Multiple sequence alignment - TraesCS5D01G563100

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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 TraesCS5D01G563100 chr5D 100.000 2333 0 0 1 2333 562409585 562411917 0.000000e+00 4309.0
1 TraesCS5D01G563100 chr5D 89.329 581 50 7 784 1357 167049882 167049307 0.000000e+00 719.0
2 TraesCS5D01G563100 chr5D 89.119 579 55 5 784 1356 420459358 420459934 0.000000e+00 713.0
3 TraesCS5D01G563100 chr2D 95.658 783 33 1 1 783 62497353 62498134 0.000000e+00 1256.0
4 TraesCS5D01G563100 chr2D 95.159 785 36 2 1 783 197937634 197936850 0.000000e+00 1238.0
5 TraesCS5D01G563100 chr2D 95.153 784 36 2 1 783 527376305 527377087 0.000000e+00 1236.0
6 TraesCS5D01G563100 chr2D 95.019 783 39 0 1 783 412545425 412546207 0.000000e+00 1230.0
7 TraesCS5D01G563100 chr2D 94.904 785 38 2 1 785 372649387 372648605 0.000000e+00 1227.0
8 TraesCS5D01G563100 chr2D 87.336 229 29 0 1548 1776 44233248 44233476 1.780000e-66 263.0
9 TraesCS5D01G563100 chr2D 83.448 290 38 3 1487 1776 44288028 44288307 6.390000e-66 261.0
10 TraesCS5D01G563100 chr2D 84.375 224 34 1 1554 1776 619270955 619271178 3.900000e-53 219.0
11 TraesCS5D01G563100 chr6D 95.530 783 35 0 1 783 276196454 276197236 0.000000e+00 1253.0
12 TraesCS5D01G563100 chr6D 95.281 784 35 2 1 784 263565742 263566523 0.000000e+00 1242.0
13 TraesCS5D01G563100 chr6D 95.153 784 37 1 1 784 136605240 136604458 0.000000e+00 1236.0
14 TraesCS5D01G563100 chr3D 95.495 777 33 1 1 777 402395813 402396587 0.000000e+00 1240.0
15 TraesCS5D01G563100 chr3D 89.157 581 55 6 784 1357 126364050 126364629 0.000000e+00 717.0
16 TraesCS5D01G563100 chr7B 86.848 844 50 16 1355 2165 233275 232460 0.000000e+00 887.0
17 TraesCS5D01G563100 chr3B 92.228 579 36 6 784 1356 744397649 744398224 0.000000e+00 811.0
18 TraesCS5D01G563100 chr3B 91.267 584 38 8 784 1358 270216895 270216316 0.000000e+00 784.0
19 TraesCS5D01G563100 chr3B 89.483 580 54 3 784 1357 670760174 670759596 0.000000e+00 726.0
20 TraesCS5D01G563100 chr1B 90.361 581 49 4 784 1358 611790370 611790949 0.000000e+00 756.0
21 TraesCS5D01G563100 chr5A 90.172 580 50 3 784 1357 563563236 563562658 0.000000e+00 749.0
22 TraesCS5D01G563100 chr5A 89.845 581 50 4 784 1357 563443389 563442811 0.000000e+00 737.0
23 TraesCS5D01G563100 chr3A 85.824 261 36 1 1517 1776 741675468 741675728 2.280000e-70 276.0
24 TraesCS5D01G563100 chrUn 83.448 290 38 3 1487 1776 397276708 397276987 6.390000e-66 261.0
25 TraesCS5D01G563100 chrUn 83.103 290 39 3 1487 1776 253925781 253926060 2.980000e-64 255.0
26 TraesCS5D01G563100 chr6B 84.549 233 36 0 1544 1776 60930701 60930933 5.010000e-57 231.0
27 TraesCS5D01G563100 chr4D 83.475 236 37 2 1541 1776 396596539 396596306 3.900000e-53 219.0
28 TraesCS5D01G563100 chr5B 84.239 184 22 3 1986 2165 712868653 712868833 3.080000e-39 172.0
29 TraesCS5D01G563100 chr5B 93.103 87 5 1 1356 1442 712866690 712866775 2.430000e-25 126.0
30 TraesCS5D01G563100 chr5B 88.350 103 8 1 1710 1808 712868443 712868545 1.130000e-23 121.0
31 TraesCS5D01G563100 chr7D 88.889 72 7 1 2262 2333 6135009 6134939 1.150000e-13 87.9
32 TraesCS5D01G563100 chr1A 85.507 69 10 0 2262 2330 549591744 549591676 3.220000e-09 73.1
33 TraesCS5D01G563100 chr7A 90.196 51 5 0 2262 2312 103149056 103149106 1.500000e-07 67.6


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 TraesCS5D01G563100 chr5D 562409585 562411917 2332 False 4309 4309 100.000 1 2333 1 chr5D.!!$F2 2332
1 TraesCS5D01G563100 chr5D 167049307 167049882 575 True 719 719 89.329 784 1357 1 chr5D.!!$R1 573
2 TraesCS5D01G563100 chr5D 420459358 420459934 576 False 713 713 89.119 784 1356 1 chr5D.!!$F1 572
3 TraesCS5D01G563100 chr2D 62497353 62498134 781 False 1256 1256 95.658 1 783 1 chr2D.!!$F3 782
4 TraesCS5D01G563100 chr2D 197936850 197937634 784 True 1238 1238 95.159 1 783 1 chr2D.!!$R1 782
5 TraesCS5D01G563100 chr2D 527376305 527377087 782 False 1236 1236 95.153 1 783 1 chr2D.!!$F5 782
