Multiple sequence alignment - TraesCS1D01G355000

Loading Multiple Alignment...

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 TraesCS1D01G355000 chr1D 100.000 4452 0 0 1 4452 439873032 439868581 0.000000e+00 8222.0
1 TraesCS1D01G355000 chr1D 77.903 267 43 13 1 260 221022375 221022118 7.710000e-33 152.0
2 TraesCS1D01G355000 chr1A 95.531 2193 72 11 1673 3861 537970670 537972840 0.000000e+00 3483.0
3 TraesCS1D01G355000 chr1A 89.545 1033 50 29 685 1673 537969626 537970644 0.000000e+00 1256.0
4 TraesCS1D01G355000 chr1A 90.576 191 10 5 4033 4222 537973221 537973404 3.440000e-61 246.0
5 TraesCS1D01G355000 chr1A 96.269 134 3 2 4319 4451 537973551 537973683 7.500000e-53 219.0
6 TraesCS1D01G355000 chr1A 95.833 96 1 3 4358 4451 396239040 396239134 7.710000e-33 152.0
7 TraesCS1D01G355000 chr1A 100.000 42 0 0 3989 4030 537972842 537972883 1.330000e-10 78.7
8 TraesCS1D01G355000 chr1A 81.928 83 11 4 5 85 580628012 580628092 2.870000e-07 67.6
9 TraesCS1D01G355000 chr1A 100.000 29 0 0 4219 4247 537973458 537973486 2.000000e-03 54.7
10 TraesCS1D01G355000 chr1B 93.364 2366 89 20 1673 4030 597453257 597450952 0.000000e+00 3437.0
11 TraesCS1D01G355000 chr1B 85.544 1757 130 62 1 1672 597455001 597453284 0.000000e+00 1724.0
12 TraesCS1D01G355000 chr1B 94.608 204 6 4 4249 4451 597450321 597450122 1.200000e-80 311.0
13 TraesCS1D01G355000 chr1B 87.958 191 12 5 4034 4222 597450621 597450440 9.700000e-52 215.0
14 TraesCS1D01G355000 chr3A 78.967 271 42 11 1 269 652828840 652828583 2.130000e-38 171.0
15 TraesCS1D01G355000 chr6D 79.565 230 39 7 1 227 386650175 386649951 1.660000e-34 158.0
16 TraesCS1D01G355000 chr5D 100.000 80 0 0 4365 4444 539481163 539481242 9.980000e-32 148.0
17 TraesCS1D01G355000 chr5D 96.078 51 2 0 1 51 460732061 460732011 2.850000e-12 84.2
18 TraesCS1D01G355000 chr5B 97.701 87 1 1 4359 4444 681134204 681134290 9.980000e-32 148.0
19 TraesCS1D01G355000 chr5B 94.118 51 3 0 1 51 566566408 566566358 1.330000e-10 78.7
20 TraesCS1D01G355000 chr4A 97.701 87 1 1 4359 4444 628924504 628924418 9.980000e-32 148.0
21 TraesCS1D01G355000 chr2B 100.000 80 0 0 4365 4444 39188641 39188562 9.980000e-32 148.0
22 TraesCS1D01G355000 chr2A 100.000 80 0 0 4365 4444 24307381 24307460 9.980000e-32 148.0
23 TraesCS1D01G355000 chr7D 98.780 82 1 0 4366 4447 590446781 590446700 3.590000e-31 147.0
24 TraesCS1D01G355000 chr2D 82.432 148 23 3 1 145 185364060 185364207 4.670000e-25 126.0
25 TraesCS1D01G355000 chr4B 83.051 118 15 5 1 114 90167222 90167106 7.880000e-18 102.0
26 TraesCS1D01G355000 chr3D 79.592 147 26 4 1 144 377194916 377194771 7.880000e-18 102.0
27 TraesCS1D01G355000 chr4D 86.207 87 11 1 176 262 21891440 21891355 4.740000e-15 93.5


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 TraesCS1D01G355000 chr1D 439868581 439873032 4451 True 8222.000000 8222 100.000000 1 4452 1 chr1D.!!$R2 4451
1 TraesCS1D01G355000 chr1A 537969626 537973683 4057 False 889.566667 3483 95.320167 685 4451 6 chr1A.!!$F3 3766
2 TraesCS1D01G355000 chr1B 597450122 597455001 4879 True 1421.750000 3437 90.368500 1 4451 4 chr1B.!!$R1 4450

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
404 423 0.105039 GCTAATACTGCCTGGACGCT 59.895 55.0 0.0 0.0 0.00 5.07 F
494 513 0.255890 GGGAGTAGCCATGCCTTTCA 59.744 55.0 0.0 0.0 38.95 2.69 F
1265 1344 0.327259 GAAACCCTCGTAGCCCCTTT 59.673 55.0 0.0 0.0 0.00 3.11 F
1821 1964 0.532573 TGCTGATTCCTCTGTCGGTC 59.467 55.0 0.0 0.0 0.00 4.79 F
2807 2955 0.247460 CATTCTCAGTGCTGGACCGA 59.753 55.0 0.0 0.0 0.00 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2063 2211 0.106819 AAGGGCTCATGCTCATGTCC 60.107 55.0 9.41 11.01 43.51 4.02 R
2134 2282 0.723981 GCGCTTGCTTAAGTCTGGAG 59.276 55.0 0.00 0.00 35.07 3.86 R
2721 2869 0.035317 ACCTCGCAATGCTGTCTTCA 59.965 50.0 2.94 0.00 0.00 3.02 R
