Multiple sequence alignment - TraesCS2B01G218600

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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 TraesCS2B01G218600 chr2B 100.000 3769 0 0 1 3769 207480927 207484695 0.000000e+00 6961
1 TraesCS2B01G218600 chr2B 93.750 656 29 8 3074 3726 786213085 786212439 0.000000e+00 974
2 TraesCS2B01G218600 chr2B 89.809 314 26 6 3458 3769 12284399 12284708 7.590000e-107 398
3 TraesCS2B01G218600 chr2D 94.202 2087 84 14 813 2874 147953171 147955245 0.000000e+00 3149
4 TraesCS2B01G218600 chr2D 82.331 1364 235 6 1349 2709 147426250 147427610 0.000000e+00 1179
5 TraesCS2B01G218600 chr2D 93.592 593 37 1 23 614 147947935 147948527 0.000000e+00 883
6 TraesCS2B01G218600 chr2D 94.815 135 7 0 2887 3021 147955226 147955360 1.060000e-50 211
7 TraesCS2B01G218600 chr2D 92.079 101 8 0 611 711 147953074 147953174 3.920000e-30 143
8 TraesCS2B01G218600 chr2D 100.000 40 0 0 3036 3075 147955345 147955384 1.450000e-09 75
9 TraesCS2B01G218600 chr2A 96.225 1881 65 6 998 2874 154422918 154421040 0.000000e+00 3075
10 TraesCS2B01G218600 chr2A 82.771 1364 229 6 1349 2709 155074674 155073314 0.000000e+00 1212
11 TraesCS2B01G218600 chr2A 94.472 398 16 3 318 709 154423529 154423132 3.220000e-170 608
12 TraesCS2B01G218600 chr2A 92.958 284 18 2 3487 3769 769345070 769344788 2.710000e-111 412
13 TraesCS2B01G218600 chr2A 91.964 112 9 0 708 819 1902390 1902501 1.400000e-34 158
14 TraesCS2B01G218600 chr2A 84.277 159 7 5 813 958 154423133 154422980 5.080000e-29 139
15 TraesCS2B01G218600 chr3B 91.069 1814 120 21 995 2794 64538005 64539790 0.000000e+00 2414
16 TraesCS2B01G218600 chr3B 94.976 418 18 3 3072 3487 772409052 772409468 0.000000e+00 652
17 TraesCS2B01G218600 chr3B 97.880 283 6 0 3487 3769 772409598 772409880 1.220000e-134 490
18 TraesCS2B01G218600 chr1D 86.902 1672 188 20 1122 2769 483972589 483974253 0.000000e+00 1845
19 TraesCS2B01G218600 chr1A 86.325 1660 194 21 1134 2769 580988268 580989918 0.000000e+00 1777
20 TraesCS2B01G218600 chr1A 92.105 76 5 1 3073 3148 558296326 558296400 5.150000e-19 106
21 TraesCS2B01G218600 chr1B 85.912 1590 194 21 1175 2745 673992230 673993808 0.000000e+00 1668
22 TraesCS2B01G218600 chr1B 87.842 1390 166 3 1348 2735 674004544 674003156 0.000000e+00 1628
23 TraesCS2B01G218600 chr1B 89.516 124 12 1 707 830 395249022 395248900 5.040000e-34 156
24 TraesCS2B01G218600 chr1B 91.228 114 10 0 708 821 643121375 643121262 5.040000e-34 156
25 TraesCS2B01G218600 chr1B 84.828 145 13 1 1129 1264 674004753 674004609 1.830000e-28 137
26 TraesCS2B01G218600 chr7B 97.139 699 19 1 3071 3769 677353440 677354137 0.000000e+00 1179
27 TraesCS2B01G218600 chr7B 93.750 400 17 4 3088 3487 234596942 234597333 9.010000e-166 593
28 TraesCS2B01G218600 chr7B 97.468 237 6 0 3487 3723 234597464 234597700 4.530000e-109 405
29 TraesCS2B01G218600 chr7B 92.035 113 8 1 708 819 555654506 555654394 1.400000e-34 158
30 TraesCS2B01G218600 chrUn 94.413 716 16 3 3076 3769 236403889 236404602 0.000000e+00 1079
31 TraesCS2B01G218600 chr4B 93.720 414 22 2 3077 3487 91134059 91133647 5.350000e-173 617
32 TraesCS2B01G218600 chr4B 97.535 284 6 1 3487 3769 91133517 91133234 5.660000e-133 484
33 TraesCS2B01G218600 chr4B 87.560 418 33 9 3076 3487 78816917 78816513 2.050000e-127 466
34 TraesCS2B01G218600 chr4B 83.598 378 45 8 3071 3436 657820827 657821199 4.660000e-89 339
35 TraesCS2B01G218600 chr4B 92.661 109 8 0 707 815 664786287 664786395 1.400000e-34 158
36 TraesCS2B01G218600 chr4B 90.000 120 10 2 707 826 646113823 646113940 1.810000e-33 154
37 TraesCS2B01G218600 chr7D 92.453 424 27 2 3065 3484 21708764 21709186 5.390000e-168 601
38 TraesCS2B01G218600 chr7D 93.640 283 16 2 3487 3769 21709318 21709598 4.500000e-114 422
39 TraesCS2B01G218600 chr6B 90.678 118 11 0 697 814 27997527 27997644 1.400000e-34 158
40 TraesCS2B01G218600 chr6D 90.083 121 11 1 708 827 3196382 3196502 5.040000e-34 156
41 TraesCS2B01G218600 chr3A 87.903 124 13 2 707 830 707385860 707385981 1.090000e-30 145


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 TraesCS2B01G218600 chr2B 207480927 207484695 3768 False 6961.0 6961 100.0000 1 3769 1 chr2B.!!$F2 3768
1 TraesCS2B01G218600 chr2B 786212439 786213085 646 True 974.0 974 93.7500 3074 3726 1 chr2B.!!$R1 652
2 TraesCS2B01G218600 chr2D 147426250 147427610 1360 False 1179.0 1179 82.3310 1349 2709 1 chr2D.!!$F1 1360
