 12910 8.487176 GTTCTCGCATTTAACAAAAATGTTCAT 58.513 29.630 11.03 0.00 39.25 2.57
5589 12911 8.005662 TCTCGCATTTAACAAAAATGTTCATG 57.994 30.769 11.03 4.02 39.25 3.07
5590 12912 7.864882 TCTCGCATTTAACAAAAATGTTCATGA 59.135 29.630 13.75 0.00 39.25 3.07
5591 12913 8.357796 TCGCATTTAACAAAAATGTTCATGAA 57.642 26.923 3.38 3.38 39.25 2.57
5592 12914 8.986847 TCGCATTTAACAAAAATGTTCATGAAT 58.013 25.926 12.12 0.00 39.25 2.57
5593 12915 9.596677 CGCATTTAACAAAAATGTTCATGAATT 57.403 25.926 12.12 0.00 39.25 2.17
5627 12949 8.795786 TGTTCCTAAATTTCAGAAAATGTTCG 57.204 30.769 0.00 0.00 38.90 3.95
5628 12950 8.410141 TGTTCCTAAATTTCAGAAAATGTTCGT 58.590 29.630 0.00 0.00 38.90 3.85
5629 12951 9.244799 GTTCCTAAATTTCAGAAAATGTTCGTT 57.755 29.630 0.00 0.00 38.90 3.85
5630 12952 8.795786 TCCTAAATTTCAGAAAATGTTCGTTG 57.204 30.769 0.00 0.00 38.90 4.10
5631 12953 8.625651 TCCTAAATTTCAGAAAATGTTCGTTGA 58.374 29.630 0.00 0.00 38.90 3.18
5632 12954 9.410556 CCTAAATTTCAGAAAATGTTCGTTGAT 57.589 29.630 0.00 0.00 38.90 2.57
5635 12957 8.870160 AATTTCAGAAAATGTTCGTTGATTCA 57.130 26.923 0.00 0.00 38.90 2.57
5636 12958 8.870160 ATTTCAGAAAATGTTCGTTGATTCAA 57.130 26.923 0.00 0.00 38.90 2.69
5637 12959 8.694975 TTTCAGAAAATGTTCGTTGATTCAAA 57.305 26.923 0.00 0.00 38.90 2.69
5638 12960 8.694975 TTCAGAAAATGTTCGTTGATTCAAAA 57.305 26.923 0.00 0.00 38.90 2.44
5639 12961 8.694975 TCAGAAAATGTTCGTTGATTCAAAAA 57.305 26.923 0.00 0.00 38.90 1.94
5640 12962 9.311916 TCAGAAAATGTTCGTTGATTCAAAAAT 57.688 25.926 0.00 0.00 38.90 1.82
5641 12963 9.919348 CAGAAAATGTTCGTTGATTCAAAAATT 57.081 25.926 0.00 0.00 38.90 1.82
5642 12964 9.919348 AGAAAATGTTCGTTGATTCAAAAATTG 57.081 25.926 0.00 0.00 38.90 2.32
5643 12965 9.701355 GAAAATGTTCGTTGATTCAAAAATTGT 57.299 25.926 0.00 0.00 0.00 2.71
5645 12967 9.701355 AAATGTTCGTTGATTCAAAAATTGTTC 57.299 25.926 0.00 0.00 0.00 3.18
5646 12968 7.818493 TGTTCGTTGATTCAAAAATTGTTCA 57.182 28.000 0.00 0.00 0.00 3.18
5647 12969 8.417780 TGTTCGTTGATTCAAAAATTGTTCAT 57.582 26.923 0.00 0.00 0.00 2.57
5648 12970 8.326713 TGTTCGTTGATTCAAAAATTGTTCATG 58.673 29.630 0.00 0.00 0.00 3.07
5649 12971 8.538856 GTTCGTTGATTCAAAAATTGTTCATGA 58.461 29.630 0.00 0.00 0.00 3.07
5650 12972 8.284557 TCGTTGATTCAAAAATTGTTCATGAG 57.715 30.769 0.00 0.00 0.00 2.90