6 TraesCS5D01G563100 chr2D 412545425 412546207 782 False 1230 1230 95.019 1 783 1 chr2D.!!$F4 782
7 TraesCS5D01G563100 chr2D 372648605 372649387 782 True 1227 1227 94.904 1 785 1 chr2D.!!$R2 784
8 TraesCS5D01G563100 chr6D 276196454 276197236 782 False 1253 1253 95.530 1 783 1 chr6D.!!$F2 782
9 TraesCS5D01G563100 chr6D 263565742 263566523 781 False 1242 1242 95.281 1 784 1 chr6D.!!$F1 783
10 TraesCS5D01G563100 chr6D 136604458 136605240 782 True 1236 1236 95.153 1 784 1 chr6D.!!$R1 783
11 TraesCS5D01G563100 chr3D 402395813 402396587 774 False 1240 1240 95.495 1 777 1 chr3D.!!$F2 776
12 TraesCS5D01G563100 chr3D 126364050 126364629 579 False 717 717 89.157 784 1357 1 chr3D.!!$F1 573
13 TraesCS5D01G563100 chr7B 232460 233275 815 True 887 887 86.848 1355 2165 1 chr7B.!!$R1 810
14 TraesCS5D01G563100 chr3B 744397649 744398224 575 False 811 811 92.228 784 1356 1 chr3B.!!$F1 572
15 TraesCS5D01G563100 chr3B 270216316 270216895 579 True 784 784 91.267 784 1358 1 chr3B.!!$R1 574
16 TraesCS5D01G563100 chr3B 670759596 670760174 578 True 726 726 89.483 784 1357 1 chr3B.!!$R2 573
17 TraesCS5D01G563100 chr1B 611790370 611790949 579 False 756 756 90.361 784 1358 1 chr1B.!!$F1 574
18 TraesCS5D01G563100 chr5A 563562658 563563236 578 True 749 749 90.172 784 1357 1 chr5A.!!$R2 573
19 TraesCS5D01G563100 chr5A 563442811 563443389 578 True 737 737 89.845 784 1357 1 chr5A.!!$R1 573

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
924 928 0.616395 TGCTGAAGGGTACGATGGGA 60.616 55.0 0.0 0.0 0.0 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2075 2108 0.318784 GACGCTATAGCCCGTTCCTG 60.319 60.0 19.0 4.9 37.87 3.86 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
70 71 1.055040 GGGCTACTGATCATCCAGCT 58.945 55.000 17.73 0.00 37.68 4.24
85 86 1.408405 CCAGCTCTCCACCGTCTACTA 60.408 57.143 0.00 0.00 0.00 1.82
134 135 3.402681 CATCCAGCCCTCCACGGT 61.403 66.667 0.00 0.00 0.00 4.83
350 352 3.885724 TCAGTTAACAGCCATCGATCA 57.114 42.857 8.61 0.00 0.00 2.92
393 395 1.153706 GCCTGCAATGCAATCGCTT 60.154 52.632 9.92 0.00 38.41 4.68
394 396 0.738412 GCCTGCAATGCAATCGCTTT 60.738 50.000 9.92 0.00 38.41 3.51
474 476 2.230940 GCGCGTGCGTGTATGAGAT 61.231 57.895 16.27 0.00 42.09 2.75
546 548 1.632589 ATTTTCCTTGCCCTCGCTTT 58.367 45.000 0.00 0.00 35.36 3.51
676 679 1.898863 AGGAGCCCACCACATCTATT 58.101 50.000 0.00 0.00 0.00 1.73
680 683 3.560025 GGAGCCCACCACATCTATTATGG 60.560 52.174 0.00 0.00 39.57 2.74
688 691 3.835978 CCACATCTATTATGGTACCGGGA 59.164 47.826 6.32 0.00 0.00 5.14
924 928 0.616395 TGCTGAAGGGTACGATGGGA 60.616 55.000 0.00 0.00 0.00 4.37
957 961 5.503927 AGAGACGACACTGGTAGGTTTATA 58.496 41.667 0.00 0.00 0.00 0.98
979 983 3.267812 AGCAGGAGGAAATGGAAAGATCA 59.732 43.478 0.00 0.00 0.00 2.92
987 991 6.784031 AGGAAATGGAAAGATCAACTACTGT 58.216 36.000 0.00 0.00 0.00 3.55
1117 1121 2.203252 CCATGCATGACGGAGGGG 60.203 66.667 28.31 4.53 32.40 4.79
1151 1161 2.253603 GGCAATTTGCGATGACTGTTC 58.746 47.619 14.83 0.00 46.21 3.18
1238 1249 5.415415 GCACATGAACTTGCTAGATTAGG 57.585 43.478 0.00 0.00 35.74 2.69
1264 1275 2.380084 TTCTTCGACTTCGGATTGGG 57.620 50.000 0.00 0.00 40.29 4.12
1291 1302 7.386851 TGAGGAACCTCTTAGTGAAATTGTAG 58.613 38.462 19.61 0.00 43.12 2.74
1315 1326 5.652744 GTTTCTCACAAACGATGTACTGT 57.347 39.130 0.00 0.00 41.46 3.55
1358 1369 9.577110 AAGTTTCCGTTTTAACTAAGAAAAAGG 57.423 29.630 6.51 6.51 42.99 3.11
1359 1370 8.742777 AGTTTCCGTTTTAACTAAGAAAAAGGT 58.257 29.630 11.00 0.00 42.53 3.50
1360 1371 9.013490 GTTTCCGTTTTAACTAAGAAAAAGGTC 57.987 33.333 11.00 3.06 42.53 3.85
1361 1372 6.947258 TCCGTTTTAACTAAGAAAAAGGTCG 58.053 36.000 11.00 0.00 42.53 4.79
1371 1382 0.250770 AAAAAGGTCGCCTCCTGGTC 60.251 55.000 0.00 0.00 37.93 4.02
1378 1389 2.799371 GCCTCCTGGTCGACTACG 59.201 66.667 16.46 3.34 41.26 3.51
1387 1398 1.526575 GGTCGACTACGTCAACCCCA 61.527 60.000 16.46 0.00 40.69 4.96
1394 1405 4.179298 GACTACGTCAACCCCATAAAGTC 58.821 47.826 0.00 0.00 32.09 3.01
1400 1411 4.681244 CGTCAACCCCATAAAGTCGGATTA 60.681 45.833 0.00 0.00 0.00 1.75