3 TraesCS2B01G218600 chr2D 147953074 147955384 2310 False 894.5 3149 95.2740 611 3075 4 chr2D.!!$F3 2464
4 TraesCS2B01G218600 chr2D 147947935 147948527 592 False 883.0 883 93.5920 23 614 1 chr2D.!!$F2 591
5 TraesCS2B01G218600 chr2A 154421040 154423529 2489 True 1274.0 3075 91.6580 318 2874 3 chr2A.!!$R3 2556
6 TraesCS2B01G218600 chr2A 155073314 155074674 1360 True 1212.0 1212 82.7710 1349 2709 1 chr2A.!!$R1 1360
7 TraesCS2B01G218600 chr3B 64538005 64539790 1785 False 2414.0 2414 91.0690 995 2794 1 chr3B.!!$F1 1799
8 TraesCS2B01G218600 chr3B 772409052 772409880 828 False 571.0 652 96.4280 3072 3769 2 chr3B.!!$F2 697
9 TraesCS2B01G218600 chr1D 483972589 483974253 1664 False 1845.0 1845 86.9020 1122 2769 1 chr1D.!!$F1 1647
10 TraesCS2B01G218600 chr1A 580988268 580989918 1650 False 1777.0 1777 86.3250 1134 2769 1 chr1A.!!$F2 1635
11 TraesCS2B01G218600 chr1B 673992230 673993808 1578 False 1668.0 1668 85.9120 1175 2745 1 chr1B.!!$F1 1570
12 TraesCS2B01G218600 chr1B 674003156 674004753 1597 True 882.5 1628 86.3350 1129 2735 2 chr1B.!!$R3 1606
13 TraesCS2B01G218600 chr7B 677353440 677354137 697 False 1179.0 1179 97.1390 3071 3769 1 chr7B.!!$F1 698
14 TraesCS2B01G218600 chr7B 234596942 234597700 758 False 499.0 593 95.6090 3088 3723 2 chr7B.!!$F2 635
15 TraesCS2B01G218600 chrUn 236403889 236404602 713 False 1079.0 1079 94.4130 3076 3769 1 chrUn.!!$F1 693
16 TraesCS2B01G218600 chr4B 91133234 91134059 825 True 550.5 617 95.6275 3077 3769 2 chr4B.!!$R2 692
17 TraesCS2B01G218600 chr7D 21708764 21709598 834 False 511.5 601 93.0465 3065 3769 2 chr7D.!!$F1 704

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
957 978 0.035534 TCGTTGACCCATCACCCATG 60.036 55.0 0.0 0.0 33.38 3.66 F
958 979 0.322456 CGTTGACCCATCACCCATGT 60.322 55.0 0.0 0.0 33.38 3.21 F
2606 2709 0.390472 GCAGCTTCTTCCTGTACGCT 60.390 55.0 0.0 0.0 32.93 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2639 2742 0.458669 GCGTCTCCGGAATGAAGGTA 59.541 55.000 5.23 0.0 33.68 3.08 R
2709 2812 2.506438 GTCTTCGGCTTCGACGGG 60.506 66.667 0.00 0.0 43.17 5.28 R
3613 4000 3.728864 GCATCACGTTTTGCTACATCCAG 60.729 47.826 11.30 0.0 35.95 3.86 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 0.591659 GAGGGAACACTTTGAACCGC 59.408 55.000 0.00 0.00 0.00 5.68
20 21 0.182775 AGGGAACACTTTGAACCGCT 59.817 50.000 0.00 0.00 0.00 5.52
21 22 0.310854 GGGAACACTTTGAACCGCTG 59.689 55.000 0.00 0.00 0.00 5.18
25 26 3.300009 GAACACTTTGAACCGCTGAATG 58.700 45.455 0.00 0.00 0.00 2.67
33 34 4.902443 TGAACCGCTGAATGTAAAACAA 57.098 36.364 0.00 0.00 0.00 2.83
35 36 5.837437 TGAACCGCTGAATGTAAAACAAAT 58.163 33.333 0.00 0.00 0.00 2.32
41 42 5.164196 CGCTGAATGTAAAACAAATCAACGG 60.164 40.000 11.18 0.00 35.69 4.44
68 69 2.151502 TGTGTTGGATTTGTGTGGGT 57.848 45.000 0.00 0.00 0.00 4.51
77 78 3.554752 GGATTTGTGTGGGTTGATGTTGG 60.555 47.826 0.00 0.00 0.00 3.77
80 81 1.214175 TGTGTGGGTTGATGTTGGACT 59.786 47.619 0.00 0.00 0.00 3.85
112 114 2.758737 ACCTCCGACTTAGCCCGG 60.759 66.667 7.22 7.22 46.57 5.73
127 129 2.158534 AGCCCGGCATTGTATGGATTTA 60.159 45.455 13.15 0.00 0.00 1.40
138 140 4.728534 TGTATGGATTTAACGTTGCAAGC 58.271 39.130 11.99 6.41 0.00 4.01
153 155 4.635699 TGCAAGCATGAGATATCCAGAT 57.364 40.909 0.00 0.00 0.00 2.90
163 165 4.021280 TGAGATATCCAGATGCAGAGAAGC 60.021 45.833 0.00 0.00 0.00 3.86
176 178 4.098349 TGCAGAGAAGCAAAGTTGAAATGT 59.902 37.500 0.00 0.00 42.46 2.71
182 184 8.632679 AGAGAAGCAAAGTTGAAATGTAATCAA 58.367 29.630 0.00 0.00 34.56 2.57
189 191 9.467258 CAAAGTTGAAATGTAATCAATCACTGT 57.533 29.630 0.00 0.00 38.89 3.55
195 197 4.265904 TGTAATCAATCACTGTCCGTGT 57.734 40.909 0.00 0.00 44.16 4.49
210 212 2.935505 GTGTGTCCACGGGCATTTA 58.064 52.632 0.00 0.00 0.00 1.40
217 219 1.035385 CCACGGGCATTTAAGGGTCC 61.035 60.000 0.00 0.00 0.00 4.46
279 281 1.068753 CATGCTAGGACTGAGCGGG 59.931 63.158 0.00 0.00 43.19 6.13
490 494 1.677552 GTTGAGTGGACATCCGGGT 59.322 57.895 0.00 0.00 39.43 5.28
519 523 1.115467 ATACCAGAGCGGACAAGAGG 58.885 55.000 0.00 0.00 38.63 3.69
527 531 2.347490 GGACAAGAGGGCAGCGAA 59.653 61.111 0.00 0.00 0.00 4.70
624 632 1.151668 GGATGTAGCCAGCGCTTATG 58.848 55.000 7.50 0.00 45.55 1.90
683 691 4.531357 AGGACCCACATGATCAATTGAT 57.469 40.909 20.85 20.85 37.51 2.57
684 692 5.651612 AGGACCCACATGATCAATTGATA 57.348 39.130 20.75 9.92 34.37 2.15
702 710 3.829601 TGATAATTCTTTGGGCCACGTTT 59.170 39.130 5.23 0.00 0.00 3.60
707 715 0.750249 CTTTGGGCCACGTTTTTCCT 59.250 50.000 5.23 0.00 0.00 3.36
