Multiple sequence alignment - TraesCS5D01G097600

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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 TraesCS5D01G097600 chr5D 100.000 4579 0 0 1987 6565 108127226 108122648 0.000000e+00 8456.0
1 TraesCS5D01G097600 chr5D 100.000 1627 0 0 1 1627 108129212 108127586 0.000000e+00 3005.0
2 TraesCS5D01G097600 chr5D 100.000 71 0 0 588 658 108128568 108128498 1.490000e-26 132.0
3 TraesCS5D01G097600 chr5D 100.000 71 0 0 645 715 108128625 108128555 1.490000e-26 132.0
4 TraesCS5D01G097600 chr5A 95.226 4608 148 39 1987 6565 111627054 111622490 0.000000e+00 7225.0
5 TraesCS5D01G097600 chr5A 87.586 580 29 11 658 1212 111627979 111627418 3.340000e-177 632.0
6 TraesCS5D01G097600 chr5A 94.495 327 16 1 1287 1611 111627388 111627062 2.730000e-138 503.0
7 TraesCS5D01G097600 chr5A 90.295 237 11 6 433 658 111628157 111627922 3.850000e-77 300.0
8 TraesCS5D01G097600 chr5A 93.064 173 9 2 142 311 111628330 111628158 3.930000e-62 250.0
9 TraesCS5D01G097600 chr5A 93.590 78 4 1 12 88 111628897 111628820 1.500000e-21 115.0
10 TraesCS5D01G097600 chr5A 98.000 50 1 0 91 140 111628792 111628743 3.260000e-13 87.9
11 TraesCS5D01G097600 chr5B 93.644 4657 163 48 1987 6565 118532687 118528086 0.000000e+00 6837.0
12 TraesCS5D01G097600 chr5B 91.199 784 37 14 865 1627 118533460 118532688 0.000000e+00 1037.0
13 TraesCS5D01G097600 chr5B 90.408 490 18 15 1 473 118534787 118534310 9.350000e-173 617.0
14 TraesCS5D01G097600 chr5B 92.442 172 11 2 657 826 118534034 118533863 1.830000e-60 244.0
15 TraesCS5D01G097600 chr5B 92.929 99 4 2 472 568 118534186 118534089 2.470000e-29 141.0
16 TraesCS5D01G097600 chr5B 100.000 28 0 0 808 835 118533871 118533844 1.200000e-02 52.8
17 TraesCS5D01G097600 chr4B 96.094 128 3 2 442 569 227189164 227189289 2.400000e-49 207.0


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 TraesCS5D01G097600 chr5D 108122648 108129212 6564 True 2931.250000 8456 100.000000 1 6565 4 chr5D.!!$R1 6564
1 TraesCS5D01G097600 chr5A 111622490 111628897 6407 True 1301.842857 7225 93.179429 12 6565 7 chr5A.!!$R1 6553
2 TraesCS5D01G097600 chr5B 118528086 118534787 6701 True 1488.133333 6837 93.437000 1 6565 6 chr5B.!!$R1 6564

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
662 1267 0.255890 CCCCATGGTGGTAGTTCTGG 59.744 60.000 11.73 0.00 35.17 3.86 F
664 1269 0.327924 CCATGGTGGTAGTTCTGGCA 59.672 55.000 2.57 0.00 31.35 4.92 F
973 1957 0.456221 CCCGCCTGTCTATATAGCCG 59.544 60.000 4.75 3.05 0.00 5.52 F
1516 2521 0.466007 TAGCGCCGACCACCTACATA 60.466 55.000 2.29 0.00 0.00 2.29 F
1625 2633 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82 F
1626 2634 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72 F
3235 4265 1.065854 ACCTGGTTCTGCAGATGCTAC 60.066 52.381 19.04 12.55 42.66 3.58 F
3726 4756 0.604780 TTGCTCAGCAGGCAGAGTTC 60.605 55.000 14.02 1.03 40.61 3.01 F
4785 5830 1.218316 GCCCCCGTGTGAGACTTAG 59.782 63.158 0.00 0.00 0.00 2.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1546 2551 0.253044 TCTCCAATTGCTCCCCGAAG 59.747 55.000 0.00 0.00 0.00 3.79 R
2098 3106 0.966875 TGGATGCCAATGTCTGCACC 60.967 55.000 0.00 0.00 40.88 5.01 R
2691 3706 0.668706 AGCTTGACTACAGCAGTGCG 60.669 55.000 10.00 7.44 37.72 5.34 R
2760 3775 1.168407 CCCATTAGCCTCCATGTGCG 61.168 60.000 0.00 0.00 0.00 5.34 R
3613 4643 0.322456 TACATGACTGGCACTTGGGC 60.322 55.000 0.00 0.00 43.73 5.36 R
3614 4644 1.271325 TGTACATGACTGGCACTTGGG 60.271 52.381 0.00 0.00 0.00 4.12 R
4750 5795 1.202510 GGGCTGCTGATGACTAGACTG 60.203 57.143 0.00 0.00 0.00 3.51 R
5476 6521 0.038744 CCTTCACCCAGCTTGGATGT 59.961 55.000 11.55 0.00 40.96 3.06 R
6288 7374 0.110373 GTTTTCCGCATGGTGTCGAC 60.110 55.000 9.11 9.11 36.30 4.20 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
258 701 9.709495 ATTAGCATTTGTTGAAAAGCTTCATAA 57.291 25.926 0.00 0.00 42.10 1.90
260 703 8.611654 AGCATTTGTTGAAAAGCTTCATAATT 57.388 26.923 0.00 0.00 42.10 1.40
