Multiple sequence alignment - TraesCS6B01G276000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6B01G276000 chr6B 100.000 3851 0 0 1 3851 499020077 499023927 0.000000e+00 7112.0
1 TraesCS6B01G276000 chr6D 94.816 2855 115 9 845 3683 324516282 324513445 0.000000e+00 4421.0
2 TraesCS6B01G276000 chr6D 82.996 841 76 33 10 804 324517122 324516303 0.000000e+00 699.0
3 TraesCS6B01G276000 chr6D 90.476 42 4 0 3684 3725 471360653 471360612 5.370000e-04 56.5
4 TraesCS6B01G276000 chr6A 93.971 2604 123 10 847 3435 461834487 461831903 0.000000e+00 3908.0
5 TraesCS6B01G276000 chr6A 89.073 604 42 14 63 646 461835250 461834651 0.000000e+00 728.0
6 TraesCS6B01G276000 chr6A 95.720 257 11 0 3427 3683 461826649 461826393 7.700000e-112 414.0
7 TraesCS6B01G276000 chr6A 92.562 121 8 1 3727 3846 423200858 423200978 5.120000e-39 172.0
8 TraesCS6B01G276000 chr6A 91.379 116 6 2 660 772 461834664 461834550 5.150000e-34 156.0
9 TraesCS6B01G276000 chr3A 89.431 615 37 14 3 600 108914387 108913784 0.000000e+00 750.0
10 TraesCS6B01G276000 chr3A 89.493 552 37 11 3 535 108912628 108913177 0.000000e+00 678.0
11 TraesCS6B01G276000 chr3A 97.436 117 3 0 895 1011 108909110 108908994 2.350000e-47 200.0
12 TraesCS6B01G276000 chr3A 97.674 43 0 1 845 887 108910162 108910121 5.340000e-09 73.1
13 TraesCS6B01G276000 chr3B 92.742 124 9 0 3728 3851 711611888 711611765 3.060000e-41 180.0
14 TraesCS6B01G276000 chr1B 91.200 125 8 3 3729 3851 18676025 18675902 2.380000e-37 167.0
15 TraesCS6B01G276000 chr1B 89.516 124 13 0 3728 3851 655292347 655292224 1.430000e-34 158.0
16 TraesCS6B01G276000 chr1B 89.516 124 11 2 3729 3851 18569872 18569750 5.150000e-34 156.0
17 TraesCS6B01G276000 chr1B 88.710 124 13 1 3728 3851 599306857 599306735 2.400000e-32 150.0
18 TraesCS6B01G276000 chr1B 82.692 156 25 2 3520 3674 10224612 10224766 1.870000e-28 137.0
19 TraesCS6B01G276000 chr1B 100.000 29 0 0 3683 3711 11915435 11915463 2.000000e-03 54.7
20 TraesCS6B01G276000 chr2D 89.344 122 11 2 3727 3847 534646524 534646404 6.660000e-33 152.0
21 TraesCS6B01G276000 chr2D 87.500 104 13 0 2282 2385 524965455 524965352 1.880000e-23 121.0
22 TraesCS6B01G276000 chr2D 90.909 44 4 0 3684 3727 12377512 12377469 4.150000e-05 60.2
23 TraesCS6B01G276000 chr3D 88.189 127 11 4 3726 3851 470674329 470674206 8.620000e-32 148.0
24 TraesCS6B01G276000 chrUn 87.705 122 15 0 3730 3851 24009677 24009798 4.010000e-30 143.0
25 TraesCS6B01G276000 chr2B 87.500 104 13 0 2282 2385 621063287 621063184 1.880000e-23 121.0
26 TraesCS6B01G276000 chr5D 100.000 29 0 0 3684 3712 316257449 316257477 2.000000e-03 54.7


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 TraesCS6B01G276000 chr6B 499020077 499023927 3850 False 7112.000000 7112 100.000000 1 3851 1 chr6B.!!$F1 3850
1 TraesCS6B01G276000 chr6D 324513445 324517122 3677 True 2560.000000 4421 88.906000 10 3683 2 chr6D.!!$R2 3673
2 TraesCS6B01G276000 chr6A 461831903 461835250 3347 True 1597.333333 3908 91.474333 63 3435 3 chr6A.!!$R2 3372
3 TraesCS6B01G276000 chr3A 108912628 108913177 549 False 678.000000 678 89.493000 3 535 1 chr3A.!!$F1 532
4 TraesCS6B01G276000 chr3A 108908994 108914387 5393 True 341.033333 750 94.847000 3 1011 3 chr3A.!!$R1 1008

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
642 4111 0.109723 TCGCTAGTTGGTTTGGGCTT 59.890 50.0 0.0 0.0 0.00 4.35 F
1317 5817 0.250038 CCTTCGATGATGATGGCGGT 60.250 55.0 0.0 0.0 0.00 5.68 F
1677 6177 0.107703 CCATAGCGGAAGTCCAGCAA 60.108 55.0 13.9 0.0 37.78 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 5967 0.030638 CAAAACTGCACCTTCCGTGG 59.969 55.0 0.0 0.0 43.24 4.94 R
2487 6987 1.084370 GGTCAAGGATTCGCTGGTCG 61.084 60.0 0.0 0.0 40.15 4.79 R
3594 8106 1.363744 GTCATTGGTTGAGCGAGAGG 58.636 55.0 0.0 0.0 34.17 3.69 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
100 107 0.846693 ACCAAACTGGAGAAGTGCCT 59.153 50.000 0.00 0.00 40.96 4.75
111 120 4.264352 TGGAGAAGTGCCTGGGAAAAATAT 60.264 41.667 0.00 0.00 0.00 1.28
147 156 3.446968 TCCGAGTGATAGGGGAGAAAAA 58.553 45.455 0.00 0.00 0.00 1.94
361 383 3.350612 GGCAGGTGCGTGCGTTTA 61.351 61.111 10.17 0.00 45.00 2.01
362 384 2.686816 GGCAGGTGCGTGCGTTTAT 61.687 57.895 10.17 0.00 45.00 1.40
366 388 1.154112 GGTGCGTGCGTTTATTGGG 60.154 57.895 0.00 0.00 0.00 4.12
369 395 2.983930 GCGTGCGTTTATTGGGGCA 61.984 57.895 0.00 0.00 0.00 5.36
397 423 3.522731 CGGAGAGGGAGGCGAGTG 61.523 72.222 0.00 0.00 0.00 3.51
551 578 4.465446 CGGAGCAGAGGAGGGGGA 62.465 72.222 0.00 0.00 0.00 4.81
557 584 2.765807 AGAGGAGGGGGATGCGTG 60.766 66.667 0.00 0.00 0.00 5.34
606 633 1.006805 GGTCGATCTGGATCCGCTG 60.007 63.158 7.39 0.00 34.40 5.18