3088 3236 0.036294 GTTTCCGTCTTCCCTCCAGG 60.036 60.0 0.00 0.00 0.00 4.45 R
4098 4595 0.388907 CTTTTAGGTCGTTCGCCGGA 60.389 55.0 5.05 0.00 37.11 5.14 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
48 49 0.670546 ACCGACTTCAATGTGGAGCG 60.671 55.000 0.00 0.00 0.00 5.03
116 117 2.892425 GCGCGGTCAAGGAGGATG 60.892 66.667 8.83 0.00 0.00 3.51
154 155 2.426023 GTCAGAAGTGGGCGTGGT 59.574 61.111 0.00 0.00 0.00 4.16
155 156 1.227853 GTCAGAAGTGGGCGTGGTT 60.228 57.895 0.00 0.00 0.00 3.67
156 157 1.227823 TCAGAAGTGGGCGTGGTTG 60.228 57.895 0.00 0.00 0.00 3.77
157 158 1.525995 CAGAAGTGGGCGTGGTTGT 60.526 57.895 0.00 0.00 0.00 3.32
160 161 2.677573 GAAGTGGGCGTGGTTGTTGC 62.678 60.000 0.00 0.00 0.00 4.17
181 182 4.038080 CCGAACGCCCACAAAGCC 62.038 66.667 0.00 0.00 0.00 4.35
200 209 0.405585 CCCCCATGTTTGTCTCCAGT 59.594 55.000 0.00 0.00 0.00 4.00
206 215 3.181477 CCATGTTTGTCTCCAGTTTTGCA 60.181 43.478 0.00 0.00 0.00 4.08
221 230 4.105486 GTTTTGCAGAAGAAAGTGTGTCC 58.895 43.478 0.00 0.00 0.00 4.02
227 236 0.834612 AAGAAAGTGTGTCCGGACCA 59.165 50.000 31.19 24.10 0.00 4.02
242 251 2.124983 CCACCCTGCAGACCGATG 60.125 66.667 17.39 5.52 0.00 3.84
243 252 2.821366 CACCCTGCAGACCGATGC 60.821 66.667 17.39 0.91 46.68 3.91
250 259 2.981302 CAGACCGATGCAGGACCA 59.019 61.111 0.00 0.00 34.73 4.02
258 267 1.385368 ATGCAGGACCACCTTGCAT 59.615 52.632 12.02 12.02 45.36 3.96
260 269 1.303561 GCAGGACCACCTTGCATGA 60.304 57.895 0.00 0.00 45.36 3.07
269 278 1.404748 CACCTTGCATGACACAACACA 59.595 47.619 0.00 0.00 0.00 3.72
271 280 2.294233 ACCTTGCATGACACAACACATC 59.706 45.455 0.00 0.00 0.00 3.06
277 286 0.756294 TGACACAACACATCCCGACT 59.244 50.000 0.00 0.00 0.00 4.18
295 304 3.441163 GACTGCGTGATCCAAACGTATA 58.559 45.455 6.02 0.00 42.93 1.47
297 306 3.183754 CTGCGTGATCCAAACGTATACA 58.816 45.455 3.32 0.00 42.93 2.29
318 336 1.211457 AGGATCAGTGTTGGAGATGCC 59.789 52.381 0.00 0.00 31.41 4.40
326 344 4.040755 AGTGTTGGAGATGCCCTTACTAT 58.959 43.478 0.00 0.00 34.97 2.12
333 351 4.141251 GGAGATGCCCTTACTATTCCCAAA 60.141 45.833 0.00 0.00 0.00 3.28
341 359 5.711976 CCCTTACTATTCCCAAATATGCCTG 59.288 44.000 0.00 0.00 0.00 4.85
370 389 9.220767 GGGTCTAAGAGTAAAATATGCTAATGG 57.779 37.037 0.00 0.00 0.00 3.16
374 393 6.206180 AGAGTAAAATATGCTAATGGCCCT 57.794 37.500 0.00 0.00 40.92 5.19
391 410 0.527600 CCTGCACACTCGCGCTAATA 60.528 55.000 5.56 0.00 33.35 0.98
404 423 0.105039 GCTAATACTGCCTGGACGCT 59.895 55.000 0.00 0.00 0.00 5.07
405 424 1.858091 CTAATACTGCCTGGACGCTG 58.142 55.000 0.00 0.00 0.00 5.18
407 426 3.723235 ATACTGCCTGGACGCTGCG 62.723 63.158 21.91 21.91 0.00 5.18
466 485 2.193127 TGGACAGTATAAGGGGTGTGG 58.807 52.381 0.00 0.00 0.00 4.17
467 486 1.134189 GGACAGTATAAGGGGTGTGGC 60.134 57.143 0.00 0.00 0.00 5.01
471 490 0.621609 GTATAAGGGGTGTGGCCACA 59.378 55.000 34.74 34.74 45.35 4.17
486 505 2.040606 ACACCGGGGAGTAGCCAT 59.959 61.111 12.96 0.00 38.95 4.40
487 506 2.367202 ACACCGGGGAGTAGCCATG 61.367 63.158 12.96 0.00 38.95 3.66
494 513 0.255890 GGGAGTAGCCATGCCTTTCA 59.744 55.000 0.00 0.00 38.95 2.69
500 519 2.134789 AGCCATGCCTTTCAGTTAGG 57.865 50.000 0.00 0.00 35.80 2.69
502 521 2.041620 AGCCATGCCTTTCAGTTAGGAA 59.958 45.455 0.00 0.00 34.56 3.36
508 527 3.317993 TGCCTTTCAGTTAGGAAAAGCAC 59.682 43.478 7.60 0.00 44.75 4.40
509 528 3.305403 GCCTTTCAGTTAGGAAAAGCACC 60.305 47.826 4.79 0.00 41.58 5.01
516 535 1.366111 TAGGAAAAGCACCGCATCGC 61.366 55.000 0.00 0.00 0.00 4.58
543 562 4.785453 GCTTCCACGCCCTCCCTG 62.785 72.222 0.00 0.00 0.00 4.45
551 570 4.785453 GCCCTCCCTGCACCTTCG 62.785 72.222 0.00 0.00 0.00 3.79
553 572 3.710722 CCTCCCTGCACCTTCGCT 61.711 66.667 0.00 0.00 0.00 4.93
581 600 2.009774 GAGCCTAAAATCAGAAGCGCA 58.990 47.619 11.47 0.00 0.00 6.09
621 641 4.360405 GCGTCCCACCCCCACATT 62.360 66.667 0.00 0.00 0.00 2.71