1401 1412 4.814771 GTCAACCCCATAAAGTCGGATTAG 59.185 45.833 0.00 0.00 0.00 1.73
1435 1446 2.674852 CACAGCTGCACGAAATACATCT 59.325 45.455 15.27 0.00 0.00 2.90
1471 1482 1.152673 CCTTAGGAGGGCATTGGGC 60.153 63.158 0.00 0.00 39.55 5.36
1511 1525 3.570125 GGGGGAATCGATTCAAGGATTTC 59.430 47.826 32.92 16.61 38.53 2.17
1512 1526 3.251004 GGGGAATCGATTCAAGGATTTCG 59.749 47.826 32.92 0.00 38.53 3.46
1513 1527 3.304057 GGGAATCGATTCAAGGATTTCGC 60.304 47.826 32.92 15.38 38.53 4.70
1514 1528 3.304057 GGAATCGATTCAAGGATTTCGCC 60.304 47.826 32.92 13.13 38.53 5.54
1515 1529 1.286501 TCGATTCAAGGATTTCGCCG 58.713 50.000 0.00 0.00 0.00 6.46
1516 1530 0.316196 CGATTCAAGGATTTCGCCGC 60.316 55.000 0.00 0.00 0.00 6.53
1517 1531 0.029433 GATTCAAGGATTTCGCCGCC 59.971 55.000 0.00 0.00 0.00 6.13
1518 1532 1.714899 ATTCAAGGATTTCGCCGCCG 61.715 55.000 0.00 0.00 0.00 6.46
1519 1533 4.536687 CAAGGATTTCGCCGCCGC 62.537 66.667 0.00 0.00 0.00 6.53
1522 1536 4.829518 GGATTTCGCCGCCGCAAC 62.830 66.667 0.00 0.00 34.03 4.17
1552 1566 5.188434 TCAAGAGGGTTTCATCATCATCAC 58.812 41.667 0.00 0.00 0.00 3.06
1586 1600 5.765182 CACCTCATCCCTATCCATTTGTAAC 59.235 44.000 0.00 0.00 0.00 2.50
1590 1604 6.356556 TCATCCCTATCCATTTGTAACACAG 58.643 40.000 0.00 0.00 0.00 3.66
1596 1610 7.065803 CCCTATCCATTTGTAACACAGTAGTTG 59.934 40.741 0.00 0.00 33.07 3.16
1601 1615 6.293407 CCATTTGTAACACAGTAGTTGGAGTG 60.293 42.308 0.00 0.00 37.95 3.51
1673 1687 1.938577 CTCATCTCATTTGTGCCCTCG 59.061 52.381 0.00 0.00 0.00 4.63
1699 1713 2.029739 GCGAGTAATTCCCCTAGCTCTC 60.030 54.545 0.00 0.00 0.00 3.20
1711 1725 3.278574 CCTAGCTCTCGAGGATATGGAG 58.721 54.545 13.56 1.64 37.28 3.86
1712 1726 2.214376 AGCTCTCGAGGATATGGAGG 57.786 55.000 13.56 0.00 34.67 4.30
1713 1727 1.707989 AGCTCTCGAGGATATGGAGGA 59.292 52.381 13.56 0.00 34.67 3.71
1714 1728 2.109128 AGCTCTCGAGGATATGGAGGAA 59.891 50.000 13.56 0.00 34.67 3.36
1715 1729 3.096092 GCTCTCGAGGATATGGAGGAAT 58.904 50.000 13.56 0.00 34.67 3.01
1780 1794 6.818644 TCCTCTTTGTATGTCTATGTTTGAGC 59.181 38.462 0.00 0.00 0.00 4.26
1851 1865 1.452651 CGCCATTGGACTCCTGCAT 60.453 57.895 6.95 0.00 0.00 3.96
1852 1866 1.721664 CGCCATTGGACTCCTGCATG 61.722 60.000 6.95 0.00 0.00 4.06
1853 1867 2.012902 GCCATTGGACTCCTGCATGC 62.013 60.000 11.82 11.82 0.00 4.06
1854 1868 0.681887 CCATTGGACTCCTGCATGCA 60.682 55.000 21.29 21.29 0.00 3.96
1864 1878 2.512286 TGCATGCAGCTCGGCTAC 60.512 61.111 18.46 0.00 45.94 3.58
1908 1941 1.326213 CCCTCGCCAGACATCACTCT 61.326 60.000 0.00 0.00 0.00 3.24
1955 1988 2.433664 CACGCGTGGGGGAAGTAC 60.434 66.667 31.15 0.00 0.00 2.73
1991 2024 1.280746 CTCCTTGCAACGCACACAG 59.719 57.895 0.00 0.00 38.71 3.66
1992 2025 1.153269 TCCTTGCAACGCACACAGA 60.153 52.632 0.00 0.00 38.71 3.41
1993 2026 0.534877 TCCTTGCAACGCACACAGAT 60.535 50.000 0.00 0.00 38.71 2.90
1994 2027 1.155889 CCTTGCAACGCACACAGATA 58.844 50.000 0.00 0.00 38.71 1.98
2002 2035 0.593518 CGCACACAGATAGAGCGGAG 60.594 60.000 0.00 0.00 44.20 4.63
2006 2039 2.166459 CACACAGATAGAGCGGAGGAAA 59.834 50.000 0.00 0.00 0.00 3.13
2017 2050 2.000447 GCGGAGGAAATGTCACTGTAC 59.000 52.381 0.00 0.00 0.00 2.90
2025 2058 2.770164 ATGTCACTGTACCTGGAAGC 57.230 50.000 0.00 0.00 0.00 3.86
2063 2096 0.618458 TGAAGCATTCCGGGTTAGCT 59.382 50.000 0.00 3.43 46.93 3.32
2064 2097 1.834896 TGAAGCATTCCGGGTTAGCTA 59.165 47.619 0.00 0.00 46.93 3.32
2073 2106 1.971357 CCGGGTTAGCTACCTCATCAT 59.029 52.381 10.83 0.00 46.86 2.45
2074 2107 3.162666 CCGGGTTAGCTACCTCATCATA 58.837 50.000 10.83 0.00 46.86 2.15
2075 2108 3.056749 CCGGGTTAGCTACCTCATCATAC 60.057 52.174 10.83 0.00 46.86 2.39
2076 2109 3.572682 CGGGTTAGCTACCTCATCATACA 59.427 47.826 10.83 0.00 46.86 2.29
2077 2110 4.321304 CGGGTTAGCTACCTCATCATACAG 60.321 50.000 10.83 0.00 46.86 2.74
2078 2111 4.021016 GGGTTAGCTACCTCATCATACAGG 60.021 50.000 10.83 0.00 46.86 4.00
2080 2113 5.304614 GGTTAGCTACCTCATCATACAGGAA 59.695 44.000 0.00 0.00 44.10 3.36
2081 2114 4.946478 AGCTACCTCATCATACAGGAAC 57.054 45.455 0.00 0.00 33.52 3.62
2087 2120 2.628178 CTCATCATACAGGAACGGGCTA 59.372 50.000 0.00 0.00 0.00 3.93