708 716 1.957877 CTTTGGGCCACGTTTTTCCTA 59.042 47.619 5.23 0.00 0.00 2.94
709 717 1.320507 TTGGGCCACGTTTTTCCTAC 58.679 50.000 5.23 0.00 0.00 3.18
710 718 0.475044 TGGGCCACGTTTTTCCTACT 59.525 50.000 0.00 0.00 0.00 2.57
711 719 1.162698 GGGCCACGTTTTTCCTACTC 58.837 55.000 4.39 0.00 0.00 2.59
712 720 1.162698 GGCCACGTTTTTCCTACTCC 58.837 55.000 0.00 0.00 0.00 3.85
713 721 1.162698 GCCACGTTTTTCCTACTCCC 58.837 55.000 0.00 0.00 0.00 4.30
714 722 1.271217 GCCACGTTTTTCCTACTCCCT 60.271 52.381 0.00 0.00 0.00 4.20
715 723 2.812983 GCCACGTTTTTCCTACTCCCTT 60.813 50.000 0.00 0.00 0.00 3.95
716 724 3.072211 CCACGTTTTTCCTACTCCCTTC 58.928 50.000 0.00 0.00 0.00 3.46
717 725 2.735134 CACGTTTTTCCTACTCCCTTCG 59.265 50.000 0.00 0.00 0.00 3.79
718 726 2.366590 ACGTTTTTCCTACTCCCTTCGT 59.633 45.455 0.00 0.00 0.00 3.85
719 727 3.181462 ACGTTTTTCCTACTCCCTTCGTT 60.181 43.478 0.00 0.00 0.00 3.85
720 728 3.811497 CGTTTTTCCTACTCCCTTCGTTT 59.189 43.478 0.00 0.00 0.00 3.60
721 729 4.319261 CGTTTTTCCTACTCCCTTCGTTTG 60.319 45.833 0.00 0.00 0.00 2.93
722 730 3.412237 TTTCCTACTCCCTTCGTTTGG 57.588 47.619 0.00 0.00 0.00 3.28
723 731 2.314071 TCCTACTCCCTTCGTTTGGA 57.686 50.000 0.00 0.00 0.00 3.53
724 732 2.612000 TCCTACTCCCTTCGTTTGGAA 58.388 47.619 0.00 0.00 0.00 3.53
725 733 3.178865 TCCTACTCCCTTCGTTTGGAAT 58.821 45.455 0.00 0.00 33.26 3.01
726 734 3.585732 TCCTACTCCCTTCGTTTGGAATT 59.414 43.478 0.00 0.00 33.26 2.17
727 735 4.778958 TCCTACTCCCTTCGTTTGGAATTA 59.221 41.667 0.00 0.00 33.26 1.40
728 736 4.874396 CCTACTCCCTTCGTTTGGAATTAC 59.126 45.833 0.00 0.00 33.26 1.89
729 737 4.635699 ACTCCCTTCGTTTGGAATTACT 57.364 40.909 0.00 0.00 33.26 2.24
730 738 4.981812 ACTCCCTTCGTTTGGAATTACTT 58.018 39.130 0.00 0.00 33.26 2.24
731 739 6.117975 ACTCCCTTCGTTTGGAATTACTTA 57.882 37.500 0.00 0.00 33.26 2.24
732 740 6.718294 ACTCCCTTCGTTTGGAATTACTTAT 58.282 36.000 0.00 0.00 33.26 1.73
733 741 6.822170 ACTCCCTTCGTTTGGAATTACTTATC 59.178 38.462 0.00 0.00 33.26 1.75
734 742 5.813672 TCCCTTCGTTTGGAATTACTTATCG 59.186 40.000 0.00 0.00 33.26 2.92
735 743 5.499047 CCTTCGTTTGGAATTACTTATCGC 58.501 41.667 0.00 0.00 33.26 4.58
736 744 4.765281 TCGTTTGGAATTACTTATCGCG 57.235 40.909 0.00 0.00 0.00 5.87
737 745 4.422840 TCGTTTGGAATTACTTATCGCGA 58.577 39.130 13.09 13.09 0.00 5.87
738 746 4.863689 TCGTTTGGAATTACTTATCGCGAA 59.136 37.500 15.24 0.00 0.00 4.70
739 747 5.348179 TCGTTTGGAATTACTTATCGCGAAA 59.652 36.000 15.24 1.87 0.00 3.46
740 748 6.016718 CGTTTGGAATTACTTATCGCGAAAA 58.983 36.000 15.24 0.44 0.00 2.29
741 749 6.685403 CGTTTGGAATTACTTATCGCGAAAAT 59.315 34.615 15.24 5.56 0.00 1.82
742 750 7.304622 CGTTTGGAATTACTTATCGCGAAAATG 60.305 37.037 15.24 9.48 0.00 2.32
743 751 6.055231 TGGAATTACTTATCGCGAAAATGG 57.945 37.500 15.24 4.60 0.00 3.16
744 752 5.008217 TGGAATTACTTATCGCGAAAATGGG 59.992 40.000 15.24 3.07 0.00 4.00
745 753 5.008316 GGAATTACTTATCGCGAAAATGGGT 59.992 40.000 15.24 9.15 0.00 4.51
746 754 4.868450 TTACTTATCGCGAAAATGGGTG 57.132 40.909 15.24 0.22 0.00 4.61
747 755 2.706890 ACTTATCGCGAAAATGGGTGT 58.293 42.857 15.24 0.00 0.00 4.16
748 756 3.864243 ACTTATCGCGAAAATGGGTGTA 58.136 40.909 15.24 0.00 0.00 2.90
749 757 4.448210 ACTTATCGCGAAAATGGGTGTAT 58.552 39.130 15.24 0.00 0.00 2.29
750 758 4.510340 ACTTATCGCGAAAATGGGTGTATC 59.490 41.667 15.24 0.00 0.00 2.24
751 759 2.684001 TCGCGAAAATGGGTGTATCT 57.316 45.000 6.20 0.00 0.00 1.98
752 760 3.804786 TCGCGAAAATGGGTGTATCTA 57.195 42.857 6.20 0.00 0.00 1.98
753 761 3.713288 TCGCGAAAATGGGTGTATCTAG 58.287 45.455 6.20 0.00 0.00 2.43
754 762 3.382227 TCGCGAAAATGGGTGTATCTAGA 59.618 43.478 6.20 0.00 0.00 2.43
755 763 3.489785 CGCGAAAATGGGTGTATCTAGAC 59.510 47.826 0.00 0.00 0.00 2.59
756 764 3.489785 GCGAAAATGGGTGTATCTAGACG 59.510 47.826 0.00 0.00 0.00 4.18
757 765 4.679662 CGAAAATGGGTGTATCTAGACGT 58.320 43.478 0.00 0.00 0.00 4.34
758 766 4.503007 CGAAAATGGGTGTATCTAGACGTG 59.497 45.833 0.00 0.00 0.00 4.49
759 767 5.416271 AAAATGGGTGTATCTAGACGTGT 57.584 39.130 0.00 0.00 0.00 4.49
760 768 5.416271 AAATGGGTGTATCTAGACGTGTT 57.584 39.130 0.00 0.00 0.00 3.32
761 769 5.416271 AATGGGTGTATCTAGACGTGTTT 57.584 39.130 0.00 0.00 0.00 2.83
762 770 4.877378 TGGGTGTATCTAGACGTGTTTT 57.123 40.909 0.00 0.00 0.00 2.43
763 771 5.981088 TGGGTGTATCTAGACGTGTTTTA 57.019 39.130 0.00 0.00 0.00 1.52
764 772 5.957798 TGGGTGTATCTAGACGTGTTTTAG 58.042 41.667 0.00 0.00 0.00 1.85