5651 12973 7.920151 TCGTTGATTCAAAAATTGTTCATGAGT 59.080 29.630 0.00 0.00 0.00 3.41
5652 12974 8.542132 CGTTGATTCAAAAATTGTTCATGAGTT 58.458 29.630 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.331805 CGGCGATAGGGACTGACG 59.668 66.667 0.00 0.00 41.52 4.35
3 4 2.027751 GCGGCGATAGGGACTGAC 59.972 66.667 12.98 0.00 41.52 3.51
4 5 3.224324 GGCGGCGATAGGGACTGA 61.224 66.667 12.98 0.00 41.52 3.41
102 103 1.714899 ATAACGGTTGCGCTGGATGC 61.715 55.000 9.73 0.00 38.57 3.91
103 104 0.732571 AATAACGGTTGCGCTGGATG 59.267 50.000 9.73 0.00 0.00 3.51
104 105 1.014352 GAATAACGGTTGCGCTGGAT 58.986 50.000 9.73 0.00 0.00 3.41
105 106 1.022451 GGAATAACGGTTGCGCTGGA 61.022 55.000 9.73 0.00 0.00 3.86
106 107 1.427819 GGAATAACGGTTGCGCTGG 59.572 57.895 9.73 0.00 0.00 4.85
107 108 1.060308 CGGAATAACGGTTGCGCTG 59.940 57.895 9.73 0.00 36.20 5.18
108 109 0.461339 ATCGGAATAACGGTTGCGCT 60.461 50.000 9.73 0.00 41.78 5.92
118 119 6.152323 CCTTACCGGAGAGAATATCGGAATAA 59.848 42.308 9.46 0.00 44.69 1.40
581 582 9.690913 ATAACCCTAAAACTAATGAAACCCTAC 57.309 33.333 0.00 0.00 0.00 3.18
740 742 1.134946 GTGCAAACTCCAAACTGCTGT 59.865 47.619 0.00 0.00 35.78 4.40
905 907 4.937696 TCACAACAAATATGTAGTGCCG 57.062 40.909 0.00 0.00 39.40 5.69
989 997 3.767131 TGAACTCACCATTATCTCGTCCA 59.233 43.478 0.00 0.00 0.00 4.02
1012 1020 2.551071 AGCTGCTTAACAGGAGGTGAAC 60.551 50.000 0.00 0.00 46.53 3.18
1046 1058 5.776519 TGCCGAACATAAATTGCAAATTC 57.223 34.783 1.71 0.43 0.00 2.17
1203 1217 9.555727 GCCTACAGATATATCCTTACAAAACAA 57.444 33.333 9.18 0.00 0.00 2.83
1210 1224 8.950208 GGAATTGCCTACAGATATATCCTTAC 57.050 38.462 9.18 0.00 0.00 2.34
1262 1276 3.254629 TGCCTCAGCATTGTCTTCC 57.745 52.632 0.00 0.00 46.52 3.46
1441 1484 8.660373 CACACAAATAAGGTTTTACTTTTTGCA 58.340 29.630 0.00 0.00 34.97 4.08
1498 1542 3.766591 TGTTCTGGTGGAAAACATTGTGT 59.233 39.130 0.00 0.00 35.51 3.72
1584 1628 6.205464 GGAGTCAGACATGAAAAGAACAATCA 59.795 38.462 0.00 0.00 37.14 2.57
1585 1629 6.429385 AGGAGTCAGACATGAAAAGAACAATC 59.571 38.462 0.00 0.00 37.14 2.67
1586 1630 6.206243 CAGGAGTCAGACATGAAAAGAACAAT 59.794 38.462 0.00 0.00 37.14 2.71
1590 1634 5.551305 TCAGGAGTCAGACATGAAAAGAA 57.449 39.130 0.00 0.00 37.14 2.52
1592 1636 8.503458 AATATTCAGGAGTCAGACATGAAAAG 57.497 34.615 15.71 0.00 40.41 2.27