261 704 9.059260 AGCATTTGTTGAAAAGCTTCATAATTT 57.941 25.926 0.00 0.00 42.10 1.82
272 718 9.830975 AAAAGCTTCATAATTTACAGTGGTTTT 57.169 25.926 0.00 0.00 0.00 2.43
285 731 2.350498 AGTGGTTTTCGTTGTGTTCTCG 59.650 45.455 0.00 0.00 0.00 4.04
287 733 1.596220 GGTTTTCGTTGTGTTCTCGCC 60.596 52.381 0.00 0.00 0.00 5.54
341 794 5.047021 AGAGCTGAGTAGTATTTTCTGCACA 60.047 40.000 0.00 0.00 37.99 4.57
343 796 6.878317 AGCTGAGTAGTATTTTCTGCACATA 58.122 36.000 0.00 0.00 37.99 2.29
348 801 9.750125 TGAGTAGTATTTTCTGCACATACATAG 57.250 33.333 0.00 0.00 0.00 2.23
353 806 9.890629 AGTATTTTCTGCACATACATAGAAGAA 57.109 29.630 0.00 0.00 31.52 2.52
359 812 9.844790 TTCTGCACATACATAGAAGAATTTTTG 57.155 29.630 0.00 0.00 0.00 2.44
360 813 9.013229 TCTGCACATACATAGAAGAATTTTTGT 57.987 29.630 0.00 0.00 0.00 2.83
361 814 9.630098 CTGCACATACATAGAAGAATTTTTGTT 57.370 29.630 0.00 0.00 0.00 2.83
362 815 9.409312 TGCACATACATAGAAGAATTTTTGTTG 57.591 29.630 0.00 0.00 0.00 3.33
369 822 9.546428 ACATAGAAGAATTTTTGTTGGGAAAAG 57.454 29.630 0.00 0.00 30.36 2.27
387 840 5.163693 GGAAAAGGATACAAACGTACATGGG 60.164 44.000 0.00 0.00 41.41 4.00
429 882 4.270008 TGCCTTTCTACCTTAAATCCAGC 58.730 43.478 0.00 0.00 0.00 4.85
431 884 4.705023 GCCTTTCTACCTTAAATCCAGCAA 59.295 41.667 0.00 0.00 0.00 3.91
553 1135 2.052779 CTGGACTGGCACTCACTGA 58.947 57.895 0.00 0.00 0.00 3.41
580 1175 4.580167 TCCAGTGCCAGTGAATATAAATGC 59.420 41.667 0.00 0.00 0.00 3.56
591 1186 3.806949 ATATAAATGCGACCCACCCAT 57.193 42.857 0.00 0.00 0.00 4.00
592 1187 1.691196 ATAAATGCGACCCACCCATG 58.309 50.000 0.00 0.00 0.00 3.66
594 1189 2.439553 AAATGCGACCCACCCATGGT 62.440 55.000 11.73 0.00 45.66 3.55
651 1256 3.551635 TGGTAACATTTTCCCCATGGT 57.448 42.857 11.73 0.00 46.17 3.55
652 1257 3.169099 TGGTAACATTTTCCCCATGGTG 58.831 45.455 11.73 0.00 46.17 4.17
653 1258 2.499693 GGTAACATTTTCCCCATGGTGG 59.500 50.000 11.73 11.84 37.25 4.61
654 1259 2.414250 AACATTTTCCCCATGGTGGT 57.586 45.000 11.73 0.00 35.17 4.16
655 1260 3.551635 AACATTTTCCCCATGGTGGTA 57.448 42.857 11.73 2.71 35.17 3.25
656 1261 3.100207 ACATTTTCCCCATGGTGGTAG 57.900 47.619 11.73 0.00 35.17 3.18
657 1262 2.381961 ACATTTTCCCCATGGTGGTAGT 59.618 45.455 11.73 5.32 35.17 2.73
658 1263 3.181412 ACATTTTCCCCATGGTGGTAGTT 60.181 43.478 11.73 0.00 35.17 2.24
659 1264 2.891191 TTTCCCCATGGTGGTAGTTC 57.109 50.000 11.73 0.00 35.17 3.01
660 1265 2.053747 TTCCCCATGGTGGTAGTTCT 57.946 50.000 11.73 0.00 35.17 3.01
661 1266 1.285280 TCCCCATGGTGGTAGTTCTG 58.715 55.000 11.73 0.00 35.17 3.02
662 1267 0.255890 CCCCATGGTGGTAGTTCTGG 59.744 60.000 11.73 0.00 35.17 3.86
663 1268 0.394352 CCCATGGTGGTAGTTCTGGC 60.394 60.000 11.73 0.00 35.17 4.85
664 1269 0.327924 CCATGGTGGTAGTTCTGGCA 59.672 55.000 2.57 0.00 31.35 4.92
665 1270 1.271871 CCATGGTGGTAGTTCTGGCAA 60.272 52.381 2.57 0.00 31.35 4.52
666 1271 2.621407 CCATGGTGGTAGTTCTGGCAAT 60.621 50.000 2.57 0.00 31.35 3.56
667 1272 3.371487 CCATGGTGGTAGTTCTGGCAATA 60.371 47.826 2.57 0.00 31.35 1.90
668 1273 4.464008 CATGGTGGTAGTTCTGGCAATAT 58.536 43.478 0.00 0.00 0.00 1.28
669 1274 4.150897 TGGTGGTAGTTCTGGCAATATC 57.849 45.455 0.00 0.00 0.00 1.63
670 1275 3.521531 TGGTGGTAGTTCTGGCAATATCA 59.478 43.478 0.00 0.00 0.00 2.15
671 1276 4.018870 TGGTGGTAGTTCTGGCAATATCAA 60.019 41.667 0.00 0.00 0.00 2.57
672 1277 5.133221 GGTGGTAGTTCTGGCAATATCAAT 58.867 41.667 0.00 0.00 0.00 2.57
673 1278 5.594317 GGTGGTAGTTCTGGCAATATCAATT 59.406 40.000 0.00 0.00 0.00 2.32
674 1279 6.096846 GGTGGTAGTTCTGGCAATATCAATTT 59.903 38.462 0.00 0.00 0.00 1.82
675 1280 7.196331 GTGGTAGTTCTGGCAATATCAATTTC 58.804 38.462 0.00 0.00 0.00 2.17
676 1281 6.889177 TGGTAGTTCTGGCAATATCAATTTCA 59.111 34.615 0.00 0.00 0.00 2.69
677 1282 7.560991 TGGTAGTTCTGGCAATATCAATTTCAT 59.439 33.333 0.00 0.00 0.00 2.57
678 1283 7.864379 GGTAGTTCTGGCAATATCAATTTCATG 59.136 37.037 0.00 0.00 0.00 3.07
679 1284 7.414222 AGTTCTGGCAATATCAATTTCATGT 57.586 32.000 0.00 0.00 0.00 3.21