2093 2126 1.041447 ACAGGAACGGGCTATAGCGT 61.041 55.000 18.30 8.93 43.26 5.07
2095 2128 1.371389 GGAACGGGCTATAGCGTCG 60.371 63.158 26.63 26.63 43.26 5.12
2165 2210 3.798954 CTTGGCGAGCGGATCTCCC 62.799 68.421 0.00 0.00 38.62 4.30
2166 2211 4.841617 TGGCGAGCGGATCTCCCT 62.842 66.667 0.00 0.00 38.62 4.20
2167 2212 3.541713 GGCGAGCGGATCTCCCTT 61.542 66.667 0.00 0.00 38.62 3.95
2168 2213 2.028337 GCGAGCGGATCTCCCTTC 59.972 66.667 0.00 0.00 38.62 3.46
2169 2214 2.731374 CGAGCGGATCTCCCTTCC 59.269 66.667 0.00 0.00 38.62 3.46
2170 2215 2.862223 CGAGCGGATCTCCCTTCCC 61.862 68.421 0.00 0.00 38.62 3.97
2171 2216 2.446802 AGCGGATCTCCCTTCCCC 60.447 66.667 0.00 0.00 0.00 4.81
2172 2217 3.561241 GCGGATCTCCCTTCCCCC 61.561 72.222 0.00 0.00 0.00 5.40
2173 2218 2.040884 CGGATCTCCCTTCCCCCA 60.041 66.667 0.00 0.00 0.00 4.96
2174 2219 1.692749 CGGATCTCCCTTCCCCCAA 60.693 63.158 0.00 0.00 0.00 4.12
2175 2220 1.062488 CGGATCTCCCTTCCCCCAAT 61.062 60.000 0.00 0.00 0.00 3.16
2176 2221 0.480252 GGATCTCCCTTCCCCCAATG 59.520 60.000 0.00 0.00 0.00 2.82
2177 2222 1.522900 GATCTCCCTTCCCCCAATGA 58.477 55.000 0.00 0.00 0.00 2.57
2178 2223 2.068977 GATCTCCCTTCCCCCAATGAT 58.931 52.381 0.00 0.00 0.00 2.45
2179 2224 1.522900 TCTCCCTTCCCCCAATGATC 58.477 55.000 0.00 0.00 0.00 2.92
2180 2225 0.480252 CTCCCTTCCCCCAATGATCC 59.520 60.000 0.00 0.00 0.00 3.36
2181 2226 0.254059 TCCCTTCCCCCAATGATCCA 60.254 55.000 0.00 0.00 0.00 3.41
2182 2227 0.106015 CCCTTCCCCCAATGATCCAC 60.106 60.000 0.00 0.00 0.00 4.02
2183 2228 0.929244 CCTTCCCCCAATGATCCACT 59.071 55.000 0.00 0.00 0.00 4.00
2184 2229 2.135189 CCTTCCCCCAATGATCCACTA 58.865 52.381 0.00 0.00 0.00 2.74
2185 2230 2.513738 CCTTCCCCCAATGATCCACTAA 59.486 50.000 0.00 0.00 0.00 2.24
2186 2231 3.435601 CCTTCCCCCAATGATCCACTAAG 60.436 52.174 0.00 0.00 0.00 2.18
2187 2232 3.144068 TCCCCCAATGATCCACTAAGA 57.856 47.619 0.00 0.00 0.00 2.10
2188 2233 3.469859 TCCCCCAATGATCCACTAAGAA 58.530 45.455 0.00 0.00 0.00 2.52
2189 2234 3.202151 TCCCCCAATGATCCACTAAGAAC 59.798 47.826 0.00 0.00 0.00 3.01
2190 2235 3.206150 CCCCAATGATCCACTAAGAACG 58.794 50.000 0.00 0.00 0.00 3.95
2191 2236 2.614057 CCCAATGATCCACTAAGAACGC 59.386 50.000 0.00 0.00 0.00 4.84
2192 2237 3.270027 CCAATGATCCACTAAGAACGCA 58.730 45.455 0.00 0.00 0.00 5.24
2193 2238 3.063997 CCAATGATCCACTAAGAACGCAC 59.936 47.826 0.00 0.00 0.00 5.34
2194 2239 2.380084 TGATCCACTAAGAACGCACC 57.620 50.000 0.00 0.00 0.00 5.01
2195 2240 1.621317 TGATCCACTAAGAACGCACCA 59.379 47.619 0.00 0.00 0.00 4.17
2196 2241 2.000447 GATCCACTAAGAACGCACCAC 59.000 52.381 0.00 0.00 0.00 4.16
2208 2253 2.520686 CGCACCACGTTTCTATTTCC 57.479 50.000 0.00 0.00 36.87 3.13
2209 2254 1.201877 CGCACCACGTTTCTATTTCCG 60.202 52.381 0.00 0.00 36.87 4.30
2210 2255 1.802365 GCACCACGTTTCTATTTCCGT 59.198 47.619 0.00 0.00 0.00 4.69
2211 2256 2.995258 GCACCACGTTTCTATTTCCGTA 59.005 45.455 0.00 0.00 31.42 4.02
2212 2257 3.432933 GCACCACGTTTCTATTTCCGTAA 59.567 43.478 0.00 0.00 31.42 3.18
2213 2258 4.083908 GCACCACGTTTCTATTTCCGTAAA 60.084 41.667 0.00 0.00 31.42 2.01
2214 2259 5.614760 CACCACGTTTCTATTTCCGTAAAG 58.385 41.667 0.00 0.00 31.42 1.85
2215 2260 4.152938 ACCACGTTTCTATTTCCGTAAAGC 59.847 41.667 0.00 0.00 31.42 3.51
2216 2261 4.152759 CCACGTTTCTATTTCCGTAAAGCA 59.847 41.667 0.00 0.00 31.42 3.91
2217 2262 5.077424 CACGTTTCTATTTCCGTAAAGCAC 58.923 41.667 0.00 0.00 31.42 4.40
2237 2282 8.726870 AAGCACGTAACAAATATTATGTAGGT 57.273 30.769 0.00 0.00 33.45 3.08
2238 2283 8.361592 AGCACGTAACAAATATTATGTAGGTC 57.638 34.615 0.00 0.00 33.45 3.85
2239 2284 8.202137 AGCACGTAACAAATATTATGTAGGTCT 58.798 33.333 0.00 0.00 33.45 3.85
2240 2285 9.467258 GCACGTAACAAATATTATGTAGGTCTA 57.533 33.333 0.00 0.00 33.45 2.59
2242 2287 9.688592 ACGTAACAAATATTATGTAGGTCTAGC 57.311 33.333 0.00 0.00 33.45 3.42
2243 2288 9.687210 CGTAACAAATATTATGTAGGTCTAGCA 57.313 33.333 0.00 0.00 0.00 3.49
2247 2292 9.003658 ACAAATATTATGTAGGTCTAGCATTGC 57.996 33.333 0.00 0.00 0.00 3.56