613 640 1.681538 TCTGGATCCGCTGTAGTCTC 58.318 55.000 7.39 0.00 0.00 3.36
618 4087 2.625790 GGATCCGCTGTAGTCTCTTCAT 59.374 50.000 0.00 0.00 0.00 2.57
641 4110 0.328258 ATCGCTAGTTGGTTTGGGCT 59.672 50.000 0.00 0.00 0.00 5.19
642 4111 0.109723 TCGCTAGTTGGTTTGGGCTT 59.890 50.000 0.00 0.00 0.00 4.35
643 4112 0.521735 CGCTAGTTGGTTTGGGCTTC 59.478 55.000 0.00 0.00 0.00 3.86
644 4113 1.616159 GCTAGTTGGTTTGGGCTTCA 58.384 50.000 0.00 0.00 0.00 3.02
645 4114 1.960689 GCTAGTTGGTTTGGGCTTCAA 59.039 47.619 0.00 0.00 0.00 2.69
646 4115 2.562738 GCTAGTTGGTTTGGGCTTCAAT 59.437 45.455 0.00 0.00 34.98 2.57
647 4116 3.006859 GCTAGTTGGTTTGGGCTTCAATT 59.993 43.478 0.00 0.00 34.98 2.32
648 4117 4.503123 GCTAGTTGGTTTGGGCTTCAATTT 60.503 41.667 0.00 0.00 34.98 1.82
649 4118 4.502105 AGTTGGTTTGGGCTTCAATTTT 57.498 36.364 0.00 0.00 34.98 1.82
650 4119 4.854173 AGTTGGTTTGGGCTTCAATTTTT 58.146 34.783 0.00 0.00 34.98 1.94
668 4137 1.886422 TTTTTGGGAAGGTTTGGGCT 58.114 45.000 0.00 0.00 0.00 5.19
705 4175 1.229082 AACCGAGCCCAGTCCACTA 60.229 57.895 0.00 0.00 0.00 2.74
804 4297 0.744874 GTGGATGATGCATGCAAGCT 59.255 50.000 26.68 8.52 43.25 3.74
806 4299 2.557056 GTGGATGATGCATGCAAGCTAT 59.443 45.455 26.68 15.85 43.25 2.97
807 4300 3.754850 GTGGATGATGCATGCAAGCTATA 59.245 43.478 26.68 7.69 43.25 1.31
808 4301 4.007659 TGGATGATGCATGCAAGCTATAG 58.992 43.478 26.68 0.00 39.12 1.31
809 4302 4.008330 GGATGATGCATGCAAGCTATAGT 58.992 43.478 26.68 4.93 32.46 2.12
810 4303 5.181009 GGATGATGCATGCAAGCTATAGTA 58.819 41.667 26.68 3.28 32.46 1.82
811 4304 5.064452 GGATGATGCATGCAAGCTATAGTAC 59.936 44.000 26.68 7.76 32.46 2.73
812 4305 5.219343 TGATGCATGCAAGCTATAGTACT 57.781 39.130 26.68 2.55 34.99 2.73
813 4306 5.614308 TGATGCATGCAAGCTATAGTACTT 58.386 37.500 26.68 2.31 34.99 2.24
814 4307 6.057533 TGATGCATGCAAGCTATAGTACTTT 58.942 36.000 26.68 1.78 34.99 2.66
815 4308 6.543465 TGATGCATGCAAGCTATAGTACTTTT 59.457 34.615 26.68 1.01 34.99 2.27
816 4309 6.757897 TGCATGCAAGCTATAGTACTTTTT 57.242 33.333 20.30 0.00 34.99 1.94
900 5395 1.146358 CGAGAACGAATCTTCCCCGC 61.146 60.000 0.00 0.00 38.96 6.13
1050 5545 1.072505 TATCCGGTCCTAGCTCCCCT 61.073 60.000 0.00 0.00 0.00 4.79
1065 5560 3.272334 CCTCCTAATGCGCGCCAC 61.272 66.667 30.77 0.92 0.00 5.01
1200 5700 0.620556 CCCAGGTCTACAAGCACCAT 59.379 55.000 0.00 0.00 34.80 3.55
1317 5817 0.250038 CCTTCGATGATGATGGCGGT 60.250 55.000 0.00 0.00 0.00 5.68
1413 5913 1.874345 CTGGACGCCTACGGAACTGT 61.874 60.000 0.00 0.00 46.04 3.55
1428 5928 1.079819 CTGTCGGGTGTGCGAGAAT 60.080 57.895 0.00 0.00 0.00 2.40
1446 5946 0.400213 ATTGCGGGAAGGAGTTCACA 59.600 50.000 0.00 0.00 35.60 3.58
1467 5967 1.557443 CGTGGAAGTCGTTGCTGGAC 61.557 60.000 0.00 0.00 34.62 4.02
1482 5982 2.426023 GACCACGGAAGGTGCAGT 59.574 61.111 0.95 0.00 45.62 4.40
1494 5994 1.072331 AGGTGCAGTTTTGACGAGGAT 59.928 47.619 0.00 0.00 0.00 3.24
1512 6012 3.139584 AGGATGATGATTTGGATGGCTCA 59.860 43.478 0.00 0.00 0.00 4.26
1527 6027 0.659417 GCTCACTTCGTTCGTCGTCA 60.659 55.000 0.00 0.00 40.80 4.35
1531 6031 0.313043 ACTTCGTTCGTCGTCACCAT 59.687 50.000 0.00 0.00 40.80 3.55
1555 6055 3.191669 CATAATAACACCGACGAAGGCA 58.808 45.455 0.00 0.00 33.69 4.75
1557 6057 3.530265 AATAACACCGACGAAGGCATA 57.470 42.857 0.00 0.00 33.69 3.14
1560 6060 0.456221 ACACCGACGAAGGCATAGAG 59.544 55.000 0.00 0.00 33.69 2.43
1565 6065 1.404843 GACGAAGGCATAGAGGAGGT 58.595 55.000 0.00 0.00 0.00 3.85
1642 6142 3.887868 GCCGCGCCAAGGTAATGG 61.888 66.667 0.00 0.00 43.70 3.16
1644 6144 2.043980 CCGCGCCAAGGTAATGGTT 61.044 57.895 0.00 0.00 42.75 3.67
1646 6146 1.582610 CGCGCCAAGGTAATGGTTGT 61.583 55.000 0.00 0.00 42.75 3.32
1650 6150 1.612199 GCCAAGGTAATGGTTGTCGGA 60.612 52.381 0.00 0.00 42.75 4.55
1663 6163 1.883084 GTCGGAAGCGGTGCCATAG 60.883 63.158 13.22 0.00 0.00 2.23
1671 6171 1.883084 CGGTGCCATAGCGGAAGTC 60.883 63.158 0.00 0.00 45.98 3.01
1677 6177 0.107703 CCATAGCGGAAGTCCAGCAA 60.108 55.000 13.90 0.00 37.78 3.91
1731 6231 0.538584 ATTGCCTCGTCATGCTCTCA 59.461 50.000 0.00 0.00 0.00 3.27
1746 6246 1.464997 CTCTCATCGTCTCGTGTCACA 59.535 52.381 3.42 0.00 0.00 3.58
1753 6253 1.209128 GTCTCGTGTCACACAACCAG 58.791 55.000 9.06 0.00 33.40 4.00
1758 6258 0.657840 GTGTCACACAACCAGCAGTC 59.342 55.000 2.00 0.00 34.08 3.51
1765 6265 0.473755 ACAACCAGCAGTCCATGTGA 59.526 50.000 0.00 0.00 0.00 3.58
1767 6267 1.267806 CAACCAGCAGTCCATGTGAAC 59.732 52.381 0.00 0.00 0.00 3.18
1776 6276 1.963855 CCATGTGAACGCCGACCAA 60.964 57.895 0.00 0.00 0.00 3.67
1782 6282 1.006571 GAACGCCGACCAAGAGTCA 60.007 57.895 0.00 0.00 46.69 3.41
