Multiple sequence alignment - TraesCS7D01G297700

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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 TraesCS7D01G297700 chr7D 100.000 6521 0 0 1 6521 376552576 376559096 0.000000e+00 12043.0
1 TraesCS7D01G297700 chr7A 95.675 4855 153 30 1212 6024 424310313 424315152 0.000000e+00 7749.0
2 TraesCS7D01G297700 chr7A 96.626 326 5 3 869 1190 424310004 424310327 2.680000e-148 536.0
3 TraesCS7D01G297700 chr7A 90.977 399 23 5 6134 6521 424315427 424315823 5.790000e-145 525.0
4 TraesCS7D01G297700 chr7A 90.942 276 18 5 394 662 424298774 424299049 1.340000e-96 364.0
5 TraesCS7D01G297700 chr7A 84.127 315 40 7 1 311 424298309 424298617 4.940000e-76 296.0
6 TraesCS7D01G297700 chr7A 90.393 229 7 8 660 877 424299386 424299610 2.980000e-73 287.0
7 TraesCS7D01G297700 chr7B 94.732 2183 100 8 2197 4374 371728642 371730814 0.000000e+00 3380.0
8 TraesCS7D01G297700 chr7B 91.487 1856 86 24 375 2206 371726815 371728622 0.000000e+00 2486.0
9 TraesCS7D01G297700 chr7B 95.482 1328 39 10 4413 5732 371730817 371732131 0.000000e+00 2100.0
10 TraesCS7D01G297700 chr7B 84.731 334 27 13 38 353 371726424 371726751 4.910000e-81 313.0
11 TraesCS7D01G297700 chr7B 93.407 91 6 0 5729 5819 371732279 371732369 1.140000e-27 135.0
12 TraesCS7D01G297700 chr7B 90.217 92 6 1 6031 6122 155471167 155471255 4.130000e-22 117.0
13 TraesCS7D01G297700 chr3A 79.412 238 44 4 2694 2927 55505052 55504816 5.230000e-36 163.0
14 TraesCS7D01G297700 chr5A 92.391 92 4 1 6031 6122 377127253 377127341 1.910000e-25 128.0
15 TraesCS7D01G297700 chr5B 89.000 100 6 2 6023 6122 299602381 299602287 1.150000e-22 119.0
16 TraesCS7D01G297700 chr5B 89.362 94 6 2 6029 6122 432269409 432269498 1.490000e-21 115.0
17 TraesCS7D01G297700 chr5B 89.247 93 7 1 6030 6122 98663177 98663266 5.340000e-21 113.0
18 TraesCS7D01G297700 chr2D 90.217 92 6 1 6031 6122 122864263 122864175 4.130000e-22 117.0
19 TraesCS7D01G297700 chr5D 90.217 92 4 2 6031 6122 328432380 328432294 1.490000e-21 115.0
20 TraesCS7D01G297700 chr5D 90.110 91 6 3 6032 6122 369318369 369318282 1.490000e-21 115.0
21 TraesCS7D01G297700 chr5D 88.000 100 6 3 6023 6122 265961984 265961891 5.340000e-21 113.0
22 TraesCS7D01G297700 chr4D 100.000 30 0 0 145 174 132932124 132932153 1.000000e-03 56.5


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G297700 chr7D 376552576 376559096 6520 False 12043.000000 12043 100.000000 1 6521 1 chr7D.!!$F1 6520
1 TraesCS7D01G297700 chr7A 424310004 424315823 5819 False 2936.666667 7749 94.426000 869 6521 3 chr7A.!!$F2 5652
2 TraesCS7D01G297700 chr7A 424298309 424299610 1301 False 315.666667 364 88.487333 1 877 3 chr7A.!!$F1 876
3 TraesCS7D01G297700 chr7B 371726424 371732369 5945 False 1682.800000 3380 91.967800 38 5819 5 chr7B.!!$F2 5781

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
244 249 0.824759 GTACTTCCTCATGGACCGCT 59.175 55.000 0.0 0.0 43.06 5.52 F
1175 1667 1.134946 GCAAGGAACAACAACTGCACT 59.865 47.619 0.0 0.0 0.00 4.40 F
1457 1988 0.109342 GGGGCGTTGATCTGATGGAT 59.891 55.000 0.0 0.0 37.37 3.41 F
2207 2751 0.174845 CATTTGCATGGTGGCAGGAG 59.825 55.000 0.0 0.0 45.88 3.69 F
3803 4379 0.934496 TTGCACGAGTGAAGGAAACG 59.066 50.000 7.5 0.0 0.00 3.60 F
3896 4474 1.302033 CACCACTGCTCCCACACTC 60.302 63.158 0.0 0.0 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1356 1870 0.116541 ACGGGGGAGAAGAAGAAGGA 59.883 55.000 0.00 0.00 0.00 3.36 R
2187 2731 0.251698 TCCTGCCACCATGCAAATGA 60.252 50.000 0.00 0.00 41.51 2.57 R
2858 3434 2.075355 TTGAAGGGGACGGGCACAAT 62.075 55.000 0.00 0.00 0.00 2.71 R
4110 4688 1.081094 GCTTGCATTTTGGTCCATGC 58.919 50.000 8.73 8.73 45.20 4.06 R
4643 5221 3.181448 GGAAGTCAGTTTTGTAGACCCCA 60.181 47.826 0.00 0.00 32.82 4.96 R
5841 6584 0.179121 TTGCACTGCTCGGGTATACG 60.179 55.000 1.98 0.00 0.00 3.06 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
29 30 4.379499 GGGAAGAAATGTGATTGTTCGGAC 60.379 45.833 0.00 0.00 34.39 4.79
