Multiple sequence alignment - TraesCS3B01G425000

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 TraesCS3B01G425000 chr3B 100.000 2894 0 0 1 2894 662994844 662991951 0.000000e+00 5345.0
1 TraesCS3B01G425000 chr3B 95.676 555 24 0 1 555 663010993 663010439 0.000000e+00 893.0
2 TraesCS3B01G425000 chr3B 84.171 796 91 22 674 1444 792628688 792627903 0.000000e+00 739.0
3 TraesCS3B01G425000 chr3B 88.382 482 48 5 1481 1955 792627902 792627422 9.000000e-160 573.0
4 TraesCS3B01G425000 chr3B 91.160 181 14 1 1960 2138 792627333 792627153 8.010000e-61 244.0
5 TraesCS3B01G425000 chr5D 86.622 1353 130 23 640 1959 9404926 9406260 0.000000e+00 1448.0
6 TraesCS3B01G425000 chr5D 88.179 829 77 15 1960 2776 460259367 460260186 0.000000e+00 968.0
7 TraesCS3B01G425000 chr5D 84.967 918 100 17 668 1557 460240282 460241189 0.000000e+00 896.0
8 TraesCS3B01G425000 chr5D 91.513 542 29 10 2245 2776 9407280 9407814 0.000000e+00 730.0
9 TraesCS3B01G425000 chr5D 88.861 404 43 2 1558 1959 460258887 460259290 2.000000e-136 496.0
10 TraesCS3B01G425000 chr5D 89.869 306 25 3 1960 2260 9406337 9406641 3.500000e-104 388.0
11 TraesCS3B01G425000 chr7B 94.628 819 32 7 1960 2776 748020292 748021100 0.000000e+00 1258.0
12 TraesCS3B01G425000 chr7B 88.382 482 48 5 1481 1955 513739691 513739211 9.000000e-160 573.0
13 TraesCS3B01G425000 chr7B 89.017 346 38 0 1099 1444 513740037 513739692 2.060000e-116 429.0
14 TraesCS3B01G425000 chr7B 91.713 181 13 1 1960 2138 513739122 513738942 1.720000e-62 250.0
15 TraesCS3B01G425000 chr2D 83.308 1336 144 33 674 1959 551156447 551157753 0.000000e+00 1158.0
16 TraesCS3B01G425000 chr2D 91.773 547 33 6 2239 2776 551158085 551158628 0.000000e+00 750.0
17 TraesCS3B01G425000 chr2D 85.057 261 31 6 1960 2216 551157832 551158088 2.860000e-65 259.0
18 TraesCS3B01G425000 chr2D 81.818 110 17 3 2468 2576 76879095 76878988 3.970000e-14 89.8
19 TraesCS3B01G425000 chr1A 84.328 1072 134 19 900 1955 567596434 567595381 0.000000e+00 1018.0
20 TraesCS3B01G425000 chr1A 94.424 556 30 1 1 555 154137326 154137881 0.000000e+00 854.0
21 TraesCS3B01G425000 chr1A 94.097 559 32 1 1 559 454999772 454999215 0.000000e+00 848.0
22 TraesCS3B01G425000 chr1A 93.250 563 36 2 1 561 154144665 154145227 0.000000e+00 828.0
23 TraesCS3B01G425000 chr1A 89.773 440 38 4 1960 2393 567595295 567594857 9.060000e-155 556.0
24 TraesCS3B01G425000 chr1A 86.052 466 64 1 979 1444 278147946 278148410 1.550000e-137 499.0
25 TraesCS3B01G425000 chr3A 94.245 556 31 1 1 555 213134865 213134310 0.000000e+00 848.0
26 TraesCS3B01G425000 chr3A 82.278 79 9 4 2478 2551 688446437 688446515 2.410000e-06 63.9
27 TraesCS3B01G425000 chr6B 94.075 557 30 2 1 555 346046403 346046958 0.000000e+00 843.0
28 TraesCS3B01G425000 chr6B 92.986 556 34 3 1 555 346075959 346076510 0.000000e+00 806.0
29 TraesCS3B01G425000 chr4A 93.502 554 34 2 3 555 169676943 169676391 0.000000e+00 822.0
30 TraesCS3B01G425000 chr4A 92.058 554 39 4 3 556 169660561 169660013 0.000000e+00 774.0
31 TraesCS3B01G425000 chr4A 87.805 492 45 7 1478 1955 593459248 593459738 1.950000e-156 562.0
32 TraesCS3B01G425000 chr4A 83.276 293 29 8 900 1174 593458915 593459205 4.790000e-63 252.0
33 TraesCS3B01G425000 chrUn 84.343 792 93 18 674 1444 418528209 418528990 0.000000e+00 747.0
34 TraesCS3B01G425000 chrUn 84.946 93 13 1 1437 1529 27575608 27575517 3.070000e-15 93.5