1785 6285 1.251527 ACGCCGACCAAGAGTCATCT 61.252 55.000 0.00 0.00 46.69 2.90
1794 6294 6.950630 GACCAAGAGTCATCTGCATCAGCA 62.951 50.000 0.00 0.00 46.66 4.41
1818 6318 3.623510 GCAAGGACGAAGAAAGGAATAGG 59.376 47.826 0.00 0.00 0.00 2.57
1822 6322 3.133183 GGACGAAGAAAGGAATAGGCTCT 59.867 47.826 0.00 0.00 0.00 4.09
1848 6348 1.645034 CACAACCGCTCTCGATCATT 58.355 50.000 0.00 0.00 38.10 2.57
1890 6390 0.685097 AGTTTTCTGCGCCTCAGGTA 59.315 50.000 4.18 0.00 43.06 3.08
1902 6402 0.530744 CTCAGGTAGTAGTGGCGCAA 59.469 55.000 10.83 0.00 0.00 4.85
1908 6408 0.665068 TAGTAGTGGCGCAACACGTG 60.665 55.000 19.06 15.48 45.80 4.49
2065 6565 2.391926 TGAGACTACCCACCAACAGA 57.608 50.000 0.00 0.00 0.00 3.41
2099 6599 1.137282 TGCTCTACACGACAACACCAA 59.863 47.619 0.00 0.00 0.00 3.67
2114 6614 2.311854 CCAAGGCCATCCCTGAGGT 61.312 63.158 5.01 0.00 45.62 3.85
2144 6644 0.250640 ACCAGCACTGCAGAAGGAAG 60.251 55.000 23.35 6.79 0.00 3.46
2168 6668 0.663153 GGTAACCTCGATGCCAATGC 59.337 55.000 0.00 0.00 38.26 3.56
2169 6669 0.663153 GTAACCTCGATGCCAATGCC 59.337 55.000 0.00 0.00 36.33 4.40
2170 6670 0.254462 TAACCTCGATGCCAATGCCA 59.746 50.000 0.00 0.00 36.33 4.92
2171 6671 1.033746 AACCTCGATGCCAATGCCAG 61.034 55.000 0.00 0.00 36.33 4.85
2238 6738 1.819632 AGCGACGGAAATGGCCATC 60.820 57.895 21.08 8.49 0.00 3.51
2487 6987 3.186047 CCGATGTTCGACACGGCC 61.186 66.667 0.00 0.00 43.74 6.13
2766 7266 1.347707 AGCGACCTCAAGGACATGAAA 59.652 47.619 0.00 0.00 38.94 2.69
2837 7337 2.603892 CGTCGGAGAACAACGAGAAGAA 60.604 50.000 0.00 0.00 39.69 2.52
2848 7348 4.767928 ACAACGAGAAGAATACTCAGGAGT 59.232 41.667 7.18 7.18 45.02 3.85
3268 7779 1.346395 AGAAGATACCCACGTGTTGCA 59.654 47.619 15.65 0.00 0.00 4.08
3439 7950 7.598278 ACAGCAGAGTACATATATGTAGCTTC 58.402 38.462 24.19 20.35 43.32 3.86
3468 7979 7.231467 GGGGGCTTCTAAAGAATATGACATTA 58.769 38.462 0.00 0.00 33.01 1.90
3481 7993 9.770097 AGAATATGACATTATGACTTACAGTGG 57.230 33.333 0.00 0.00 0.00 4.00
3482 7994 8.908786 AATATGACATTATGACTTACAGTGGG 57.091 34.615 0.00 0.00 0.00 4.61
3487 7999 2.717639 ATGACTTACAGTGGGGATGC 57.282 50.000 0.00 0.00 0.00 3.91
3540 8052 5.623673 GCCTACAATAACAAAGACAACAACG 59.376 40.000 0.00 0.00 0.00 4.10
3594 8106 5.066117 GCTAGTTGAAATTACCCCAAGCTAC 59.934 44.000 0.00 0.00 0.00 3.58
3606 8118 1.634702 CAAGCTACCTCTCGCTCAAC 58.365 55.000 0.00 0.00 34.96 3.18
3624 8136 4.991776 TCAACCAATGACCTACAAATCCA 58.008 39.130 0.00 0.00 31.50 3.41
3645 8157 4.695455 CCAAAAGGCGTCTTAGAAGATTCA 59.305 41.667 0.94 0.00 37.39 2.57
3683 8195 7.569591 CGGTCAATTGACAAAGAGAAGAGTAAC 60.570 40.741 33.42 13.61 46.47 2.50
3684 8196 7.226720 GGTCAATTGACAAAGAGAAGAGTAACA 59.773 37.037 33.42 0.00 46.47 2.41
3685 8197 8.064814 GTCAATTGACAAAGAGAAGAGTAACAC 58.935 37.037 29.43 0.00 44.18 3.32
3686 8198 7.987458 TCAATTGACAAAGAGAAGAGTAACACT 59.013 33.333 3.38 0.00 0.00 3.55
3687 8199 9.261180 CAATTGACAAAGAGAAGAGTAACACTA 57.739 33.333 0.00 0.00 0.00 2.74
3688 8200 9.482627 AATTGACAAAGAGAAGAGTAACACTAG 57.517 33.333 0.00 0.00 0.00 2.57
3689 8201 7.584122 TGACAAAGAGAAGAGTAACACTAGT 57.416 36.000 0.00 0.00 0.00 2.57
3690 8202 7.426410 TGACAAAGAGAAGAGTAACACTAGTG 58.574 38.462 21.44 21.44 0.00 2.74
3691 8203 6.217294 ACAAAGAGAAGAGTAACACTAGTGC 58.783 40.000 22.90 6.83 0.00 4.40
3692 8204 6.183360 ACAAAGAGAAGAGTAACACTAGTGCA 60.183 38.462 22.90 8.24 0.00 4.57
3693 8205 5.637006 AGAGAAGAGTAACACTAGTGCAG 57.363 43.478 22.90 0.00 0.00 4.41
3694 8206 5.317808 AGAGAAGAGTAACACTAGTGCAGA 58.682 41.667 22.90 5.33 0.00 4.26
3695 8207 5.770663 AGAGAAGAGTAACACTAGTGCAGAA 59.229 40.000 22.90 2.94 0.00 3.02
3696 8208 6.435904 AGAGAAGAGTAACACTAGTGCAGAAT 59.564 38.462 22.90 7.33 0.00 2.40
3697 8209 6.998802 AGAAGAGTAACACTAGTGCAGAATT 58.001 36.000 22.90 11.41 0.00 2.17
3698 8210 6.870965 AGAAGAGTAACACTAGTGCAGAATTG 59.129 38.462 22.90 0.00 0.00 2.32
3699 8211 5.482908 AGAGTAACACTAGTGCAGAATTGG 58.517 41.667 22.90 0.00 0.00 3.16
3700 8212 4.003648 AGTAACACTAGTGCAGAATTGGC 58.996 43.478 22.90 7.02 0.00 4.52
3701 8213 1.826385 ACACTAGTGCAGAATTGGCC 58.174 50.000 22.90 0.00 0.00 5.36
3702 8214 1.073763 ACACTAGTGCAGAATTGGCCA 59.926 47.619 22.90 0.00 0.00 5.36
3703 8215 2.291153 ACACTAGTGCAGAATTGGCCAT 60.291 45.455 22.90 0.00 0.00 4.40
3704 8216 2.756760 CACTAGTGCAGAATTGGCCATT 59.243 45.455 6.09 0.00 0.00 3.16
3705 8217 3.947196 CACTAGTGCAGAATTGGCCATTA 59.053 43.478 6.09 0.00 0.00 1.90
3706 8218 4.036027 CACTAGTGCAGAATTGGCCATTAG 59.964 45.833 6.09 0.00 0.00 1.73
3707 8219 3.091633 AGTGCAGAATTGGCCATTAGT 57.908 42.857 6.09 0.00 0.00 2.24
3708 8220 3.019564 AGTGCAGAATTGGCCATTAGTC 58.980 45.455 6.09 0.25 0.00 2.59