36 37 3.857052 TGTGATTGTTCGGACTATCCAC 58.143 45.455 14.57 12.60 37.26 4.02
55 57 3.317711 CCACCATATTATTTCCAAGCGCA 59.682 43.478 11.47 0.00 0.00 6.09
80 82 1.408702 CAACACAAAACTCCACCCCAG 59.591 52.381 0.00 0.00 0.00 4.45
81 83 0.923358 ACACAAAACTCCACCCCAGA 59.077 50.000 0.00 0.00 0.00 3.86
82 84 1.499007 ACACAAAACTCCACCCCAGAT 59.501 47.619 0.00 0.00 0.00 2.90
83 85 1.888512 CACAAAACTCCACCCCAGATG 59.111 52.381 0.00 0.00 0.00 2.90
84 86 0.890683 CAAAACTCCACCCCAGATGC 59.109 55.000 0.00 0.00 0.00 3.91
102 104 5.288712 CAGATGCATGCACTCTTTCATTTTC 59.711 40.000 25.37 11.93 0.00 2.29
104 106 4.801891 TGCATGCACTCTTTCATTTTCTC 58.198 39.130 18.46 0.00 0.00 2.87
124 126 2.284699 CTGGACCCTCCTTCCCGT 60.285 66.667 0.00 0.00 37.46 5.28
133 135 1.429463 CTCCTTCCCGTTCAGTTTCG 58.571 55.000 0.00 0.00 0.00 3.46
142 144 1.983605 CGTTCAGTTTCGCATCGTAGT 59.016 47.619 0.00 0.00 0.00 2.73
179 184 3.240302 GGATCCCTCTCCTTTATCGGAA 58.760 50.000 0.00 0.00 31.44 4.30
205 210 1.764723 TCATCTCACCTTCGCCATGAT 59.235 47.619 0.00 0.00 0.00 2.45
209 214 1.452651 CACCTTCGCCATGATGCCT 60.453 57.895 0.00 0.00 0.00 4.75
212 217 1.224069 CCTTCGCCATGATGCCTACG 61.224 60.000 0.00 0.00 0.00 3.51
219 224 1.382522 CATGATGCCTACGCCACTTT 58.617 50.000 0.00 0.00 0.00 2.66
233 238 3.554337 CGCCACTTTACACTGTACTTCCT 60.554 47.826 0.00 0.00 0.00 3.36
244 249 0.824759 GTACTTCCTCATGGACCGCT 59.175 55.000 0.00 0.00 43.06 5.52
284 289 4.142447 TGTGTATCACTTCTCCTTCGCTAC 60.142 45.833 1.72 0.00 35.11 3.58
300 305 2.420022 CGCTACCCTCACCATTCAAAAG 59.580 50.000 0.00 0.00 0.00 2.27
302 307 4.079253 GCTACCCTCACCATTCAAAAGAA 58.921 43.478 0.00 0.00 0.00 2.52
305 310 2.562738 CCCTCACCATTCAAAAGAACCC 59.437 50.000 0.00 0.00 0.00 4.11
306 311 3.500343 CCTCACCATTCAAAAGAACCCT 58.500 45.455 0.00 0.00 0.00 4.34
308 313 3.496331 TCACCATTCAAAAGAACCCTCC 58.504 45.455 0.00 0.00 0.00 4.30
309 314 3.117322 TCACCATTCAAAAGAACCCTCCA 60.117 43.478 0.00 0.00 0.00 3.86
310 315 3.834231 CACCATTCAAAAGAACCCTCCAT 59.166 43.478 0.00 0.00 0.00 3.41
327 344 5.501156 CCTCCATATGGTTTCTAATAGGGC 58.499 45.833 21.28 0.00 31.68 5.19
356 373 5.519722 ACAAACAATCGGTCACATTTTCTC 58.480 37.500 0.00 0.00 0.00 2.87
358 375 5.613358 AACAATCGGTCACATTTTCTCTC 57.387 39.130 0.00 0.00 0.00 3.20
359 376 4.003648 ACAATCGGTCACATTTTCTCTCC 58.996 43.478 0.00 0.00 0.00 3.71
362 379 5.677319 ATCGGTCACATTTTCTCTCCTTA 57.323 39.130 0.00 0.00 0.00 2.69
363 380 5.677319 TCGGTCACATTTTCTCTCCTTAT 57.323 39.130 0.00 0.00 0.00 1.73
364 381 5.661458 TCGGTCACATTTTCTCTCCTTATC 58.339 41.667 0.00 0.00 0.00 1.75
372 389 5.959583 TTTTCTCTCCTTATCCTCCCTTC 57.040 43.478 0.00 0.00 0.00 3.46
527 662 6.135454 ACATTTGTAAATCTGGGATATGGCA 58.865 36.000 0.00 0.00 0.00 4.92
542 677 2.367030 TGGCAGTGCACAATATTTGC 57.633 45.000 21.04 18.07 40.63 3.68
627 765 6.934083 TCTGTGAATGCAGTCACTAAAATACA 59.066 34.615 37.73 20.29 46.70 2.29
628 766 7.443879 TCTGTGAATGCAGTCACTAAAATACAA 59.556 33.333 37.73 19.64 46.70 2.41
1095 1587 2.182537 GACGCCACGTATCCGGTT 59.817 61.111 0.00 0.00 41.37 4.44
1173 1665 1.135141 GTGCAAGGAACAACAACTGCA 60.135 47.619 0.00 0.00 0.00 4.41
1174 1666 1.135141 TGCAAGGAACAACAACTGCAC 60.135 47.619 0.00 0.00 0.00 4.57
1175 1667 1.134946 GCAAGGAACAACAACTGCACT 59.865 47.619 0.00 0.00 0.00 4.40
1176 1668 2.796032 GCAAGGAACAACAACTGCACTC 60.796 50.000 0.00 0.00 0.00 3.51
1177 1669 2.684881 CAAGGAACAACAACTGCACTCT 59.315 45.455 0.00 0.00 0.00 3.24
1178 1670 2.565841 AGGAACAACAACTGCACTCTC 58.434 47.619 0.00 0.00 0.00 3.20
1179 1671 2.171448 AGGAACAACAACTGCACTCTCT 59.829 45.455 0.00 0.00 0.00 3.10
1180 1672 2.545946 GGAACAACAACTGCACTCTCTC 59.454 50.000 0.00 0.00 0.00 3.20
1181 1673 3.462021 GAACAACAACTGCACTCTCTCT 58.538 45.455 0.00 0.00 0.00 3.10
1182 1674 3.104843 ACAACAACTGCACTCTCTCTC 57.895 47.619 0.00 0.00 0.00 3.20
1183 1675 2.697751 ACAACAACTGCACTCTCTCTCT 59.302 45.455 0.00 0.00 0.00 3.10
1184 1676 3.243704 ACAACAACTGCACTCTCTCTCTC 60.244 47.826 0.00 0.00 0.00 3.20