2248 2293 8.454106 CAAATATTATGTAGGTCTAGCATTGCC 58.546 37.037 4.70 0.00 0.00 4.52
2249 2294 2.938956 ATGTAGGTCTAGCATTGCCC 57.061 50.000 4.70 0.00 0.00 5.36
2250 2295 1.879575 TGTAGGTCTAGCATTGCCCT 58.120 50.000 4.70 7.20 0.00 5.19
2251 2296 2.196595 TGTAGGTCTAGCATTGCCCTT 58.803 47.619 4.70 0.00 0.00 3.95
2252 2297 2.170607 TGTAGGTCTAGCATTGCCCTTC 59.829 50.000 4.70 3.45 0.00 3.46
2253 2298 1.289160 AGGTCTAGCATTGCCCTTCA 58.711 50.000 4.70 0.00 0.00 3.02
2254 2299 1.065126 AGGTCTAGCATTGCCCTTCAC 60.065 52.381 4.70 0.00 0.00 3.18
2255 2300 1.065126 GGTCTAGCATTGCCCTTCACT 60.065 52.381 4.70 0.00 0.00 3.41
2256 2301 2.284190 GTCTAGCATTGCCCTTCACTC 58.716 52.381 4.70 0.00 0.00 3.51
2257 2302 1.210478 TCTAGCATTGCCCTTCACTCC 59.790 52.381 4.70 0.00 0.00 3.85
2258 2303 1.211457 CTAGCATTGCCCTTCACTCCT 59.789 52.381 4.70 0.00 0.00 3.69
2259 2304 1.289160 AGCATTGCCCTTCACTCCTA 58.711 50.000 4.70 0.00 0.00 2.94
2260 2305 1.065126 AGCATTGCCCTTCACTCCTAC 60.065 52.381 4.70 0.00 0.00 3.18
2261 2306 1.340017 GCATTGCCCTTCACTCCTACA 60.340 52.381 0.00 0.00 0.00 2.74
2262 2307 2.684927 GCATTGCCCTTCACTCCTACAT 60.685 50.000 0.00 0.00 0.00 2.29
2263 2308 3.624777 CATTGCCCTTCACTCCTACATT 58.375 45.455 0.00 0.00 0.00 2.71
2264 2309 4.780815 CATTGCCCTTCACTCCTACATTA 58.219 43.478 0.00 0.00 0.00 1.90
2265 2310 5.380043 CATTGCCCTTCACTCCTACATTAT 58.620 41.667 0.00 0.00 0.00 1.28
2266 2311 4.422073 TGCCCTTCACTCCTACATTATG 57.578 45.455 0.00 0.00 0.00 1.90
2267 2312 3.780294 TGCCCTTCACTCCTACATTATGT 59.220 43.478 2.58 2.58 0.00 2.29
2268 2313 4.227300 TGCCCTTCACTCCTACATTATGTT 59.773 41.667 2.23 0.00 0.00 2.71
2269 2314 5.193679 GCCCTTCACTCCTACATTATGTTT 58.806 41.667 2.23 0.00 0.00 2.83
2270 2315 6.069905 TGCCCTTCACTCCTACATTATGTTTA 60.070 38.462 2.23 0.00 0.00 2.01
2271 2316 6.826741 GCCCTTCACTCCTACATTATGTTTAA 59.173 38.462 2.23 0.00 0.00 1.52
2272 2317 7.012421 GCCCTTCACTCCTACATTATGTTTAAG 59.988 40.741 2.23 1.45 0.00 1.85
2273 2318 7.499232 CCCTTCACTCCTACATTATGTTTAAGG 59.501 40.741 2.23 4.71 0.00 2.69
2274 2319 8.047310 CCTTCACTCCTACATTATGTTTAAGGT 58.953 37.037 2.23 0.00 36.40 3.50
2275 2320 8.786826 TTCACTCCTACATTATGTTTAAGGTG 57.213 34.615 2.23 8.00 34.42 4.00
2276 2321 7.913789 TCACTCCTACATTATGTTTAAGGTGT 58.086 34.615 12.10 12.10 33.24 4.16
2277 2322 8.380099 TCACTCCTACATTATGTTTAAGGTGTT 58.620 33.333 14.18 2.74 31.64 3.32
2278 2323 9.010029 CACTCCTACATTATGTTTAAGGTGTTT 57.990 33.333 14.18 0.00 31.64 2.83
2279 2324 9.582648 ACTCCTACATTATGTTTAAGGTGTTTT 57.417 29.630 12.10 0.00 30.51 2.43
2280 2325 9.840427 CTCCTACATTATGTTTAAGGTGTTTTG 57.160 33.333 2.23 0.00 34.42 2.44
2281 2326 9.357161 TCCTACATTATGTTTAAGGTGTTTTGT 57.643 29.630 2.23 0.00 34.42 2.83
2288 2333 6.121613 TGTTTAAGGTGTTTTGTACTTCCG 57.878 37.500 0.00 0.00 0.00 4.30
2289 2334 5.066246 TGTTTAAGGTGTTTTGTACTTCCGG 59.934 40.000 0.00 0.00 0.00 5.14
2290 2335 3.286329 AAGGTGTTTTGTACTTCCGGT 57.714 42.857 0.00 0.00 0.00 5.28
2291 2336 4.420522 AAGGTGTTTTGTACTTCCGGTA 57.579 40.909 0.00 0.00 0.00 4.02
2292 2337 4.420522 AGGTGTTTTGTACTTCCGGTAA 57.579 40.909 0.00 0.00 31.56 2.85
2293 2338 4.779696 AGGTGTTTTGTACTTCCGGTAAA 58.220 39.130 0.00 0.00 31.56 2.01
2294 2339 5.379187 AGGTGTTTTGTACTTCCGGTAAAT 58.621 37.500 0.00 0.00 31.56 1.40
2295 2340 5.471116 AGGTGTTTTGTACTTCCGGTAAATC 59.529 40.000 0.00 0.00 31.56 2.17
2296 2341 5.471116 GGTGTTTTGTACTTCCGGTAAATCT 59.529 40.000 0.00 0.00 31.56 2.40
2297 2342 6.016860 GGTGTTTTGTACTTCCGGTAAATCTT 60.017 38.462 0.00 0.00 31.56 2.40
2298 2343 7.420002 GTGTTTTGTACTTCCGGTAAATCTTT 58.580 34.615 0.00 0.00 31.56 2.52
2299 2344 8.558700 GTGTTTTGTACTTCCGGTAAATCTTTA 58.441 33.333 0.00 0.00 31.56 1.85
2300 2345 9.287373 TGTTTTGTACTTCCGGTAAATCTTTAT 57.713 29.630 0.00 0.00 31.56 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.632589 GTGGAAAGGGCTGGTTGAAT 58.367 50.000 0.00 0.00 0.00 2.57
19 20 1.701031 TTGAACAGGAGCCCGTGGAA 61.701 55.000 0.00 0.00 32.79 3.53
60 61 0.689080 ACGGTGGAGAGCTGGATGAT 60.689 55.000 0.00 0.00 0.00 2.45