3709 8221 2.099756 GTGCAGAATTGGCCATTAGTCC 59.900 50.000 6.09 0.00 0.00 3.85
3710 8222 1.683385 GCAGAATTGGCCATTAGTCCC 59.317 52.381 6.09 0.00 0.00 4.46
3711 8223 1.949525 CAGAATTGGCCATTAGTCCCG 59.050 52.381 6.09 0.00 0.00 5.14
3712 8224 0.668535 GAATTGGCCATTAGTCCCGC 59.331 55.000 6.09 0.00 0.00 6.13
3713 8225 0.258774 AATTGGCCATTAGTCCCGCT 59.741 50.000 6.09 0.00 0.00 5.52
3714 8226 0.258774 ATTGGCCATTAGTCCCGCTT 59.741 50.000 6.09 0.00 0.00 4.68
3715 8227 0.393808 TTGGCCATTAGTCCCGCTTC 60.394 55.000 6.09 0.00 0.00 3.86
3716 8228 1.223487 GGCCATTAGTCCCGCTTCA 59.777 57.895 0.00 0.00 0.00 3.02
3717 8229 0.179018 GGCCATTAGTCCCGCTTCAT 60.179 55.000 0.00 0.00 0.00 2.57
3718 8230 0.947244 GCCATTAGTCCCGCTTCATG 59.053 55.000 0.00 0.00 0.00 3.07
3719 8231 1.475034 GCCATTAGTCCCGCTTCATGA 60.475 52.381 0.00 0.00 0.00 3.07
3720 8232 2.487934 CCATTAGTCCCGCTTCATGAG 58.512 52.381 0.00 0.00 0.00 2.90
3721 8233 2.487934 CATTAGTCCCGCTTCATGAGG 58.512 52.381 0.00 0.00 35.24 3.86
3726 8238 2.273449 CCGCTTCATGAGGGCCTT 59.727 61.111 7.89 0.00 37.01 4.35
3727 8239 1.821332 CCGCTTCATGAGGGCCTTC 60.821 63.158 7.89 8.18 37.01 3.46
3728 8240 1.821332 CGCTTCATGAGGGCCTTCC 60.821 63.158 13.07 0.00 0.00 3.46
3729 8241 1.821332 GCTTCATGAGGGCCTTCCG 60.821 63.158 13.07 3.62 41.52 4.30
3730 8242 1.153086 CTTCATGAGGGCCTTCCGG 60.153 63.158 13.07 4.43 41.52 5.14
3731 8243 1.915078 CTTCATGAGGGCCTTCCGGT 61.915 60.000 13.07 0.00 41.52 5.28
3732 8244 1.497309 TTCATGAGGGCCTTCCGGTT 61.497 55.000 13.07 0.00 41.52 4.44
3733 8245 1.452108 CATGAGGGCCTTCCGGTTC 60.452 63.158 13.07 0.00 41.52 3.62
3734 8246 3.031417 ATGAGGGCCTTCCGGTTCG 62.031 63.158 13.07 0.00 41.52 3.95
3735 8247 3.703127 GAGGGCCTTCCGGTTCGT 61.703 66.667 7.89 0.00 41.52 3.85
3736 8248 3.660732 GAGGGCCTTCCGGTTCGTC 62.661 68.421 7.89 0.00 41.52 4.20
3737 8249 4.011517 GGGCCTTCCGGTTCGTCA 62.012 66.667 0.84 0.00 0.00 4.35
3738 8250 2.741211 GGCCTTCCGGTTCGTCAC 60.741 66.667 0.00 0.00 0.00 3.67
3739 8251 3.110178 GCCTTCCGGTTCGTCACG 61.110 66.667 0.00 0.00 0.00 4.35
3740 8252 2.646719 CCTTCCGGTTCGTCACGA 59.353 61.111 0.00 0.00 0.00 4.35
3741 8253 1.731969 CCTTCCGGTTCGTCACGAC 60.732 63.158 0.00 0.00 34.89 4.34
3742 8254 1.731969 CTTCCGGTTCGTCACGACC 60.732 63.158 0.00 3.89 34.89 4.79
3743 8255 3.211564 TTCCGGTTCGTCACGACCC 62.212 63.158 3.12 3.12 35.11 4.46
3746 8258 2.126580 GGTTCGTCACGACCCGAG 60.127 66.667 0.00 0.00 34.89 4.63
3747 8259 2.620112 GGTTCGTCACGACCCGAGA 61.620 63.158 0.00 0.00 34.89 4.04
3748 8260 1.441682 GTTCGTCACGACCCGAGAC 60.442 63.158 0.00 6.82 42.23 3.36
3749 8261 2.620112 TTCGTCACGACCCGAGACC 61.620 63.158 0.00 0.00 42.56 3.85
3750 8262 3.359523 CGTCACGACCCGAGACCA 61.360 66.667 10.34 0.00 42.56 4.02
3751 8263 2.911484 CGTCACGACCCGAGACCAA 61.911 63.158 10.34 0.00 42.56 3.67
3752 8264 1.364901 GTCACGACCCGAGACCAAA 59.635 57.895 5.80 0.00 40.45 3.28
3753 8265 0.666577 GTCACGACCCGAGACCAAAG 60.667 60.000 5.80 0.00 40.45 2.77
3754 8266 1.374252 CACGACCCGAGACCAAAGG 60.374 63.158 0.00 0.00 0.00 3.11
3755 8267 2.434359 CGACCCGAGACCAAAGGC 60.434 66.667 0.00 0.00 0.00 4.35
3756 8268 2.943978 CGACCCGAGACCAAAGGCT 61.944 63.158 0.00 0.00 0.00 4.58
3757 8269 1.079057 GACCCGAGACCAAAGGCTC 60.079 63.158 0.00 0.00 0.00 4.70
3758 8270 1.827399 GACCCGAGACCAAAGGCTCA 61.827 60.000 0.00 0.00 0.00 4.26
3759 8271 1.376037 CCCGAGACCAAAGGCTCAC 60.376 63.158 0.00 0.00 0.00 3.51
3760 8272 1.376037 CCGAGACCAAAGGCTCACC 60.376 63.158 0.00 0.00 0.00 4.02
3761 8273 1.371183 CGAGACCAAAGGCTCACCA 59.629 57.895 0.00 0.00 39.06 4.17
3762 8274 0.951040 CGAGACCAAAGGCTCACCAC 60.951 60.000 0.00 0.00 39.06 4.16
3763 8275 0.951040 GAGACCAAAGGCTCACCACG 60.951 60.000 0.00 0.00 39.06 4.94
3764 8276 1.227853 GACCAAAGGCTCACCACGT 60.228 57.895 0.00 0.00 39.06 4.49
3765 8277 1.507141 GACCAAAGGCTCACCACGTG 61.507 60.000 9.08 9.08 39.06 4.49
3766 8278 2.260869 CCAAAGGCTCACCACGTGG 61.261 63.158 32.83 32.83 39.06 4.94
3776 8288 2.740826 CCACGTGGTACAAGCCCG 60.741 66.667 26.95 0.00 44.16 6.13
3777 8289 3.419759 CACGTGGTACAAGCCCGC 61.420 66.667 7.95 0.00 44.16 6.13
3797 8309 4.817909 CGGGGGCTAGGGGTCCTT 62.818 72.222 0.00 0.00 40.18 3.36
3798 8310 2.286962 GGGGGCTAGGGGTCCTTT 60.287 66.667 0.00 0.00 40.18 3.11
3799 8311 1.005156 GGGGGCTAGGGGTCCTTTA 59.995 63.158 0.00 0.00 40.18 1.85
3800 8312 1.060743 GGGGGCTAGGGGTCCTTTAG 61.061 65.000 0.00 0.00 40.18 1.85
3801 8313 0.327287 GGGGCTAGGGGTCCTTTAGT 60.327 60.000 0.00 0.00 40.18 2.24
3802 8314 1.129917 GGGCTAGGGGTCCTTTAGTC 58.870 60.000 0.00 0.00 36.61 2.59
3803 8315 1.129917 GGCTAGGGGTCCTTTAGTCC 58.870 60.000 0.00 0.00 34.61 3.85