1185 1677 2.875296 ACAACTGCACTCTCTCTCTCT 58.125 47.619 0.00 0.00 0.00 3.10
1186 1678 2.819608 ACAACTGCACTCTCTCTCTCTC 59.180 50.000 0.00 0.00 0.00 3.20
1187 1679 3.084039 CAACTGCACTCTCTCTCTCTCT 58.916 50.000 0.00 0.00 0.00 3.10
1188 1680 2.991250 ACTGCACTCTCTCTCTCTCTC 58.009 52.381 0.00 0.00 0.00 3.20
1189 1681 2.573462 ACTGCACTCTCTCTCTCTCTCT 59.427 50.000 0.00 0.00 0.00 3.10
1190 1682 3.774766 ACTGCACTCTCTCTCTCTCTCTA 59.225 47.826 0.00 0.00 0.00 2.43
1227 1719 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1229 1721 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
1344 1858 2.423577 ACTCGTGTTGGAAATGCTACC 58.576 47.619 0.00 0.00 0.00 3.18
1345 1859 2.038557 ACTCGTGTTGGAAATGCTACCT 59.961 45.455 0.00 0.00 0.00 3.08
1346 1860 3.074412 CTCGTGTTGGAAATGCTACCTT 58.926 45.455 0.00 0.00 0.00 3.50
1347 1861 3.482436 TCGTGTTGGAAATGCTACCTTT 58.518 40.909 0.00 0.00 0.00 3.11
1348 1862 3.252215 TCGTGTTGGAAATGCTACCTTTG 59.748 43.478 0.00 0.00 0.00 2.77
1349 1863 3.317150 GTGTTGGAAATGCTACCTTTGC 58.683 45.455 0.00 0.00 0.00 3.68
1350 1864 2.298729 TGTTGGAAATGCTACCTTTGCC 59.701 45.455 0.00 0.00 0.00 4.52
1351 1865 2.562738 GTTGGAAATGCTACCTTTGCCT 59.437 45.455 0.00 0.00 0.00 4.75
1352 1866 2.170166 TGGAAATGCTACCTTTGCCTG 58.830 47.619 0.00 0.00 0.00 4.85
1353 1867 2.171003 GGAAATGCTACCTTTGCCTGT 58.829 47.619 0.00 0.00 0.00 4.00
1354 1868 2.562738 GGAAATGCTACCTTTGCCTGTT 59.437 45.455 0.00 0.00 0.00 3.16
1355 1869 3.006859 GGAAATGCTACCTTTGCCTGTTT 59.993 43.478 0.00 0.00 0.00 2.83
1356 1870 4.503123 GGAAATGCTACCTTTGCCTGTTTT 60.503 41.667 0.00 0.00 0.00 2.43
1357 1871 3.942130 ATGCTACCTTTGCCTGTTTTC 57.058 42.857 0.00 0.00 0.00 2.29
1358 1872 1.960689 TGCTACCTTTGCCTGTTTTCC 59.039 47.619 0.00 0.00 0.00 3.13
1359 1873 2.239400 GCTACCTTTGCCTGTTTTCCT 58.761 47.619 0.00 0.00 0.00 3.36
1360 1874 2.628178 GCTACCTTTGCCTGTTTTCCTT 59.372 45.455 0.00 0.00 0.00 3.36
1430 1961 2.032528 TGCTGCCTTCGGTTCCTG 59.967 61.111 0.00 0.00 0.00 3.86
1457 1988 0.109342 GGGGCGTTGATCTGATGGAT 59.891 55.000 0.00 0.00 37.37 3.41
1710 2245 5.977725 TCTCGAGGTTCTAGCATTAATTTCG 59.022 40.000 13.56 0.00 0.00 3.46
1753 2288 9.140286 TGTTTTTACATCAAATTCGTTTGTTCA 57.860 25.926 1.38 0.00 33.82 3.18
1772 2307 8.422973 TTGTTCATTTATTATTCATGCCAAGC 57.577 30.769 0.00 0.00 0.00 4.01
2005 2549 2.838202 TCCTCCTCACCTGGTTTGTATC 59.162 50.000 0.00 0.00 0.00 2.24
2035 2579 9.933723 CCATCCCAGATTCAAAATAATTATTCC 57.066 33.333 11.08 0.00 0.00 3.01
2070 2614 8.246180 TGCAATTCTTTTCCATTCTTTAGCTAG 58.754 33.333 0.00 0.00 0.00 3.42
2187 2731 6.567602 AATTCCCATCTTTAGCTGTAGTCT 57.432 37.500 0.00 0.00 0.00 3.24
2206 2750 0.251698 TCATTTGCATGGTGGCAGGA 60.252 50.000 0.00 0.00 45.88 3.86
2207 2751 0.174845 CATTTGCATGGTGGCAGGAG 59.825 55.000 0.00 0.00 45.88 3.69
2280 2855 3.918591 AGCTTATTAATACGATCACGCCG 59.081 43.478 3.27 0.00 43.96 6.46
2391 2966 8.871862 TCATACATTTATTGTTGCAGAAAATGC 58.128 29.630 15.33 0.00 46.58 3.56
2534 3109 6.374417 ACTCATAAGTAAGTTGGGACATGT 57.626 37.500 0.00 0.00 32.87 3.21
2809 3385 2.363276 TTCCCTTCGCTCGGCCTA 60.363 61.111 0.00 0.00 0.00 3.93
2952 3528 4.315803 CACACGGTAAGTCCTGATTCTTT 58.684 43.478 0.00 0.00 0.00 2.52
2977 3553 8.810652 TGGTTGCAATATTCAGTTTAGTTTTC 57.189 30.769 0.59 0.00 0.00 2.29
2978 3554 8.637986 TGGTTGCAATATTCAGTTTAGTTTTCT 58.362 29.630 0.59 0.00 0.00 2.52
3019 3595 8.902540 AATGTTCAGTTTATTGTCTGTCAGTA 57.097 30.769 0.00 0.00 33.89 2.74
3095 3671 1.005097 TGATTCCTGGCAGAAGCACAT 59.995 47.619 17.94 0.00 44.61 3.21
3106 3682 4.154918 GGCAGAAGCACATTACCATATAGC 59.845 45.833 0.00 0.00 44.61 2.97
3114 3690 7.331026 AGCACATTACCATATAGCGTTGATAT 58.669 34.615 0.00 0.00 0.00 1.63
3473 4049 8.634335 TTCAATATGAGATTGTTGGAGTTGAA 57.366 30.769 0.00 0.00 31.69 2.69
3590 4166 8.107095 TCATGTTCCTGGTTTAAGCTAGTTATT 58.893 33.333 2.18 0.00 0.00 1.40
3591 4167 8.739972 CATGTTCCTGGTTTAAGCTAGTTATTT 58.260 33.333 2.18 0.00 0.00 1.40