70 71 4.142790 GGATGAATAGTAGACGGTGGAGA 58.857 47.826 0.00 0.00 0.00 3.71
85 86 1.528824 CGTGGAGGGCTGGATGAAT 59.471 57.895 0.00 0.00 0.00 2.57
134 135 1.685224 GGGCTGGATGAACAGGACA 59.315 57.895 0.00 0.00 38.90 4.02
350 352 1.734707 CGTTACTGAACCCGAGCGATT 60.735 52.381 0.00 0.00 31.28 3.34
393 395 2.808933 CGTTGGGCTCTAACTGAACCAA 60.809 50.000 0.00 0.00 38.57 3.67
394 396 1.270625 CGTTGGGCTCTAACTGAACCA 60.271 52.381 0.00 0.00 32.68 3.67
426 428 1.019805 GGCGTTGGGCTCTAACTGAC 61.020 60.000 0.00 0.00 42.94 3.51
676 679 2.838813 TGTGACAAATCCCGGTACCATA 59.161 45.455 13.54 0.00 0.00 2.74
680 683 5.277154 CGATAATTGTGACAAATCCCGGTAC 60.277 44.000 0.62 0.00 0.00 3.34
688 691 9.383519 ACTTCTATGACGATAATTGTGACAAAT 57.616 29.630 0.62 0.00 0.00 2.32
944 948 4.223953 TCCTCCTGCTATAAACCTACCAG 58.776 47.826 0.00 0.00 0.00 4.00
957 961 3.267812 TGATCTTTCCATTTCCTCCTGCT 59.732 43.478 0.00 0.00 0.00 4.24
979 983 2.299013 TGAGAACATCCGCACAGTAGTT 59.701 45.455 0.00 0.00 0.00 2.24
987 991 0.745486 CTGCCATGAGAACATCCGCA 60.745 55.000 0.00 0.00 36.85 5.69
1128 1138 1.137404 GTCATCGCAAATTGCCGCT 59.863 52.632 12.80 0.00 41.12 5.52
1139 1149 2.537625 GCATAGTGAGAACAGTCATCGC 59.462 50.000 0.00 0.00 0.00 4.58
1238 1249 6.237861 CCAATCCGAAGTCGAAGAAAATCTAC 60.238 42.308 1.43 0.00 43.02 2.59
1264 1275 6.486993 ACAATTTCACTAAGAGGTTCCTCAAC 59.513 38.462 19.28 0.00 35.67 3.18
1344 1355 4.285260 AGGAGGCGACCTTTTTCTTAGTTA 59.715 41.667 0.00 0.00 36.86 2.24
1346 1357 2.638363 AGGAGGCGACCTTTTTCTTAGT 59.362 45.455 0.00 0.00 36.86 2.24
1347 1358 3.003480 CAGGAGGCGACCTTTTTCTTAG 58.997 50.000 3.69 0.00 38.32 2.18
1348 1359 2.290071 CCAGGAGGCGACCTTTTTCTTA 60.290 50.000 3.69 0.00 38.32 2.10
1351 1362 0.250770 ACCAGGAGGCGACCTTTTTC 60.251 55.000 0.00 0.00 38.32 2.29
1359 1370 1.748122 GTAGTCGACCAGGAGGCGA 60.748 63.158 13.01 0.00 39.79 5.54
1360 1371 2.799371 GTAGTCGACCAGGAGGCG 59.201 66.667 13.01 0.00 39.06 5.52
1361 1372 2.045131 ACGTAGTCGACCAGGAGGC 61.045 63.158 13.01 0.00 29.74 4.70
1378 1389 2.773993 TCCGACTTTATGGGGTTGAC 57.226 50.000 0.00 0.00 0.00 3.18
1387 1398 8.846423 ATATCTCATCCCTAATCCGACTTTAT 57.154 34.615 0.00 0.00 0.00 1.40
1394 1405 6.681616 GCTGTGTATATCTCATCCCTAATCCG 60.682 46.154 0.00 0.00 0.00 4.18
1400 1411 3.260380 GCAGCTGTGTATATCTCATCCCT 59.740 47.826 16.64 0.00 0.00 4.20
1401 1412 3.007290 TGCAGCTGTGTATATCTCATCCC 59.993 47.826 16.64 0.00 0.00 3.85
1435 1446 5.189145 CCTAAGGCTAGGGTTTTGAGTTCTA 59.811 44.000 0.00 0.00 41.15 2.10
1488 1502 1.893315 TCCTTGAATCGATTCCCCCT 58.107 50.000 30.16 0.00 35.97 4.79
1494 1508 2.287915 CGGCGAAATCCTTGAATCGATT 59.712 45.455 11.20 11.20 37.48 3.34
1495 1509 1.867233 CGGCGAAATCCTTGAATCGAT 59.133 47.619 0.00 0.00 37.48 3.59
1519 1533 0.957395 ACCCTCTTGATGCAGCGTTG 60.957 55.000 0.00 0.00 0.00 4.10
1520 1534 0.250901 AACCCTCTTGATGCAGCGTT 60.251 50.000 0.00 0.00 0.00 4.84
1521 1535 0.250901 AAACCCTCTTGATGCAGCGT 60.251 50.000 0.00 0.00 0.00 5.07
1522 1536 0.449388 GAAACCCTCTTGATGCAGCG 59.551 55.000 0.00 0.00 0.00 5.18
1552 1566 1.133792 GGGATGAGGTGGTAATGGTGG 60.134 57.143 0.00 0.00 0.00 4.61
1586 1600 4.271696 TGAATCCACTCCAACTACTGTG 57.728 45.455 0.00 0.00 0.00 3.66
1590 1604 5.940470 ACAAGATTGAATCCACTCCAACTAC 59.060 40.000 0.75 0.00 0.00 2.73
1596 1610 5.940470 AGTAACACAAGATTGAATCCACTCC 59.060 40.000 0.75 0.00 0.00 3.85
1601 1615 7.698130 GCACATAAGTAACACAAGATTGAATCC 59.302 37.037 0.75 0.00 0.00 3.01
1642 1656 7.255139 GCACAAATGAGATGAGATGAATCATGA 60.255 37.037 0.00 0.00 40.02 3.07
1673 1687 2.622064 AGGGGAATTACTCGCACATC 57.378 50.000 0.00 0.00 38.75 3.06
1699 1713 4.605183 ACTAGGATTCCTCCATATCCTCG 58.395 47.826 8.94 4.35 45.94 4.63
1714 1728 9.310449 ACCAAACGATCTATTACATACTAGGAT 57.690 33.333 0.00 0.00 0.00 3.24
1715 1729 8.701908 ACCAAACGATCTATTACATACTAGGA 57.298 34.615 0.00 0.00 0.00 2.94
1817 1831 2.969806 GCGCCATCATATGTGCCGG 61.970 63.158 0.00 0.00 0.00 6.13
1871 1885 1.168714 GGCACAAAGATGAGGGTGAC 58.831 55.000 0.00 0.00 33.16 3.67
1880 1894 1.377725 CTGGCGAGGGCACAAAGAT 60.378 57.895 0.00 0.00 42.47 2.40