3804 8316 1.129917 GCTAGGGGTCCTTTAGTCCC 58.870 60.000 0.00 0.00 40.41 4.46
3805 8317 1.411041 CTAGGGGTCCTTTAGTCCCG 58.589 60.000 0.00 0.00 43.92 5.14
3806 8318 0.031817 TAGGGGTCCTTTAGTCCCGG 60.032 60.000 0.00 0.00 43.92 5.73
3807 8319 1.614525 GGGGTCCTTTAGTCCCGGT 60.615 63.158 0.00 0.00 41.92 5.28
3808 8320 1.203441 GGGGTCCTTTAGTCCCGGTT 61.203 60.000 0.00 0.00 41.92 4.44
3809 8321 0.035725 GGGTCCTTTAGTCCCGGTTG 60.036 60.000 0.00 0.00 0.00 3.77
3810 8322 0.035725 GGTCCTTTAGTCCCGGTTGG 60.036 60.000 0.00 0.00 0.00 3.77
3811 8323 0.689055 GTCCTTTAGTCCCGGTTGGT 59.311 55.000 0.00 0.00 34.77 3.67
3812 8324 0.688487 TCCTTTAGTCCCGGTTGGTG 59.312 55.000 0.00 0.00 34.77 4.17
3813 8325 0.688487 CCTTTAGTCCCGGTTGGTGA 59.312 55.000 0.00 0.00 34.77 4.02
3814 8326 1.609841 CCTTTAGTCCCGGTTGGTGAC 60.610 57.143 0.00 0.00 36.34 3.67
3815 8327 1.071071 CTTTAGTCCCGGTTGGTGACA 59.929 52.381 9.96 0.00 37.70 3.58
3816 8328 0.393820 TTAGTCCCGGTTGGTGACAC 59.606 55.000 9.96 0.00 42.67 3.67
3817 8329 1.474332 TAGTCCCGGTTGGTGACACC 61.474 60.000 18.28 18.28 42.67 4.16
3826 8338 4.475527 GGTGACACCAACCAGGAC 57.524 61.111 20.14 0.00 41.22 3.85
3827 8339 1.837090 GGTGACACCAACCAGGACT 59.163 57.895 20.14 0.00 41.22 3.85
3828 8340 1.053424 GGTGACACCAACCAGGACTA 58.947 55.000 20.14 0.00 41.22 2.59
3829 8341 1.418637 GGTGACACCAACCAGGACTAA 59.581 52.381 20.14 0.00 41.22 2.24
3830 8342 2.158726 GGTGACACCAACCAGGACTAAA 60.159 50.000 20.14 0.00 41.22 1.85
3831 8343 3.547746 GTGACACCAACCAGGACTAAAA 58.452 45.455 0.00 0.00 41.22 1.52
3832 8344 3.564225 GTGACACCAACCAGGACTAAAAG 59.436 47.826 0.00 0.00 41.22 2.27
3833 8345 3.146847 GACACCAACCAGGACTAAAAGG 58.853 50.000 0.00 0.00 41.22 3.11
3834 8346 2.512476 ACACCAACCAGGACTAAAAGGT 59.488 45.455 0.00 0.00 41.22 3.50
3835 8347 3.053170 ACACCAACCAGGACTAAAAGGTT 60.053 43.478 0.00 0.00 44.74 3.50
3836 8348 3.958147 CACCAACCAGGACTAAAAGGTTT 59.042 43.478 0.00 0.00 42.15 3.27
3837 8349 5.134661 CACCAACCAGGACTAAAAGGTTTA 58.865 41.667 0.00 0.00 42.15 2.01
3838 8350 5.240844 CACCAACCAGGACTAAAAGGTTTAG 59.759 44.000 0.00 6.27 42.15 1.85
3839 8351 4.765339 CCAACCAGGACTAAAAGGTTTAGG 59.235 45.833 11.39 0.00 42.15 2.69
3840 8352 4.652679 ACCAGGACTAAAAGGTTTAGGG 57.347 45.455 11.39 6.14 0.00 3.53
3841 8353 3.332783 ACCAGGACTAAAAGGTTTAGGGG 59.667 47.826 11.39 9.31 0.00 4.79
3842 8354 3.332783 CCAGGACTAAAAGGTTTAGGGGT 59.667 47.826 11.39 0.00 0.00 4.95
3843 8355 4.202641 CCAGGACTAAAAGGTTTAGGGGTT 60.203 45.833 11.39 0.00 0.00 4.11
3844 8356 5.391256 CAGGACTAAAAGGTTTAGGGGTTT 58.609 41.667 11.39 0.00 0.00 3.27
3845 8357 6.467629 CCAGGACTAAAAGGTTTAGGGGTTTA 60.468 42.308 11.39 0.00 0.00 2.01
3846 8358 6.657966 CAGGACTAAAAGGTTTAGGGGTTTAG 59.342 42.308 11.39 0.00 37.64 1.85
3847 8359 5.948162 GGACTAAAAGGTTTAGGGGTTTAGG 59.052 44.000 11.39 0.00 36.52 2.69
3848 8360 5.895807 ACTAAAAGGTTTAGGGGTTTAGGG 58.104 41.667 11.39 0.00 36.52 3.53
3849 8361 3.839323 AAAGGTTTAGGGGTTTAGGGG 57.161 47.619 0.00 0.00 0.00 4.79
3850 8362 2.463671 AGGTTTAGGGGTTTAGGGGT 57.536 50.000 0.00 0.00 0.00 4.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.340666 TGCTTCCTTTTGTGTATGCAAAGA 59.659 37.500 0.00 0.00 39.20 2.52
1 2 4.619973 TGCTTCCTTTTGTGTATGCAAAG 58.380 39.130 0.00 0.00 39.20 2.77
48 55 0.626382 ATGTCTCGGACTGAGGAGGA 59.374 55.000 11.45 0.00 45.32 3.71
100 107 6.307776 TCACTTGTGTGGTATATTTTTCCCA 58.692 36.000 0.46 0.00 43.94 4.37
111 120 2.631062 ACTCGGAATCACTTGTGTGGTA 59.369 45.455 0.46 0.00 43.94 3.25
147 156 4.626081 AGCGGCGCAAAGGTGAGT 62.626 61.111 35.02 6.66 0.00 3.41
328 350 3.827898 CCTCCGCCTCACTCCGTC 61.828 72.222 0.00 0.00 0.00 4.79
351 373 2.202557 GCCCCAATAAACGCACGC 60.203 61.111 0.00 0.00 0.00 5.34
417 443 2.685897 GTTACATCTCTCGTCTCTGGCT 59.314 50.000 0.00 0.00 0.00 4.75
421 447 4.396790 GGTTGAGTTACATCTCTCGTCTCT 59.603 45.833 0.00 0.00 35.68 3.10
589 616 0.952280 TACAGCGGATCCAGATCGAC 59.048 55.000 13.41 0.00 38.69 4.20
606 633 6.500041 ACTAGCGATTGAATGAAGAGACTAC 58.500 40.000 0.00 0.00 0.00 2.73
613 640 5.551760 AACCAACTAGCGATTGAATGAAG 57.448 39.130 0.00 0.00 0.00 3.02
618 4087 2.817258 CCCAAACCAACTAGCGATTGAA 59.183 45.455 0.00 0.00 0.00 2.69
649 4118 1.886422 AGCCCAAACCTTCCCAAAAA 58.114 45.000 0.00 0.00 0.00 1.94
650 4119 1.765904 GAAGCCCAAACCTTCCCAAAA 59.234 47.619 0.00 0.00 34.12 2.44
651 4120 1.343478 TGAAGCCCAAACCTTCCCAAA 60.343 47.619 0.00 0.00 38.29 3.28
652 4121 0.263172 TGAAGCCCAAACCTTCCCAA 59.737 50.000 0.00 0.00 38.29 4.12
653 4122 0.263172 TTGAAGCCCAAACCTTCCCA 59.737 50.000 0.00 0.00 38.29 4.37
654 4123 1.419381 TTTGAAGCCCAAACCTTCCC 58.581 50.000 0.00 0.00 39.65 3.97