35 TraesCS3B01G425000 chr5B 83.960 798 91 23 674 1444 79780709 79779922 0.000000e+00 730.0
36 TraesCS3B01G425000 chr5B 88.589 482 47 5 1481 1955 79779921 79779441 1.930000e-161 579.0
37 TraesCS3B01G425000 chr5B 91.713 181 13 1 1960 2138 79779352 79779172 1.720000e-62 250.0
38 TraesCS3B01G425000 chr2B 83.960 798 91 21 674 1444 467479649 467480436 0.000000e+00 730.0
39 TraesCS3B01G425000 chr2B 88.382 482 48 5 1481 1955 467480437 467480917 9.000000e-160 573.0
40 TraesCS3B01G425000 chr2B 78.361 476 72 23 2159 2623 566339383 566339838 2.200000e-71 279.0
41 TraesCS3B01G425000 chr2B 91.713 181 13 1 1960 2138 467481005 467481185 1.720000e-62 250.0
42 TraesCS3B01G425000 chr5A 85.474 475 53 10 1481 1952 169211834 169211373 5.610000e-132 481.0
43 TraesCS3B01G425000 chr1B 77.937 349 51 17 2294 2623 402980056 402979715 8.180000e-46 195.0
44 TraesCS3B01G425000 chr3D 86.538 104 12 2 2453 2554 551219081 551219184 2.360000e-21 113.0
45 TraesCS3B01G425000 chr4B 85.859 99 13 1 2794 2892 656283423 656283520 1.420000e-18 104.0


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 TraesCS3B01G425000 chr3B 662991951 662994844 2893 True 5345.000000 5345 100.000000 1 2894 1 chr3B.!!$R1 2893
1 TraesCS3B01G425000 chr3B 663010439 663010993 554 True 893.000000 893 95.676000 1 555 1 chr3B.!!$R2 554
2 TraesCS3B01G425000 chr3B 792627153 792628688 1535 True 518.666667 739 87.904333 674 2138 3 chr3B.!!$R3 1464
3 TraesCS3B01G425000 chr5D 460240282 460241189 907 False 896.000000 896 84.967000 668 1557 1 chr5D.!!$F1 889
4 TraesCS3B01G425000 chr5D 9404926 9407814 2888 False 855.333333 1448 89.334667 640 2776 3 chr5D.!!$F2 2136
5 TraesCS3B01G425000 chr5D 460258887 460260186 1299 False 732.000000 968 88.520000 1558 2776 2 chr5D.!!$F3 1218
6 TraesCS3B01G425000 chr7B 748020292 748021100 808 False 1258.000000 1258 94.628000 1960 2776 1 chr7B.!!$F1 816
7 TraesCS3B01G425000 chr7B 513738942 513740037 1095 True 417.333333 573 89.704000 1099 2138 3 chr7B.!!$R1 1039
8 TraesCS3B01G425000 chr2D 551156447 551158628 2181 False 722.333333 1158 86.712667 674 2776 3 chr2D.!!$F1 2102
9 TraesCS3B01G425000 chr1A 154137326 154137881 555 False 854.000000 854 94.424000 1 555 1 chr1A.!!$F1 554
10 TraesCS3B01G425000 chr1A 454999215 454999772 557 True 848.000000 848 94.097000 1 559 1 chr1A.!!$R1 558
11 TraesCS3B01G425000 chr1A 154144665 154145227 562 False 828.000000 828 93.250000 1 561 1 chr1A.!!$F2 560
12 TraesCS3B01G425000 chr1A 567594857 567596434 1577 True 787.000000 1018 87.050500 900 2393 2 chr1A.!!$R2 1493
13 TraesCS3B01G425000 chr3A 213134310 213134865 555 True 848.000000 848 94.245000 1 555 1 chr3A.!!$R1 554
14 TraesCS3B01G425000 chr6B 346046403 346046958 555 False 843.000000 843 94.075000 1 555 1 chr6B.!!$F1 554
15 TraesCS3B01G425000 chr6B 346075959 346076510 551 False 806.000000 806 92.986000 1 555 1 chr6B.!!$F2 554
16 TraesCS3B01G425000 chr4A 169676391 169676943 552 True 822.000000 822 93.502000 3 555 1 chr4A.!!$R2 552
17 TraesCS3B01G425000 chr4A 169660013 169660561 548 True 774.000000 774 92.058000 3 556 1 chr4A.!!$R1 553
18 TraesCS3B01G425000 chr4A 593458915 593459738 823 False 407.000000 562 85.540500 900 1955 2 chr4A.!!$F1 1055
19 TraesCS3B01G425000 chrUn 418528209 418528990 781 False 747.000000 747 84.343000 674 1444 1 chrUn.!!$F1 770
20 TraesCS3B01G425000 chr5B 79779172 79780709 1537 True 519.666667 730 88.087333 674 2138 3 chr5B.!!$R1 1464