629 649 1.005805 CCACCCCCACATTGAAGATCA 59.994 52.381 0.00 0.00 0.00 2.92
631 651 3.164268 CACCCCCACATTGAAGATCAAA 58.836 45.455 0.00 0.00 40.12 2.69
632 652 3.056607 CACCCCCACATTGAAGATCAAAC 60.057 47.826 0.00 0.00 40.12 2.93
634 654 2.164219 CCCCACATTGAAGATCAAACCG 59.836 50.000 0.00 0.00 40.12 4.44
637 657 3.753272 CCACATTGAAGATCAAACCGAGT 59.247 43.478 0.00 0.00 40.12 4.18
668 688 1.543429 CGGATAAATGAGTGGGAGGGC 60.543 57.143 0.00 0.00 0.00 5.19
672 692 1.915078 AAATGAGTGGGAGGGCGGAG 61.915 60.000 0.00 0.00 0.00 4.63
709 731 4.764143 GGCATAGTTGGCCCTTGT 57.236 55.556 0.00 0.00 45.87 3.16
712 734 0.676782 GCATAGTTGGCCCTTGTCGT 60.677 55.000 0.00 0.00 0.00 4.34
719 741 2.098831 GGCCCTTGTCGTAGTTCGC 61.099 63.158 0.00 0.00 39.67 4.70
773 795 1.420641 CCGCATCGAGATTCGTGCAA 61.421 55.000 18.52 0.00 42.53 4.08
774 796 0.369931 CGCATCGAGATTCGTGCAAA 59.630 50.000 18.52 0.00 42.53 3.68
800 823 1.992667 GGACGGCAAGCAATTTTTAGC 59.007 47.619 0.00 0.00 0.00 3.09
811 834 8.595533 GCAAGCAATTTTTAGCCTTCTTAATAC 58.404 33.333 0.00 0.00 0.00 1.89
813 836 9.860898 AAGCAATTTTTAGCCTTCTTAATACTG 57.139 29.630 0.00 0.00 0.00 2.74
998 1061 1.215173 TCCGGGCAATCAATCCAATCT 59.785 47.619 0.00 0.00 0.00 2.40
1265 1344 0.327259 GAAACCCTCGTAGCCCCTTT 59.673 55.000 0.00 0.00 0.00 3.11
1280 1359 1.154197 CCTTTTTCCCCGTCTCGTTC 58.846 55.000 0.00 0.00 0.00 3.95
1287 1366 2.042831 CCCGTCTCGTTCGGTAGGT 61.043 63.158 12.53 0.00 45.63 3.08
1288 1367 0.744414 CCCGTCTCGTTCGGTAGGTA 60.744 60.000 12.53 0.00 45.63 3.08
1289 1368 0.654683 CCGTCTCGTTCGGTAGGTAG 59.345 60.000 7.31 0.00 42.62 3.18
1290 1369 0.654683 CGTCTCGTTCGGTAGGTAGG 59.345 60.000 0.00 0.00 0.00 3.18
1291 1370 1.743996 GTCTCGTTCGGTAGGTAGGT 58.256 55.000 0.00 0.00 0.00 3.08
1327 1406 2.776072 CGCCGTGTGATTCGTTCC 59.224 61.111 0.00 0.00 0.00 3.62
1479 1565 2.824041 CCTCCGTGGCGATTTGGG 60.824 66.667 0.00 0.00 0.00 4.12
1555 1662 7.246171 ACTGGTGTCTGTATAACTGAAGAAT 57.754 36.000 0.00 0.00 0.00 2.40
1598 1705 5.174037 TCCTGACCGGAAATCTTTTATGT 57.826 39.130 9.46 0.00 39.40 2.29
1603 1710 4.805219 ACCGGAAATCTTTTATGTTGTGC 58.195 39.130 9.46 0.00 0.00 4.57
1604 1711 4.173256 CCGGAAATCTTTTATGTTGTGCC 58.827 43.478 0.00 0.00 0.00 5.01
1606 1713 5.095490 CGGAAATCTTTTATGTTGTGCCTC 58.905 41.667 0.00 0.00 0.00 4.70
1607 1714 5.095490 GGAAATCTTTTATGTTGTGCCTCG 58.905 41.667 0.00 0.00 0.00 4.63
1608 1715 5.335661 GGAAATCTTTTATGTTGTGCCTCGT 60.336 40.000 0.00 0.00 0.00 4.18
1646 1761 5.698089 TGTCTCTGAATTGTTGTCATCACTC 59.302 40.000 0.00 0.00 0.00 3.51
1778 1920 5.877012 TGTGGATTGAATCTTAGTCTCTTGC 59.123 40.000 5.03 0.00 0.00 4.01
1807 1949 6.899089 TCTTGGAATGGATTAGTAATGCTGA 58.101 36.000 14.57 0.00 0.00 4.26
1821 1964 0.532573 TGCTGATTCCTCTGTCGGTC 59.467 55.000 0.00 0.00 0.00 4.79
1825 1968 1.066858 TGATTCCTCTGTCGGTCAAGC 60.067 52.381 0.00 0.00 0.00 4.01
1853 2001 9.672086 GTAGATAGATCTTTACTGTTACAGCTG 57.328 37.037 13.48 13.48 38.32 4.24
1854 2002 8.526667 AGATAGATCTTTACTGTTACAGCTGA 57.473 34.615 23.35 6.03 31.53 4.26
1855 2003 8.629158 AGATAGATCTTTACTGTTACAGCTGAG 58.371 37.037 23.35 9.87 31.53 3.35
1856 2004 5.415221 AGATCTTTACTGTTACAGCTGAGC 58.585 41.667 23.35 10.22 34.37 4.26
1857 2005 4.873746 TCTTTACTGTTACAGCTGAGCT 57.126 40.909 23.35 0.00 40.77 4.09
1884 2032 6.476706 GCCAATTTGCTGGTTCTTATAATGTC 59.523 38.462 0.00 0.00 38.86 3.06
1944 2092 4.133373 AGCGCCCTCCAATGCCAT 62.133 61.111 2.29 0.00 0.00 4.40
1955 2103 5.431765 CCTCCAATGCCATACTATATCCAC 58.568 45.833 0.00 0.00 0.00 4.02
1956 2104 5.084818 TCCAATGCCATACTATATCCACG 57.915 43.478 0.00 0.00 0.00 4.94
2034 2182 1.357137 TGAAGGTGGGCACTGTCATA 58.643 50.000 0.00 0.00 0.00 2.15
2063 2211 8.638685 TCTTTCATTCTTTCTGAAGCAAAAAG 57.361 30.769 0.00 0.00 38.18 2.27