3614 4190 1.618837 ACCATGTTGTAGTCGACAGCT 59.381 47.619 19.50 0.00 40.73 4.24
3622 4198 6.163476 TGTTGTAGTCGACAGCTATTCAAAT 58.837 36.000 19.50 0.00 39.84 2.32
3673 4249 3.450457 ACTGTTTGAGTTGGAATTTGGCA 59.550 39.130 0.00 0.00 0.00 4.92
3695 4271 8.149647 TGGCAAAAATGTGACTAGAAAATGAAT 58.850 29.630 0.00 0.00 0.00 2.57
3734 4310 7.492344 TGAGCACAATAGTATGGCATATTATCG 59.508 37.037 19.11 12.91 0.00 2.92
3777 4353 9.640963 AGATTTATTACATATCTTAGCGTGACC 57.359 33.333 0.00 0.00 0.00 4.02
3803 4379 0.934496 TTGCACGAGTGAAGGAAACG 59.066 50.000 7.50 0.00 0.00 3.60
3896 4474 1.302033 CACCACTGCTCCCACACTC 60.302 63.158 0.00 0.00 0.00 3.51
4093 4671 2.451132 GACATACATGTCGGACAGTCG 58.549 52.381 16.84 9.78 46.46 4.18
4110 4688 4.230657 CAGTCGTACTCTTTCTTGGTGAG 58.769 47.826 0.00 0.00 0.00 3.51
4144 4722 6.764308 AATGCAAGCACAGACTATTACATT 57.236 33.333 0.00 0.00 0.00 2.71
4529 5107 1.512926 ACATCACGCAGACCTTTGTC 58.487 50.000 0.00 0.00 42.09 3.18
4592 5170 4.615223 CGAAGGACGATAAACAGAGTGTCA 60.615 45.833 0.00 0.00 45.77 3.58
4643 5221 2.906389 TGCTGATCTCCACAACCTTACT 59.094 45.455 0.00 0.00 0.00 2.24
4887 5465 6.308015 AGTTACTCATGTAAATGGGCACTA 57.692 37.500 0.00 0.00 39.96 2.74
5077 5668 7.550551 TGGTCATTCTGATACACAATTCTCTTC 59.449 37.037 0.00 0.00 0.00 2.87
5182 5773 3.649073 CATCTGGAATATACGTGCCGAA 58.351 45.455 0.00 0.00 0.00 4.30
5340 5931 5.470098 TCCTGAGCTGAAACACTTGATTTAC 59.530 40.000 0.00 0.00 0.00 2.01
5454 6045 1.146041 GTCATCAGGGCATGCCGTA 59.854 57.895 30.23 18.18 36.85 4.02
5491 6082 1.291877 GCTTCTCGCAACCGTGTCAT 61.292 55.000 0.00 0.00 38.92 3.06
5598 6189 3.650942 ACATGGGGACGTCAACCATATAT 59.349 43.478 31.24 21.38 42.85 0.86
5932 6689 7.203255 AGATTTAGCACTTGTAAACCTGTTC 57.797 36.000 0.00 0.00 0.00 3.18
5933 6690 5.761165 TTTAGCACTTGTAAACCTGTTCC 57.239 39.130 0.00 0.00 0.00 3.62
6011 6768 2.288886 GGCGTCTTCCTGTCAAAGTAGT 60.289 50.000 0.00 0.00 0.00 2.73
6036 6923 5.104259 ACAGTGGAAAGATCAATACTCCC 57.896 43.478 0.00 0.00 0.00 4.30
6039 6926 5.130145 CAGTGGAAAGATCAATACTCCCTCT 59.870 44.000 0.00 0.00 0.00 3.69
6060 6947 9.265901 CCCTCTGTTCACAAATAGTATAAGATG 57.734 37.037 0.00 0.00 0.00 2.90
6124 7011 8.958119 TTTAGTGTGTTTCTTCACTCATTACT 57.042 30.769 1.08 0.00 42.77 2.24
6125 7012 8.589335 TTAGTGTGTTTCTTCACTCATTACTC 57.411 34.615 1.08 0.00 42.77 2.59
6126 7013 6.582636 AGTGTGTTTCTTCACTCATTACTCA 58.417 36.000 0.00 0.00 40.28 3.41
6127 7014 7.220030 AGTGTGTTTCTTCACTCATTACTCAT 58.780 34.615 0.00 0.00 40.28 2.90
6128 7015 7.716998 AGTGTGTTTCTTCACTCATTACTCATT 59.283 33.333 0.00 0.00 40.28 2.57
6129 7016 8.345565 GTGTGTTTCTTCACTCATTACTCATTT 58.654 33.333 0.00 0.00 38.90 2.32
6130 7017 8.559536 TGTGTTTCTTCACTCATTACTCATTTC 58.440 33.333 0.00 0.00 38.90 2.17
6132 7019 8.777413 TGTTTCTTCACTCATTACTCATTTCAG 58.223 33.333 0.00 0.00 0.00 3.02
6135 7057 8.539770 TCTTCACTCATTACTCATTTCAGTTC 57.460 34.615 0.00 0.00 0.00 3.01
6141 7063 7.604164 ACTCATTACTCATTTCAGTTCGTGAAT 59.396 33.333 0.00 0.00 44.89 2.57
6155 7077 2.496070 TCGTGAATGGAGGGAGTACTTG 59.504 50.000 0.00 0.00 0.00 3.16
6176 7098 6.491403 ACTTGTTAAGAGTTTGCATCTCCATT 59.509 34.615 13.46 7.21 32.93 3.16
6195 7117 0.182537 TGACACCCACACTCCCTTTG 59.817 55.000 0.00 0.00 0.00 2.77
6236 7158 2.037367 AGGAGGCGAGTAGGTGCA 59.963 61.111 0.00 0.00 0.00 4.57
6245 7167 1.683917 CGAGTAGGTGCATTAGCCTCT 59.316 52.381 0.00 0.00 41.13 3.69
6253 7175 3.119708 GGTGCATTAGCCTCTTTTCAGTG 60.120 47.826 0.00 0.00 41.13 3.66
6276 7198 1.348696 TGCAACTCAAGAGCCTCATCA 59.651 47.619 0.00 0.00 0.00 3.07
6277 7199 1.736681 GCAACTCAAGAGCCTCATCAC 59.263 52.381 0.00 0.00 0.00 3.06
6278 7200 2.614987 GCAACTCAAGAGCCTCATCACT 60.615 50.000 0.00 0.00 0.00 3.41
6279 7201 3.672808 CAACTCAAGAGCCTCATCACTT 58.327 45.455 0.00 0.00 0.00 3.16
6280 7202 3.331478 ACTCAAGAGCCTCATCACTTG 57.669 47.619 0.00 0.00 40.37 3.16
6281 7203 2.008329 CTCAAGAGCCTCATCACTTGC 58.992 52.381 0.00 0.00 39.33 4.01