21 TraesCS3B01G425000 chr2B 467479649 467481185 1536 False 517.666667 730 88.018333 674 2138 3 chr2B.!!$F2 1464

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
617 620 0.105964 CCCACCTGTCAACGACTCAA 59.894 55.0 0.00 0.00 33.15 3.02 F
1531 1662 0.041047 ATTGACGACGACGACGAACA 60.041 50.0 25.15 19.53 42.66 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 1724 0.978907 TGCTCTGCTTGAGATGGTCA 59.021 50.0 10.67 0.0 45.39 4.02 R
2823 3771 0.327924 TGCCGAGGACACAAATGGAT 59.672 50.0 0.00 0.0 0.00 3.41 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
85 86 0.253630 TTAGGCCCAGTCCCAAGGAT 60.254 55.000 0.00 0.00 32.73 3.24
150 153 9.294030 CCAGAGATAGTTTTGCAATAATTTGAC 57.706 33.333 0.00 0.00 34.60 3.18
221 224 8.605947 ACTATGGTATATTCCACATTGCTACAT 58.394 33.333 2.77 0.00 40.51 2.29
318 321 4.225717 ACTGATTTAAATGCTTTGCCCCAT 59.774 37.500 5.17 0.00 0.00 4.00
447 450 8.871862 CACTTTGAATTTGAATTGAGTTCACAA 58.128 29.630 0.00 0.00 46.14 3.33
543 546 5.525484 AGGGATTACTGTGGTGTGATACTA 58.475 41.667 0.00 0.00 0.00 1.82
556 559 5.128171 GGTGTGATACTAGGGATGTTACACA 59.872 44.000 0.00 0.00 38.04 3.72
557 560 6.040878 GTGTGATACTAGGGATGTTACACAC 58.959 44.000 0.00 0.00 41.05 3.82
558 561 5.717654 TGTGATACTAGGGATGTTACACACA 59.282 40.000 0.00 0.00 40.71 3.72
559 562 6.127451 TGTGATACTAGGGATGTTACACACAG 60.127 42.308 0.00 0.00 39.40 3.66
560 563 3.611766 ACTAGGGATGTTACACACAGC 57.388 47.619 0.00 0.00 41.46 4.40
561 564 2.094182 ACTAGGGATGTTACACACAGCG 60.094 50.000 0.00 0.00 43.28 5.18
562 565 0.685097 AGGGATGTTACACACAGCGT 59.315 50.000 0.00 0.00 43.28 5.07
579 582 2.971959 TGCTCGCGTGCACAACAT 60.972 55.556 29.84 0.00 38.12 2.71
580 583 2.500369 GCTCGCGTGCACAACATG 60.500 61.111 26.63 0.39 38.41 3.21
594 597 3.004024 CAACATGCTGAGTTGGACAAC 57.996 47.619 7.08 7.08 41.92 3.32
607 610 3.307379 GACAACTGTCCCACCTGTC 57.693 57.895 0.00 0.00 39.07 3.51
608 611 0.468226 GACAACTGTCCCACCTGTCA 59.532 55.000 0.00 0.00 39.07 3.58
609 612 0.916086 ACAACTGTCCCACCTGTCAA 59.084 50.000 0.00 0.00 0.00 3.18
610 613 1.308998 CAACTGTCCCACCTGTCAAC 58.691 55.000 0.00 0.00 0.00 3.18
611 614 0.179056 AACTGTCCCACCTGTCAACG 60.179 55.000 0.00 0.00 0.00 4.10
612 615 1.046472 ACTGTCCCACCTGTCAACGA 61.046 55.000 0.00 0.00 0.00 3.85
613 616 0.600255 CTGTCCCACCTGTCAACGAC 60.600 60.000 0.00 0.00 0.00 4.34
614 617 1.046472 TGTCCCACCTGTCAACGACT 61.046 55.000 0.00 0.00 33.15 4.18
615 618 0.319641 GTCCCACCTGTCAACGACTC 60.320 60.000 0.00 0.00 33.15 3.36
616 619 0.757561 TCCCACCTGTCAACGACTCA 60.758 55.000 0.00 0.00 33.15 3.41
617 620 0.105964 CCCACCTGTCAACGACTCAA 59.894 55.000 0.00 0.00 33.15 3.02
618 621 1.502231 CCACCTGTCAACGACTCAAG 58.498 55.000 0.00 0.00 33.15 3.02
619 622 1.202533 CCACCTGTCAACGACTCAAGT 60.203 52.381 0.00 0.00 33.15 3.16
620 623 2.035449 CCACCTGTCAACGACTCAAGTA 59.965 50.000 0.00 0.00 33.15 2.24
621 624 3.306088 CCACCTGTCAACGACTCAAGTAT 60.306 47.826 0.00 0.00 33.15 2.12
622 625 4.307432 CACCTGTCAACGACTCAAGTATT 58.693 43.478 0.00 0.00 33.15 1.89
623 626 4.750098 CACCTGTCAACGACTCAAGTATTT 59.250 41.667 0.00 0.00 33.15 1.40
624 627 5.236478 CACCTGTCAACGACTCAAGTATTTT 59.764 40.000 0.00 0.00 33.15 1.82
625 628 6.422701 CACCTGTCAACGACTCAAGTATTTTA 59.577 38.462 0.00 0.00 33.15 1.52
626 629 7.117812 CACCTGTCAACGACTCAAGTATTTTAT 59.882 37.037 0.00 0.00 33.15 1.40