2092 2240 2.692041 GCATGAGCCCTTTATGCTTTCT 59.308 45.455 0.00 0.00 42.84 2.52
2134 2282 1.113788 TTCTTATGCAGCAATGGGCC 58.886 50.000 0.00 0.00 46.50 5.80
2232 2380 3.634448 TCAAAATCTGTTGCGAAAGGGAA 59.366 39.130 0.00 0.00 0.00 3.97
2259 2407 1.134848 GTTGTTTCCCAGCAACAGCAA 60.135 47.619 0.00 0.00 43.03 3.91
2578 2726 1.065564 AGTCCTGATCTGGAGCAAAGC 60.066 52.381 20.72 8.76 36.69 3.51
2721 2869 1.630126 CCACTGCCTACTCCATGCCT 61.630 60.000 0.00 0.00 0.00 4.75
2807 2955 0.247460 CATTCTCAGTGCTGGACCGA 59.753 55.000 0.00 0.00 0.00 4.69
2834 2982 2.376518 AGTGACAAACCACCATCTGGAT 59.623 45.455 2.55 0.00 43.95 3.41
3016 3164 4.521146 CAAGTCCAACAGATGATAAGCCT 58.479 43.478 0.00 0.00 0.00 4.58
3077 3225 1.464722 CCTTGGGAAGGCTGGGAAA 59.535 57.895 0.00 0.00 42.78 3.13
3155 3303 3.576356 CGGTGCATAGCAAGGCCG 61.576 66.667 0.00 5.36 41.47 6.13
3427 3575 3.462579 AGCAAGATGGGAGGAGATTCATT 59.537 43.478 0.00 0.00 0.00 2.57
3486 3635 2.695147 CAGGAGGGCACTTGTTTCTTTT 59.305 45.455 0.00 0.00 0.00 2.27
3509 3658 1.709147 CGCTGTAGCTGTGGGATTGC 61.709 60.000 0.00 0.00 39.32 3.56
3544 3693 5.480772 CCATCCCTATTGTCTATAACGGTCT 59.519 44.000 0.00 0.00 0.00 3.85
3545 3694 6.390721 CATCCCTATTGTCTATAACGGTCTG 58.609 44.000 0.00 0.00 0.00 3.51
3546 3695 5.452255 TCCCTATTGTCTATAACGGTCTGT 58.548 41.667 0.00 0.00 0.00 3.41
3547 3696 5.533903 TCCCTATTGTCTATAACGGTCTGTC 59.466 44.000 0.00 0.00 0.00 3.51
3548 3697 5.450171 CCTATTGTCTATAACGGTCTGTCG 58.550 45.833 0.00 0.00 0.00 4.35
3549 3698 3.770263 TTGTCTATAACGGTCTGTCGG 57.230 47.619 0.00 0.00 0.00 4.79
3550 3699 2.715046 TGTCTATAACGGTCTGTCGGT 58.285 47.619 0.00 0.00 0.00 4.69
3551 3700 2.679837 TGTCTATAACGGTCTGTCGGTC 59.320 50.000 0.00 0.00 0.00 4.79
3590 3739 2.956987 CCCAGAGCCAAAACTGCG 59.043 61.111 0.00 0.00 33.40 5.18
3757 3913 3.675225 AGTGTTGAACTGTCGATTCATCG 59.325 43.478 2.62 2.62 44.06 3.84
3785 3941 6.812160 GTCACAGGGTGTTTGTTCTATACTAG 59.188 42.308 0.00 0.00 34.79 2.57
3786 3942 6.070995 TCACAGGGTGTTTGTTCTATACTAGG 60.071 42.308 0.00 0.00 34.79 3.02
3787 3943 6.021030 ACAGGGTGTTTGTTCTATACTAGGA 58.979 40.000 0.00 0.00 0.00 2.94
3788 3944 6.154706 ACAGGGTGTTTGTTCTATACTAGGAG 59.845 42.308 0.00 0.00 0.00 3.69
3789 3945 6.154706 CAGGGTGTTTGTTCTATACTAGGAGT 59.845 42.308 0.00 0.00 0.00 3.85
3790 3946 7.341256 CAGGGTGTTTGTTCTATACTAGGAGTA 59.659 40.741 0.00 0.00 34.82 2.59
3797 3953 8.749026 TTGTTCTATACTAGGAGTACAAGGAG 57.251 38.462 0.00 0.00 32.84 3.69
3861 4017 7.375053 TGTGCTTTTCTGGGTGATTTATTTAC 58.625 34.615 0.00 0.00 0.00 2.01
3870 4026 5.297278 TGGGTGATTTATTTACGCGCTTTAT 59.703 36.000 5.73 0.00 0.00 1.40
3882 4038 0.921347 CGCTTTATGTCGTTCCGAGG 59.079 55.000 0.00 0.00 36.23 4.63
3891 4047 3.041940 GTTCCGAGGTGTGCCACG 61.042 66.667 0.00 0.00 46.15 4.94
3896 4052 2.421739 GAGGTGTGCCACGACACT 59.578 61.111 5.18 0.00 44.81 3.55
3897 4053 1.956170 GAGGTGTGCCACGACACTG 60.956 63.158 5.18 0.00 44.81 3.66
3898 4054 3.649986 GGTGTGCCACGACACTGC 61.650 66.667 5.18 1.53 44.81 4.40
3899 4055 2.894879 GTGTGCCACGACACTGCA 60.895 61.111 8.86 0.00 42.58 4.41
3900 4056 2.124942 TGTGCCACGACACTGCAA 60.125 55.556 8.86 0.00 41.30 4.08
3902 4058 3.279116 TGCCACGACACTGCAAGC 61.279 61.111 0.00 0.00 37.60 4.01
3903 4059 3.279116 GCCACGACACTGCAAGCA 61.279 61.111 0.00 0.00 37.60 3.91
3904 4060 2.620112 GCCACGACACTGCAAGCAT 61.620 57.895 0.00 0.00 37.60 3.79
3905 4061 1.208358 CCACGACACTGCAAGCATG 59.792 57.895 0.00 0.00 37.60 4.06
3907 4063 0.308684 CACGACACTGCAAGCATGTT 59.691 50.000 10.07 0.00 37.60 2.71
3908 4064 1.024271 ACGACACTGCAAGCATGTTT 58.976 45.000 10.07 0.00 37.60 2.83
3909 4065 2.032117 CACGACACTGCAAGCATGTTTA 60.032 45.455 0.00 0.00 37.60 2.01
3910 4066 2.616376 ACGACACTGCAAGCATGTTTAA 59.384 40.909 0.00 0.00 37.60 1.52
3911 4067 3.253188 ACGACACTGCAAGCATGTTTAAT 59.747 39.130 0.00 0.00 37.60 1.40