6287 7209 1.627329 AGCCTCATCACTTGCTGAAGA 59.373 47.619 0.00 0.00 32.98 2.87
6289 7211 2.419324 GCCTCATCACTTGCTGAAGAAG 59.581 50.000 0.00 0.00 32.98 2.85
6337 7269 6.463995 TCCATTGAAATTATTGTGGCCTAC 57.536 37.500 3.32 0.69 0.00 3.18
6343 7275 5.295787 TGAAATTATTGTGGCCTACTAAGCG 59.704 40.000 3.32 0.00 0.00 4.68
6378 7310 4.580580 GGTCCATCCAAACATCTGTATTCC 59.419 45.833 0.00 0.00 35.97 3.01
6379 7311 5.192927 GTCCATCCAAACATCTGTATTCCA 58.807 41.667 0.00 0.00 0.00 3.53
6389 7321 8.464404 CAAACATCTGTATTCCACAAATCATCT 58.536 33.333 0.00 0.00 36.48 2.90
6463 7395 5.540337 AGATCTCTCCCGCTAATTGTATCAA 59.460 40.000 0.00 0.00 0.00 2.57
6468 7400 5.042463 TCCCGCTAATTGTATCAAATGGA 57.958 39.130 0.00 0.00 0.00 3.41
6516 7448 4.572909 TCATCTTCCCTTATGATCGCATG 58.427 43.478 0.00 0.00 35.94 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 4.615912 CGAACAATCACATTTCTTCCCCAC 60.616 45.833 0.00 0.00 0.00 4.61
8 9 5.613358 AGTCCGAACAATCACATTTCTTC 57.387 39.130 0.00 0.00 0.00 2.87
9 10 6.316390 GGATAGTCCGAACAATCACATTTCTT 59.684 38.462 0.00 0.00 0.00 2.52
19 20 5.825593 ATATGGTGGATAGTCCGAACAAT 57.174 39.130 0.00 0.00 40.17 2.71
22 23 7.333672 GGAAATAATATGGTGGATAGTCCGAAC 59.666 40.741 0.00 0.00 40.17 3.95
29 30 6.403636 GCGCTTGGAAATAATATGGTGGATAG 60.404 42.308 0.00 0.00 0.00 2.08
36 37 4.320494 GGACTGCGCTTGGAAATAATATGG 60.320 45.833 9.73 0.00 0.00 2.74
55 57 2.375146 GTGGAGTTTTGTGTTGGGACT 58.625 47.619 0.00 0.00 0.00 3.85
80 82 5.408356 AGAAAATGAAAGAGTGCATGCATC 58.592 37.500 25.64 20.50 0.00 3.91
81 83 5.185249 AGAGAAAATGAAAGAGTGCATGCAT 59.815 36.000 25.64 12.95 0.00 3.96
82 84 4.521639 AGAGAAAATGAAAGAGTGCATGCA 59.478 37.500 18.46 18.46 0.00 3.96
83 85 4.857588 CAGAGAAAATGAAAGAGTGCATGC 59.142 41.667 11.82 11.82 0.00 4.06
84 86 4.857588 GCAGAGAAAATGAAAGAGTGCATG 59.142 41.667 0.00 0.00 0.00 4.06
102 104 1.621672 GGAAGGAGGGTCCAGCAGAG 61.622 65.000 0.00 0.00 39.61 3.35
104 106 2.674220 GGGAAGGAGGGTCCAGCAG 61.674 68.421 0.00 0.00 39.61 4.24
124 126 2.734606 CCAACTACGATGCGAAACTGAA 59.265 45.455 0.00 0.00 0.00 3.02
133 135 3.000322 CGAGAAATGTCCAACTACGATGC 60.000 47.826 0.00 0.00 0.00 3.91
142 144 3.433598 GGGATCCATCGAGAAATGTCCAA 60.434 47.826 15.23 0.00 0.00 3.53
179 184 0.453793 CGAAGGTGAGATGAGCGTCT 59.546 55.000 0.00 0.00 0.00 4.18
209 214 4.549458 GAAGTACAGTGTAAAGTGGCGTA 58.451 43.478 4.11 0.00 0.00 4.42
212 217 3.995048 GAGGAAGTACAGTGTAAAGTGGC 59.005 47.826 4.11 0.00 0.00 5.01
233 238 2.083774 CTGCTTTTTAGCGGTCCATGA 58.916 47.619 0.00 0.00 36.49 3.07
244 249 3.571590 ACACATGGGGAACTGCTTTTTA 58.428 40.909 0.00 0.00 0.00 1.52
284 289 2.562738 GGGTTCTTTTGAATGGTGAGGG 59.437 50.000 0.00 0.00 40.94 4.30
300 305 7.168905 CCTATTAGAAACCATATGGAGGGTTC 58.831 42.308 28.77 21.52 46.83 3.62
302 307 5.551977 CCCTATTAGAAACCATATGGAGGGT 59.448 44.000 28.77 11.97 43.15 4.34
305 310 5.501156 GGCCCTATTAGAAACCATATGGAG 58.499 45.833 28.77 11.87 38.94 3.86
306 311 4.291249 GGGCCCTATTAGAAACCATATGGA 59.709 45.833 28.77 4.77 38.94 3.41
308 313 5.255397 TGGGCCCTATTAGAAACCATATG 57.745 43.478 25.70 0.00 0.00 1.78
309 314 7.019153 TGTTATGGGCCCTATTAGAAACCATAT 59.981 37.037 25.70 4.91 38.74 1.78
310 315 6.333168 TGTTATGGGCCCTATTAGAAACCATA 59.667 38.462 25.70 4.52 38.18 2.74
327 344 3.504134 TGTGACCGATTGTTTGTTATGGG 59.496 43.478 0.00 0.00 0.00 4.00
356 373 3.591789 TGATGGAAGGGAGGATAAGGAG 58.408 50.000 0.00 0.00 0.00 3.69
358 375 3.181439 GGTTGATGGAAGGGAGGATAAGG 60.181 52.174 0.00 0.00 0.00 2.69
359 376 3.459598 TGGTTGATGGAAGGGAGGATAAG 59.540 47.826 0.00 0.00 0.00 1.73
362 379 1.566231 GTGGTTGATGGAAGGGAGGAT 59.434 52.381 0.00 0.00 0.00 3.24
363 380 0.991920 GTGGTTGATGGAAGGGAGGA 59.008 55.000 0.00 0.00 0.00 3.71
364 381 0.034089 GGTGGTTGATGGAAGGGAGG 60.034 60.000 0.00 0.00 0.00 4.30
372 389 2.291540 ACATGTAAGGGGTGGTTGATGG 60.292 50.000 0.00 0.00 0.00 3.51
542 677 4.418013 TTGGTTGTTGATAAGATGCACG 57.582 40.909 0.00 0.00 0.00 5.34
553 688 4.590647 TGCCTATTCCAAATTGGTTGTTGA 59.409 37.500 12.28 0.00 39.03 3.18