680 1285 7.844009 AGTTCTGGCAATATCAATTTCATGTT 58.156 30.769 0.00 0.00 0.00 2.71
681 1286 8.970020 AGTTCTGGCAATATCAATTTCATGTTA 58.030 29.630 0.00 0.00 0.00 2.41
682 1287 9.754382 GTTCTGGCAATATCAATTTCATGTTAT 57.246 29.630 0.00 0.00 0.00 1.89
683 1288 9.970395 TTCTGGCAATATCAATTTCATGTTATC 57.030 29.630 0.00 0.00 0.00 1.75
684 1289 8.291740 TCTGGCAATATCAATTTCATGTTATCG 58.708 33.333 0.00 0.00 0.00 2.92
685 1290 7.939782 TGGCAATATCAATTTCATGTTATCGT 58.060 30.769 0.00 0.00 0.00 3.73
686 1291 8.075574 TGGCAATATCAATTTCATGTTATCGTC 58.924 33.333 0.00 0.00 0.00 4.20
687 1292 8.292448 GGCAATATCAATTTCATGTTATCGTCT 58.708 33.333 0.00 0.00 0.00 4.18
688 1293 9.669353 GCAATATCAATTTCATGTTATCGTCTT 57.331 29.630 0.00 0.00 0.00 3.01
691 1296 7.630242 ATCAATTTCATGTTATCGTCTTGGT 57.370 32.000 0.00 0.00 0.00 3.67
692 1297 8.731275 ATCAATTTCATGTTATCGTCTTGGTA 57.269 30.769 0.00 0.00 0.00 3.25
693 1298 8.554835 TCAATTTCATGTTATCGTCTTGGTAA 57.445 30.769 0.00 0.00 0.00 2.85
694 1299 8.447833 TCAATTTCATGTTATCGTCTTGGTAAC 58.552 33.333 0.00 0.00 0.00 2.50
724 1329 4.335416 CCATGGTGGTAGTCAAACTCAAT 58.665 43.478 2.57 0.00 31.35 2.57
835 1451 5.151454 AGGACAGGATAGGATTTAGGACTG 58.849 45.833 0.00 0.00 0.00 3.51
871 1841 4.388577 AAGCCACAACTATCTTTTCCCT 57.611 40.909 0.00 0.00 0.00 4.20
900 1884 2.540101 CGTCGATAATCTCCCTTTGTGC 59.460 50.000 0.00 0.00 0.00 4.57
936 1920 1.128200 TACCACCAGACAGTGTTGCT 58.872 50.000 0.00 0.00 35.93 3.91
973 1957 0.456221 CCCGCCTGTCTATATAGCCG 59.544 60.000 4.75 3.05 0.00 5.52
974 1958 1.460504 CCGCCTGTCTATATAGCCGA 58.539 55.000 4.75 0.00 0.00 5.54
975 1959 1.402259 CCGCCTGTCTATATAGCCGAG 59.598 57.143 4.75 1.04 0.00 4.63
976 1960 1.202200 CGCCTGTCTATATAGCCGAGC 60.202 57.143 4.75 5.02 0.00 5.03
977 1961 1.135333 GCCTGTCTATATAGCCGAGCC 59.865 57.143 4.75 0.00 0.00 4.70
1234 2231 2.559785 CACACCTTGTGGCCATCTC 58.440 57.895 9.72 0.00 44.27 2.75
1283 2280 4.666105 GGGCAGGTGAATCCCTTC 57.334 61.111 0.00 0.00 37.08 3.46
1284 2281 1.076705 GGGCAGGTGAATCCCTTCC 60.077 63.158 0.00 0.00 37.20 3.46
1461 2464 1.200948 GCTGGCACAAGATCTTGGAAC 59.799 52.381 33.11 23.27 44.45 3.62
1463 2466 1.202758 TGGCACAAGATCTTGGAACGT 60.203 47.619 33.11 13.98 44.45 3.99
1477 2480 3.527360 AACGTTGAAGCTGCTGCGC 62.527 57.895 1.35 0.00 45.42 6.09
1498 2503 2.509548 CCCCATGTGTTTCAGGATCCTA 59.490 50.000 15.67 0.00 0.00 2.94
1516 2521 0.466007 TAGCGCCGACCACCTACATA 60.466 55.000 2.29 0.00 0.00 2.29
1573 2578 0.990374 AGCAATTGGAGAGGAGCACT 59.010 50.000 7.72 0.00 0.00 4.40
1617 2625 3.500982 CTGTTTCCTTTGTGTGTGTGTG 58.499 45.455 0.00 0.00 0.00 3.82
1620 2628 2.192664 TCCTTTGTGTGTGTGTGTGT 57.807 45.000 0.00 0.00 0.00 3.72
1623 2631 2.583739 CTTTGTGTGTGTGTGTGTGTG 58.416 47.619 0.00 0.00 0.00 3.82
1624 2632 1.598882 TTGTGTGTGTGTGTGTGTGT 58.401 45.000 0.00 0.00 0.00 3.72
1625 2633 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
1626 2634 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
2095 3103 2.300967 TGCAGATGGGGTCCTCACC 61.301 63.158 0.00 0.00 42.90 4.02
2299 3307 3.705051 AGTCATCCCTGTTGCATTGATT 58.295 40.909 0.00 0.00 0.00 2.57
2496 3511 4.207281 TTCGGGCTCCTCATCGCG 62.207 66.667 0.00 0.00 39.52 5.87
2502 3517 1.593750 GCTCCTCATCGCGATGCTT 60.594 57.895 37.84 9.40 38.65 3.91
2505 3520 1.667724 CTCCTCATCGCGATGCTTTTT 59.332 47.619 37.84 7.32 38.65 1.94
2625 3640 7.776107 TCAAGACATTTTGTTGATGTTGGTTA 58.224 30.769 0.00 0.00 37.83 2.85
2626 3641 8.253810 TCAAGACATTTTGTTGATGTTGGTTAA 58.746 29.630 0.00 0.00 37.83 2.01
2628 3643 6.701400 AGACATTTTGTTGATGTTGGTTAAGC 59.299 34.615 0.00 0.00 37.83 3.09
2648 3663 3.005155 AGCTTTCTTTGAGGTGAATGTGC 59.995 43.478 0.00 0.00 0.00 4.57
2651 3666 5.278463 GCTTTCTTTGAGGTGAATGTGCTAA 60.278 40.000 0.00 0.00 0.00 3.09
2691 3706 5.179555 CACAAAGTACCCTTCTAAGAGTTGC 59.820 44.000 0.00 0.00 0.00 4.17
2697 3712 1.728971 CCTTCTAAGAGTTGCGCACTG 59.271 52.381 11.12 0.00 35.01 3.66