627 630 7.660208 ACCTGTCAACGACTCAAGTATTTTATT 59.340 33.333 0.00 0.00 33.15 1.40
628 631 8.504005 CCTGTCAACGACTCAAGTATTTTATTT 58.496 33.333 0.00 0.00 33.15 1.40
629 632 9.878599 CTGTCAACGACTCAAGTATTTTATTTT 57.121 29.630 0.00 0.00 33.15 1.82
630 633 9.872757 TGTCAACGACTCAAGTATTTTATTTTC 57.127 29.630 0.00 0.00 33.15 2.29
631 634 9.037417 GTCAACGACTCAAGTATTTTATTTTCG 57.963 33.333 0.00 0.00 0.00 3.46
632 635 8.980610 TCAACGACTCAAGTATTTTATTTTCGA 58.019 29.630 0.00 0.00 0.00 3.71
633 636 9.588774 CAACGACTCAAGTATTTTATTTTCGAA 57.411 29.630 0.00 0.00 0.00 3.71
655 658 3.549299 ACAGTAACTACCGAACGTCAG 57.451 47.619 0.00 0.00 0.00 3.51
660 663 3.672767 AACTACCGAACGTCAGGATTT 57.327 42.857 15.09 3.48 0.00 2.17
661 664 4.789012 AACTACCGAACGTCAGGATTTA 57.211 40.909 15.09 0.00 0.00 1.40
669 672 6.206048 ACCGAACGTCAGGATTTAAAAGATTT 59.794 34.615 15.09 0.00 0.00 2.17
670 673 7.388500 ACCGAACGTCAGGATTTAAAAGATTTA 59.612 33.333 15.09 0.00 0.00 1.40
724 727 1.570813 CGCGGATCTTGAAGCATGTA 58.429 50.000 0.00 0.00 0.00 2.29
729 732 3.310774 CGGATCTTGAAGCATGTACTTGG 59.689 47.826 10.47 0.00 0.00 3.61
762 769 0.599558 TCGTTCGTTCGTTCCTGGAT 59.400 50.000 0.00 0.00 0.00 3.41
778 785 2.363795 ATCTCCTCGGCCCGAACA 60.364 61.111 7.50 0.00 34.74 3.18
795 807 1.027815 ACACCTTATCCTCTCCCCCT 58.972 55.000 0.00 0.00 0.00 4.79
805 818 1.988846 CCTCTCCCCCTTCACTTTCTT 59.011 52.381 0.00 0.00 0.00 2.52
810 824 3.053077 TCCCCCTTCACTTTCTTCTTCA 58.947 45.455 0.00 0.00 0.00 3.02
811 825 3.657727 TCCCCCTTCACTTTCTTCTTCAT 59.342 43.478 0.00 0.00 0.00 2.57
814 828 3.760684 CCCTTCACTTTCTTCTTCATGGG 59.239 47.826 0.00 0.00 0.00 4.00
815 829 4.507335 CCCTTCACTTTCTTCTTCATGGGA 60.507 45.833 0.00 0.00 31.98 4.37
818 833 4.848357 TCACTTTCTTCTTCATGGGATCC 58.152 43.478 1.92 1.92 0.00 3.36
822 837 6.210185 CACTTTCTTCTTCATGGGATCCTTTT 59.790 38.462 12.58 0.00 0.00 2.27
842 860 1.524621 CCATCCCCATCGTCACTGC 60.525 63.158 0.00 0.00 0.00 4.40
850 868 0.248417 CATCGTCACTGCGAGAGAGG 60.248 60.000 0.00 0.00 44.43 3.69
852 870 2.888863 GTCACTGCGAGAGAGGGG 59.111 66.667 0.00 0.00 0.00 4.79
866 902 2.444895 GGGGGAGTCGAGCTGGAT 60.445 66.667 0.38 0.00 0.00 3.41
891 927 3.512516 GCCTTGCCGCCACTCATC 61.513 66.667 0.00 0.00 0.00 2.92
892 928 3.197790 CCTTGCCGCCACTCATCG 61.198 66.667 0.00 0.00 0.00 3.84
894 930 3.958147 CTTGCCGCCACTCATCGGT 62.958 63.158 2.58 0.00 46.79 4.69
895 931 4.758251 TGCCGCCACTCATCGGTG 62.758 66.667 0.00 0.00 46.79 4.94
896 932 4.451150 GCCGCCACTCATCGGTGA 62.451 66.667 0.00 0.00 46.79 4.02
897 933 2.509336 CCGCCACTCATCGGTGAC 60.509 66.667 0.00 0.00 40.72 3.67
898 934 2.573869 CGCCACTCATCGGTGACT 59.426 61.111 0.00 0.00 39.34 3.41
912 948 3.063084 GACTCGGTGAGGCCTCGT 61.063 66.667 27.43 18.39 30.04 4.18
950 987 3.385749 GATTTCGGGGAGGCGCTCA 62.386 63.158 7.64 0.00 31.08 4.26
1008 1064 2.435234 GTTGTGGCGATGGCGGTA 60.435 61.111 0.00 0.00 41.24 4.02
1072 1130 3.560251 ACGGCTCCAGCAAGGTGT 61.560 61.111 0.03 0.00 44.36 4.16
1073 1131 2.214216 ACGGCTCCAGCAAGGTGTA 61.214 57.895 0.03 0.00 44.36 2.90
1084 1144 1.725641 CAAGGTGTATGCGCTTCTCA 58.274 50.000 9.73 2.91 0.00 3.27
1093 1153 4.680237 CGCTTCTCACGGGGTGCA 62.680 66.667 0.00 0.00 32.98 4.57
1096 1156 0.392461 GCTTCTCACGGGGTGCAATA 60.392 55.000 0.00 0.00 32.98 1.90
1187 1253 2.174349 GAGCTGTTCAAAGCCGCG 59.826 61.111 0.00 0.00 44.68 6.46
1274 1340 3.041940 GCACGTCGACAAGGTGGG 61.042 66.667 17.16 0.26 42.68 4.61