1593 1637 9.383519 GTAATATTCAGGAGTCAGACATGAAAA 57.616 33.333 15.71 1.49 40.41 2.29
1721 1784 6.595326 GTGAATCAGATCATCTTACCACAACA 59.405 38.462 0.00 0.00 0.00 3.33
1722 1785 6.037610 GGTGAATCAGATCATCTTACCACAAC 59.962 42.308 0.00 0.00 0.00 3.32
1723 1786 6.070021 AGGTGAATCAGATCATCTTACCACAA 60.070 38.462 0.00 0.00 37.50 3.33
1727 1790 4.754114 GCAGGTGAATCAGATCATCTTACC 59.246 45.833 0.00 0.00 38.73 2.85
1734 1832 2.169978 CCTCTGCAGGTGAATCAGATCA 59.830 50.000 15.13 0.00 36.41 2.92
1737 1835 0.251354 GCCTCTGCAGGTGAATCAGA 59.749 55.000 15.13 0.00 42.74 3.27
1818 1917 2.995283 TGAGCATGAACTGAGGATTGG 58.005 47.619 0.00 0.00 0.00 3.16
1872 1972 7.754624 TGCCCTATATGGACTCAAAATGAATA 58.245 34.615 0.00 0.00 38.35 1.75
1904 2023 5.148651 AGGCTAAAATACAGACGAACAGT 57.851 39.130 0.00 0.00 0.00 3.55
1911 2030 6.106673 TGCAGACTAAGGCTAAAATACAGAC 58.893 40.000 0.00 0.00 0.00 3.51
2597 2718 1.583054 AGCCAACACGAAACTGAGAC 58.417 50.000 0.00 0.00 0.00 3.36
2942 6849 5.077134 AGGAAAAATAAGCATGAGGTTGC 57.923 39.130 0.00 0.00 43.09 4.17
2964 6871 9.691362 GGAATGAAAATTAGCAAGTAGTTCAAA 57.309 29.630 0.00 0.00 0.00 2.69
2984 6894 5.477637 TGAATCAAGTTTCAGCATGGAATGA 59.522 36.000 0.00 0.00 35.00 2.57
3350 7378 9.025041 AGGAAGAAAATAAAATACTGTGGGAAG 57.975 33.333 0.00 0.00 0.00 3.46
3351 7379 8.950007 AGGAAGAAAATAAAATACTGTGGGAA 57.050 30.769 0.00 0.00 0.00 3.97
3352 7380 8.950007 AAGGAAGAAAATAAAATACTGTGGGA 57.050 30.769 0.00 0.00 0.00 4.37
3393 7422 7.703621 GTCATGTGCTTTATGCTTTAACATCAT 59.296 33.333 0.00 0.00 43.37 2.45
3728 7903 1.728068 TGCGCGCAAGAACCTAAATA 58.272 45.000 34.66 2.25 43.02 1.40
3800 7976 2.532235 CGTTACTGCAGCATAACGGTA 58.468 47.619 28.59 12.44 46.21 4.02
3801 7977 1.355971 CGTTACTGCAGCATAACGGT 58.644 50.000 28.59 13.23 46.21 4.83
3820 8001 7.489757 ACAATGCGAAGATACTTAAGAGAGTTC 59.510 37.037 10.09 6.00 0.00 3.01
3840 8021 9.674208 CGTGAATCAAAATATAAACAACAATGC 57.326 29.630 0.00 0.00 0.00 3.56
3858 8039 9.261180 GAATATCATAAAAGAGGTCGTGAATCA 57.739 33.333 0.00 0.00 0.00 2.57
3865 8046 7.172190 AGTGCATGAATATCATAAAAGAGGTCG 59.828 37.037 0.00 0.00 34.28 4.79
3896 8077 5.598005 AGTAACATGGAATCAGAGAGAGAGG 59.402 44.000 0.00 0.00 0.00 3.69
4063 8286 1.586422 CAGCCATAGTCCCATGTTCG 58.414 55.000 0.00 0.00 0.00 3.95