2752 3767 2.915349 AGCCTAATGACATGTGCAGAG 58.085 47.619 1.15 3.50 0.00 3.35
2760 3775 1.198637 GACATGTGCAGAGGCTGAAAC 59.801 52.381 1.15 0.00 41.91 2.78
2834 3861 3.454082 TGCTCCAACCAAATGTTTCCTTT 59.546 39.130 0.00 0.00 34.00 3.11
2844 3871 8.028652 ACCAAATGTTTCCTTTTCCTAAATCA 57.971 30.769 0.00 0.00 0.00 2.57
2881 3908 5.393135 GGCCTAAATTCTAAACAGTGGAAGC 60.393 44.000 0.00 0.00 0.00 3.86
2972 3999 2.627515 TGTGCAAACTGAGCTCTCTT 57.372 45.000 16.19 2.87 0.00 2.85
2973 4000 2.487934 TGTGCAAACTGAGCTCTCTTC 58.512 47.619 16.19 0.11 0.00 2.87
3083 4110 6.212791 AGGGAGAACATAAAAGCACTACAGTA 59.787 38.462 0.00 0.00 0.00 2.74
3085 4112 8.202137 GGGAGAACATAAAAGCACTACAGTATA 58.798 37.037 0.00 0.00 0.00 1.47
3235 4265 1.065854 ACCTGGTTCTGCAGATGCTAC 60.066 52.381 19.04 12.55 42.66 3.58
3290 4320 5.204409 TCTTTGCTTCCTACGACTGTTAA 57.796 39.130 0.00 0.00 0.00 2.01
3292 4322 4.595762 TTGCTTCCTACGACTGTTAAGT 57.404 40.909 0.00 0.00 40.21 2.24
3299 4329 4.219944 TCCTACGACTGTTAAGTGCTTCAT 59.780 41.667 0.00 0.00 36.52 2.57
3301 4331 6.071784 TCCTACGACTGTTAAGTGCTTCATTA 60.072 38.462 0.00 0.00 36.52 1.90
3306 4336 5.997385 ACTGTTAAGTGCTTCATTAAACCG 58.003 37.500 0.00 0.00 34.48 4.44
3333 4363 6.150140 ACTCTGTATTCCTTGTGATGCTTTTC 59.850 38.462 0.00 0.00 0.00 2.29
3613 4643 4.703575 CCAATACCATTGAGCAGGATATGG 59.296 45.833 0.00 0.00 42.56 2.74
3614 4644 2.283145 ACCATTGAGCAGGATATGGC 57.717 50.000 0.00 0.00 40.96 4.40
3726 4756 0.604780 TTGCTCAGCAGGCAGAGTTC 60.605 55.000 14.02 1.03 40.61 3.01
3984 5015 6.496565 AGGTAGGATATGAGGAATGTTCTGAG 59.503 42.308 0.00 0.00 0.00 3.35
3985 5016 6.495181 GGTAGGATATGAGGAATGTTCTGAGA 59.505 42.308 0.00 0.00 0.00 3.27
4186 5217 3.623960 CCAACAACAGTCCGTCAAAGTAA 59.376 43.478 0.00 0.00 0.00 2.24
4298 5334 2.380084 TGTAGGGCTTAAACGAGCTG 57.620 50.000 0.00 0.00 42.32 4.24
4550 5586 3.549794 GATTGAGAGCTTGCCTGGTAAT 58.450 45.455 0.00 0.00 0.00 1.89
4563 5599 3.561313 GCCTGGTAATCAGTTCTGGGAAA 60.561 47.826 0.00 0.00 41.83 3.13
4568 5604 7.265599 TGGTAATCAGTTCTGGGAAAGAATA 57.734 36.000 0.00 0.00 46.53 1.75
4633 5676 9.561069 AGTTTCACTAGTTTCATTACTGTGAAT 57.439 29.630 15.55 6.26 40.92 2.57
4700 5745 5.811399 TGCGTAATCTGGTGGAAAATAAG 57.189 39.130 0.00 0.00 0.00 1.73
4785 5830 1.218316 GCCCCCGTGTGAGACTTAG 59.782 63.158 0.00 0.00 0.00 2.18
5180 6225 7.768582 TGATGACGGCTAGAAGAATTTTAATCA 59.231 33.333 0.00 0.00 0.00 2.57
5382 6427 1.668419 GCATCCGCAGTCCTTGTATT 58.332 50.000 0.00 0.00 38.36 1.89
5632 6688 3.777106 CCACTATATGATGGCCAGTGT 57.223 47.619 13.05 1.12 35.85 3.55
5640 6696 2.778299 TGATGGCCAGTGTTGAAGTAC 58.222 47.619 13.05 0.00 0.00 2.73
5807 6863 8.603242 TTTCTGTCTCACTTTTCTACATTACC 57.397 34.615 0.00 0.00 0.00 2.85
6022 7079 5.376625 TGACAGGCTCAAGTCTTTAACAAT 58.623 37.500 5.24 0.00 35.81 2.71
6094 7153 8.805175 TGATGGATGAACATGTTACTTGAATTT 58.195 29.630 11.95 0.00 0.00 1.82
6098 7157 8.253113 GGATGAACATGTTACTTGAATTTCCAT 58.747 33.333 11.95 5.91 0.00 3.41
6107 7166 4.012374 ACTTGAATTTCCATGACGATGCT 58.988 39.130 0.00 0.00 0.00 3.79
6131 7190 3.756963 TCGGTGTATATATGCTTCTCGCT 59.243 43.478 2.37 0.00 40.11 4.93
6172 7258 6.409524 AATTCAGAATGCAAAGTTCTTCCA 57.590 33.333 0.00 0.00 33.82 3.53
6184 7270 0.766131 TTCTTCCAAAGTGGCCCGTA 59.234 50.000 0.00 0.00 37.47 4.02
6271 7357 2.438021 TGTAGCCTAGCCAATACCCTTG 59.562 50.000 0.00 0.00 0.00 3.61
6272 7358 0.183731 AGCCTAGCCAATACCCTTGC 59.816 55.000 0.00 0.00 0.00 4.01
6273 7359 0.183731 GCCTAGCCAATACCCTTGCT 59.816 55.000 0.00 0.00 37.84 3.91
6275 7361 1.490490 CCTAGCCAATACCCTTGCTGA 59.510 52.381 0.00 0.00 35.34 4.26
6277 7363 0.995024 AGCCAATACCCTTGCTGACT 59.005 50.000 0.00 0.00 31.70 3.41
6278 7364 1.065126 AGCCAATACCCTTGCTGACTC 60.065 52.381 0.00 0.00 31.70 3.36
6279 7365 1.656652 CCAATACCCTTGCTGACTCG 58.343 55.000 0.00 0.00 0.00 4.18
6281 7367 2.544685 CAATACCCTTGCTGACTCGAG 58.455 52.381 11.84 11.84 0.00 4.04
6282 7368 2.145397 ATACCCTTGCTGACTCGAGA 57.855 50.000 21.68 0.00 0.00 4.04