1287 1353 1.988406 GGTGGGCTTCTACCTCGGT 60.988 63.158 0.00 0.00 34.11 4.69
1291 1357 2.656069 GGCTTCTACCTCGGTGCCA 61.656 63.158 9.56 0.00 40.04 4.92
1317 1383 0.462047 GCAACGTCGAGATGGGGATT 60.462 55.000 0.00 0.00 0.00 3.01
1339 1405 1.099879 GGTGGCCATGCTCATCTCAC 61.100 60.000 9.72 0.00 0.00 3.51
1365 1431 2.666190 GTGCTGCTCTTCGTGGCA 60.666 61.111 0.00 0.00 36.94 4.92
1491 1622 4.792087 CCAACTACGGCAACCTGT 57.208 55.556 0.00 0.00 0.00 4.00
1531 1662 0.041047 ATTGACGACGACGACGAACA 60.041 50.000 25.15 19.53 42.66 3.18
1538 1669 1.162181 ACGACGACGAACAGACCTCA 61.162 55.000 15.32 0.00 42.66 3.86
1588 1722 2.364970 TGGTCTGAAATTTTGCCCACAG 59.635 45.455 0.00 0.00 0.00 3.66
1589 1723 2.407090 GTCTGAAATTTTGCCCACAGC 58.593 47.619 0.00 0.00 44.14 4.40
1590 1724 2.036346 GTCTGAAATTTTGCCCACAGCT 59.964 45.455 0.00 0.00 44.23 4.24
1591 1725 2.036217 TCTGAAATTTTGCCCACAGCTG 59.964 45.455 13.48 13.48 44.23 4.24
1592 1726 2.036217 CTGAAATTTTGCCCACAGCTGA 59.964 45.455 23.35 0.00 44.23 4.26
1593 1727 2.224018 TGAAATTTTGCCCACAGCTGAC 60.224 45.455 23.35 7.28 44.23 3.51
1594 1728 0.681175 AATTTTGCCCACAGCTGACC 59.319 50.000 23.35 5.74 44.23 4.02
1595 1729 0.469705 ATTTTGCCCACAGCTGACCA 60.470 50.000 23.35 8.43 44.23 4.02
1613 1755 2.502947 ACCATCTCAAGCAGAGCATGTA 59.497 45.455 0.00 0.00 44.35 2.29
1658 1804 1.358725 AATCGGCAACATCGACACCG 61.359 55.000 6.98 6.98 45.15 4.94
1710 1862 6.073819 GCAAATTTTGTGTGGAAGATGGTAAC 60.074 38.462 10.65 0.00 0.00 2.50
1715 1867 6.428083 TTGTGTGGAAGATGGTAACTTAGA 57.572 37.500 0.00 0.00 37.61 2.10
1721 1873 8.383175 TGTGGAAGATGGTAACTTAGAGAATTT 58.617 33.333 0.00 0.00 37.61 1.82
1794 1946 2.225068 TTTCTTCGATCCGGCATCTC 57.775 50.000 0.00 0.00 0.00 2.75
1795 1947 0.030773 TTCTTCGATCCGGCATCTCG 59.969 55.000 0.00 2.67 0.00 4.04
1809 1961 2.941415 GCATCTCGGACACCTCCAATTT 60.941 50.000 0.00 0.00 36.12 1.82
1861 2013 3.935818 TCCCTAGTGTTTTTGTGTCCA 57.064 42.857 0.00 0.00 0.00 4.02
1870 2022 0.031857 TTTTGTGTCCAGCCATTGCG 59.968 50.000 0.00 0.00 44.33 4.85
2024 2275 6.367969 ACATCTTTGCAAGAAGATCATTTTGC 59.632 34.615 16.71 16.71 42.84 3.68
2102 2357 7.927092 TGCCATGGTCAATTTCAATATGTATTG 59.073 33.333 14.67 6.44 43.32 1.90
2104 2360 9.467258 CCATGGTCAATTTCAATATGTATTGTC 57.533 33.333 2.57 0.00 42.70 3.18
2161 2417 5.472137 TGTGTAGAAACCTGGAAAATACAGC 59.528 40.000 0.00 1.48 34.65 4.40
2282 3220 8.729805 TTTCTAAAATTGCCATGTCAACTTTT 57.270 26.923 0.97 7.70 29.72 2.27
2625 3571 5.237048 GCTTTGTGCCTCATTGGAATAAAA 58.763 37.500 0.00 0.00 34.56 1.52
2797 3745 8.616799 TTTTATTAAAATATTGCCAGGGTCCT 57.383 30.769 0.00 0.00 0.00 3.85
2798 3746 8.616799 TTTATTAAAATATTGCCAGGGTCCTT 57.383 30.769 0.00 0.00 0.00 3.36
2799 3747 8.616799 TTATTAAAATATTGCCAGGGTCCTTT 57.383 30.769 0.00 0.00 0.00 3.11
2800 3748 9.716556 TTATTAAAATATTGCCAGGGTCCTTTA 57.283 29.630 0.00 0.00 0.00 1.85
2801 3749 8.797436 ATTAAAATATTGCCAGGGTCCTTTAT 57.203 30.769 0.00 0.00 0.00 1.40
2802 3750 8.616799 TTAAAATATTGCCAGGGTCCTTTATT 57.383 30.769 0.00 0.00 0.00 1.40
2803 3751 7.509236 AAAATATTGCCAGGGTCCTTTATTT 57.491 32.000 0.00 0.00 0.00 1.40
2804 3752 7.509236 AAATATTGCCAGGGTCCTTTATTTT 57.491 32.000 0.00 0.00 0.00 1.82
2805 3753 7.509236 AATATTGCCAGGGTCCTTTATTTTT 57.491 32.000 0.00 0.00 0.00 1.94
2806 3754 4.882842 TTGCCAGGGTCCTTTATTTTTC 57.117 40.909 0.00 0.00 0.00 2.29
2807 3755 3.850752 TGCCAGGGTCCTTTATTTTTCA 58.149 40.909 0.00 0.00 0.00 2.69