3912 4068 4.454161 ACGACACTGCAAGCATGTTTAATA 59.546 37.500 0.00 0.00 37.60 0.98
3913 4069 4.788100 CGACACTGCAAGCATGTTTAATAC 59.212 41.667 0.00 0.00 37.60 1.89
3914 4070 5.390885 CGACACTGCAAGCATGTTTAATACT 60.391 40.000 0.00 0.00 37.60 2.12
3915 4071 5.942872 ACACTGCAAGCATGTTTAATACTC 58.057 37.500 0.00 0.00 37.60 2.59
3916 4072 5.023920 CACTGCAAGCATGTTTAATACTCG 58.976 41.667 0.00 0.00 37.60 4.18
3917 4073 4.695455 ACTGCAAGCATGTTTAATACTCGT 59.305 37.500 0.00 0.00 37.60 4.18
3918 4074 5.872617 ACTGCAAGCATGTTTAATACTCGTA 59.127 36.000 0.00 0.00 37.60 3.43
3919 4075 6.538742 ACTGCAAGCATGTTTAATACTCGTAT 59.461 34.615 0.00 0.00 37.60 3.06
3920 4076 7.709182 ACTGCAAGCATGTTTAATACTCGTATA 59.291 33.333 0.00 0.00 37.60 1.47
3921 4077 8.601845 TGCAAGCATGTTTAATACTCGTATAT 57.398 30.769 0.00 0.00 0.00 0.86
3922 4078 8.708742 TGCAAGCATGTTTAATACTCGTATATC 58.291 33.333 0.00 0.00 0.00 1.63
3962 4118 1.153549 GCCCGTCTAGCTCAGTTGG 60.154 63.158 0.00 0.00 0.00 3.77
4030 4186 2.671619 GCTGCAAAGTGGCCGGTA 60.672 61.111 1.90 0.00 0.00 4.02
4063 4560 6.703165 AGTCCTAACTTGTTAAACTAACGGTG 59.297 38.462 6.49 0.00 41.50 4.94
4098 4595 2.607750 TTCGCTGGGAGGGAGCTT 60.608 61.111 0.00 0.00 38.45 3.74
4150 4648 5.064579 TCGTGATCAAACGCATGACATTTAT 59.935 36.000 0.00 0.00 43.26 1.40
4151 4649 5.738693 CGTGATCAAACGCATGACATTTATT 59.261 36.000 0.00 0.00 36.65 1.40
4152 4650 6.251163 CGTGATCAAACGCATGACATTTATTT 59.749 34.615 0.00 0.00 36.65 1.40
4153 4651 7.427895 CGTGATCAAACGCATGACATTTATTTA 59.572 33.333 0.00 0.00 36.65 1.40
4154 4652 9.071221 GTGATCAAACGCATGACATTTATTTAA 57.929 29.630 0.00 0.00 30.82 1.52
4155 4653 9.288124 TGATCAAACGCATGACATTTATTTAAG 57.712 29.630 0.00 0.00 30.82 1.85
4156 4654 9.502145 GATCAAACGCATGACATTTATTTAAGA 57.498 29.630 0.00 0.00 30.82 2.10
4157 4655 9.853555 ATCAAACGCATGACATTTATTTAAGAA 57.146 25.926 0.00 0.00 30.82 2.52
4158 4656 9.340695 TCAAACGCATGACATTTATTTAAGAAG 57.659 29.630 0.00 0.00 0.00 2.85
4159 4657 9.128107 CAAACGCATGACATTTATTTAAGAAGT 57.872 29.630 0.00 0.00 0.00 3.01
4285 4879 2.477825 CAGTATTCCAGGTGATCAGCG 58.522 52.381 18.64 13.25 0.00 5.18
4306 4900 3.149981 GTCACTTCTTTTGGCTAGCCTT 58.850 45.455 33.07 5.70 36.94 4.35
4307 4901 4.324267 GTCACTTCTTTTGGCTAGCCTTA 58.676 43.478 33.07 19.02 36.94 2.69
4309 4903 3.691609 CACTTCTTTTGGCTAGCCTTAGG 59.308 47.826 33.07 20.56 36.94 2.69
4310 4904 3.587506 ACTTCTTTTGGCTAGCCTTAGGA 59.412 43.478 33.07 22.33 36.94 2.94
4311 4905 4.042934 ACTTCTTTTGGCTAGCCTTAGGAA 59.957 41.667 33.07 26.65 36.94 3.36
4312 4906 4.650972 TCTTTTGGCTAGCCTTAGGAAA 57.349 40.909 33.07 21.53 36.94 3.13
4313 4907 4.589908 TCTTTTGGCTAGCCTTAGGAAAG 58.410 43.478 33.07 27.76 36.94 2.62
4344 4939 6.933514 ATGTAACTGGTTCCATCCAAATTT 57.066 33.333 0.00 0.00 37.01 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 0.670546 CGCTCCACATTGAAGTCGGT 60.671 55.000 0.00 0.00 0.00 4.69
105 106 0.704076 CCCCAAACCATCCTCCTTGA 59.296 55.000 0.00 0.00 0.00 3.02
116 117 3.002583 CATGGCCCACCCCAAACC 61.003 66.667 0.00 0.00 38.61 3.27
154 155 2.539338 GGCGTTCGGACAGCAACAA 61.539 57.895 11.75 0.00 0.00 2.83
155 156 2.970324 GGCGTTCGGACAGCAACA 60.970 61.111 11.75 0.00 0.00 3.33
156 157 3.723348 GGGCGTTCGGACAGCAAC 61.723 66.667 11.75 2.12 0.00 4.17
157 158 4.243008 TGGGCGTTCGGACAGCAA 62.243 61.111 11.75 0.00 0.00 3.91
160 161 1.841663 CTTTGTGGGCGTTCGGACAG 61.842 60.000 0.00 0.00 0.00 3.51
181 182 0.405585 ACTGGAGACAAACATGGGGG 59.594 55.000 0.00 0.00 42.06 5.40
186 187 3.953612 TCTGCAAAACTGGAGACAAACAT 59.046 39.130 0.00 0.00 42.06 2.71
187 188 3.351740 TCTGCAAAACTGGAGACAAACA 58.648 40.909 0.00 0.00 42.06 2.83
192 201 4.336713 ACTTTCTTCTGCAAAACTGGAGAC 59.663 41.667 0.00 0.00 36.01 3.36
200 209 3.181501 CGGACACACTTTCTTCTGCAAAA 60.182 43.478 0.00 0.00 0.00 2.44