6283 7369 1.919240 TACCCTTGCTGACTCGAGAA 58.081 50.000 21.68 5.89 0.00 2.87
6284 7370 0.318762 ACCCTTGCTGACTCGAGAAC 59.681 55.000 21.68 13.04 0.00 3.01
6285 7371 0.605589 CCCTTGCTGACTCGAGAACT 59.394 55.000 21.68 0.00 0.00 3.01
6286 7372 1.403514 CCCTTGCTGACTCGAGAACTC 60.404 57.143 21.68 7.03 0.00 3.01
6287 7373 1.403514 CCTTGCTGACTCGAGAACTCC 60.404 57.143 21.68 3.77 0.00 3.85
6288 7374 0.241213 TTGCTGACTCGAGAACTCCG 59.759 55.000 21.68 3.96 0.00 4.63
6289 7375 0.889638 TGCTGACTCGAGAACTCCGT 60.890 55.000 21.68 0.00 0.00 4.69
6290 7376 0.179184 GCTGACTCGAGAACTCCGTC 60.179 60.000 21.68 5.55 0.00 4.79
6291 7377 0.095589 CTGACTCGAGAACTCCGTCG 59.904 60.000 21.68 0.00 37.54 5.12
6292 7378 0.320160 TGACTCGAGAACTCCGTCGA 60.320 55.000 21.68 0.00 42.74 4.20
6293 7379 0.095073 GACTCGAGAACTCCGTCGAC 59.905 60.000 21.68 5.18 40.19 4.20
6294 7380 0.602106 ACTCGAGAACTCCGTCGACA 60.602 55.000 21.68 0.00 40.19 4.35
6295 7381 0.179220 CTCGAGAACTCCGTCGACAC 60.179 60.000 17.16 0.00 40.19 3.67
6449 7547 2.483889 GGTACAGGCTCTAGAACATGGC 60.484 54.545 12.04 4.16 0.00 4.40
6540 7638 5.415701 AGTGCCTTAATTGTACTTGTCCATG 59.584 40.000 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
258 701 5.570234 ACACAACGAAAACCACTGTAAAT 57.430 34.783 0.00 0.00 0.00 1.40
260 703 4.696402 AGAACACAACGAAAACCACTGTAA 59.304 37.500 0.00 0.00 0.00 2.41
261 704 4.255301 AGAACACAACGAAAACCACTGTA 58.745 39.130 0.00 0.00 0.00 2.74
262 705 3.078837 AGAACACAACGAAAACCACTGT 58.921 40.909 0.00 0.00 0.00 3.55
272 718 0.039437 GAGAGGCGAGAACACAACGA 60.039 55.000 0.00 0.00 0.00 3.85
334 787 9.013229 ACAAAAATTCTTCTATGTATGTGCAGA 57.987 29.630 0.00 0.00 0.00 4.26
343 796 9.546428 CTTTTCCCAACAAAAATTCTTCTATGT 57.454 29.630 0.00 0.00 0.00 2.29
348 801 8.988934 GTATCCTTTTCCCAACAAAAATTCTTC 58.011 33.333 0.00 0.00 0.00 2.87
353 806 7.225734 CGTTTGTATCCTTTTCCCAACAAAAAT 59.774 33.333 0.00 0.00 38.23 1.82
354 807 6.535508 CGTTTGTATCCTTTTCCCAACAAAAA 59.464 34.615 0.00 0.00 38.23 1.94
355 808 6.043411 CGTTTGTATCCTTTTCCCAACAAAA 58.957 36.000 0.00 0.00 38.23 2.44
356 809 5.127356 ACGTTTGTATCCTTTTCCCAACAAA 59.873 36.000 0.00 0.00 35.21 2.83
357 810 4.645588 ACGTTTGTATCCTTTTCCCAACAA 59.354 37.500 0.00 0.00 0.00 2.83
358 811 4.208746 ACGTTTGTATCCTTTTCCCAACA 58.791 39.130 0.00 0.00 0.00 3.33
359 812 4.841443 ACGTTTGTATCCTTTTCCCAAC 57.159 40.909 0.00 0.00 0.00 3.77
360 813 5.374921 TGTACGTTTGTATCCTTTTCCCAA 58.625 37.500 0.00 0.00 32.11 4.12
361 814 4.970711 TGTACGTTTGTATCCTTTTCCCA 58.029 39.130 0.00 0.00 32.11 4.37
362 815 5.163693 CCATGTACGTTTGTATCCTTTTCCC 60.164 44.000 0.00 0.00 32.11 3.97
369 822 2.634600 TGCCCATGTACGTTTGTATCC 58.365 47.619 0.00 0.00 32.11 2.59
387 840 3.120095 GCAGCAAATTTTTGGGAGAATGC 60.120 43.478 5.28 0.00 38.57 3.56
397 850 5.551305 AGGTAGAAAGGCAGCAAATTTTT 57.449 34.783 0.00 0.00 0.00 1.94
553 1135 0.773644 ATTCACTGGCACTGGAAGGT 59.226 50.000 0.00 0.00 39.30 3.50
591 1186 3.521531 TGATATTGCCAGAACTACCACCA 59.478 43.478 0.00 0.00 0.00 4.17
592 1187 4.150897 TGATATTGCCAGAACTACCACC 57.849 45.455 0.00 0.00 0.00 4.61
594 1189 6.889177 TGAAATTGATATTGCCAGAACTACCA 59.111 34.615 0.00 0.00 0.00 3.25
595 1190 7.333528 TGAAATTGATATTGCCAGAACTACC 57.666 36.000 0.00 0.00 0.00 3.18
596 1191 8.408601 ACATGAAATTGATATTGCCAGAACTAC 58.591 33.333 0.00 0.00 0.00 2.73
597 1192 8.523915 ACATGAAATTGATATTGCCAGAACTA 57.476 30.769 0.00 0.00 0.00 2.24
598 1193 7.414222 ACATGAAATTGATATTGCCAGAACT 57.586 32.000 0.00 0.00 0.00 3.01
640 1245 2.041081 CAGAACTACCACCATGGGGAAA 59.959 50.000 18.14 1.10 43.37 3.13
643 1248 0.255890 CCAGAACTACCACCATGGGG 59.744 60.000 18.09 13.08 43.37 4.96
644 1249 0.394352 GCCAGAACTACCACCATGGG 60.394 60.000 18.09 4.89 43.37 4.00
645 1250 0.327924 TGCCAGAACTACCACCATGG 59.672 55.000 11.19 11.19 45.02 3.66
646 1251 2.198827 TTGCCAGAACTACCACCATG 57.801 50.000 0.00 0.00 0.00 3.66
647 1252 4.165950 TGATATTGCCAGAACTACCACCAT 59.834 41.667 0.00 0.00 0.00 3.55