2808 3756 4.424842 TGCCAGGGTCCTTTATTTTTCAT 58.575 39.130 0.00 0.00 0.00 2.57
2809 3757 4.843516 TGCCAGGGTCCTTTATTTTTCATT 59.156 37.500 0.00 0.00 0.00 2.57
2810 3758 5.309282 TGCCAGGGTCCTTTATTTTTCATTT 59.691 36.000 0.00 0.00 0.00 2.32
2811 3759 6.183361 TGCCAGGGTCCTTTATTTTTCATTTT 60.183 34.615 0.00 0.00 0.00 1.82
2812 3760 6.714810 GCCAGGGTCCTTTATTTTTCATTTTT 59.285 34.615 0.00 0.00 0.00 1.94
2813 3761 7.308529 GCCAGGGTCCTTTATTTTTCATTTTTG 60.309 37.037 0.00 0.00 0.00 2.44
2814 3762 7.719193 CCAGGGTCCTTTATTTTTCATTTTTGT 59.281 33.333 0.00 0.00 0.00 2.83
2815 3763 9.771534 CAGGGTCCTTTATTTTTCATTTTTGTA 57.228 29.630 0.00 0.00 0.00 2.41
2816 3764 9.996554 AGGGTCCTTTATTTTTCATTTTTGTAG 57.003 29.630 0.00 0.00 0.00 2.74
2817 3765 9.772973 GGGTCCTTTATTTTTCATTTTTGTAGT 57.227 29.630 0.00 0.00 0.00 2.73
2826 3774 9.710900 ATTTTTCATTTTTGTAGTTCTCCATCC 57.289 29.630 0.00 0.00 0.00 3.51
2827 3775 7.831691 TTTCATTTTTGTAGTTCTCCATCCA 57.168 32.000 0.00 0.00 0.00 3.41
2828 3776 8.421249 TTTCATTTTTGTAGTTCTCCATCCAT 57.579 30.769 0.00 0.00 0.00 3.41
2829 3777 8.421249 TTCATTTTTGTAGTTCTCCATCCATT 57.579 30.769 0.00 0.00 0.00 3.16
2830 3778 8.421249 TCATTTTTGTAGTTCTCCATCCATTT 57.579 30.769 0.00 0.00 0.00 2.32
2831 3779 8.306038 TCATTTTTGTAGTTCTCCATCCATTTG 58.694 33.333 0.00 0.00 0.00 2.32
2832 3780 7.595819 TTTTTGTAGTTCTCCATCCATTTGT 57.404 32.000 0.00 0.00 0.00 2.83
2833 3781 6.573664 TTTGTAGTTCTCCATCCATTTGTG 57.426 37.500 0.00 0.00 0.00 3.33
2834 3782 5.241403 TGTAGTTCTCCATCCATTTGTGT 57.759 39.130 0.00 0.00 0.00 3.72
2835 3783 5.245531 TGTAGTTCTCCATCCATTTGTGTC 58.754 41.667 0.00 0.00 0.00 3.67
2836 3784 3.690460 AGTTCTCCATCCATTTGTGTCC 58.310 45.455 0.00 0.00 0.00 4.02
2837 3785 3.331889 AGTTCTCCATCCATTTGTGTCCT 59.668 43.478 0.00 0.00 0.00 3.85
2838 3786 3.634397 TCTCCATCCATTTGTGTCCTC 57.366 47.619 0.00 0.00 0.00 3.71
2839 3787 2.093500 TCTCCATCCATTTGTGTCCTCG 60.093 50.000 0.00 0.00 0.00 4.63
2840 3788 1.065491 TCCATCCATTTGTGTCCTCGG 60.065 52.381 0.00 0.00 0.00 4.63
2841 3789 0.734889 CATCCATTTGTGTCCTCGGC 59.265 55.000 0.00 0.00 0.00 5.54
2842 3790 0.327924 ATCCATTTGTGTCCTCGGCA 59.672 50.000 0.00 0.00 0.00 5.69
2843 3791 0.327924 TCCATTTGTGTCCTCGGCAT 59.672 50.000 0.00 0.00 0.00 4.40
2844 3792 1.176527 CCATTTGTGTCCTCGGCATT 58.823 50.000 0.00 0.00 0.00 3.56
2845 3793 1.545582 CCATTTGTGTCCTCGGCATTT 59.454 47.619 0.00 0.00 0.00 2.32
2846 3794 2.415893 CCATTTGTGTCCTCGGCATTTC 60.416 50.000 0.00 0.00 0.00 2.17
2847 3795 2.270352 TTTGTGTCCTCGGCATTTCT 57.730 45.000 0.00 0.00 0.00 2.52
2848 3796 3.410631 TTTGTGTCCTCGGCATTTCTA 57.589 42.857 0.00 0.00 0.00 2.10
2849 3797 2.380084 TGTGTCCTCGGCATTTCTAC 57.620 50.000 0.00 0.00 0.00 2.59
2850 3798 1.621317 TGTGTCCTCGGCATTTCTACA 59.379 47.619 0.00 0.00 0.00 2.74
2851 3799 2.037902 TGTGTCCTCGGCATTTCTACAA 59.962 45.455 0.00 0.00 0.00 2.41
2852 3800 3.071479 GTGTCCTCGGCATTTCTACAAA 58.929 45.455 0.00 0.00 0.00 2.83
2853 3801 3.071479 TGTCCTCGGCATTTCTACAAAC 58.929 45.455 0.00 0.00 0.00 2.93
2854 3802 3.071479 GTCCTCGGCATTTCTACAAACA 58.929 45.455 0.00 0.00 0.00 2.83
2855 3803 3.125316 GTCCTCGGCATTTCTACAAACAG 59.875 47.826 0.00 0.00 0.00 3.16
2856 3804 2.420022 CCTCGGCATTTCTACAAACAGG 59.580 50.000 0.00 0.00 0.00 4.00
2857 3805 1.810151 TCGGCATTTCTACAAACAGGC 59.190 47.619 0.00 0.00 0.00 4.85
2858 3806 1.539388 CGGCATTTCTACAAACAGGCA 59.461 47.619 0.00 0.00 0.00 4.75