573 708 4.116238 CGAGAGGAAAGAGAAATAGTGCC 58.884 47.826 0.00 0.00 0.00 5.01
627 765 7.054491 ACAGCAACAAAGAAATTCATAGGTT 57.946 32.000 0.00 0.00 0.00 3.50
628 766 6.655078 ACAGCAACAAAGAAATTCATAGGT 57.345 33.333 0.00 0.00 0.00 3.08
694 1171 2.456119 CGTTGATCTGGCGGTGCTC 61.456 63.158 0.00 0.00 0.00 4.26
848 1329 4.284746 TGAAAGGAAAAGAGGAGAGAGGAC 59.715 45.833 0.00 0.00 0.00 3.85
850 1331 4.899352 TGAAAGGAAAAGAGGAGAGAGG 57.101 45.455 0.00 0.00 0.00 3.69
1095 1587 3.660571 TACCCGACCTCCCACCGA 61.661 66.667 0.00 0.00 0.00 4.69
1173 1665 6.619464 AGAGAGATAGAGAGAGAGAGAGAGT 58.381 44.000 0.00 0.00 0.00 3.24
1174 1666 6.947733 AGAGAGAGATAGAGAGAGAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
1175 1667 6.857848 AGAGAGAGATAGAGAGAGAGAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
1176 1668 6.947733 AGAGAGAGAGATAGAGAGAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
1177 1669 6.857848 AGAGAGAGAGATAGAGAGAGAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
1178 1670 6.947733 AGAGAGAGAGAGATAGAGAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
1179 1671 6.857848 AGAGAGAGAGAGATAGAGAGAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
1180 1672 6.947733 AGAGAGAGAGAGAGATAGAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
1181 1673 6.857848 AGAGAGAGAGAGAGATAGAGAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
1182 1674 6.947733 AGAGAGAGAGAGAGAGATAGAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
1183 1675 6.857848 AGAGAGAGAGAGAGAGATAGAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
1184 1676 6.947733 AGAGAGAGAGAGAGAGAGATAGAGAG 59.052 46.154 0.00 0.00 0.00 3.20
1185 1677 6.857848 AGAGAGAGAGAGAGAGAGATAGAGA 58.142 44.000 0.00 0.00 0.00 3.10
1186 1678 6.947733 AGAGAGAGAGAGAGAGAGAGATAGAG 59.052 46.154 0.00 0.00 0.00 2.43
1187 1679 6.857848 AGAGAGAGAGAGAGAGAGAGATAGA 58.142 44.000 0.00 0.00 0.00 1.98
1188 1680 6.947733 AGAGAGAGAGAGAGAGAGAGAGATAG 59.052 46.154 0.00 0.00 0.00 2.08
1189 1681 6.857848 AGAGAGAGAGAGAGAGAGAGAGATA 58.142 44.000 0.00 0.00 0.00 1.98
1190 1682 5.714863 AGAGAGAGAGAGAGAGAGAGAGAT 58.285 45.833 0.00 0.00 0.00 2.75
1227 1719 1.488393 TCAACATCACACACACAGGGA 59.512 47.619 0.00 0.00 0.00 4.20
1229 1721 3.058016 GGAATCAACATCACACACACAGG 60.058 47.826 0.00 0.00 0.00 4.00
1344 1858 4.926140 AGAAGAAGGAAAACAGGCAAAG 57.074 40.909 0.00 0.00 0.00 2.77
1345 1859 4.956075 AGAAGAAGAAGGAAAACAGGCAAA 59.044 37.500 0.00 0.00 0.00 3.68
1346 1860 4.536765 AGAAGAAGAAGGAAAACAGGCAA 58.463 39.130 0.00 0.00 0.00 4.52
1347 1861 4.137543 GAGAAGAAGAAGGAAAACAGGCA 58.862 43.478 0.00 0.00 0.00 4.75
1348 1862 3.504134 GGAGAAGAAGAAGGAAAACAGGC 59.496 47.826 0.00 0.00 0.00 4.85
1349 1863 4.075682 GGGAGAAGAAGAAGGAAAACAGG 58.924 47.826 0.00 0.00 0.00 4.00
1350 1864 4.075682 GGGGAGAAGAAGAAGGAAAACAG 58.924 47.826 0.00 0.00 0.00 3.16
1351 1865 3.181433 GGGGGAGAAGAAGAAGGAAAACA 60.181 47.826 0.00 0.00 0.00 2.83
1352 1866 3.422796 GGGGGAGAAGAAGAAGGAAAAC 58.577 50.000 0.00 0.00 0.00 2.43
1353 1867 2.039879 CGGGGGAGAAGAAGAAGGAAAA 59.960 50.000 0.00 0.00 0.00 2.29
1354 1868 1.628846 CGGGGGAGAAGAAGAAGGAAA 59.371 52.381 0.00 0.00 0.00 3.13
1355 1869 1.276622 CGGGGGAGAAGAAGAAGGAA 58.723 55.000 0.00 0.00 0.00 3.36
1356 1870 0.116541 ACGGGGGAGAAGAAGAAGGA 59.883 55.000 0.00 0.00 0.00 3.36
1357 1871 0.250513 CACGGGGGAGAAGAAGAAGG 59.749 60.000 0.00 0.00 0.00 3.46
1358 1872 0.977395 ACACGGGGGAGAAGAAGAAG 59.023 55.000 0.00 0.00 0.00 2.85
1359 1873 1.071699 CAACACGGGGGAGAAGAAGAA 59.928 52.381 0.00 0.00 0.00 2.52
1360 1874 0.685097 CAACACGGGGGAGAAGAAGA 59.315 55.000 0.00 0.00 0.00 2.87
1524 2056 6.986424 GTCTCAAATTAAGACAAAAACCCG 57.014 37.500 13.40 0.00 42.23 5.28
1551 2085 3.536956 TTCGAGATTTAAGGCCGTCAT 57.463 42.857 0.00 0.00 0.00 3.06
1595 2129 8.968242 CAACTTGCTATTTTTAGGACAAGAAAC 58.032 33.333 7.49 0.00 38.26 2.78
1753 2288 6.552350 ACTCCTGCTTGGCATGAATAATAAAT 59.448 34.615 4.32 0.00 38.13 1.40