648 1253 3.521531 TGATATTGCCAGAACTACCACCA 59.478 43.478 0.00 0.00 0.00 4.17
649 1254 4.150897 TGATATTGCCAGAACTACCACC 57.849 45.455 0.00 0.00 0.00 4.61
650 1255 6.699575 AATTGATATTGCCAGAACTACCAC 57.300 37.500 0.00 0.00 0.00 4.16
651 1256 6.889177 TGAAATTGATATTGCCAGAACTACCA 59.111 34.615 0.00 0.00 0.00 3.25
652 1257 7.333528 TGAAATTGATATTGCCAGAACTACC 57.666 36.000 0.00 0.00 0.00 3.18
653 1258 8.408601 ACATGAAATTGATATTGCCAGAACTAC 58.591 33.333 0.00 0.00 0.00 2.73
654 1259 8.523915 ACATGAAATTGATATTGCCAGAACTA 57.476 30.769 0.00 0.00 0.00 2.24
655 1260 7.414222 ACATGAAATTGATATTGCCAGAACT 57.586 32.000 0.00 0.00 0.00 3.01
656 1261 9.754382 ATAACATGAAATTGATATTGCCAGAAC 57.246 29.630 0.00 0.00 0.00 3.01
657 1262 9.970395 GATAACATGAAATTGATATTGCCAGAA 57.030 29.630 0.00 0.00 0.00 3.02
658 1263 8.291740 CGATAACATGAAATTGATATTGCCAGA 58.708 33.333 0.00 0.00 0.00 3.86
659 1264 8.077991 ACGATAACATGAAATTGATATTGCCAG 58.922 33.333 0.00 0.00 0.00 4.85
660 1265 7.939782 ACGATAACATGAAATTGATATTGCCA 58.060 30.769 0.00 0.00 0.00 4.92
661 1266 8.292448 AGACGATAACATGAAATTGATATTGCC 58.708 33.333 0.00 0.00 0.00 4.52
662 1267 9.669353 AAGACGATAACATGAAATTGATATTGC 57.331 29.630 0.00 0.00 0.00 3.56
665 1270 9.342308 ACCAAGACGATAACATGAAATTGATAT 57.658 29.630 0.00 0.00 0.00 1.63
666 1271 8.731275 ACCAAGACGATAACATGAAATTGATA 57.269 30.769 0.00 0.00 0.00 2.15
667 1272 7.630242 ACCAAGACGATAACATGAAATTGAT 57.370 32.000 0.00 0.00 0.00 2.57
668 1273 8.447833 GTTACCAAGACGATAACATGAAATTGA 58.552 33.333 0.00 0.00 0.00 2.57
669 1274 8.233868 TGTTACCAAGACGATAACATGAAATTG 58.766 33.333 0.00 0.00 34.65 2.32
670 1275 8.330466 TGTTACCAAGACGATAACATGAAATT 57.670 30.769 0.00 0.00 34.65 1.82
671 1276 7.915293 TGTTACCAAGACGATAACATGAAAT 57.085 32.000 0.00 0.00 34.65 2.17
672 1277 7.915293 ATGTTACCAAGACGATAACATGAAA 57.085 32.000 0.00 0.00 44.14 2.69
673 1278 7.915293 AATGTTACCAAGACGATAACATGAA 57.085 32.000 0.00 0.00 44.73 2.57
674 1279 7.915293 AAATGTTACCAAGACGATAACATGA 57.085 32.000 0.00 0.00 44.73 3.07
675 1280 7.696453 GGAAAATGTTACCAAGACGATAACATG 59.304 37.037 9.05 0.00 44.73 3.21
676 1281 7.148137 GGGAAAATGTTACCAAGACGATAACAT 60.148 37.037 0.00 3.59 46.49 2.71
677 1282 6.149807 GGGAAAATGTTACCAAGACGATAACA 59.850 38.462 0.00 0.00 41.64 2.41
678 1283 6.403964 GGGGAAAATGTTACCAAGACGATAAC 60.404 42.308 0.00 0.00 39.94 1.89
679 1284 5.648960 GGGGAAAATGTTACCAAGACGATAA 59.351 40.000 0.00 0.00 39.94 1.75
680 1285 5.187687 GGGGAAAATGTTACCAAGACGATA 58.812 41.667 0.00 0.00 39.94 2.92
681 1286 4.014406 GGGGAAAATGTTACCAAGACGAT 58.986 43.478 0.00 0.00 39.94 3.73
682 1287 3.181442 TGGGGAAAATGTTACCAAGACGA 60.181 43.478 0.00 0.00 39.94 4.20
683 1288 3.150767 TGGGGAAAATGTTACCAAGACG 58.849 45.455 0.00 0.00 39.94 4.18
684 1289 4.081697 CCATGGGGAAAATGTTACCAAGAC 60.082 45.833 2.85 0.00 39.94 3.01
685 1290 4.093011 CCATGGGGAAAATGTTACCAAGA 58.907 43.478 2.85 0.00 39.94 3.02
686 1291 3.837731 ACCATGGGGAAAATGTTACCAAG 59.162 43.478 18.09 0.00 39.94 3.61
687 1292 3.580458 CACCATGGGGAAAATGTTACCAA 59.420 43.478 18.09 0.00 39.94 3.67
688 1293 3.169099 CACCATGGGGAAAATGTTACCA 58.831 45.455 18.09 0.00 39.94 3.25
689 1294 2.499693 CCACCATGGGGAAAATGTTACC 59.500 50.000 18.14 0.00 36.93 2.85
690 1295 3.169908 ACCACCATGGGGAAAATGTTAC 58.830 45.455 18.14 0.00 43.37 2.50
691 1296 3.551635 ACCACCATGGGGAAAATGTTA 57.448 42.857 18.14 0.00 43.37 2.41
692 1297 2.414250 ACCACCATGGGGAAAATGTT 57.586 45.000 18.14 0.00 43.37 2.71
693 1298 2.381961 ACTACCACCATGGGGAAAATGT 59.618 45.455 18.14 6.84 43.37 2.71
694 1299 3.023832 GACTACCACCATGGGGAAAATG 58.976 50.000 18.14 2.72 43.37 2.32
695 1300 2.652348 TGACTACCACCATGGGGAAAAT 59.348 45.455 18.14 0.00 43.37 1.82
696 1301 2.066592 TGACTACCACCATGGGGAAAA 58.933 47.619 18.14 0.00 43.37 2.29
697 1302 1.748732 TGACTACCACCATGGGGAAA 58.251 50.000 18.14 1.10 43.37 3.13
698 1303 1.748732 TTGACTACCACCATGGGGAA 58.251 50.000 18.14 1.53 43.37 3.97