655 4124 2.632512 TCATTTGAAGCCCAAACCTTCC 59.367 45.455 4.28 0.00 46.41 3.46
656 4125 3.321968 AGTCATTTGAAGCCCAAACCTTC 59.678 43.478 4.28 0.00 46.41 3.46
657 4126 3.308401 AGTCATTTGAAGCCCAAACCTT 58.692 40.909 4.28 0.00 46.41 3.50
658 4127 2.962859 AGTCATTTGAAGCCCAAACCT 58.037 42.857 4.28 0.00 46.41 3.50
659 4128 3.392882 CAAGTCATTTGAAGCCCAAACC 58.607 45.455 4.28 0.00 46.41 3.27
660 4129 3.181466 ACCAAGTCATTTGAAGCCCAAAC 60.181 43.478 4.28 0.00 46.41 2.93
662 4131 2.676748 ACCAAGTCATTTGAAGCCCAA 58.323 42.857 0.00 0.00 39.21 4.12
663 4132 2.380064 ACCAAGTCATTTGAAGCCCA 57.620 45.000 0.00 0.00 39.21 5.36
664 4133 3.751479 AAACCAAGTCATTTGAAGCCC 57.249 42.857 0.00 0.00 39.21 5.19
665 4134 4.692228 TGAAAACCAAGTCATTTGAAGCC 58.308 39.130 0.00 0.00 39.21 4.35
666 4135 6.036246 GTTGAAAACCAAGTCATTTGAAGC 57.964 37.500 0.00 0.00 42.21 3.86
718 4192 2.034124 CCATGGGCTAATCAACCAAGG 58.966 52.381 2.85 0.00 37.89 3.61
836 4329 7.527457 CGCCAAGAAAAAGTACTATAGCTTTT 58.473 34.615 10.57 10.57 44.00 2.27
837 4330 6.403309 GCGCCAAGAAAAAGTACTATAGCTTT 60.403 38.462 0.00 0.00 36.60 3.51
838 4331 5.064834 GCGCCAAGAAAAAGTACTATAGCTT 59.935 40.000 0.00 0.00 0.00 3.74
839 4332 4.571176 GCGCCAAGAAAAAGTACTATAGCT 59.429 41.667 0.00 0.00 0.00 3.32
840 4333 4.550255 CGCGCCAAGAAAAAGTACTATAGC 60.550 45.833 0.00 0.00 0.00 2.97
841 4334 4.550255 GCGCGCCAAGAAAAAGTACTATAG 60.550 45.833 23.24 0.00 0.00 1.31
842 4335 3.307782 GCGCGCCAAGAAAAAGTACTATA 59.692 43.478 23.24 0.00 0.00 1.31
843 4336 2.095372 GCGCGCCAAGAAAAAGTACTAT 59.905 45.455 23.24 0.00 0.00 2.12
1022 5517 0.694444 AGGACCGGATATTGGTGGCT 60.694 55.000 9.46 0.00 40.63 4.75
1050 5545 2.511373 CAGTGGCGCGCATTAGGA 60.511 61.111 34.42 5.71 0.00 2.94
1290 5790 0.103026 CATCATCGAAGGCGTCCTCA 59.897 55.000 0.00 0.00 38.98 3.86
1296 5796 1.864862 GCCATCATCATCGAAGGCG 59.135 57.895 0.00 0.00 39.72 5.52
1317 5817 2.126228 GACGATTCGCCGACACCA 60.126 61.111 5.86 0.00 0.00 4.17
1363 5863 2.329614 GCCCGTACATGCGTTTGGT 61.330 57.895 0.00 0.00 0.00 3.67
1413 5913 2.032634 GCAATTCTCGCACACCCGA 61.033 57.895 0.00 0.00 35.68 5.14
1428 5928 0.400213 ATGTGAACTCCTTCCCGCAA 59.600 50.000 0.00 0.00 0.00 4.85
1446 5946 0.670546 CCAGCAACGACTTCCACGAT 60.671 55.000 0.00 0.00 34.70 3.73
1467 5967 0.030638 CAAAACTGCACCTTCCGTGG 59.969 55.000 0.00 0.00 43.24 4.94
1482 5982 5.252547 TCCAAATCATCATCCTCGTCAAAA 58.747 37.500 0.00 0.00 0.00 2.44
1494 5994 3.657398 AGTGAGCCATCCAAATCATCA 57.343 42.857 0.00 0.00 0.00 3.07
1527 6027 3.311322 CGTCGGTGTTATTATGCAATGGT 59.689 43.478 0.00 0.00 0.00 3.55
1531 6031 3.619483 CCTTCGTCGGTGTTATTATGCAA 59.381 43.478 0.00 0.00 0.00 4.08
1555 6055 1.702957 CTCCTCCTCGACCTCCTCTAT 59.297 57.143 0.00 0.00 0.00 1.98
1557 6057 1.641552 CCTCCTCCTCGACCTCCTCT 61.642 65.000 0.00 0.00 0.00 3.69
1560 6060 0.753848 CTTCCTCCTCCTCGACCTCC 60.754 65.000 0.00 0.00 0.00 4.30
1565 6065 1.934341 TCCCCTTCCTCCTCCTCGA 60.934 63.158 0.00 0.00 0.00 4.04
1602 6102 1.304134 GCGTTTCCCCTTGGACCAT 60.304 57.895 0.00 0.00 41.57 3.55
1638 6138 1.072505 ACCGCTTCCGACAACCATT 59.927 52.632 0.00 0.00 36.29 3.16
1642 6142 3.723348 GGCACCGCTTCCGACAAC 61.723 66.667 0.00 0.00 36.29 3.32
1644 6144 2.572095 CTATGGCACCGCTTCCGACA 62.572 60.000 0.00 0.00 36.29 4.35
1646 6146 2.499205 CTATGGCACCGCTTCCGA 59.501 61.111 0.00 0.00 36.29 4.55
1650 6150 3.323758 TTCCGCTATGGCACCGCTT 62.324 57.895 0.74 0.00 38.60 4.68
1663 6163 3.423154 CGGTTGCTGGACTTCCGC 61.423 66.667 5.48 5.48 39.43 5.54
1731 6231 1.602165 GGTTGTGTGACACGAGACGAT 60.602 52.381 11.51 0.00 37.14 3.73
1746 6246 0.473755 TCACATGGACTGCTGGTTGT 59.526 50.000 0.00 0.00 0.00 3.32
1753 6253 2.870372 GGCGTTCACATGGACTGC 59.130 61.111 0.00 1.79 0.00 4.40
1758 6258 1.911293 CTTGGTCGGCGTTCACATGG 61.911 60.000 6.85 0.00 0.00 3.66
1794 6294 2.930826 TCCTTTCTTCGTCCTTGCTT 57.069 45.000 0.00 0.00 0.00 3.91
1818 6318 2.908073 CGGTTGTGGCACCAAGAGC 61.908 63.158 16.26 7.28 36.49 4.09
1822 6322 2.904866 GAGCGGTTGTGGCACCAA 60.905 61.111 16.26 6.79 36.49 3.67
1848 6348 3.002583 TGCGCTGTCATGGGAGGA 61.003 61.111 9.73 0.00 0.00 3.71
1890 6390 1.954146 CACGTGTTGCGCCACTACT 60.954 57.895 13.27 0.00 46.11 2.57
1902 6402 4.922026 GGGACGGTTGGCACGTGT 62.922 66.667 18.38 0.00 45.68 4.49
1923 6423 1.799544 CCTTGCATTCAAACAAGCCC 58.200 50.000 0.00 0.00 41.56 5.19
2099 6599 0.253160 TACAACCTCAGGGATGGCCT 60.253 55.000 3.32 0.00 39.36 5.19
2114 6614 2.168521 GCAGTGCTGGTATCTCCTACAA 59.831 50.000 8.18 0.00 37.07 2.41
2144 6644 1.227176 GCATCGAGGTTACCCGTCC 60.227 63.158 10.93 0.00 35.12 4.79
2221 6721 1.447317 ATGATGGCCATTTCCGTCGC 61.447 55.000 21.84 4.63 43.47 5.19