765 773 5.477984 TGGGTGTATCTAGACGTGTTTTAGT 59.522 40.000 0.00 0.00 0.00 2.24
766 774 6.015180 TGGGTGTATCTAGACGTGTTTTAGTT 60.015 38.462 0.00 0.00 0.00 2.24
767 775 6.870439 GGGTGTATCTAGACGTGTTTTAGTTT 59.130 38.462 0.00 0.00 0.00 2.66
768 776 7.386025 GGGTGTATCTAGACGTGTTTTAGTTTT 59.614 37.037 0.00 0.00 0.00 2.43
769 777 9.410556 GGTGTATCTAGACGTGTTTTAGTTTTA 57.589 33.333 0.00 0.00 0.00 1.52
789 797 9.930693 AGTTTTAGATATATCCATTTCCGAGAC 57.069 33.333 9.18 0.00 0.00 3.36
790 798 9.706691 GTTTTAGATATATCCATTTCCGAGACA 57.293 33.333 9.18 0.00 0.00 3.41
792 800 9.929180 TTTAGATATATCCATTTCCGAGACAAG 57.071 33.333 9.18 0.00 0.00 3.16
793 801 7.546250 AGATATATCCATTTCCGAGACAAGT 57.454 36.000 9.18 0.00 0.00 3.16
794 802 8.651589 AGATATATCCATTTCCGAGACAAGTA 57.348 34.615 9.18 0.00 0.00 2.24
795 803 9.090103 AGATATATCCATTTCCGAGACAAGTAA 57.910 33.333 9.18 0.00 0.00 2.24
796 804 9.877178 GATATATCCATTTCCGAGACAAGTAAT 57.123 33.333 0.81 0.00 0.00 1.89
798 806 6.927294 ATCCATTTCCGAGACAAGTAATTC 57.073 37.500 0.00 0.00 0.00 2.17
799 807 5.183228 TCCATTTCCGAGACAAGTAATTCC 58.817 41.667 0.00 0.00 0.00 3.01
800 808 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
801 809 4.524316 TTTCCGAGACAAGTAATTCCGA 57.476 40.909 0.00 0.00 0.00 4.55
802 810 4.524316 TTCCGAGACAAGTAATTCCGAA 57.476 40.909 0.00 0.00 0.00 4.30
803 811 3.841643 TCCGAGACAAGTAATTCCGAAC 58.158 45.455 0.00 0.00 0.00 3.95
804 812 2.597305 CCGAGACAAGTAATTCCGAACG 59.403 50.000 0.00 0.00 0.00 3.95
805 813 2.597305 CGAGACAAGTAATTCCGAACGG 59.403 50.000 6.94 6.94 0.00 4.44
806 814 3.671433 CGAGACAAGTAATTCCGAACGGA 60.671 47.826 12.04 12.04 43.52 4.69
807 815 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
808 816 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
809 817 2.564062 ACAAGTAATTCCGAACGGAGGA 59.436 45.455 15.34 3.20 46.06 3.71
874 895 5.333187 GCAATTTGACAACGAAATCATGCAA 60.333 36.000 0.00 0.00 0.00 4.08
908 929 8.594881 TGCTAGCTGCTAAATTTCTAATCTAC 57.405 34.615 17.23 0.00 43.37 2.59
909 930 8.424918 TGCTAGCTGCTAAATTTCTAATCTACT 58.575 33.333 17.23 0.00 43.37 2.57
910 931 8.707839 GCTAGCTGCTAAATTTCTAATCTACTG 58.292 37.037 11.02 0.00 38.95 2.74
911 932 7.489574 AGCTGCTAAATTTCTAATCTACTGC 57.510 36.000 0.00 0.00 0.00 4.40
912 933 7.050377 AGCTGCTAAATTTCTAATCTACTGCA 58.950 34.615 0.00 0.00 0.00 4.41
939 960 0.107654 ATAAGTGGGCAAGCGACCTC 60.108 55.000 0.00 0.00 43.17 3.85
940 961 2.501223 TAAGTGGGCAAGCGACCTCG 62.501 60.000 0.00 0.00 43.17 4.63
953 974 0.391263 GACCTCGTTGACCCATCACC 60.391 60.000 0.00 0.00 33.38 4.02
954 975 1.078426 CCTCGTTGACCCATCACCC 60.078 63.158 0.00 0.00 33.38 4.61
955 976 1.676968 CTCGTTGACCCATCACCCA 59.323 57.895 0.00 0.00 33.38 4.51
956 977 0.253044 CTCGTTGACCCATCACCCAT 59.747 55.000 0.00 0.00 33.38 4.00
957 978 0.035534 TCGTTGACCCATCACCCATG 60.036 55.000 0.00 0.00 33.38 3.66
958 979 0.322456 CGTTGACCCATCACCCATGT 60.322 55.000 0.00 0.00 33.38 3.21
1030 1080 1.439353 AACACAGCACGGCAGTTCAG 61.439 55.000 0.00 0.00 0.00 3.02
1051 1101 2.493675 GTCATCACTAGGCTGTCAGTCA 59.506 50.000 7.30 0.00 0.00 3.41
1254 1320 3.458163 GCCACCATCGTCCTCGGA 61.458 66.667 0.00 0.00 37.69 4.55
1284 1350 2.036346 GCACATGCTTTGTTTCCTTCCT 59.964 45.455 0.00 0.00 36.00 3.36
1871 1974 0.391661 GCTGGCTCGTCATGAAAGGA 60.392 55.000 0.00 0.00 0.00 3.36
1961 2064 2.124819 CAGATCAAGGCTGCCGCT 60.125 61.111 13.96 1.18 36.09 5.52
2059 2162 0.926846 GAGCTCATCTTTTCGCCGAG 59.073 55.000 9.40 0.00 0.00 4.63
2333 2436 3.147595 CTCATCGGCCTCGGGACA 61.148 66.667 0.00 0.00 36.95 4.02
2375 2478 4.547367 CCGGACGCCAAGATCCCC 62.547 72.222 0.00 0.00 0.00 4.81
2606 2709 0.390472 GCAGCTTCTTCCTGTACGCT 60.390 55.000 0.00 0.00 32.93 5.07
2639 2742 3.005791 CGCTTGGATGGGTTTTCTTCTTT 59.994 43.478 0.00 0.00 0.00 2.52
2777 2892 2.102252 GGAGATGAACTAGTGAGCCAGG 59.898 54.545 0.00 0.00 0.00 4.45
2814 2934 4.830600 TGCCGATGTACCATAGAGATGTAA 59.169 41.667 0.00 0.00 0.00 2.41
2820 2940 7.752686 CGATGTACCATAGAGATGTAACTGATG 59.247 40.741 0.00 0.00 0.00 3.07
2837 2957 4.980434 ACTGATGAACGTGGTAATATACGC 59.020 41.667 0.00 0.00 43.63 4.42
2838 2958 5.190992 TGATGAACGTGGTAATATACGCT 57.809 39.130 0.00 0.00 43.63 5.07
2839 2959 6.016860 ACTGATGAACGTGGTAATATACGCTA 60.017 38.462 0.00 0.00 43.63 4.26
2870 2990 2.098607 CGTGCTGCTCATTGATGGATTT 59.901 45.455 0.00 0.00 0.00 2.17
2964 3084 4.515944 TCAATCCGGTAAAACGTTGACATT 59.484 37.500 0.00 0.00 0.00 2.71