206 215 1.070289 GGTCCGGACACACTTTCTTCT 59.930 52.381 34.40 0.00 0.00 2.85
221 230 4.394712 GGTCTGCAGGGTGGTCCG 62.395 72.222 15.13 0.00 41.52 4.79
227 236 3.321648 TGCATCGGTCTGCAGGGT 61.322 61.111 15.13 0.00 46.76 4.34
242 251 1.303561 TCATGCAAGGTGGTCCTGC 60.304 57.895 0.00 0.00 44.35 4.85
243 252 0.250858 TGTCATGCAAGGTGGTCCTG 60.251 55.000 0.00 0.00 44.35 3.86
250 259 1.761449 TGTGTTGTGTCATGCAAGGT 58.239 45.000 0.00 0.00 0.00 3.50
258 267 0.756294 AGTCGGGATGTGTTGTGTCA 59.244 50.000 0.00 0.00 0.00 3.58
260 269 0.884704 GCAGTCGGGATGTGTTGTGT 60.885 55.000 0.00 0.00 0.00 3.72
271 280 1.375396 TTTGGATCACGCAGTCGGG 60.375 57.895 0.00 0.00 41.61 5.14
277 286 3.233684 TGTATACGTTTGGATCACGCA 57.766 42.857 0.00 0.00 41.53 5.24
295 304 3.871463 GCATCTCCAACACTGATCCTTGT 60.871 47.826 0.00 0.00 0.00 3.16
297 306 2.356535 GGCATCTCCAACACTGATCCTT 60.357 50.000 0.00 0.00 34.01 3.36
304 322 2.269940 AGTAAGGGCATCTCCAACACT 58.730 47.619 0.00 0.00 36.21 3.55
318 336 5.711976 CCAGGCATATTTGGGAATAGTAAGG 59.288 44.000 0.00 0.00 31.58 2.69
444 463 3.202151 CCACACCCCTTATACTGTCCATT 59.798 47.826 0.00 0.00 0.00 3.16
448 467 1.134189 GGCCACACCCCTTATACTGTC 60.134 57.143 0.00 0.00 0.00 3.51
466 485 4.468689 GCTACTCCCCGGTGTGGC 62.469 72.222 8.28 8.28 38.48 5.01
467 486 3.782443 GGCTACTCCCCGGTGTGG 61.782 72.222 0.00 0.00 37.55 4.17
471 490 3.480133 GCATGGCTACTCCCCGGT 61.480 66.667 0.00 0.00 0.00 5.28
473 492 2.270874 AAAGGCATGGCTACTCCCCG 62.271 60.000 23.63 0.00 0.00 5.73
474 493 0.466372 GAAAGGCATGGCTACTCCCC 60.466 60.000 23.63 4.64 0.00 4.81
475 494 0.255890 TGAAAGGCATGGCTACTCCC 59.744 55.000 23.63 10.26 0.00 4.30
494 513 2.084546 GATGCGGTGCTTTTCCTAACT 58.915 47.619 0.00 0.00 0.00 2.24
500 519 2.202479 GGCGATGCGGTGCTTTTC 60.202 61.111 0.00 0.00 0.00 2.29
533 552 4.785453 GAAGGTGCAGGGAGGGCG 62.785 72.222 0.00 0.00 0.00 6.13
553 572 1.086696 GATTTTAGGCTCGCTGTGCA 58.913 50.000 0.00 0.00 0.00 4.57
563 582 1.529826 CGTGCGCTTCTGATTTTAGGC 60.530 52.381 9.73 0.00 0.00 3.93
566 585 1.393539 GCTCGTGCGCTTCTGATTTTA 59.606 47.619 9.73 0.00 0.00 1.52
619 639 3.686726 GCAGACTCGGTTTGATCTTCAAT 59.313 43.478 0.00 0.00 36.11 2.57
621 641 2.300152 AGCAGACTCGGTTTGATCTTCA 59.700 45.455 0.00 0.00 0.00 3.02
629 649 1.674057 CAGGGAGCAGACTCGGTTT 59.326 57.895 0.00 0.00 44.48 3.27
631 651 3.386237 GCAGGGAGCAGACTCGGT 61.386 66.667 0.00 0.00 44.48 4.69
632 652 4.504916 CGCAGGGAGCAGACTCGG 62.505 72.222 0.00 0.00 44.48 4.63
654 674 2.285368 TCCGCCCTCCCACTCATT 60.285 61.111 0.00 0.00 0.00 2.57
668 688 1.910580 TTTTCTAGCAGCCCCCTCCG 61.911 60.000 0.00 0.00 0.00 4.63
705 727 1.249491 CGAATCGCGAACTACGACAAG 59.751 52.381 15.24 0.00 43.23 3.16
708 730 0.522076 ACCGAATCGCGAACTACGAC 60.522 55.000 15.24 0.00 43.23 4.34
709 731 0.521867 CACCGAATCGCGAACTACGA 60.522 55.000 15.24 0.00 45.77 3.43
712 734 4.082192 GCACCGAATCGCGAACTA 57.918 55.556 15.24 0.00 44.57 2.24
733 755 0.110056 CTTTGTGTCCACATCAGCGC 60.110 55.000 0.00 0.00 41.52 5.92
774 796 2.837532 ATTGCTTGCCGTCCATTTTT 57.162 40.000 0.00 0.00 0.00 1.94
811 834 5.971202 GTGCGGGTATTTGTGAATATTTCAG 59.029 40.000 0.00 0.00 41.01 3.02
813 836 4.967575 CGTGCGGGTATTTGTGAATATTTC 59.032 41.667 0.00 0.00 30.84 2.17
859 885 0.398098 GAGACGGGACATAGGGGGAA 60.398 60.000 0.00 0.00 0.00 3.97
860 886 1.232216 GAGACGGGACATAGGGGGA 59.768 63.158 0.00 0.00 0.00 4.81
861 887 1.837499 GGAGACGGGACATAGGGGG 60.837 68.421 0.00 0.00 0.00 5.40
866 892 0.629596 AGGAGTGGAGACGGGACATA 59.370 55.000 0.00 0.00 0.00 2.29
998 1061 0.911045 TCCCTGGCTCTTCTGCATCA 60.911 55.000 0.00 0.00 34.04 3.07
1265 1344 2.652530 CCGAACGAGACGGGGAAA 59.347 61.111 10.58 0.00 45.65 3.13
1280 1359 2.291741 CGCTAACCTAACCTACCTACCG 59.708 54.545 0.00 0.00 0.00 4.02