699 1304 1.353022 GTTTGACTACCACCATGGGGA 59.647 52.381 18.14 0.00 43.37 4.81
700 1305 1.354368 AGTTTGACTACCACCATGGGG 59.646 52.381 18.09 13.08 43.37 4.96
724 1329 9.575868 TTTAGGACTTGTGTTGGTCAAATATTA 57.424 29.630 0.00 0.00 34.49 0.98
835 1451 2.180017 CTTTGCGTGGCTGATGGC 59.820 61.111 0.00 0.00 40.90 4.40
871 1841 3.006537 GGGAGATTATCGACGGGATCAAA 59.993 47.826 0.00 0.00 36.55 2.69
936 1920 1.372683 GGCAGTGGAGAGTCAGCAA 59.627 57.895 0.00 0.00 0.00 3.91
973 1957 1.606668 CTGTGAGATAGAGGACGGCTC 59.393 57.143 0.00 0.00 0.00 4.70
974 1958 1.686355 CTGTGAGATAGAGGACGGCT 58.314 55.000 0.00 0.00 0.00 5.52
975 1959 0.031449 GCTGTGAGATAGAGGACGGC 59.969 60.000 0.00 0.00 33.78 5.68
976 1960 1.606668 GAGCTGTGAGATAGAGGACGG 59.393 57.143 0.00 0.00 0.00 4.79
977 1961 1.606668 GGAGCTGTGAGATAGAGGACG 59.393 57.143 0.00 0.00 0.00 4.79
1046 2030 4.427661 ACTGGTGAGCGAGCGAGC 62.428 66.667 0.00 0.00 37.41 5.03
1160 2157 1.505353 CGGGAGAAACGCTACGAGT 59.495 57.895 0.00 0.00 31.07 4.18
1234 2231 2.802787 AGGAATCGGAGAGCGTATTG 57.197 50.000 0.00 0.00 43.63 1.90
1283 2280 1.692749 TCCTCCATTTCCTCGGGGG 60.693 63.158 0.00 0.00 45.33 5.40
1284 2281 0.691078 TCTCCTCCATTTCCTCGGGG 60.691 60.000 0.00 0.00 0.00 5.73
1477 2480 1.285962 AGGATCCTGAAACACATGGGG 59.714 52.381 15.29 0.00 0.00 4.96
1498 2503 1.113517 ATATGTAGGTGGTCGGCGCT 61.114 55.000 7.64 0.00 0.00 5.92
1546 2551 0.253044 TCTCCAATTGCTCCCCGAAG 59.747 55.000 0.00 0.00 0.00 3.79
1573 2578 3.756082 AATTTGGCTCCTCCATTACCA 57.244 42.857 0.00 0.00 46.04 3.25
2095 3103 4.465512 GCCAATGTCTGCACCGCG 62.466 66.667 0.00 0.00 0.00 6.46
2098 3106 0.966875 TGGATGCCAATGTCTGCACC 60.967 55.000 0.00 0.00 40.88 5.01
2194 3202 8.284945 AGCTGAACATGAATGTGTACATTATT 57.715 30.769 10.00 3.34 45.72 1.40
2299 3307 4.801330 ACCGACAACAGTAATCATCTGA 57.199 40.909 0.00 0.00 36.81 3.27
2352 3360 4.160065 CACATCCATGGCTTCAAAACCATA 59.840 41.667 6.96 0.00 44.97 2.74
2502 3517 4.706476 ACCTTGATAGCTTGCTGCATAAAA 59.294 37.500 1.84 0.00 45.94 1.52
2505 3520 3.565764 ACCTTGATAGCTTGCTGCATA 57.434 42.857 1.84 0.00 45.94 3.14
2625 3640 4.500375 GCACATTCACCTCAAAGAAAGCTT 60.500 41.667 0.00 0.00 35.37 3.74
2626 3641 3.005155 GCACATTCACCTCAAAGAAAGCT 59.995 43.478 0.00 0.00 0.00 3.74
2628 3643 4.843220 AGCACATTCACCTCAAAGAAAG 57.157 40.909 0.00 0.00 0.00 2.62
2648 3663 3.964909 GTGTTTTGCACCAGGTTCTTAG 58.035 45.455 0.00 0.00 42.10 2.18
2691 3706 0.668706 AGCTTGACTACAGCAGTGCG 60.669 55.000 10.00 7.44 37.72 5.34
2697 3712 3.380142 GCAGATAGAGCTTGACTACAGC 58.620 50.000 0.00 0.00 0.00 4.40
2752 3767 1.503542 CTCCATGTGCGTTTCAGCC 59.496 57.895 0.00 0.00 36.02 4.85
2760 3775 1.168407 CCCATTAGCCTCCATGTGCG 61.168 60.000 0.00 0.00 0.00 5.34
2787 3802 3.555586 GGCCAAACAGCAAAATCACTGAT 60.556 43.478 0.00 0.00 37.35 2.90
2834 3861 6.459573 GCCAAAGCATATTCGTGATTTAGGAA 60.460 38.462 8.93 0.00 35.71 3.36
2844 3871 5.594317 AGAATTTAGGCCAAAGCATATTCGT 59.406 36.000 5.01 0.00 42.56 3.85
2972 3999 6.411376 ACACATGGAACCGTCTATTAAATGA 58.589 36.000 0.00 0.00 0.00 2.57
2973 4000 6.677781 ACACATGGAACCGTCTATTAAATG 57.322 37.500 0.00 0.00 0.00 2.32
3159 4186 2.109126 GGATCGCGCTTTCCTGCTT 61.109 57.895 15.90 0.00 0.00 3.91
3216 4243 1.661341 GTAGCATCTGCAGAACCAGG 58.339 55.000 22.50 9.21 45.16 4.45
3235 4265 4.874966 AGATCTGAGGCAAGAAAATTCTCG 59.125 41.667 0.00 0.00 36.28 4.04
3290 4320 4.452455 CAGAGTTCGGTTTAATGAAGCACT 59.548 41.667 0.00 0.00 35.48 4.40
3292 4322 4.385825 ACAGAGTTCGGTTTAATGAAGCA 58.614 39.130 0.00 0.00 35.48 3.91
3299 4329 6.425721 CACAAGGAATACAGAGTTCGGTTTAA 59.574 38.462 0.00 0.00 0.00 1.52
3301 4331 4.755123 CACAAGGAATACAGAGTTCGGTTT 59.245 41.667 0.00 0.00 0.00 3.27
3306 4336 5.181748 AGCATCACAAGGAATACAGAGTTC 58.818 41.667 0.00 0.00 0.00 3.01
3333 4363 1.520666 CAGCCAACCTAGGTACGGG 59.479 63.158 24.84 21.69 0.00 5.28
3613 4643 0.322456 TACATGACTGGCACTTGGGC 60.322 55.000 0.00 0.00 43.73 5.36
3614 4644 1.271325 TGTACATGACTGGCACTTGGG 60.271 52.381 0.00 0.00 0.00 4.12