2974 3094 7.744715 GGTAAAACGTTGACATTACATCTCTTG 59.255 37.037 17.73 0.00 31.46 3.02
2978 3098 3.281727 TGACATTACATCTCTTGGCCC 57.718 47.619 0.00 0.00 0.00 5.80
2983 3103 0.251916 TACATCTCTTGGCCCGTTGG 59.748 55.000 0.00 0.00 0.00 3.77
2994 3114 2.111043 CCGTTGGTGCTGGTCAGT 59.889 61.111 0.00 0.00 0.00 3.41
3004 3124 3.599343 GTGCTGGTCAGTGTATCATTGA 58.401 45.455 0.00 0.00 0.00 2.57
3005 3125 3.372206 GTGCTGGTCAGTGTATCATTGAC 59.628 47.826 14.10 14.10 45.89 3.18
3011 3131 4.769688 GTCAGTGTATCATTGACATCCCA 58.230 43.478 16.45 0.00 45.90 4.37
3012 3132 5.371526 GTCAGTGTATCATTGACATCCCAT 58.628 41.667 16.45 0.00 45.90 4.00
3013 3133 5.824624 GTCAGTGTATCATTGACATCCCATT 59.175 40.000 16.45 0.00 45.90 3.16
3014 3134 6.992123 GTCAGTGTATCATTGACATCCCATTA 59.008 38.462 16.45 0.00 45.90 1.90
3015 3135 7.172190 GTCAGTGTATCATTGACATCCCATTAG 59.828 40.741 16.45 0.00 45.90 1.73
3016 3136 6.000219 AGTGTATCATTGACATCCCATTAGC 59.000 40.000 0.00 0.00 0.00 3.09
3017 3137 5.764686 GTGTATCATTGACATCCCATTAGCA 59.235 40.000 0.00 0.00 0.00 3.49
3018 3138 5.764686 TGTATCATTGACATCCCATTAGCAC 59.235 40.000 0.00 0.00 0.00 4.40
3019 3139 4.508551 TCATTGACATCCCATTAGCACT 57.491 40.909 0.00 0.00 0.00 4.40
3020 3140 4.858850 TCATTGACATCCCATTAGCACTT 58.141 39.130 0.00 0.00 0.00 3.16
3021 3141 4.883585 TCATTGACATCCCATTAGCACTTC 59.116 41.667 0.00 0.00 0.00 3.01
3022 3142 4.574674 TTGACATCCCATTAGCACTTCT 57.425 40.909 0.00 0.00 0.00 2.85
3023 3143 4.574674 TGACATCCCATTAGCACTTCTT 57.425 40.909 0.00 0.00 0.00 2.52
3024 3144 4.922206 TGACATCCCATTAGCACTTCTTT 58.078 39.130 0.00 0.00 0.00 2.52
3025 3145 5.324409 TGACATCCCATTAGCACTTCTTTT 58.676 37.500 0.00 0.00 0.00 2.27
3026 3146 5.774690 TGACATCCCATTAGCACTTCTTTTT 59.225 36.000 0.00 0.00 0.00 1.94
3027 3147 6.945435 TGACATCCCATTAGCACTTCTTTTTA 59.055 34.615 0.00 0.00 0.00 1.52
3028 3148 7.121168 TGACATCCCATTAGCACTTCTTTTTAG 59.879 37.037 0.00 0.00 0.00 1.85
3029 3149 6.378280 ACATCCCATTAGCACTTCTTTTTAGG 59.622 38.462 0.00 0.00 0.00 2.69
3030 3150 5.261216 TCCCATTAGCACTTCTTTTTAGGG 58.739 41.667 0.00 0.00 0.00 3.53
3031 3151 4.402474 CCCATTAGCACTTCTTTTTAGGGG 59.598 45.833 0.00 0.00 0.00 4.79
3032 3152 5.016831 CCATTAGCACTTCTTTTTAGGGGT 58.983 41.667 0.00 0.00 0.00 4.95
3033 3153 6.184789 CCATTAGCACTTCTTTTTAGGGGTA 58.815 40.000 0.00 0.00 0.00 3.69
3034 3154 6.661805 CCATTAGCACTTCTTTTTAGGGGTAA 59.338 38.462 0.00 0.00 41.58 2.85
3199 3320 0.463620 GCTCTTCTTCCTCTCCGCAT 59.536 55.000 0.00 0.00 0.00 4.73
3439 3564 4.626081 AGTCGCCGGTTGCAGCTT 62.626 61.111 1.90 0.00 41.33 3.74
3470 3595 1.860078 CTCTTGTTGCCGTCGGTTC 59.140 57.895 13.94 4.46 0.00 3.62
3613 4000 4.077188 GTTGCAGCTCGGTCGTGC 62.077 66.667 9.04 9.04 37.73 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 0.310854 CAGCGGTTCAAAGTGTTCCC 59.689 55.000 0.00 0.00 0.00 3.97
3 4 1.305201 TCAGCGGTTCAAAGTGTTCC 58.695 50.000 0.00 0.00 0.00 3.62
5 6 2.687935 ACATTCAGCGGTTCAAAGTGTT 59.312 40.909 0.00 0.00 0.00 3.32
8 9 5.163602 TGTTTTACATTCAGCGGTTCAAAGT 60.164 36.000 0.00 0.00 0.00 2.66
9 10 5.277825 TGTTTTACATTCAGCGGTTCAAAG 58.722 37.500 0.00 0.00 0.00 2.77
10 11 5.250235 TGTTTTACATTCAGCGGTTCAAA 57.750 34.783 0.00 0.00 0.00 2.69
11 12 4.902443 TGTTTTACATTCAGCGGTTCAA 57.098 36.364 0.00 0.00 0.00 2.69
12 13 4.902443 TTGTTTTACATTCAGCGGTTCA 57.098 36.364 0.00 0.00 0.00 3.18
13 14 5.918011 TGATTTGTTTTACATTCAGCGGTTC 59.082 36.000 0.00 0.00 0.00 3.62
14 15 5.837437 TGATTTGTTTTACATTCAGCGGTT 58.163 33.333 0.00 0.00 0.00 4.44
15 16 5.446143 TGATTTGTTTTACATTCAGCGGT 57.554 34.783 0.00 0.00 0.00 5.68
16 17 5.164196 CGTTGATTTGTTTTACATTCAGCGG 60.164 40.000 15.21 0.00 39.36 5.52
17 18 5.164196 CCGTTGATTTGTTTTACATTCAGCG 60.164 40.000 15.68 15.68 40.91 5.18
18 19 5.689961 ACCGTTGATTTGTTTTACATTCAGC 59.310 36.000 0.00 0.00 0.00 4.26
19 20 7.692908 AACCGTTGATTTGTTTTACATTCAG 57.307 32.000 0.00 0.00 0.00 3.02
20 21 7.759886 TGAAACCGTTGATTTGTTTTACATTCA 59.240 29.630 0.00 0.00 32.67 2.57
21 22 8.053653 GTGAAACCGTTGATTTGTTTTACATTC 58.946 33.333 0.00 0.00 37.98 2.67
25 26 6.872670 TGTGAAACCGTTGATTTGTTTTAC 57.127 33.333 0.00 0.00 38.33 2.01
33 34 4.358851 CAACACATGTGAAACCGTTGATT 58.641 39.130 31.94 8.91 35.25 2.57
35 36 2.098280 CCAACACATGTGAAACCGTTGA 59.902 45.455 31.94 0.00 35.25 3.18
41 42 5.005586 CACACAAATCCAACACATGTGAAAC 59.994 40.000 31.94 0.00 43.01 2.78
68 69 1.619654 CCTTGGCAGTCCAACATCAA 58.380 50.000 0.00 0.00 46.89 2.57