4234 8873 5.619625 ACTTCACAGAAGCAAAATCTAGC 57.380 39.130 6.67 0.00 0.00 3.42
4258 8899 8.383318 ACATAGCAAACTATATTGTCCATGAC 57.617 34.615 0.00 0.00 36.96 3.06
4324 8965 2.890945 AGCGCCTGGTTTACAAGAAAAT 59.109 40.909 2.29 0.00 0.00 1.82
4632 9310 3.941483 GTCATGGCCTATTATTGATCCGG 59.059 47.826 3.32 0.00 0.00 5.14
4681 9359 1.078823 TCCCTCTTCTTACCTCAGGCA 59.921 52.381 0.00 0.00 0.00 4.75
4701 9384 0.322546 GCTGGGACCAAGGAACGATT 60.323 55.000 0.00 0.00 0.00 3.34
4757 9440 1.956636 GCAAGTGCATGAATCCCAGGA 60.957 52.381 0.00 0.00 41.59 3.86
4781 9464 6.047511 ACAACTGAGAATACAAGCTGATCT 57.952 37.500 0.00 0.00 0.00 2.75
4782 9465 7.096271 CGATACAACTGAGAATACAAGCTGATC 60.096 40.741 0.00 0.00 0.00 2.92
4897 9596 6.755141 CGGGTTTTCTAGAAAGATTATCGACA 59.245 38.462 17.05 0.00 0.00 4.35
4929 9629 5.176223 CAGGCAAGACATTTCAACAATTCAC 59.824 40.000 0.00 0.00 0.00 3.18
4942 9643 2.569059 CGGATGATTCAGGCAAGACAT 58.431 47.619 0.00 0.00 0.00 3.06
4988 9710 2.220133 TCGTTTAAAGCTCAACTCGCAC 59.780 45.455 0.00 0.00 0.00 5.34
5060 9871 1.302383 CCATTACCAAACGCCGCAGA 61.302 55.000 0.00 0.00 0.00 4.26
5115 9928 5.570234 TTTACTGGTGGTGTTGTTTCTTC 57.430 39.130 0.00 0.00 0.00 2.87
5186 10003 8.074972 CGAGTAGTCTGGTAATATTTACTGGTC 58.925 40.741 0.00 0.00 0.00 4.02
5188 10005 7.938715 ACGAGTAGTCTGGTAATATTTACTGG 58.061 38.462 0.00 0.00 31.13 4.00
5189 10006 9.798994 AAACGAGTAGTCTGGTAATATTTACTG 57.201 33.333 0.00 0.00 32.55 2.74
5249 12571 1.000145 GCGAAAGAGCCCTCTAAACG 59.000 55.000 0.00 6.35 39.39 3.60
5304 12626 1.253100 AACATAACAAAGGGGGCACG 58.747 50.000 0.00 0.00 0.00 5.34
5306 12628 3.745797 GCAAAAACATAACAAAGGGGGCA 60.746 43.478 0.00 0.00 0.00 5.36
5312 12634 9.313118 AGAGTAAAAGGCAAAAACATAACAAAG 57.687 29.630 0.00 0.00 0.00 2.77
5327 12649 9.331106 CGAAAAGAGAAAATAAGAGTAAAAGGC 57.669 33.333 0.00 0.00 0.00 4.35
5359 12681 9.893634 TGAAATCCCGAATAAGTTTGTAGAATA 57.106 29.630 0.00 0.00 0.00 1.75
5360 12682 8.801882 TGAAATCCCGAATAAGTTTGTAGAAT 57.198 30.769 0.00 0.00 0.00 2.40
5361 12683 8.624367 TTGAAATCCCGAATAAGTTTGTAGAA 57.376 30.769 0.00 0.00 0.00 2.10
5362 12684 8.624367 TTTGAAATCCCGAATAAGTTTGTAGA 57.376 30.769 0.00 0.00 0.00 2.59
5363 12685 9.124807 GTTTTGAAATCCCGAATAAGTTTGTAG 57.875 33.333 0.00 0.00 0.00 2.74