2264 6764 2.125350 GAGAGAAGGCGGCTGGTG 60.125 66.667 14.21 0.00 0.00 4.17
2266 6766 4.521062 CGGAGAGAAGGCGGCTGG 62.521 72.222 14.21 0.00 0.00 4.85
2277 6777 2.354203 CCCCTTCTTCTTGAACGGAGAG 60.354 54.545 0.00 0.00 34.21 3.20
2487 6987 1.084370 GGTCAAGGATTCGCTGGTCG 61.084 60.000 0.00 0.00 40.15 4.79
2571 7071 1.823295 GTTGAGGCAGAGCGGGATA 59.177 57.895 0.00 0.00 0.00 2.59
2837 7337 4.167113 TCTTCTAGGCTCACTCCTGAGTAT 59.833 45.833 0.00 0.00 45.30 2.12
2848 7348 4.265893 CTGTGAGTACTCTTCTAGGCTCA 58.734 47.826 23.01 2.05 38.31 4.26
3268 7779 7.103641 TCTCTAAATTATTGTTGAGTTCCGCT 58.896 34.615 0.00 0.00 0.00 5.52
3301 7812 8.978564 AATATCGCACACATGTTTTCATTTTA 57.021 26.923 0.00 0.00 38.64 1.52
3439 7950 2.781681 TTCTTTAGAAGCCCCCGAAG 57.218 50.000 0.00 0.00 0.00 3.79
3481 7993 4.023291 TCCTTCAAAATAGTTGGCATCCC 58.977 43.478 0.00 0.00 0.00 3.85
3482 7994 4.098501 CCTCCTTCAAAATAGTTGGCATCC 59.901 45.833 0.00 0.00 0.00 3.51
3487 7999 5.253330 TGTAGCCTCCTTCAAAATAGTTGG 58.747 41.667 0.00 0.00 0.00 3.77
3556 8068 9.481340 AATTTCAACTAGCTTTCCTTCATTTTC 57.519 29.630 0.00 0.00 0.00 2.29
3594 8106 1.363744 GTCATTGGTTGAGCGAGAGG 58.636 55.000 0.00 0.00 34.17 3.69
3606 8118 5.723295 CCTTTTGGATTTGTAGGTCATTGG 58.277 41.667 0.00 0.00 44.07 3.16
3624 8136 8.738645 AATATGAATCTTCTAAGACGCCTTTT 57.261 30.769 0.00 0.00 37.98 2.27
3654 8166 5.588648 TCTTCTCTTTGTCAATTGACCGTTT 59.411 36.000 30.66 0.00 44.15 3.60
3656 8168 4.703897 TCTTCTCTTTGTCAATTGACCGT 58.296 39.130 30.66 0.00 44.15 4.83
3668 8180 6.216569 TGCACTAGTGTTACTCTTCTCTTTG 58.783 40.000 23.44 0.00 0.00 2.77
3683 8195 1.825090 TGGCCAATTCTGCACTAGTG 58.175 50.000 18.93 18.93 0.00 2.74
3684 8196 2.814805 ATGGCCAATTCTGCACTAGT 57.185 45.000 10.96 0.00 0.00 2.57
3685 8197 4.202441 ACTAATGGCCAATTCTGCACTAG 58.798 43.478 10.96 0.00 0.00 2.57
3686 8198 4.199310 GACTAATGGCCAATTCTGCACTA 58.801 43.478 10.96 0.00 0.00 2.74
3687 8199 3.019564 GACTAATGGCCAATTCTGCACT 58.980 45.455 10.96 0.00 0.00 4.40
3688 8200 2.099756 GGACTAATGGCCAATTCTGCAC 59.900 50.000 10.96 0.00 0.00 4.57
3689 8201 2.378038 GGACTAATGGCCAATTCTGCA 58.622 47.619 10.96 0.00 0.00 4.41
3690 8202 1.683385 GGGACTAATGGCCAATTCTGC 59.317 52.381 10.96 0.00 0.00 4.26
3691 8203 1.949525 CGGGACTAATGGCCAATTCTG 59.050 52.381 10.96 0.80 0.00 3.02
3692 8204 1.750682 GCGGGACTAATGGCCAATTCT 60.751 52.381 10.96 0.00 0.00 2.40
3693 8205 0.668535 GCGGGACTAATGGCCAATTC 59.331 55.000 10.96 3.35 0.00 2.17
3694 8206 0.258774 AGCGGGACTAATGGCCAATT 59.741 50.000 10.96 7.63 0.00 2.32
3695 8207 0.258774 AAGCGGGACTAATGGCCAAT 59.741 50.000 10.96 2.97 0.00 3.16
3696 8208 0.393808 GAAGCGGGACTAATGGCCAA 60.394 55.000 10.96 0.00 0.00 4.52
3697 8209 1.223487 GAAGCGGGACTAATGGCCA 59.777 57.895 8.56 8.56 0.00 5.36
3698 8210 0.179018 ATGAAGCGGGACTAATGGCC 60.179 55.000 0.00 0.00 0.00 5.36
3699 8211 0.947244 CATGAAGCGGGACTAATGGC 59.053 55.000 0.00 0.00 0.00 4.40
3700 8212 2.487934 CTCATGAAGCGGGACTAATGG 58.512 52.381 0.00 0.00 0.00 3.16
3701 8213 2.487934 CCTCATGAAGCGGGACTAATG 58.512 52.381 0.00 0.00 0.00 1.90
3702 8214 1.417890 CCCTCATGAAGCGGGACTAAT 59.582 52.381 12.27 0.00 45.73 1.73
3703 8215 0.830648 CCCTCATGAAGCGGGACTAA 59.169 55.000 12.27 0.00 45.73 2.24
3704 8216 1.686325 GCCCTCATGAAGCGGGACTA 61.686 60.000 20.13 0.00 45.73 2.59
3705 8217 3.036429 GCCCTCATGAAGCGGGACT 62.036 63.158 20.13 0.00 45.73 3.85
3706 8218 2.514824 GCCCTCATGAAGCGGGAC 60.515 66.667 20.13 9.22 45.73 4.46
3707 8219 3.797353 GGCCCTCATGAAGCGGGA 61.797 66.667 20.13 0.00 45.73 5.14
3708 8220 3.350031 AAGGCCCTCATGAAGCGGG 62.350 63.158 13.12 13.12 45.62 6.13
3709 8221 1.821332 GAAGGCCCTCATGAAGCGG 60.821 63.158 0.00 5.29 0.00 5.52
3710 8222 1.821332 GGAAGGCCCTCATGAAGCG 60.821 63.158 3.19 0.00 0.00 4.68
3711 8223 1.821332 CGGAAGGCCCTCATGAAGC 60.821 63.158 3.19 8.55 0.00 3.86
3712 8224 4.547859 CGGAAGGCCCTCATGAAG 57.452 61.111 3.19 0.00 0.00 3.02
3724 8236 1.731969 GGTCGTGACGAACCGGAAG 60.732 63.158 12.78 0.32 37.65 3.46
3725 8237 2.336088 GGTCGTGACGAACCGGAA 59.664 61.111 12.78 0.00 37.65 4.30
3730 8242 1.441682 GTCTCGGGTCGTGACGAAC 60.442 63.158 15.71 15.71 43.47 3.95
3731 8243 2.620112 GGTCTCGGGTCGTGACGAA 61.620 63.158 10.12 0.00 46.67 3.85
3732 8244 3.052082 GGTCTCGGGTCGTGACGA 61.052 66.667 2.39 2.39 46.67 4.20
3733 8245 2.410638 TTTGGTCTCGGGTCGTGACG 62.411 60.000 0.00 0.00 46.67 4.35
3734 8246 0.666577 CTTTGGTCTCGGGTCGTGAC 60.667 60.000 12.25 12.25 45.55 3.67
3735 8247 1.663739 CTTTGGTCTCGGGTCGTGA 59.336 57.895 0.00 0.00 0.00 4.35
3736 8248 1.374252 CCTTTGGTCTCGGGTCGTG 60.374 63.158 0.00 0.00 0.00 4.35