1885 1899 3.315142 GATGTCTGGCGAGGGCACA 62.315 63.158 0.00 0.00 42.47 4.57
1949 1982 1.429423 GCATGCCTTGGCGTACTTC 59.571 57.895 6.36 0.00 0.00 3.01
1950 1983 2.046285 GGCATGCCTTGGCGTACTT 61.046 57.895 29.98 0.00 41.53 2.24
1958 1991 1.755783 GGAGGAAGGGCATGCCTTG 60.756 63.158 34.70 0.00 36.10 3.61
1991 2024 3.068873 AGTGACATTTCCTCCGCTCTATC 59.931 47.826 0.00 0.00 0.00 2.08
1992 2025 3.034635 AGTGACATTTCCTCCGCTCTAT 58.965 45.455 0.00 0.00 0.00 1.98
1993 2026 2.166459 CAGTGACATTTCCTCCGCTCTA 59.834 50.000 0.00 0.00 0.00 2.43
1994 2027 1.066573 CAGTGACATTTCCTCCGCTCT 60.067 52.381 0.00 0.00 0.00 4.09
2002 2035 3.695830 TCCAGGTACAGTGACATTTCC 57.304 47.619 0.00 0.00 0.00 3.13
2006 2039 1.066858 CGCTTCCAGGTACAGTGACAT 60.067 52.381 0.00 0.00 0.00 3.06
2031 2064 3.058160 CTTCAAGTGCGGCTGGGG 61.058 66.667 0.00 0.00 0.00 4.96
2037 2070 1.135315 CGGAATGCTTCAAGTGCGG 59.865 57.895 0.00 0.00 0.00 5.69
2063 2096 2.963101 CCCGTTCCTGTATGATGAGGTA 59.037 50.000 0.00 0.00 0.00 3.08
2064 2097 1.762957 CCCGTTCCTGTATGATGAGGT 59.237 52.381 0.00 0.00 0.00 3.85
2073 2106 0.956633 CGCTATAGCCCGTTCCTGTA 59.043 55.000 19.00 0.00 37.91 2.74
2074 2107 1.041447 ACGCTATAGCCCGTTCCTGT 61.041 55.000 19.00 5.54 37.91 4.00
2075 2108 0.318784 GACGCTATAGCCCGTTCCTG 60.319 60.000 19.00 4.90 37.87 3.86
2076 2109 1.793134 CGACGCTATAGCCCGTTCCT 61.793 60.000 19.00 0.00 37.87 3.36
2077 2110 1.371389 CGACGCTATAGCCCGTTCC 60.371 63.158 19.00 1.02 37.87 3.62
2078 2111 0.588252 TACGACGCTATAGCCCGTTC 59.412 55.000 31.23 17.67 43.17 3.95
2080 2113 1.510480 GGTACGACGCTATAGCCCGT 61.510 60.000 29.87 29.87 44.60 5.28
2081 2114 1.208614 GGTACGACGCTATAGCCCG 59.791 63.158 24.06 24.06 38.79 6.13
2087 2120 1.407979 CCTCCAAAGGTACGACGCTAT 59.592 52.381 0.00 0.00 37.94 2.97
2093 2126 1.262640 GCCCTCCTCCAAAGGTACGA 61.263 60.000 0.00 0.00 43.82 3.43
2095 2128 0.992695 AAGCCCTCCTCCAAAGGTAC 59.007 55.000 0.00 0.00 43.82 3.34
2153 2198 2.512355 GGGGAAGGGAGATCCGCTC 61.512 68.421 2.70 0.00 44.23 5.03
2165 2210 3.459598 TCTTAGTGGATCATTGGGGGAAG 59.540 47.826 0.00 0.00 0.00 3.46
2166 2211 3.469859 TCTTAGTGGATCATTGGGGGAA 58.530 45.455 0.00 0.00 0.00 3.97
2167 2212 3.144068 TCTTAGTGGATCATTGGGGGA 57.856 47.619 0.00 0.00 0.00 4.81
2168 2213 3.555966 GTTCTTAGTGGATCATTGGGGG 58.444 50.000 0.00 0.00 0.00 5.40
2169 2214 3.206150 CGTTCTTAGTGGATCATTGGGG 58.794 50.000 0.00 0.00 0.00 4.96
2170 2215 2.614057 GCGTTCTTAGTGGATCATTGGG 59.386 50.000 0.00 0.00 0.00 4.12
2171 2216 3.063997 GTGCGTTCTTAGTGGATCATTGG 59.936 47.826 0.00 0.00 0.00 3.16
2172 2217 3.063997 GGTGCGTTCTTAGTGGATCATTG 59.936 47.826 0.00 0.00 0.00 2.82
2173 2218 3.270877 GGTGCGTTCTTAGTGGATCATT 58.729 45.455 0.00 0.00 0.00 2.57
2174 2219 2.236146 TGGTGCGTTCTTAGTGGATCAT 59.764 45.455 0.00 0.00 0.00 2.45
2175 2220 1.621317 TGGTGCGTTCTTAGTGGATCA 59.379 47.619 0.00 0.00 0.00 2.92
2176 2221 2.000447 GTGGTGCGTTCTTAGTGGATC 59.000 52.381 0.00 0.00 0.00 3.36
2177 2222 1.671850 CGTGGTGCGTTCTTAGTGGAT 60.672 52.381 0.00 0.00 35.54 3.41
2178 2223 0.319211 CGTGGTGCGTTCTTAGTGGA 60.319 55.000 0.00 0.00 35.54 4.02
2179 2224 2.150424 CGTGGTGCGTTCTTAGTGG 58.850 57.895 0.00 0.00 35.54 4.00
2190 2235 1.802365 ACGGAAATAGAAACGTGGTGC 59.198 47.619 0.00 0.00 38.24 5.01
2191 2236 5.594724 TTTACGGAAATAGAAACGTGGTG 57.405 39.130 0.00 0.00 40.12 4.17
2192 2237 4.152938 GCTTTACGGAAATAGAAACGTGGT 59.847 41.667 0.00 0.00 40.12 4.16
2193 2238 4.152759 TGCTTTACGGAAATAGAAACGTGG 59.847 41.667 0.00 0.00 40.12 4.94
2194 2239 5.077424 GTGCTTTACGGAAATAGAAACGTG 58.923 41.667 0.00 0.00 40.12 4.49
2195 2240 5.273523 GTGCTTTACGGAAATAGAAACGT 57.726 39.130 0.00 0.00 42.71 3.99
2211 2256 9.169592 ACCTACATAATATTTGTTACGTGCTTT 57.830 29.630 0.00 0.00 0.00 3.51
2212 2257 8.726870 ACCTACATAATATTTGTTACGTGCTT 57.273 30.769 0.00 0.00 0.00 3.91
2213 2258 8.202137 AGACCTACATAATATTTGTTACGTGCT 58.798 33.333 0.00 0.00 0.00 4.40
2214 2259 8.361592 AGACCTACATAATATTTGTTACGTGC 57.638 34.615 0.00 0.00 0.00 5.34