5364 12686 8.630917 TGTTTTGAAATCCCGAATAAGTTTGTA 58.369 29.630 0.00 0.00 0.00 2.41
5365 12687 7.493367 TGTTTTGAAATCCCGAATAAGTTTGT 58.507 30.769 0.00 0.00 0.00 2.83
5366 12688 7.938563 TGTTTTGAAATCCCGAATAAGTTTG 57.061 32.000 0.00 0.00 0.00 2.93
5367 12689 9.554395 AATTGTTTTGAAATCCCGAATAAGTTT 57.446 25.926 0.00 0.00 0.00 2.66
5368 12690 9.203421 GAATTGTTTTGAAATCCCGAATAAGTT 57.797 29.630 0.00 0.00 0.00 2.66
5369 12691 7.817478 GGAATTGTTTTGAAATCCCGAATAAGT 59.183 33.333 0.00 0.00 0.00 2.24
5370 12692 7.816995 TGGAATTGTTTTGAAATCCCGAATAAG 59.183 33.333 0.00 0.00 0.00 1.73
5371 12693 7.671302 TGGAATTGTTTTGAAATCCCGAATAA 58.329 30.769 0.00 0.00 0.00 1.40
5372 12694 7.233389 TGGAATTGTTTTGAAATCCCGAATA 57.767 32.000 0.00 0.00 0.00 1.75
5373 12695 6.107901 TGGAATTGTTTTGAAATCCCGAAT 57.892 33.333 0.00 0.00 0.00 3.34
5374 12696 5.537300 TGGAATTGTTTTGAAATCCCGAA 57.463 34.783 0.00 0.00 0.00 4.30
5375 12697 5.537300 TTGGAATTGTTTTGAAATCCCGA 57.463 34.783 0.00 0.00 0.00 5.14
5376 12698 6.799926 ATTTGGAATTGTTTTGAAATCCCG 57.200 33.333 0.00 0.00 0.00 5.14
5377 12699 8.628280 TGAAATTTGGAATTGTTTTGAAATCCC 58.372 29.630 0.00 0.00 0.00 3.85
5505 12827 9.656040 CCAGTGGATGAAAATTGAATCAATAAA 57.344 29.630 9.09 0.00 32.43 1.40
5506 12828 8.814931 ACCAGTGGATGAAAATTGAATCAATAA 58.185 29.630 18.40 0.00 32.43 1.40
5507 12829 8.365060 ACCAGTGGATGAAAATTGAATCAATA 57.635 30.769 18.40 0.00 32.43 1.90
5508 12830 7.248743 ACCAGTGGATGAAAATTGAATCAAT 57.751 32.000 18.40 2.07 35.39 2.57
5509 12831 6.669125 ACCAGTGGATGAAAATTGAATCAA 57.331 33.333 18.40 0.00 0.00 2.57
5510 12832 6.267242 TGAACCAGTGGATGAAAATTGAATCA 59.733 34.615 18.40 0.00 0.00 2.57
5511 12833 6.690530 TGAACCAGTGGATGAAAATTGAATC 58.309 36.000 18.40 0.00 0.00 2.52
5512 12834 6.669125 TGAACCAGTGGATGAAAATTGAAT 57.331 33.333 18.40 0.00 0.00 2.57
5513 12835 6.477053 TTGAACCAGTGGATGAAAATTGAA 57.523 33.333 18.40 0.00 0.00 2.69
5514 12836 6.477053 TTTGAACCAGTGGATGAAAATTGA 57.523 33.333 18.40 0.00 0.00 2.57
5515 12837 8.830201 TTATTTGAACCAGTGGATGAAAATTG 57.170 30.769 18.40 0.00 0.00 2.32
5516 12838 9.439500 CATTATTTGAACCAGTGGATGAAAATT 57.561 29.630 18.40 0.00 0.00 1.82
5517 12839 8.596293 ACATTATTTGAACCAGTGGATGAAAAT 58.404 29.630 18.40 16.63 0.00 1.82