2859 3807 2.030363 CGGCATTTCTACAAACAGGCAA 60.030 45.455 0.00 0.00 0.00 4.52
2860 3808 3.367292 CGGCATTTCTACAAACAGGCAAT 60.367 43.478 0.00 0.00 0.00 3.56
2861 3809 3.928375 GGCATTTCTACAAACAGGCAATG 59.072 43.478 0.00 0.00 0.00 2.82
2862 3810 3.928375 GCATTTCTACAAACAGGCAATGG 59.072 43.478 0.00 0.00 0.00 3.16
2863 3811 4.497300 CATTTCTACAAACAGGCAATGGG 58.503 43.478 0.00 0.00 0.00 4.00
2864 3812 1.544724 TCTACAAACAGGCAATGGGC 58.455 50.000 0.00 0.00 43.74 5.36
2891 3839 1.076485 AGGACATGGCATCCTTGGC 60.076 57.895 0.00 0.00 44.64 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
150 153 9.357652 CACATTTTTACTAAGTCATTTGATGGG 57.642 33.333 0.00 0.00 0.00 4.00
318 321 5.850557 ACAACATCACCATCAAGTCAAAA 57.149 34.783 0.00 0.00 0.00 2.44
393 396 6.691754 TTGAAGTTGCACAAAAGATACTGA 57.308 33.333 0.00 0.00 0.00 3.41
562 565 2.971959 ATGTTGTGCACGCGAGCA 60.972 55.556 27.21 27.21 43.35 4.26
563 566 2.500369 CATGTTGTGCACGCGAGC 60.500 61.111 21.99 21.99 0.00 5.03
572 575 1.948834 TGTCCAACTCAGCATGTTGTG 59.051 47.619 9.54 9.62 42.09 3.33
573 576 2.346766 TGTCCAACTCAGCATGTTGT 57.653 45.000 9.54 0.00 42.09 3.32
574 577 3.004024 GTTGTCCAACTCAGCATGTTG 57.996 47.619 2.65 2.65 42.96 3.33
589 592 0.468226 TGACAGGTGGGACAGTTGTC 59.532 55.000 3.67 3.67 46.52 3.18
590 593 0.916086 TTGACAGGTGGGACAGTTGT 59.084 50.000 0.00 0.00 41.80 3.32
591 594 1.308998 GTTGACAGGTGGGACAGTTG 58.691 55.000 0.00 0.00 41.80 3.16
592 595 0.179056 CGTTGACAGGTGGGACAGTT 60.179 55.000 0.00 0.00 41.80 3.16
593 596 1.046472 TCGTTGACAGGTGGGACAGT 61.046 55.000 0.00 0.00 41.80 3.55
594 597 0.600255 GTCGTTGACAGGTGGGACAG 60.600 60.000 0.00 0.00 32.93 3.51
595 598 1.046472 AGTCGTTGACAGGTGGGACA 61.046 55.000 0.00 0.00 34.60 4.02
596 599 0.319641 GAGTCGTTGACAGGTGGGAC 60.320 60.000 0.00 0.00 34.60 4.46
597 600 0.757561 TGAGTCGTTGACAGGTGGGA 60.758 55.000 0.00 0.00 34.60 4.37
598 601 0.105964 TTGAGTCGTTGACAGGTGGG 59.894 55.000 0.00 0.00 34.60 4.61
599 602 1.202533 ACTTGAGTCGTTGACAGGTGG 60.203 52.381 0.00 0.00 34.60 4.61
600 603 2.225068 ACTTGAGTCGTTGACAGGTG 57.775 50.000 0.00 0.00 34.60 4.00
601 604 4.602340 AATACTTGAGTCGTTGACAGGT 57.398 40.909 0.00 0.00 34.60 4.00
602 605 5.924475 AAAATACTTGAGTCGTTGACAGG 57.076 39.130 0.00 0.00 34.60 4.00
603 606 9.878599 AAAATAAAATACTTGAGTCGTTGACAG 57.121 29.630 0.00 0.00 34.60 3.51
604 607 9.872757 GAAAATAAAATACTTGAGTCGTTGACA 57.127 29.630 0.00 0.00 34.60 3.58
605 608 9.037417 CGAAAATAAAATACTTGAGTCGTTGAC 57.963 33.333 0.00 0.00 0.00 3.18
606 609 8.980610 TCGAAAATAAAATACTTGAGTCGTTGA 58.019 29.630 0.00 0.00 0.00 3.18
607 610 9.588774 TTCGAAAATAAAATACTTGAGTCGTTG 57.411 29.630 0.00 0.00 0.00 4.10
621 624 9.649024 CGGTAGTTACTGTTTTCGAAAATAAAA 57.351 29.630 24.93 15.97 0.00 1.52
622 625 9.039870 TCGGTAGTTACTGTTTTCGAAAATAAA 57.960 29.630 24.93 12.46 34.25 1.40
623 626 8.586570 TCGGTAGTTACTGTTTTCGAAAATAA 57.413 30.769 24.93 16.57 34.25 1.40
624 627 8.487176 GTTCGGTAGTTACTGTTTTCGAAAATA 58.513 33.333 24.93 21.06 37.18 1.40
625 628 7.347448 GTTCGGTAGTTACTGTTTTCGAAAAT 58.653 34.615 24.93 12.77 37.18 1.82
626 629 6.507771 CGTTCGGTAGTTACTGTTTTCGAAAA 60.508 38.462 19.08 19.08 37.18 2.29
627 630 5.051774 CGTTCGGTAGTTACTGTTTTCGAAA 60.052 40.000 6.47 6.47 37.18 3.46
628 631 4.440758 CGTTCGGTAGTTACTGTTTTCGAA 59.559 41.667 0.00 0.00 34.25 3.71
629 632 3.974401 CGTTCGGTAGTTACTGTTTTCGA 59.026 43.478 0.00 0.00 34.25 3.71