2216 2261 9.688592 GCTAGACCTACATAATATTTGTTACGT 57.311 33.333 0.00 0.00 0.00 3.57
2217 2262 9.687210 TGCTAGACCTACATAATATTTGTTACG 57.313 33.333 0.00 0.00 0.00 3.18
2221 2266 9.003658 GCAATGCTAGACCTACATAATATTTGT 57.996 33.333 0.00 1.20 0.00 2.83
2222 2267 8.454106 GGCAATGCTAGACCTACATAATATTTG 58.546 37.037 4.82 0.00 0.00 2.32
2223 2268 7.611855 GGGCAATGCTAGACCTACATAATATTT 59.388 37.037 4.82 0.00 0.00 1.40
2224 2269 7.037297 AGGGCAATGCTAGACCTACATAATATT 60.037 37.037 4.82 0.00 0.00 1.28
2225 2270 6.445139 AGGGCAATGCTAGACCTACATAATAT 59.555 38.462 4.82 0.00 0.00 1.28
2226 2271 5.785423 AGGGCAATGCTAGACCTACATAATA 59.215 40.000 4.82 0.00 0.00 0.98
2227 2272 4.599241 AGGGCAATGCTAGACCTACATAAT 59.401 41.667 4.82 0.00 0.00 1.28
2228 2273 3.973973 AGGGCAATGCTAGACCTACATAA 59.026 43.478 4.82 0.00 0.00 1.90
2229 2274 3.587498 AGGGCAATGCTAGACCTACATA 58.413 45.455 4.82 0.00 0.00 2.29
2230 2275 2.412591 AGGGCAATGCTAGACCTACAT 58.587 47.619 4.82 0.00 0.00 2.29
2231 2276 1.879575 AGGGCAATGCTAGACCTACA 58.120 50.000 4.82 0.00 0.00 2.74
2232 2277 2.170607 TGAAGGGCAATGCTAGACCTAC 59.829 50.000 4.82 0.00 0.00 3.18
2233 2278 2.170607 GTGAAGGGCAATGCTAGACCTA 59.829 50.000 4.82 0.00 0.00 3.08
2234 2279 1.065126 GTGAAGGGCAATGCTAGACCT 60.065 52.381 4.82 0.00 0.00 3.85
2235 2280 1.065126 AGTGAAGGGCAATGCTAGACC 60.065 52.381 4.82 0.00 0.00 3.85
2236 2281 2.284190 GAGTGAAGGGCAATGCTAGAC 58.716 52.381 4.82 0.00 0.00 2.59
2237 2282 1.210478 GGAGTGAAGGGCAATGCTAGA 59.790 52.381 4.82 0.00 29.78 2.43
2238 2283 1.211457 AGGAGTGAAGGGCAATGCTAG 59.789 52.381 4.82 0.00 41.56 3.42
2239 2284 1.289160 AGGAGTGAAGGGCAATGCTA 58.711 50.000 4.82 0.00 41.56 3.49
2240 2285 1.065126 GTAGGAGTGAAGGGCAATGCT 60.065 52.381 4.82 0.00 45.33 3.79
2241 2286 1.340017 TGTAGGAGTGAAGGGCAATGC 60.340 52.381 0.00 0.00 32.76 3.56
2242 2287 2.787473 TGTAGGAGTGAAGGGCAATG 57.213 50.000 0.00 0.00 0.00 2.82
2243 2288 5.103940 ACATAATGTAGGAGTGAAGGGCAAT 60.104 40.000 0.00 0.00 0.00 3.56
2244 2289 4.227300 ACATAATGTAGGAGTGAAGGGCAA 59.773 41.667 0.00 0.00 0.00 4.52
2245 2290 3.780294 ACATAATGTAGGAGTGAAGGGCA 59.220 43.478 0.00 0.00 0.00 5.36
2246 2291 4.423625 ACATAATGTAGGAGTGAAGGGC 57.576 45.455 0.00 0.00 0.00 5.19
2247 2292 7.499232 CCTTAAACATAATGTAGGAGTGAAGGG 59.501 40.741 0.00 0.00 27.50 3.95
2248 2293 8.047310 ACCTTAAACATAATGTAGGAGTGAAGG 58.953 37.037 0.00 0.00 34.63 3.46
2249 2294 8.883731 CACCTTAAACATAATGTAGGAGTGAAG 58.116 37.037 0.00 0.00 30.24 3.02
2250 2295 8.380099 ACACCTTAAACATAATGTAGGAGTGAA 58.620 33.333 0.00 0.00 30.08 3.18
2251 2296 7.913789 ACACCTTAAACATAATGTAGGAGTGA 58.086 34.615 0.00 0.00 30.08 3.41
2252 2297 8.561738 AACACCTTAAACATAATGTAGGAGTG 57.438 34.615 0.00 0.00 31.13 3.51
2253 2298 9.582648 AAAACACCTTAAACATAATGTAGGAGT 57.417 29.630 0.00 0.00 31.70 3.85
2254 2299 9.840427 CAAAACACCTTAAACATAATGTAGGAG 57.160 33.333 0.00 0.00 30.24 3.69
2255 2300 9.357161 ACAAAACACCTTAAACATAATGTAGGA 57.643 29.630 0.00 0.00 30.24 2.94
2262 2307 8.344098 CGGAAGTACAAAACACCTTAAACATAA 58.656 33.333 0.00 0.00 0.00 1.90
2263 2308 7.041235 CCGGAAGTACAAAACACCTTAAACATA 60.041 37.037 0.00 0.00 0.00 2.29
2264 2309 6.238814 CCGGAAGTACAAAACACCTTAAACAT 60.239 38.462 0.00 0.00 0.00 2.71
2265 2310 5.066246 CCGGAAGTACAAAACACCTTAAACA 59.934 40.000 0.00 0.00 0.00 2.83
2266 2311 5.066375 ACCGGAAGTACAAAACACCTTAAAC 59.934 40.000 9.46 0.00 0.00 2.01
2267 2312 5.192176 ACCGGAAGTACAAAACACCTTAAA 58.808 37.500 9.46 0.00 0.00 1.52
2268 2313 4.779696 ACCGGAAGTACAAAACACCTTAA 58.220 39.130 9.46 0.00 0.00 1.85
2269 2314 4.420522 ACCGGAAGTACAAAACACCTTA 57.579 40.909 9.46 0.00 0.00 2.69
2270 2315 3.286329 ACCGGAAGTACAAAACACCTT 57.714 42.857 9.46 0.00 0.00 3.50
2271 2316 4.420522 TTACCGGAAGTACAAAACACCT 57.579 40.909 9.46 0.00 0.00 4.00
2272 2317 5.471116 AGATTTACCGGAAGTACAAAACACC 59.529 40.000 9.46 0.00 0.00 4.16
2273 2318 6.549912 AGATTTACCGGAAGTACAAAACAC 57.450 37.500 9.46 0.00 0.00 3.32
2274 2319 7.571080 AAAGATTTACCGGAAGTACAAAACA 57.429 32.000 9.46 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.