5518 12840 7.961351 ACATTATTTGAACCAGTGGATGAAAA 58.039 30.769 18.40 10.89 0.00 2.29
5519 12841 7.537596 ACATTATTTGAACCAGTGGATGAAA 57.462 32.000 18.40 11.71 0.00 2.69
5520 12842 7.537596 AACATTATTTGAACCAGTGGATGAA 57.462 32.000 18.40 0.46 0.00 2.57
5521 12843 7.537596 AAACATTATTTGAACCAGTGGATGA 57.462 32.000 18.40 0.00 0.00 2.92
5522 12844 9.874205 AATAAACATTATTTGAACCAGTGGATG 57.126 29.630 18.40 8.90 0.00 3.51
5524 12846 9.083422 TGAATAAACATTATTTGAACCAGTGGA 57.917 29.630 18.40 0.00 0.00 4.02
5525 12847 9.874205 ATGAATAAACATTATTTGAACCAGTGG 57.126 29.630 7.91 7.91 0.00 4.00
5543 12865 9.057365 GCGAGAACATTTTTCGTAATGAATAAA 57.943 29.630 12.29 0.00 38.56 1.40
5544 12866 8.231161 TGCGAGAACATTTTTCGTAATGAATAA 58.769 29.630 12.29 0.00 38.56 1.40
5545 12867 7.744059 TGCGAGAACATTTTTCGTAATGAATA 58.256 30.769 12.29 0.00 38.56 1.75
5546 12868 6.607689 TGCGAGAACATTTTTCGTAATGAAT 58.392 32.000 12.29 3.88 38.56 2.57
5547 12869 5.991568 TGCGAGAACATTTTTCGTAATGAA 58.008 33.333 12.29 0.00 38.56 2.57
5548 12870 5.599359 TGCGAGAACATTTTTCGTAATGA 57.401 34.783 12.29 0.00 38.56 2.57
5549 12871 6.853279 AATGCGAGAACATTTTTCGTAATG 57.147 33.333 0.00 0.00 36.91 1.90
5550 12872 8.846607 GTTAAATGCGAGAACATTTTTCGTAAT 58.153 29.630 7.70 0.00 45.63 1.89
5551 12873 7.856398 TGTTAAATGCGAGAACATTTTTCGTAA 59.144 29.630 7.70 0.00 45.63 3.18
5552 12874 7.353497 TGTTAAATGCGAGAACATTTTTCGTA 58.647 30.769 7.70 0.00 45.63 3.43
5553 12875 6.202937 TGTTAAATGCGAGAACATTTTTCGT 58.797 32.000 7.70 0.00 45.63 3.85
5554 12876 6.667981 TGTTAAATGCGAGAACATTTTTCG 57.332 33.333 7.70 0.00 45.63 3.46
5555 12877 9.695884 TTTTTGTTAAATGCGAGAACATTTTTC 57.304 25.926 7.70 3.49 45.63 2.29
5557 12879 9.649024 CATTTTTGTTAAATGCGAGAACATTTT 57.351 25.926 7.70 0.00 45.63 1.82
5559 12881 8.364129 ACATTTTTGTTAAATGCGAGAACATT 57.636 26.923 9.48 0.00 42.01 2.71
5560 12882 7.945033 ACATTTTTGTTAAATGCGAGAACAT 57.055 28.000 9.48 0.00 40.35 2.71
5561 12883 7.489435 TGAACATTTTTGTTAAATGCGAGAACA 59.511 29.630 9.48 0.00 40.35 3.18
5562 12884 7.836512 TGAACATTTTTGTTAAATGCGAGAAC 58.163 30.769 9.48 0.00 40.35 3.01
5563 12885 7.993821 TGAACATTTTTGTTAAATGCGAGAA 57.006 28.000 9.48 0.00 40.35 2.87
5564 12886 7.864882 TCATGAACATTTTTGTTAAATGCGAGA 59.135 29.630 9.48 0.91 40.35 4.04