3720 4750 4.379302 AGGCTTCCTCAAATTGAACTCT 57.621 40.909 0.00 0.00 0.00 3.24
3906 4937 1.374125 CGGCGACTGTGGAATGACA 60.374 57.895 0.00 0.00 0.00 3.58
4186 5217 9.842775 TCTATTAATTTCAATCAGATCTGTGCT 57.157 29.630 21.92 6.05 0.00 4.40
4240 5276 6.128445 GCACTGCAATATCAGATACATGTACC 60.128 42.308 7.96 0.00 37.51 3.34
4466 5502 1.289160 TCTTCAGTAAGGGCATGGCT 58.711 50.000 19.78 2.39 33.22 4.75
4550 5586 5.649395 CAGCAATATTCTTTCCCAGAACTGA 59.351 40.000 3.19 0.00 44.70 3.41
4563 5599 3.626670 GCAGTGAAGAGCAGCAATATTCT 59.373 43.478 0.00 0.00 0.00 2.40
4568 5604 1.451067 GAGCAGTGAAGAGCAGCAAT 58.549 50.000 0.00 0.00 0.00 3.56
4675 5718 2.325583 TTCCACCAGATTACGCATCC 57.674 50.000 0.00 0.00 31.20 3.51
4725 5770 8.629158 TGCAAACAATTTTACATACTTGAGTCT 58.371 29.630 0.00 0.00 0.00 3.24
4726 5771 8.795786 TGCAAACAATTTTACATACTTGAGTC 57.204 30.769 0.00 0.00 0.00 3.36
4727 5772 8.413229 ACTGCAAACAATTTTACATACTTGAGT 58.587 29.630 0.00 0.00 0.00 3.41
4728 5773 8.801715 ACTGCAAACAATTTTACATACTTGAG 57.198 30.769 0.00 0.00 0.00 3.02
4729 5774 8.629158 AGACTGCAAACAATTTTACATACTTGA 58.371 29.630 0.00 0.00 0.00 3.02
4730 5775 8.801715 AGACTGCAAACAATTTTACATACTTG 57.198 30.769 0.00 0.00 0.00 3.16
4733 5778 9.543018 GACTAGACTGCAAACAATTTTACATAC 57.457 33.333 0.00 0.00 0.00 2.39
4750 5795 1.202510 GGGCTGCTGATGACTAGACTG 60.203 57.143 0.00 0.00 0.00 3.51
4785 5830 6.476706 GCAAAGATTGGTAAATGGTAAGCATC 59.523 38.462 0.00 0.00 0.00 3.91
5117 6162 2.596346 TGGCATGATGACAAACAAGGT 58.404 42.857 0.00 0.00 28.38 3.50
5180 6225 5.468540 TCAGTGTCAAGCTAGTGTAACAT 57.531 39.130 0.00 0.00 41.43 2.71
5476 6521 0.038744 CCTTCACCCAGCTTGGATGT 59.961 55.000 11.55 0.00 40.96 3.06
5632 6688 2.170012 ATAGGGGCCTCGTACTTCAA 57.830 50.000 0.84 0.00 0.00 2.69
5640 6696 0.179000 GGCATCATATAGGGGCCTCG 59.821 60.000 0.84 0.00 41.39 4.63
5786 6842 4.927425 GCGGTAATGTAGAAAAGTGAGACA 59.073 41.667 0.00 0.00 0.00 3.41
5844 6900 4.758773 TGATGCTCATCACTCACCAATA 57.241 40.909 8.37 0.00 42.42 1.90
5991 7048 3.755378 GACTTGAGCCTGTCATTGTTCAT 59.245 43.478 0.00 0.00 34.17 2.57
6094 7153 4.812814 CGACAGCATCGTCATGGA 57.187 55.556 2.43 0.00 46.25 3.41
6107 7166 5.043189 CGAGAAGCATATATACACCGACA 57.957 43.478 0.00 0.00 0.00 4.35
6131 7190 5.260424 TGAATTAAGCTGGTATTCAGGCAA 58.740 37.500 12.03 0.00 43.54 4.52
6172 7258 1.223417 CGTTTCGTACGGGCCACTTT 61.223 55.000 16.52 0.00 46.42 2.66
6251 7337 2.810767 GCAAGGGTATTGGCTAGGCTAC 60.811 54.545 18.18 11.97 0.00 3.58
6271 7357 1.877367 ACGGAGTTCTCGAGTCAGC 59.123 57.895 13.13 0.00 37.78 4.26
6284 7370 2.880879 CGCATGGTGTCGACGGAG 60.881 66.667 11.62 0.04 0.00 4.63
6285 7371 4.429212 CCGCATGGTGTCGACGGA 62.429 66.667 11.62 0.00 46.71 4.69
6286 7372 3.925362 TTCCGCATGGTGTCGACGG 62.925 63.158 11.62 6.55 45.15 4.79
6287 7373 1.561717 TTTTCCGCATGGTGTCGACG 61.562 55.000 11.62 0.00 36.30 5.12
6288 7374 0.110373 GTTTTCCGCATGGTGTCGAC 60.110 55.000 9.11 9.11 36.30 4.20
6289 7375 0.533085 TGTTTTCCGCATGGTGTCGA 60.533 50.000 0.00 0.00 36.30 4.20
6290 7376 0.309302 TTGTTTTCCGCATGGTGTCG 59.691 50.000 0.00 0.00 36.30 4.35
6291 7377 1.606668 TCTTGTTTTCCGCATGGTGTC 59.393 47.619 0.00 0.00 36.30 3.67
6292 7378 1.686355 TCTTGTTTTCCGCATGGTGT 58.314 45.000 0.00 0.00 36.30 4.16
6293 7379 4.414852 CTTATCTTGTTTTCCGCATGGTG 58.585 43.478 0.00 0.00 36.30 4.17
6294 7380 3.119495 GCTTATCTTGTTTTCCGCATGGT 60.119 43.478 0.00 0.00 36.30 3.55
6295 7381 3.129287 AGCTTATCTTGTTTTCCGCATGG 59.871 43.478 0.00 0.00 0.00 3.66
6437 7523 2.551270 ACCTTCCTGCCATGTTCTAGA 58.449 47.619 0.00 0.00 0.00 2.43
6439 7525 4.037222 TCATACCTTCCTGCCATGTTCTA 58.963 43.478 0.00 0.00 0.00 2.10
6449 7547 3.708631 ACACCAGAGATCATACCTTCCTG 59.291 47.826 0.00 0.00 0.00 3.86
6526 7624 7.390823 TCTATAGCAAACATGGACAAGTACAA 58.609 34.615 0.00 0.00 0.00 2.41
6540 7638 4.517075 GGCATCTTTCCCTCTATAGCAAAC 59.483 45.833 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.