77 78 1.827789 TGTGTTGGCCTTGGCAGTC 60.828 57.895 14.04 3.50 39.75 3.51
80 81 2.837291 GGTGTGTTGGCCTTGGCA 60.837 61.111 14.04 0.00 35.98 4.92
112 114 5.098893 TGCAACGTTAAATCCATACAATGC 58.901 37.500 0.00 0.00 0.00 3.56
127 129 3.313526 GGATATCTCATGCTTGCAACGTT 59.686 43.478 2.05 0.00 0.00 3.99
138 140 5.662674 TCTCTGCATCTGGATATCTCATG 57.337 43.478 2.05 4.07 0.00 3.07
153 155 4.098349 ACATTTCAACTTTGCTTCTCTGCA 59.902 37.500 0.00 0.00 41.65 4.41
163 165 9.467258 ACAGTGATTGATTACATTTCAACTTTG 57.533 29.630 0.00 0.00 36.02 2.77
167 169 6.742718 CGGACAGTGATTGATTACATTTCAAC 59.257 38.462 0.00 0.00 36.02 3.18
195 197 0.322997 CCCTTAAATGCCCGTGGACA 60.323 55.000 0.00 0.00 0.00 4.02
206 208 3.842436 ACAGTAAGTCCGGACCCTTAAAT 59.158 43.478 30.82 12.65 0.00 1.40
208 210 2.827921 GACAGTAAGTCCGGACCCTTAA 59.172 50.000 30.82 9.32 41.56 1.85
210 212 1.264295 GACAGTAAGTCCGGACCCTT 58.736 55.000 30.82 21.21 41.56 3.95
279 281 1.067821 CCTACCACAGTAGCTAGCAGC 59.932 57.143 18.83 9.00 44.05 5.25
519 523 0.373716 CTTGGATACGTTTCGCTGCC 59.626 55.000 0.00 0.00 42.51 4.85
527 531 1.665679 CGCAAGATGCTTGGATACGTT 59.334 47.619 9.01 0.00 42.25 3.99
624 632 4.388499 ATGACGTGCCGTGGACCC 62.388 66.667 4.94 0.00 41.37 4.46
683 691 4.501743 GGAAAAACGTGGCCCAAAGAATTA 60.502 41.667 0.00 0.00 0.00 1.40
684 692 3.462982 GAAAAACGTGGCCCAAAGAATT 58.537 40.909 0.00 0.00 0.00 2.17
702 710 2.974099 TCCAAACGAAGGGAGTAGGAAA 59.026 45.455 0.00 0.00 0.00 3.13
707 715 5.750352 AGTAATTCCAAACGAAGGGAGTA 57.250 39.130 0.00 0.00 34.02 2.59
708 716 4.635699 AGTAATTCCAAACGAAGGGAGT 57.364 40.909 0.00 0.00 34.02 3.85
709 717 6.018994 CGATAAGTAATTCCAAACGAAGGGAG 60.019 42.308 0.00 0.00 34.02 4.30
710 718 5.813672 CGATAAGTAATTCCAAACGAAGGGA 59.186 40.000 0.00 0.00 32.78 4.20
711 719 5.503520 GCGATAAGTAATTCCAAACGAAGGG 60.504 44.000 0.00 0.00 32.78 3.95
712 720 5.499047 GCGATAAGTAATTCCAAACGAAGG 58.501 41.667 0.00 0.00 32.78 3.46
713 721 5.005012 TCGCGATAAGTAATTCCAAACGAAG 59.995 40.000 3.71 0.00 32.78 3.79
714 722 4.863689 TCGCGATAAGTAATTCCAAACGAA 59.136 37.500 3.71 0.00 34.14 3.85
715 723 4.422840 TCGCGATAAGTAATTCCAAACGA 58.577 39.130 3.71 0.00 0.00 3.85
716 724 4.765281 TCGCGATAAGTAATTCCAAACG 57.235 40.909 3.71 0.00 0.00 3.60
717 725 7.044314 CCATTTTCGCGATAAGTAATTCCAAAC 60.044 37.037 10.88 0.00 0.00 2.93
718 726 6.970043 CCATTTTCGCGATAAGTAATTCCAAA 59.030 34.615 10.88 2.81 0.00 3.28
719 727 6.459024 CCCATTTTCGCGATAAGTAATTCCAA 60.459 38.462 10.88 0.00 0.00 3.53
720 728 5.008217 CCCATTTTCGCGATAAGTAATTCCA 59.992 40.000 10.88 0.00 0.00 3.53
721 729 5.008316 ACCCATTTTCGCGATAAGTAATTCC 59.992 40.000 10.88 0.00 0.00 3.01
722 730 5.907391 CACCCATTTTCGCGATAAGTAATTC 59.093 40.000 10.88 0.00 0.00 2.17
723 731 5.355910 ACACCCATTTTCGCGATAAGTAATT 59.644 36.000 10.88 0.00 0.00 1.40
724 732 4.879545 ACACCCATTTTCGCGATAAGTAAT 59.120 37.500 10.88 2.42 0.00 1.89
725 733 4.255301 ACACCCATTTTCGCGATAAGTAA 58.745 39.130 10.88 0.00 0.00 2.24
726 734 3.864243 ACACCCATTTTCGCGATAAGTA 58.136 40.909 10.88 0.00 0.00 2.24
727 735 2.706890 ACACCCATTTTCGCGATAAGT 58.293 42.857 10.88 3.06 0.00 2.24
728 736 4.750098 AGATACACCCATTTTCGCGATAAG 59.250 41.667 10.88 2.36 0.00 1.73
729 737 4.699637 AGATACACCCATTTTCGCGATAA 58.300 39.130 10.88 12.88 0.00 1.75
730 738 4.330944 AGATACACCCATTTTCGCGATA 57.669 40.909 10.88 0.90 0.00 2.92
731 739 3.194005 AGATACACCCATTTTCGCGAT 57.806 42.857 10.88 0.00 0.00 4.58
732 740 2.684001 AGATACACCCATTTTCGCGA 57.316 45.000 3.71 3.71 0.00 5.87
733 741 3.489785 GTCTAGATACACCCATTTTCGCG 59.510 47.826 0.00 0.00 0.00 5.87
734 742 3.489785 CGTCTAGATACACCCATTTTCGC 59.510 47.826 0.00 0.00 0.00 4.70
735 743 4.503007 CACGTCTAGATACACCCATTTTCG 59.497 45.833 0.00 0.00 0.00 3.46
736 744 5.416947 ACACGTCTAGATACACCCATTTTC 58.583 41.667 0.00 0.00 0.00 2.29
737 745 5.416271 ACACGTCTAGATACACCCATTTT 57.584 39.130 0.00 0.00 0.00 1.82
738 746 5.416271 AACACGTCTAGATACACCCATTT 57.584 39.130 0.00 0.00 0.00 2.32
739 747 5.416271 AAACACGTCTAGATACACCCATT 57.584 39.130 0.00 0.00 0.00 3.16
740 748 5.416271 AAAACACGTCTAGATACACCCAT 57.584 39.130 0.00 0.00 0.00 4.00
741 749 4.877378 AAAACACGTCTAGATACACCCA 57.123 40.909 0.00 0.00 0.00 4.51
742 750 5.958955 ACTAAAACACGTCTAGATACACCC 58.041 41.667 0.00 0.00 0.00 4.61
743 751 7.880059 AAACTAAAACACGTCTAGATACACC 57.120 36.000 0.00 0.00 0.00 4.16
763 771 9.930693 GTCTCGGAAATGGATATATCTAAAACT 57.069 33.333 12.42 0.00 0.00 2.66