1287 1366 4.441079 GCTTCACATCGCTAACCTAACCTA 60.441 45.833 0.00 0.00 0.00 3.08
1288 1367 3.679083 GCTTCACATCGCTAACCTAACCT 60.679 47.826 0.00 0.00 0.00 3.50
1289 1368 2.608090 GCTTCACATCGCTAACCTAACC 59.392 50.000 0.00 0.00 0.00 2.85
1290 1369 2.281762 CGCTTCACATCGCTAACCTAAC 59.718 50.000 0.00 0.00 0.00 2.34
1291 1370 2.536365 CGCTTCACATCGCTAACCTAA 58.464 47.619 0.00 0.00 0.00 2.69
1430 1511 8.136165 CAGTACAGTACAGTATTATCCAGGAAC 58.864 40.741 13.37 0.00 0.00 3.62
1479 1565 0.453390 CAGGAAAGAATTCGCTGCCC 59.547 55.000 0.00 0.00 36.36 5.36
1598 1705 1.045407 AAGGACACTACGAGGCACAA 58.955 50.000 0.00 0.00 0.00 3.33
1603 1710 4.641094 AGACATAGAAAGGACACTACGAGG 59.359 45.833 0.00 0.00 0.00 4.63
1604 1711 5.587043 AGAGACATAGAAAGGACACTACGAG 59.413 44.000 0.00 0.00 0.00 4.18
1606 1713 5.354513 TCAGAGACATAGAAAGGACACTACG 59.645 44.000 0.00 0.00 0.00 3.51
1607 1714 6.761099 TCAGAGACATAGAAAGGACACTAC 57.239 41.667 0.00 0.00 0.00 2.73
1608 1715 7.962995 ATTCAGAGACATAGAAAGGACACTA 57.037 36.000 0.00 0.00 0.00 2.74
1646 1761 3.321968 TCCATCCAATATCAGTCCAGACG 59.678 47.826 0.00 0.00 36.20 4.18
1693 1834 7.681939 AAGTGACTAAAGTTTCAGTTGACAA 57.318 32.000 0.00 0.00 34.70 3.18
1778 1920 7.917505 GCATTACTAATCCATTCCAAGAACAAG 59.082 37.037 0.00 0.00 0.00 3.16
1807 1949 1.066573 CAGCTTGACCGACAGAGGAAT 60.067 52.381 0.00 0.00 34.73 3.01
1825 1968 9.672086 GCTGTAACAGTAAAGATCTATCTACAG 57.328 37.037 0.00 7.89 35.61 2.74
1848 1996 1.710013 CAAATTGGCAAGCTCAGCTG 58.290 50.000 7.63 7.63 39.62 4.24
1853 2001 0.319405 ACCAGCAAATTGGCAAGCTC 59.681 50.000 7.75 0.00 42.18 4.09
1854 2002 0.760572 AACCAGCAAATTGGCAAGCT 59.239 45.000 7.75 6.34 42.18 3.74
1855 2003 1.150827 GAACCAGCAAATTGGCAAGC 58.849 50.000 7.75 3.75 42.18 4.01
1856 2004 2.825861 AGAACCAGCAAATTGGCAAG 57.174 45.000 7.75 0.00 42.18 4.01
1857 2005 4.888326 ATAAGAACCAGCAAATTGGCAA 57.112 36.364 7.75 0.68 42.18 4.52
1884 2032 0.178964 TGAGGGGCAAAAACAGGAGG 60.179 55.000 0.00 0.00 0.00 4.30
1944 2092 4.105217 TGTTCCCCTCTCGTGGATATAGTA 59.895 45.833 0.00 0.00 0.00 1.82
1955 2103 3.556999 TCTATCTCTTGTTCCCCTCTCG 58.443 50.000 0.00 0.00 0.00 4.04
1956 2104 5.011635 GGATTCTATCTCTTGTTCCCCTCTC 59.988 48.000 0.00 0.00 0.00 3.20
2034 2182 7.756395 TGCTTCAGAAAGAATGAAAGATTCT 57.244 32.000 0.00 0.00 39.82 2.40
2063 2211 0.106819 AAGGGCTCATGCTCATGTCC 60.107 55.000 9.41 11.01 43.51 4.02
2092 2240 5.250982 ACAAAATGAGTGATGATGAGAGCA 58.749 37.500 0.00 0.00 0.00 4.26
2134 2282 0.723981 GCGCTTGCTTAAGTCTGGAG 59.276 55.000 0.00 0.00 35.07 3.86
2232 2380 2.665165 TGCTGGGAAACAACTTGTCAT 58.335 42.857 0.00 0.00 0.00 3.06
2259 2407 2.301738 GGGCCTGCTGGAGGTAAGT 61.302 63.158 16.97 0.00 44.97 2.24
2513 2661 4.101645 TCCAAACAGGTAAATCGGGAAA 57.898 40.909 0.00 0.00 39.02 3.13
2578 2726 2.030805 CCTTGCTTCCTTTCCTTTCACG 60.031 50.000 0.00 0.00 0.00 4.35
2608 2756 1.480789 TGCTAGGATAAGGTGTCGCA 58.519 50.000 0.00 0.00 0.00 5.10
2721 2869 0.035317 ACCTCGCAATGCTGTCTTCA 59.965 50.000 2.94 0.00 0.00 3.02
2807 2955 1.837439 TGGTGGTTTGTCACTCTCAGT 59.163 47.619 0.00 0.00 37.75 3.41
2834 2982 3.516700 TCAGACAGCATTTCATCAGAGGA 59.483 43.478 0.00 0.00 0.00 3.71
3016 3164 0.178964 CCTTTGCTGGAAGGGGAACA 60.179 55.000 1.94 0.00 42.04 3.18
3077 3225 1.992557 TCCCTCCAGGTTATTGTTGCT 59.007 47.619 0.00 0.00 36.75 3.91
3082 3230 2.420129 CCGTCTTCCCTCCAGGTTATTG 60.420 54.545 0.00 0.00 36.75 1.90
3088 3236 0.036294 GTTTCCGTCTTCCCTCCAGG 60.036 60.000 0.00 0.00 0.00 4.45
3155 3303 1.482748 TTCCGGGGAGTACCAACCAC 61.483 60.000 0.00 0.00 42.91 4.16
3427 3575 1.683707 AGCCTCCTCGAGCATGTCA 60.684 57.895 6.99 0.00 0.00 3.58
3509 3658 4.202441 CAATAGGGATGGGTTTCAGTCTG 58.798 47.826 0.00 0.00 0.00 3.51
3544 3693 2.501316 ACATGATTGATGGAGACCGACA 59.499 45.455 0.00 0.00 36.23 4.35
3545 3694 3.185246 ACATGATTGATGGAGACCGAC 57.815 47.619 0.00 0.00 36.23 4.79