1755 2290 5.448654 ACTCCTGCTTGGCATGAATAATAA 58.551 37.500 4.32 0.00 38.13 1.40
1756 2291 5.052693 ACTCCTGCTTGGCATGAATAATA 57.947 39.130 4.32 0.00 38.13 0.98
1757 2292 3.907221 ACTCCTGCTTGGCATGAATAAT 58.093 40.909 4.32 0.00 38.13 1.28
1761 2296 3.370840 AATACTCCTGCTTGGCATGAA 57.629 42.857 4.32 0.00 38.13 2.57
1840 2383 4.343526 ACTTGTAATTTTGCATCCACACCA 59.656 37.500 0.00 0.00 0.00 4.17
2005 2549 8.482852 AATTATTTTGAATCTGGGATGGTAGG 57.517 34.615 0.00 0.00 0.00 3.18
2034 2578 4.390909 GGAAAAGAATTGCAATGCAGAAGG 59.609 41.667 19.79 0.00 40.61 3.46
2035 2579 4.992319 TGGAAAAGAATTGCAATGCAGAAG 59.008 37.500 19.79 0.00 40.61 2.85
2044 2588 6.996509 AGCTAAAGAATGGAAAAGAATTGCA 58.003 32.000 0.00 0.00 0.00 4.08
2187 2731 0.251698 TCCTGCCACCATGCAAATGA 60.252 50.000 0.00 0.00 41.51 2.57
2206 2750 2.936498 GCGTGACACAATGCCTAATACT 59.064 45.455 6.37 0.00 0.00 2.12
2207 2751 2.675844 TGCGTGACACAATGCCTAATAC 59.324 45.455 6.37 0.00 0.00 1.89
2280 2855 4.557296 GATGTGCACATATGGTTATGCCAC 60.557 45.833 31.45 11.09 43.00 5.01
2322 2897 4.937620 GTCCACAGATGAGTTGAGCAAATA 59.062 41.667 0.00 0.00 0.00 1.40
2332 2907 4.285517 ACAGAGAATTGTCCACAGATGAGT 59.714 41.667 0.00 0.00 0.00 3.41
2391 2966 7.653647 ACTACAGAGACAGTGAAAGAAGTTAG 58.346 38.462 0.00 0.00 0.00 2.34
2534 3109 4.189231 GCCCTCGAGAAGTAGCATTTTAA 58.811 43.478 15.71 0.00 0.00 1.52
2858 3434 2.075355 TTGAAGGGGACGGGCACAAT 62.075 55.000 0.00 0.00 0.00 2.71
2952 3528 8.637986 AGAAAACTAAACTGAATATTGCAACCA 58.362 29.630 0.00 0.00 0.00 3.67
2977 3553 7.956943 ACTGAACATTTTTCGCAAAAAGAAAAG 59.043 29.630 2.65 0.00 44.91 2.27
2978 3554 7.801752 ACTGAACATTTTTCGCAAAAAGAAAA 58.198 26.923 2.65 0.63 42.97 2.29
3106 3682 5.965334 GCCAGAACAACAATACATATCAACG 59.035 40.000 0.00 0.00 0.00 4.10
3114 3690 7.498900 CCTATATCTTGCCAGAACAACAATACA 59.501 37.037 0.00 0.00 30.76 2.29
3473 4049 3.576982 TGATCGAAGACAAGTTACCTGGT 59.423 43.478 4.05 4.05 42.51 4.00
3564 4140 5.499004 ACTAGCTTAAACCAGGAACATGA 57.501 39.130 0.00 0.00 0.00 3.07
3565 4141 7.865706 ATAACTAGCTTAAACCAGGAACATG 57.134 36.000 0.00 0.00 0.00 3.21
3590 4166 5.126545 AGCTGTCGACTACAACATGGTATAA 59.873 40.000 17.92 0.00 37.74 0.98
3591 4167 4.643334 AGCTGTCGACTACAACATGGTATA 59.357 41.667 17.92 0.00 37.74 1.47
3598 4174 4.776795 TGAATAGCTGTCGACTACAACA 57.223 40.909 17.92 5.82 37.74 3.33
3647 4223 5.519927 CCAAATTCCAACTCAAACAGTTCAC 59.480 40.000 0.00 0.00 44.14 3.18
3663 4239 6.454795 TCTAGTCACATTTTTGCCAAATTCC 58.545 36.000 0.00 0.00 0.00 3.01
3695 4271 7.275183 ACTATTGTGCTCAGCATTAGATACAA 58.725 34.615 16.79 9.42 41.91 2.41
3764 4340 3.914426 ATTTCCAGGTCACGCTAAGAT 57.086 42.857 0.00 0.00 0.00 2.40
3777 4353 2.095567 CCTTCACTCGTGCAATTTCCAG 60.096 50.000 0.00 0.00 0.00 3.86
4090 4668 2.987821 GCTCACCAAGAAAGAGTACGAC 59.012 50.000 0.00 0.00 0.00 4.34
4093 4671 3.686726 CCATGCTCACCAAGAAAGAGTAC 59.313 47.826 0.00 0.00 0.00 2.73
4110 4688 1.081094 GCTTGCATTTTGGTCCATGC 58.919 50.000 8.73 8.73 45.20 4.06
4144 4722 3.429372 AAACCTCGGGCTTGCCACA 62.429 57.895 14.04 0.00 0.00 4.17
4374 4952 8.257306 AGTTGATGGTTAAGAACAAACATGTTT 58.743 29.630 18.13 18.13 35.96 2.83
4381 4959 7.873719 TCAAGAGTTGATGGTTAAGAACAAA 57.126 32.000 0.00 0.00 34.08 2.83
4390 4968 5.888161 AGACAAGTTTCAAGAGTTGATGGTT 59.112 36.000 0.00 0.00 39.84 3.67
4529 5107 0.038159 AGGGCGACTCGTTCTTCAAG 60.038 55.000 0.00 0.00 0.00 3.02
4643 5221 3.181448 GGAAGTCAGTTTTGTAGACCCCA 60.181 47.826 0.00 0.00 32.82 4.96
4887 5465 4.647853 CCATCCTGGAATTCACAACATGAT 59.352 41.667 7.93 1.68 40.96 2.45
5077 5668 9.328845 TGATTTGGAATGGAAAAGAAAAAGAAG 57.671 29.630 0.00 0.00 0.00 2.85
5085 5676 7.300556 TGATGTTGATTTGGAATGGAAAAGA 57.699 32.000 0.00 0.00 0.00 2.52
5086 5677 6.592607 CCTGATGTTGATTTGGAATGGAAAAG 59.407 38.462 0.00 0.00 0.00 2.27
5182 5773 4.021192 CCATTGTACCAATTGTCCAGCTTT 60.021 41.667 4.43 0.00 0.00 3.51
5270 5861 3.570550 AGACCACAGTAGAGAGTGTTGTC 59.429 47.826 8.39 8.39 45.59 3.18