764 772 9.706691 TGTCTCGGAAATGGATATATCTAAAAC 57.293 33.333 12.42 2.78 0.00 2.43
766 774 9.929180 CTTGTCTCGGAAATGGATATATCTAAA 57.071 33.333 12.42 0.00 0.00 1.85
767 775 9.090103 ACTTGTCTCGGAAATGGATATATCTAA 57.910 33.333 12.42 2.30 0.00 2.10
768 776 8.651589 ACTTGTCTCGGAAATGGATATATCTA 57.348 34.615 12.42 6.97 0.00 1.98
769 777 7.546250 ACTTGTCTCGGAAATGGATATATCT 57.454 36.000 12.42 0.00 0.00 1.98
770 778 9.877178 ATTACTTGTCTCGGAAATGGATATATC 57.123 33.333 3.96 3.96 0.00 1.63
772 780 9.706691 GAATTACTTGTCTCGGAAATGGATATA 57.293 33.333 0.00 0.00 0.00 0.86
773 781 7.661847 GGAATTACTTGTCTCGGAAATGGATAT 59.338 37.037 0.00 0.00 0.00 1.63
774 782 6.990349 GGAATTACTTGTCTCGGAAATGGATA 59.010 38.462 0.00 0.00 0.00 2.59
775 783 5.823045 GGAATTACTTGTCTCGGAAATGGAT 59.177 40.000 0.00 0.00 0.00 3.41
776 784 5.183228 GGAATTACTTGTCTCGGAAATGGA 58.817 41.667 0.00 0.00 0.00 3.41
777 785 4.034048 CGGAATTACTTGTCTCGGAAATGG 59.966 45.833 0.00 0.00 0.00 3.16
778 786 4.868171 TCGGAATTACTTGTCTCGGAAATG 59.132 41.667 0.00 0.00 0.00 2.32
779 787 5.080969 TCGGAATTACTTGTCTCGGAAAT 57.919 39.130 0.00 0.00 0.00 2.17
780 788 4.524316 TCGGAATTACTTGTCTCGGAAA 57.476 40.909 0.00 0.00 0.00 3.13
781 789 4.240096 GTTCGGAATTACTTGTCTCGGAA 58.760 43.478 0.00 0.00 0.00 4.30
782 790 3.671433 CGTTCGGAATTACTTGTCTCGGA 60.671 47.826 0.00 0.00 0.00 4.55
783 791 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
784 792 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
785 793 3.841643 TCCGTTCGGAATTACTTGTCTC 58.158 45.455 11.66 0.00 0.00 3.36
786 794 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
787 795 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
788 796 2.564062 TCCTCCGTTCGGAATTACTTGT 59.436 45.455 14.79 0.00 33.41 3.16
789 797 3.241067 TCCTCCGTTCGGAATTACTTG 57.759 47.619 14.79 1.97 33.41 3.16
790 798 3.260128 ACTTCCTCCGTTCGGAATTACTT 59.740 43.478 14.79 0.00 39.64 2.24
791 799 2.830321 ACTTCCTCCGTTCGGAATTACT 59.170 45.455 14.79 0.00 39.64 2.24
792 800 3.242549 ACTTCCTCCGTTCGGAATTAC 57.757 47.619 14.79 0.00 39.64 1.89
793 801 5.603170 AATACTTCCTCCGTTCGGAATTA 57.397 39.130 14.79 1.22 39.64 1.40
794 802 4.482952 AATACTTCCTCCGTTCGGAATT 57.517 40.909 14.79 7.85 39.64 2.17
795 803 4.648307 ACTAATACTTCCTCCGTTCGGAAT 59.352 41.667 14.79 2.14 39.64 3.01
796 804 4.019174 ACTAATACTTCCTCCGTTCGGAA 58.981 43.478 14.79 0.00 38.18 4.30
797 805 3.624777 ACTAATACTTCCTCCGTTCGGA 58.375 45.455 13.34 13.34 0.00 4.55
798 806 3.631227 AGACTAATACTTCCTCCGTTCGG 59.369 47.826 4.74 4.74 0.00 4.30
799 807 4.897025 AGACTAATACTTCCTCCGTTCG 57.103 45.455 0.00 0.00 0.00 3.95
800 808 7.565323 TCTTAGACTAATACTTCCTCCGTTC 57.435 40.000 0.00 0.00 0.00 3.95
801 809 9.638176 TTATCTTAGACTAATACTTCCTCCGTT 57.362 33.333 0.00 0.00 0.00 4.44
802 810 9.287373 CTTATCTTAGACTAATACTTCCTCCGT 57.713 37.037 0.00 0.00 0.00 4.69
803 811 9.504708 TCTTATCTTAGACTAATACTTCCTCCG 57.495 37.037 0.00 0.00 0.00 4.63
907 928 7.416964 TTGCCCACTTATTTTAATATGCAGT 57.583 32.000 0.00 0.00 0.00 4.40
908 929 6.421801 GCTTGCCCACTTATTTTAATATGCAG 59.578 38.462 0.00 0.00 0.00 4.41
909 930 6.279882 GCTTGCCCACTTATTTTAATATGCA 58.720 36.000 0.00 0.00 0.00 3.96
910 931 5.402270 CGCTTGCCCACTTATTTTAATATGC 59.598 40.000 0.00 0.00 0.00 3.14
911 932 6.636850 GTCGCTTGCCCACTTATTTTAATATG 59.363 38.462 0.00 0.00 0.00 1.78
912 933 6.238925 GGTCGCTTGCCCACTTATTTTAATAT 60.239 38.462 0.00 0.00 0.00 1.28
939 960 0.322456 ACATGGGTGATGGGTCAACG 60.322 55.000 0.00 0.00 43.22 4.10
940 961 1.463674 GACATGGGTGATGGGTCAAC 58.536 55.000 0.00 0.00 41.50 3.18
954 975 3.520862 GCACCCGCCATGGACATG 61.521 66.667 18.40 8.63 42.00 3.21
955 976 4.045781 TGCACCCGCCATGGACAT 62.046 61.111 18.40 0.00 42.00 3.06
984 1005 6.548171 GCAGTACATATAGCCGTTTCAAAAA 58.452 36.000 0.00 0.00 0.00 1.94
985 1006 5.220510 CGCAGTACATATAGCCGTTTCAAAA 60.221 40.000 0.00 0.00 0.00 2.44
986 1007 4.269123 CGCAGTACATATAGCCGTTTCAAA 59.731 41.667 0.00 0.00 0.00 2.69
987 1008 3.799963 CGCAGTACATATAGCCGTTTCAA 59.200 43.478 0.00 0.00 0.00 2.69
988 1009 3.377439 CGCAGTACATATAGCCGTTTCA 58.623 45.455 0.00 0.00 0.00 2.69
989 1010 2.155155 GCGCAGTACATATAGCCGTTTC 59.845 50.000 0.30 0.00 0.00 2.78
990 1011 2.132762 GCGCAGTACATATAGCCGTTT 58.867 47.619 0.30 0.00 0.00 3.60
993 1014 1.455786 GTTGCGCAGTACATATAGCCG 59.544 52.381 11.31 0.00 0.00 5.52
994 1015 2.221055 GTGTTGCGCAGTACATATAGCC 59.779 50.000 17.25 0.91 0.00 3.93
995 1016 2.863740 TGTGTTGCGCAGTACATATAGC 59.136 45.455 17.25 5.66 0.00 2.97