3546 3695 4.588528 TCATACATGATTGATGGAGACCGA 59.411 41.667 0.00 0.00 36.23 4.69
3547 3696 4.886579 TCATACATGATTGATGGAGACCG 58.113 43.478 0.00 0.00 36.23 4.79
3548 3697 5.699915 CACTCATACATGATTGATGGAGACC 59.300 44.000 0.00 0.00 39.10 3.85
3549 3698 5.178996 GCACTCATACATGATTGATGGAGAC 59.821 44.000 12.29 0.00 39.10 3.36
3550 3699 5.303165 GCACTCATACATGATTGATGGAGA 58.697 41.667 12.29 0.00 39.10 3.71
3551 3700 4.454847 GGCACTCATACATGATTGATGGAG 59.545 45.833 12.29 0.00 39.10 3.86
3757 3913 1.065551 GAACAAACACCCTGTGACTGC 59.934 52.381 0.49 0.00 36.96 4.40
3785 3941 1.409427 CCACCGATCTCCTTGTACTCC 59.591 57.143 0.00 0.00 0.00 3.85
3786 3942 1.202428 GCCACCGATCTCCTTGTACTC 60.202 57.143 0.00 0.00 0.00 2.59
3787 3943 0.824759 GCCACCGATCTCCTTGTACT 59.175 55.000 0.00 0.00 0.00 2.73
3788 3944 0.824759 AGCCACCGATCTCCTTGTAC 59.175 55.000 0.00 0.00 0.00 2.90
3789 3945 2.447408 TAGCCACCGATCTCCTTGTA 57.553 50.000 0.00 0.00 0.00 2.41
3790 3946 1.568504 TTAGCCACCGATCTCCTTGT 58.431 50.000 0.00 0.00 0.00 3.16
3797 3953 6.565999 GCAGTATGTTTTATTAGCCACCGATC 60.566 42.308 0.00 0.00 39.31 3.69
3861 4017 4.946766 GGAACGACATAAAGCGCG 57.053 55.556 0.00 0.00 0.00 6.86
3891 4047 5.942872 AGTATTAAACATGCTTGCAGTGTC 58.057 37.500 0.87 0.00 0.00 3.67
3895 4051 5.221891 ACGAGTATTAAACATGCTTGCAG 57.778 39.130 0.87 0.00 0.00 4.41
3896 4052 6.918892 ATACGAGTATTAAACATGCTTGCA 57.081 33.333 0.00 0.00 0.00 4.08
3897 4053 8.708742 TGATATACGAGTATTAAACATGCTTGC 58.291 33.333 0.73 0.00 0.00 4.01
3921 4077 9.555727 GGGCATTTAGTAAGATTAACTGTATGA 57.444 33.333 0.00 0.00 0.00 2.15
3922 4078 8.495949 CGGGCATTTAGTAAGATTAACTGTATG 58.504 37.037 0.00 0.00 0.00 2.39
3925 4081 6.412214 ACGGGCATTTAGTAAGATTAACTGT 58.588 36.000 0.00 0.00 0.00 3.55
3941 4097 0.905357 AACTGAGCTAGACGGGCATT 59.095 50.000 0.00 0.00 0.00 3.56
3944 4100 1.153549 CCAACTGAGCTAGACGGGC 60.154 63.158 0.00 0.00 0.00 6.13
4063 4560 2.848302 CGAACGTTCACCGGTTAGATAC 59.152 50.000 26.71 1.05 35.89 2.24
4098 4595 0.388907 CTTTTAGGTCGTTCGCCGGA 60.389 55.000 5.05 0.00 37.11 5.14
4150 4648 9.169592 AGTGCAGTGTAGTTTTTACTTCTTAAA 57.830 29.630 0.00 0.00 0.00 1.52
4151 4649 8.609176 CAGTGCAGTGTAGTTTTTACTTCTTAA 58.391 33.333 13.67 0.00 0.00 1.85
4152 4650 7.254658 GCAGTGCAGTGTAGTTTTTACTTCTTA 60.255 37.037 22.22 0.00 0.00 2.10
4153 4651 6.458342 GCAGTGCAGTGTAGTTTTTACTTCTT 60.458 38.462 22.22 0.00 0.00 2.52
4154 4652 5.007724 GCAGTGCAGTGTAGTTTTTACTTCT 59.992 40.000 22.22 0.00 0.00 2.85
4155 4653 5.205565 GCAGTGCAGTGTAGTTTTTACTTC 58.794 41.667 22.22 0.00 0.00 3.01
4156 4654 4.260620 CGCAGTGCAGTGTAGTTTTTACTT 60.261 41.667 22.22 0.00 0.00 2.24
4157 4655 3.247648 CGCAGTGCAGTGTAGTTTTTACT 59.752 43.478 22.22 0.00 0.00 2.24
4158 4656 3.001939 ACGCAGTGCAGTGTAGTTTTTAC 59.998 43.478 22.22 1.99 42.51 2.01
4159 4657 3.199677 ACGCAGTGCAGTGTAGTTTTTA 58.800 40.909 22.22 0.00 42.51 1.52
4160 4658 2.014128 ACGCAGTGCAGTGTAGTTTTT 58.986 42.857 22.22 0.00 42.51 1.94
4285 4879 2.784347 AGGCTAGCCAAAAGAAGTGAC 58.216 47.619 34.70 3.51 38.92 3.67
4306 4900 7.974504 ACCAGTTACATTCTTCTTCTTTCCTA 58.025 34.615 0.00 0.00 0.00 2.94
4307 4901 6.842676 ACCAGTTACATTCTTCTTCTTTCCT 58.157 36.000 0.00 0.00 0.00 3.36
4309 4903 7.228706 TGGAACCAGTTACATTCTTCTTCTTTC 59.771 37.037 0.00 0.00 0.00 2.62
4310 4904 7.060421 TGGAACCAGTTACATTCTTCTTCTTT 58.940 34.615 0.00 0.00 0.00 2.52
4311 4905 6.601332 TGGAACCAGTTACATTCTTCTTCTT 58.399 36.000 0.00 0.00 0.00 2.52
4312 4906 6.187727 TGGAACCAGTTACATTCTTCTTCT 57.812 37.500 0.00 0.00 0.00 2.85
4313 4907 6.094186 GGATGGAACCAGTTACATTCTTCTTC 59.906 42.308 9.56 0.00 43.77 2.87
4344 4939 1.189752 CTGCTTCACTGAGCTAGGGA 58.810 55.000 0.00 0.00 43.11 4.20


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

AutoCloner maintained by Alex Coulton.