5565 12887 8.005662 TCATGAACATTTTTGTTAAATGCGAG 57.994 30.769 9.48 0.00 40.35 5.03
5566 12888 7.936950 TCATGAACATTTTTGTTAAATGCGA 57.063 28.000 9.48 0.00 40.35 5.10
5567 12889 9.596677 AATTCATGAACATTTTTGTTAAATGCG 57.403 25.926 11.07 0.00 40.35 4.73
5601 12923 9.243637 CGAACATTTTCTGAAATTTAGGAACAA 57.756 29.630 3.31 0.00 33.25 2.83
5602 12924 8.410141 ACGAACATTTTCTGAAATTTAGGAACA 58.590 29.630 3.31 0.00 33.25 3.18
5603 12925 8.797266 ACGAACATTTTCTGAAATTTAGGAAC 57.203 30.769 3.31 0.00 33.25 3.62
5604 12926 9.243637 CAACGAACATTTTCTGAAATTTAGGAA 57.756 29.630 3.31 0.00 33.25 3.36
5605 12927 8.625651 TCAACGAACATTTTCTGAAATTTAGGA 58.374 29.630 3.31 0.00 33.25 2.94
5606 12928 8.795786 TCAACGAACATTTTCTGAAATTTAGG 57.204 30.769 3.31 0.00 33.25 2.69
5609 12931 9.311916 TGAATCAACGAACATTTTCTGAAATTT 57.688 25.926 3.31 0.00 33.25 1.82
5610 12932 8.870160 TGAATCAACGAACATTTTCTGAAATT 57.130 26.923 3.31 0.00 33.25 1.82
5611 12933 8.870160 TTGAATCAACGAACATTTTCTGAAAT 57.130 26.923 3.31 0.00 35.90 2.17
5612 12934 8.694975 TTTGAATCAACGAACATTTTCTGAAA 57.305 26.923 0.00 0.00 0.00 2.69
5613 12935 8.694975 TTTTGAATCAACGAACATTTTCTGAA 57.305 26.923 0.00 0.00 0.00 3.02
5614 12936 8.694975 TTTTTGAATCAACGAACATTTTCTGA 57.305 26.923 0.00 0.00 0.00 3.27
5615 12937 9.919348 AATTTTTGAATCAACGAACATTTTCTG 57.081 25.926 0.00 0.00 0.00 3.02
5616 12938 9.919348 CAATTTTTGAATCAACGAACATTTTCT 57.081 25.926 0.00 0.00 0.00 2.52
5617 12939 9.701355 ACAATTTTTGAATCAACGAACATTTTC 57.299 25.926 0.00 0.00 0.00 2.29
5619 12941 9.701355 GAACAATTTTTGAATCAACGAACATTT 57.299 25.926 0.00 0.00 0.00 2.32
5620 12942 8.877779 TGAACAATTTTTGAATCAACGAACATT 58.122 25.926 0.00 0.00 31.04 2.71
5621 12943 8.417780 TGAACAATTTTTGAATCAACGAACAT 57.582 26.923 0.00 0.00 31.04 2.71
5622 12944 7.818493 TGAACAATTTTTGAATCAACGAACA 57.182 28.000 0.00 0.00 31.04 3.18
5623 12945 8.538856 TCATGAACAATTTTTGAATCAACGAAC 58.461 29.630 0.00 0.00 35.15 3.95
5624 12946 8.640091 TCATGAACAATTTTTGAATCAACGAA 57.360 26.923 0.00 0.00 35.15 3.85
5625 12947 7.920151 ACTCATGAACAATTTTTGAATCAACGA 59.080 29.630 0.00 0.00 35.15 3.85
5626 12948 8.064447 ACTCATGAACAATTTTTGAATCAACG 57.936 30.769 0.00 0.00 35.15 4.10


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

AutoCloner maintained by Alex Coulton.