996 1017 3.060272 GCTGTGTTGCGCAGTACATATAG 60.060 47.826 23.25 18.46 43.09 1.31
997 1018 2.863740 GCTGTGTTGCGCAGTACATATA 59.136 45.455 23.25 11.18 43.09 0.86
998 1019 1.665679 GCTGTGTTGCGCAGTACATAT 59.334 47.619 23.25 0.00 43.09 1.78
999 1020 1.075542 GCTGTGTTGCGCAGTACATA 58.924 50.000 23.25 17.32 43.09 2.29
1002 1052 1.082756 GTGCTGTGTTGCGCAGTAC 60.083 57.895 11.31 14.49 46.23 2.73
1030 1080 2.493675 TGACTGACAGCCTAGTGATGAC 59.506 50.000 1.25 0.00 0.00 3.06
1051 1101 3.191581 ACTGATCGTTCGATGAACAGACT 59.808 43.478 23.29 7.30 42.05 3.24
1284 1350 4.995487 AGATGCGTACTCTATCGACATACA 59.005 41.667 0.00 0.00 0.00 2.29
1970 2073 3.379445 TCGCCGTCAAGGTCCCTC 61.379 66.667 0.00 0.00 43.70 4.30
2543 2646 0.991920 GGGACAGGAAGGACATGGAA 59.008 55.000 0.00 0.00 34.35 3.53
2621 2724 5.333566 AGGTAAAGAAGAAAACCCATCCA 57.666 39.130 0.00 0.00 32.10 3.41
2639 2742 0.458669 GCGTCTCCGGAATGAAGGTA 59.541 55.000 5.23 0.00 33.68 3.08
2709 2812 2.506438 GTCTTCGGCTTCGACGGG 60.506 66.667 0.00 0.00 43.17 5.28
2777 2892 4.319249 GGCAAAGTTGGTTGACGC 57.681 55.556 0.00 0.00 0.00 5.19
2814 2934 4.980434 GCGTATATTACCACGTTCATCAGT 59.020 41.667 0.00 0.00 40.25 3.41
2820 2940 5.282310 CGTGATAGCGTATATTACCACGTTC 59.718 44.000 0.00 0.00 40.53 3.95
2870 2990 7.870826 TCAATGAGCAATCTCGTAAAAGAAAA 58.129 30.769 0.00 0.00 42.26 2.29
2874 2994 6.037500 TCCATCAATGAGCAATCTCGTAAAAG 59.962 38.462 0.00 0.00 42.26 2.27
2875 2995 5.879777 TCCATCAATGAGCAATCTCGTAAAA 59.120 36.000 0.00 0.00 42.26 1.52
2876 2996 5.427378 TCCATCAATGAGCAATCTCGTAAA 58.573 37.500 0.00 0.00 42.26 2.01
2877 2997 5.022282 TCCATCAATGAGCAATCTCGTAA 57.978 39.130 0.00 0.00 42.26 3.18
2878 2998 4.670896 TCCATCAATGAGCAATCTCGTA 57.329 40.909 0.00 0.00 42.26 3.43
2879 2999 3.548745 TCCATCAATGAGCAATCTCGT 57.451 42.857 0.00 0.00 42.26 4.18
2880 3000 4.275196 ACAATCCATCAATGAGCAATCTCG 59.725 41.667 0.00 0.00 42.26 4.04
2881 3001 5.769484 ACAATCCATCAATGAGCAATCTC 57.231 39.130 0.00 0.00 39.78 2.75
2882 3002 6.338146 CAAACAATCCATCAATGAGCAATCT 58.662 36.000 0.00 0.00 0.00 2.40
2883 3003 5.522460 CCAAACAATCCATCAATGAGCAATC 59.478 40.000 0.00 0.00 0.00 2.67
2884 3004 5.188163 TCCAAACAATCCATCAATGAGCAAT 59.812 36.000 0.00 0.00 0.00 3.56
2885 3005 4.527427 TCCAAACAATCCATCAATGAGCAA 59.473 37.500 0.00 0.00 0.00 3.91
2964 3084 0.251916 CCAACGGGCCAAGAGATGTA 59.748 55.000 4.39 0.00 0.00 2.29
2978 3098 0.249699 TACACTGACCAGCACCAACG 60.250 55.000 0.00 0.00 0.00 4.10
2983 3103 3.372206 GTCAATGATACACTGACCAGCAC 59.628 47.826 2.57 0.00 34.63 4.40
2989 3109 4.769688 TGGGATGTCAATGATACACTGAC 58.230 43.478 6.42 6.42 39.93 3.51
2994 3114 5.764686 GTGCTAATGGGATGTCAATGATACA 59.235 40.000 0.00 0.00 0.00 2.29
3004 3124 6.378280 CCTAAAAAGAAGTGCTAATGGGATGT 59.622 38.462 0.00 0.00 0.00 3.06
3005 3125 6.183360 CCCTAAAAAGAAGTGCTAATGGGATG 60.183 42.308 0.00 0.00 31.98 3.51
3006 3126 5.893824 CCCTAAAAAGAAGTGCTAATGGGAT 59.106 40.000 0.00 0.00 31.98 3.85
3007 3127 5.261216 CCCTAAAAAGAAGTGCTAATGGGA 58.739 41.667 0.00 0.00 31.98 4.37
3008 3128 4.402474 CCCCTAAAAAGAAGTGCTAATGGG 59.598 45.833 0.00 0.00 0.00 4.00
3009 3129 5.016831 ACCCCTAAAAAGAAGTGCTAATGG 58.983 41.667 0.00 0.00 0.00 3.16
3010 3130 7.175990 TGTTACCCCTAAAAAGAAGTGCTAATG 59.824 37.037 0.00 0.00 0.00 1.90
3011 3131 7.235804 TGTTACCCCTAAAAAGAAGTGCTAAT 58.764 34.615 0.00 0.00 0.00 1.73
3012 3132 6.603224 TGTTACCCCTAAAAAGAAGTGCTAA 58.397 36.000 0.00 0.00 0.00 3.09
3013 3133 6.190346 TGTTACCCCTAAAAAGAAGTGCTA 57.810 37.500 0.00 0.00 0.00 3.49
3014 3134 5.056553 TGTTACCCCTAAAAAGAAGTGCT 57.943 39.130 0.00 0.00 0.00 4.40
3015 3135 5.105877 GGATGTTACCCCTAAAAAGAAGTGC 60.106 44.000 0.00 0.00 0.00 4.40
3016 3136 5.417894 GGGATGTTACCCCTAAAAAGAAGTG 59.582 44.000 0.00 0.00 43.81 3.16
3017 3137 5.577100 GGGATGTTACCCCTAAAAAGAAGT 58.423 41.667 0.00 0.00 43.81 3.01
3030 3150 4.523083 TCAAGTGCTAATGGGATGTTACC 58.477 43.478 0.00 0.00 0.00 2.85
3031 3151 6.699575 ATTCAAGTGCTAATGGGATGTTAC 57.300 37.500 0.00 0.00 0.00 2.50
3032 3152 6.405731 GCAATTCAAGTGCTAATGGGATGTTA 60.406 38.462 1.67 0.00 39.00 2.41
3033 3153 5.625197 GCAATTCAAGTGCTAATGGGATGTT 60.625 40.000 1.67 0.00 39.00 2.71
3034 3154 4.142093 GCAATTCAAGTGCTAATGGGATGT 60.142 41.667 1.67 0.00 39.00 3.06
3613 4000 3.728864 GCATCACGTTTTGCTACATCCAG 60.729 47.826 11.30 0.00 35.95 3.86


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

AutoCloner maintained by Alex Coulton.