3737 8249 3.057337 CCTTTGGTCTCGGGTCGT 58.943 61.111 0.00 0.00 0.00 4.34
3738 8250 2.434359 GCCTTTGGTCTCGGGTCG 60.434 66.667 0.00 0.00 0.00 4.79
3739 8251 1.079057 GAGCCTTTGGTCTCGGGTC 60.079 63.158 0.00 0.00 38.05 4.46
3740 8252 1.841556 TGAGCCTTTGGTCTCGGGT 60.842 57.895 0.00 0.00 39.75 5.28
3741 8253 1.376037 GTGAGCCTTTGGTCTCGGG 60.376 63.158 0.00 0.00 39.75 5.14
3742 8254 1.376037 GGTGAGCCTTTGGTCTCGG 60.376 63.158 0.00 0.00 39.75 4.63
3743 8255 0.951040 GTGGTGAGCCTTTGGTCTCG 60.951 60.000 0.00 0.00 39.75 4.04
3744 8256 0.951040 CGTGGTGAGCCTTTGGTCTC 60.951 60.000 0.00 0.00 39.75 3.36
3745 8257 1.071471 CGTGGTGAGCCTTTGGTCT 59.929 57.895 0.00 0.00 39.75 3.85
3746 8258 1.227853 ACGTGGTGAGCCTTTGGTC 60.228 57.895 0.00 0.00 39.48 4.02
3747 8259 1.525995 CACGTGGTGAGCCTTTGGT 60.526 57.895 7.95 0.00 35.23 3.67
3748 8260 2.260869 CCACGTGGTGAGCCTTTGG 61.261 63.158 26.95 0.00 35.23 3.28
3749 8261 3.343972 CCACGTGGTGAGCCTTTG 58.656 61.111 26.95 0.00 35.23 2.77
3759 8271 2.740826 CGGGCTTGTACCACGTGG 60.741 66.667 32.83 32.83 42.17 4.94
3760 8272 3.419759 GCGGGCTTGTACCACGTG 61.420 66.667 9.08 9.08 0.00 4.49
3780 8292 2.902069 TAAAGGACCCCTAGCCCCCG 62.902 65.000 0.00 0.00 31.13 5.73
3781 8293 1.005156 TAAAGGACCCCTAGCCCCC 59.995 63.158 0.00 0.00 31.13 5.40
3782 8294 0.327287 ACTAAAGGACCCCTAGCCCC 60.327 60.000 0.00 0.00 31.13 5.80
3783 8295 1.129917 GACTAAAGGACCCCTAGCCC 58.870 60.000 0.00 0.00 31.13 5.19
3784 8296 1.129917 GGACTAAAGGACCCCTAGCC 58.870 60.000 0.00 0.00 31.13 3.93
3785 8297 1.129917 GGGACTAAAGGACCCCTAGC 58.870 60.000 0.00 0.00 37.85 3.42
3786 8298 1.411041 CGGGACTAAAGGACCCCTAG 58.589 60.000 0.00 0.00 40.43 3.02
3787 8299 0.031817 CCGGGACTAAAGGACCCCTA 60.032 60.000 0.00 0.00 40.43 3.53
3788 8300 1.306739 CCGGGACTAAAGGACCCCT 60.307 63.158 0.00 0.00 40.43 4.79
3789 8301 1.203441 AACCGGGACTAAAGGACCCC 61.203 60.000 6.32 0.00 40.43 4.95
3790 8302 0.035725 CAACCGGGACTAAAGGACCC 60.036 60.000 6.32 0.00 40.17 4.46
3791 8303 0.035725 CCAACCGGGACTAAAGGACC 60.036 60.000 6.32 0.00 40.01 4.46
3792 8304 0.689055 ACCAACCGGGACTAAAGGAC 59.311 55.000 6.32 0.00 41.15 3.85
3793 8305 0.688487 CACCAACCGGGACTAAAGGA 59.312 55.000 6.32 0.00 41.15 3.36
3794 8306 0.688487 TCACCAACCGGGACTAAAGG 59.312 55.000 6.32 0.00 41.15 3.11
3795 8307 1.071071 TGTCACCAACCGGGACTAAAG 59.929 52.381 6.32 0.00 41.15 1.85
3796 8308 1.129917 TGTCACCAACCGGGACTAAA 58.870 50.000 6.32 0.00 41.15 1.85
3797 8309 0.393820 GTGTCACCAACCGGGACTAA 59.606 55.000 6.32 0.00 41.15 2.24
3798 8310 1.474332 GGTGTCACCAACCGGGACTA 61.474 60.000 17.59 0.00 38.42 2.59
3799 8311 2.814835 GGTGTCACCAACCGGGACT 61.815 63.158 17.59 0.00 38.42 3.85
3800 8312 2.281276 GGTGTCACCAACCGGGAC 60.281 66.667 17.59 3.26 38.42 4.46
3809 8321 1.053424 TAGTCCTGGTTGGTGTCACC 58.947 55.000 15.64 15.64 39.22 4.02
3810 8322 2.922740 TTAGTCCTGGTTGGTGTCAC 57.077 50.000 0.00 0.00 37.07 3.67
3811 8323 3.434453 CCTTTTAGTCCTGGTTGGTGTCA 60.434 47.826 0.00 0.00 37.07 3.58
3812 8324 3.146847 CCTTTTAGTCCTGGTTGGTGTC 58.853 50.000 0.00 0.00 37.07 3.67
3813 8325 2.512476 ACCTTTTAGTCCTGGTTGGTGT 59.488 45.455 0.00 0.00 37.07 4.16
3814 8326 3.223674 ACCTTTTAGTCCTGGTTGGTG 57.776 47.619 0.00 0.00 37.07 4.17
3815 8327 3.965470 AACCTTTTAGTCCTGGTTGGT 57.035 42.857 0.00 0.00 40.78 3.67
3816 8328 4.765339 CCTAAACCTTTTAGTCCTGGTTGG 59.235 45.833 0.00 0.00 41.36 3.77
3817 8329 4.765339 CCCTAAACCTTTTAGTCCTGGTTG 59.235 45.833 0.00 0.00 41.36 3.77
3818 8330 4.202641 CCCCTAAACCTTTTAGTCCTGGTT 60.203 45.833 5.25 0.00 43.73 3.67
3819 8331 3.332783 CCCCTAAACCTTTTAGTCCTGGT 59.667 47.826 5.25 0.00 0.00 4.00
3820 8332 3.332783 ACCCCTAAACCTTTTAGTCCTGG 59.667 47.826 5.25 0.00 0.00 4.45
3821 8333 4.652679 ACCCCTAAACCTTTTAGTCCTG 57.347 45.455 5.25 0.00 0.00 3.86
3822 8334 5.674799 AAACCCCTAAACCTTTTAGTCCT 57.325 39.130 5.25 0.00 0.00 3.85
3823 8335 5.948162 CCTAAACCCCTAAACCTTTTAGTCC 59.052 44.000 5.25 0.00 30.83 3.85
3824 8336 5.948162 CCCTAAACCCCTAAACCTTTTAGTC 59.052 44.000 5.25 0.00 30.83 2.59
3825 8337 5.222400 CCCCTAAACCCCTAAACCTTTTAGT 60.222 44.000 5.25 0.00 30.83 2.24
3826 8338 5.222400 ACCCCTAAACCCCTAAACCTTTTAG 60.222 44.000 0.00 0.00 32.04 1.85
3827 8339 4.674097 ACCCCTAAACCCCTAAACCTTTTA 59.326 41.667 0.00 0.00 0.00 1.52
3828 8340 3.472076 ACCCCTAAACCCCTAAACCTTTT 59.528 43.478 0.00 0.00 0.00 2.27
3829 8341 3.073631 ACCCCTAAACCCCTAAACCTTT 58.926 45.455 0.00 0.00 0.00 3.11
3830 8342 2.734428 ACCCCTAAACCCCTAAACCTT 58.266 47.619 0.00 0.00 0.00 3.50
3831 8343 2.463671 ACCCCTAAACCCCTAAACCT 57.536 50.000 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.