5340 5931 3.470888 CGGGGGTGCAGTAGAGGG 61.471 72.222 0.00 0.00 0.00 4.30
5598 6189 4.530710 AAACGCATCCTGTTACAGTCTA 57.469 40.909 11.68 0.00 0.00 2.59
5841 6584 0.179121 TTGCACTGCTCGGGTATACG 60.179 55.000 1.98 0.00 0.00 3.06
5892 6635 9.319143 GTGCTAAATCTACTCAATAACATGTCT 57.681 33.333 0.00 0.00 0.00 3.41
5901 6644 8.947115 GGTTTACAAGTGCTAAATCTACTCAAT 58.053 33.333 0.00 0.00 0.00 2.57
5903 6646 7.602644 CAGGTTTACAAGTGCTAAATCTACTCA 59.397 37.037 0.00 0.00 0.00 3.41
5904 6647 7.603024 ACAGGTTTACAAGTGCTAAATCTACTC 59.397 37.037 0.00 0.00 0.00 2.59
5914 6671 3.577805 AGGAACAGGTTTACAAGTGCT 57.422 42.857 0.00 0.00 0.00 4.40
5932 6689 6.486657 TCATGTGAGTTTCCTTGTTCTTAAGG 59.513 38.462 1.85 0.00 46.94 2.69
5933 6690 7.496529 TCATGTGAGTTTCCTTGTTCTTAAG 57.503 36.000 0.00 0.00 0.00 1.85
5941 6698 3.128242 GCCTGATCATGTGAGTTTCCTTG 59.872 47.826 0.00 0.00 0.00 3.61
5990 6747 2.288886 ACTACTTTGACAGGAAGACGCC 60.289 50.000 0.00 0.00 0.00 5.68
5991 6748 2.731976 CACTACTTTGACAGGAAGACGC 59.268 50.000 0.00 0.00 0.00 5.19
5992 6749 3.005472 TCCACTACTTTGACAGGAAGACG 59.995 47.826 0.00 0.00 0.00 4.18
5993 6750 4.202223 TGTCCACTACTTTGACAGGAAGAC 60.202 45.833 0.00 0.00 34.28 3.01
5994 6751 3.964688 TGTCCACTACTTTGACAGGAAGA 59.035 43.478 0.00 0.00 34.28 2.87
5995 6752 4.336889 TGTCCACTACTTTGACAGGAAG 57.663 45.455 0.00 0.00 34.28 3.46
6011 6768 5.338381 GGAGTATTGATCTTTCCACTGTCCA 60.338 44.000 0.00 0.00 0.00 4.02
6080 6967 8.364894 ACACTAAAATGCGTCTATATACATCCA 58.635 33.333 0.00 0.00 0.00 3.41
6094 6981 5.510671 AGTGAAGAAACACACTAAAATGCG 58.489 37.500 0.00 0.00 44.06 4.73
6101 6988 7.722363 TGAGTAATGAGTGAAGAAACACACTA 58.278 34.615 0.00 0.00 45.54 2.74
6122 7009 4.641396 TCCATTCACGAACTGAAATGAGT 58.359 39.130 0.00 0.00 42.37 3.41
6123 7010 4.093998 CCTCCATTCACGAACTGAAATGAG 59.906 45.833 0.00 0.00 42.37 2.90
6124 7011 4.002982 CCTCCATTCACGAACTGAAATGA 58.997 43.478 0.00 0.00 42.37 2.57
6125 7012 3.127548 CCCTCCATTCACGAACTGAAATG 59.872 47.826 0.00 0.00 42.37 2.32
6126 7013 3.009033 TCCCTCCATTCACGAACTGAAAT 59.991 43.478 0.00 0.00 42.37 2.17
6127 7014 2.370519 TCCCTCCATTCACGAACTGAAA 59.629 45.455 0.00 0.00 42.37 2.69
6128 7015 1.974957 TCCCTCCATTCACGAACTGAA 59.025 47.619 0.00 0.00 43.28 3.02
6129 7016 1.550524 CTCCCTCCATTCACGAACTGA 59.449 52.381 0.00 0.00 0.00 3.41
6130 7017 1.276421 ACTCCCTCCATTCACGAACTG 59.724 52.381 0.00 0.00 0.00 3.16
6132 7019 2.496470 AGTACTCCCTCCATTCACGAAC 59.504 50.000 0.00 0.00 0.00 3.95
6135 7057 2.233922 ACAAGTACTCCCTCCATTCACG 59.766 50.000 0.00 0.00 0.00 4.35
6141 7063 4.748701 ACTCTTAACAAGTACTCCCTCCA 58.251 43.478 0.00 0.00 0.00 3.86
6155 7077 6.072508 TGTCAATGGAGATGCAAACTCTTAAC 60.073 38.462 18.88 12.57 35.84 2.01
6176 7098 0.182537 CAAAGGGAGTGTGGGTGTCA 59.817 55.000 0.00 0.00 0.00 3.58
6195 7117 0.959372 TCGGAGTCGTTGAGAGGTCC 60.959 60.000 0.00 0.00 37.69 4.46
6226 7148 3.828875 AAGAGGCTAATGCACCTACTC 57.171 47.619 0.00 0.00 41.91 2.59
6236 7158 4.006319 GCAGACACTGAAAAGAGGCTAAT 58.994 43.478 2.81 0.00 32.44 1.73
6245 7167 4.260985 TCTTGAGTTGCAGACACTGAAAA 58.739 39.130 2.81 0.00 29.91 2.29
6253 7175 1.270518 TGAGGCTCTTGAGTTGCAGAC 60.271 52.381 16.72 0.00 0.00 3.51
6280 7202 8.704046 GGTCATAACCAAGTTGCTTCTTCAGC 62.704 46.154 0.00 0.00 46.52 4.26
6281 7203 5.335191 GGTCATAACCAAGTTGCTTCTTCAG 60.335 44.000 0.00 0.00 45.68 3.02
6297 7229 7.639113 TCAATGGAAATAAGGTGGTCATAAC 57.361 36.000 0.00 0.00 0.00 1.89
6314 7246 6.194235 AGTAGGCCACAATAATTTCAATGGA 58.806 36.000 5.01 0.00 0.00 3.41
6337 7269 4.639310 TGGACCTAGAACTAGAACGCTTAG 59.361 45.833 10.04 0.00 35.21 2.18
6343 7275 5.934402 TTGGATGGACCTAGAACTAGAAC 57.066 43.478 10.04 4.26 39.86 3.01
6378 7310 6.183360 TGCATGCTTGTACTAGATGATTTGTG 60.183 38.462 20.33 0.00 0.00 3.33
6379 7311 5.882000 TGCATGCTTGTACTAGATGATTTGT 59.118 36.000 20.33 0.00 0.00 2.83
6389 7321 5.089970 ACAGAGAATGCATGCTTGTACTA 57.910 39.130 20.33 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.