630 633 3.730715 ACGTTCGGTAGTTACTGTTTTCG 59.269 43.478 0.00 0.00 34.25 3.46
631 634 4.739716 TGACGTTCGGTAGTTACTGTTTTC 59.260 41.667 0.00 0.00 34.25 2.29
632 635 4.681744 TGACGTTCGGTAGTTACTGTTTT 58.318 39.130 0.00 0.00 34.25 2.43
633 636 4.293415 CTGACGTTCGGTAGTTACTGTTT 58.707 43.478 0.00 0.00 34.25 2.83
634 637 3.304928 CCTGACGTTCGGTAGTTACTGTT 60.305 47.826 0.00 0.00 34.25 3.16
635 638 2.227388 CCTGACGTTCGGTAGTTACTGT 59.773 50.000 0.00 0.00 34.25 3.55
636 639 2.485426 TCCTGACGTTCGGTAGTTACTG 59.515 50.000 0.00 0.00 0.00 2.74
637 640 2.783135 TCCTGACGTTCGGTAGTTACT 58.217 47.619 0.00 0.00 0.00 2.24
638 641 3.772060 ATCCTGACGTTCGGTAGTTAC 57.228 47.619 0.00 0.00 0.00 2.50
643 646 5.782047 TCTTTTAAATCCTGACGTTCGGTA 58.218 37.500 0.00 0.00 0.00 4.02
644 647 4.634199 TCTTTTAAATCCTGACGTTCGGT 58.366 39.130 0.00 0.00 0.00 4.69
655 658 5.969435 CGTTCGGCCTAAATCTTTTAAATCC 59.031 40.000 0.00 0.00 0.00 3.01
660 663 3.336468 TGCGTTCGGCCTAAATCTTTTA 58.664 40.909 0.00 0.00 42.61 1.52
661 664 2.156098 TGCGTTCGGCCTAAATCTTTT 58.844 42.857 0.00 0.00 42.61 2.27
669 672 1.733360 GTACAAAATGCGTTCGGCCTA 59.267 47.619 0.00 0.00 42.61 3.93
670 673 0.519961 GTACAAAATGCGTTCGGCCT 59.480 50.000 0.00 0.00 42.61 5.19
724 727 0.461339 AGAAACGTGACGTGCCAAGT 60.461 50.000 12.85 0.00 39.99 3.16
762 769 3.379445 GTGTTCGGGCCGAGGAGA 61.379 66.667 29.30 11.83 37.14 3.71
778 785 1.657162 TGAAGGGGGAGAGGATAAGGT 59.343 52.381 0.00 0.00 0.00 3.50
795 807 5.014544 AGGATCCCATGAAGAAGAAAGTGAA 59.985 40.000 8.55 0.00 0.00 3.18
814 828 2.815589 CGATGGGGATGGGAAAAGGATC 60.816 54.545 0.00 0.00 0.00 3.36
815 829 1.145738 CGATGGGGATGGGAAAAGGAT 59.854 52.381 0.00 0.00 0.00 3.24
818 833 1.064758 TGACGATGGGGATGGGAAAAG 60.065 52.381 0.00 0.00 0.00 2.27
822 837 1.002921 AGTGACGATGGGGATGGGA 59.997 57.895 0.00 0.00 0.00 4.37
842 860 1.525077 CTCGACTCCCCCTCTCTCG 60.525 68.421 0.00 0.00 0.00 4.04
850 868 1.743321 CTGATCCAGCTCGACTCCCC 61.743 65.000 0.00 0.00 0.00 4.81
885 921 0.608308 TCACCGAGTCACCGATGAGT 60.608 55.000 0.00 0.00 41.47 3.41
890 926 3.371063 GCCTCACCGAGTCACCGA 61.371 66.667 0.00 0.00 0.00 4.69
891 927 4.436998 GGCCTCACCGAGTCACCG 62.437 72.222 0.00 0.00 0.00 4.94
892 928 2.997897 AGGCCTCACCGAGTCACC 60.998 66.667 0.00 0.00 46.52 4.02
893 929 2.574399 GAGGCCTCACCGAGTCAC 59.426 66.667 28.43 0.00 46.52 3.67
894 930 3.062466 CGAGGCCTCACCGAGTCA 61.062 66.667 31.67 0.00 46.52 3.41
895 931 3.053849 GACGAGGCCTCACCGAGTC 62.054 68.421 31.67 24.28 46.52 3.36
896 932 3.063084 GACGAGGCCTCACCGAGT 61.063 66.667 31.67 20.65 46.52 4.18
897 933 4.180946 CGACGAGGCCTCACCGAG 62.181 72.222 31.67 17.48 46.52 4.63
924 961 0.464452 CTCCCCGAAATCTAAGCCGT 59.536 55.000 0.00 0.00 0.00 5.68
950 987 1.770324 CTCCCAAGTTGCTCCCCTT 59.230 57.895 0.00 0.00 0.00 3.95
987 1036 2.672996 GCCATCGCCACAACCTGT 60.673 61.111 0.00 0.00 0.00 4.00
992 1041 2.036006 GTTACCGCCATCGCCACAA 61.036 57.895 0.00 0.00 0.00 3.33
993 1042 2.435234 GTTACCGCCATCGCCACA 60.435 61.111 0.00 0.00 0.00 4.17
1007 1063 3.399181 CCGCTGGAGGGGCAGTTA 61.399 66.667 0.00 0.00 41.34 2.24
1072 1130 2.355986 ACCCCGTGAGAAGCGCATA 61.356 57.895 11.47 0.00 0.00 3.14
1073 1131 3.706373 ACCCCGTGAGAAGCGCAT 61.706 61.111 11.47 0.00 0.00 4.73
1080 1138 1.220749 GCTATTGCACCCCGTGAGA 59.779 57.895 0.00 0.00 39.41 3.27
1084 1144 3.712907 ACCGCTATTGCACCCCGT 61.713 61.111 0.00 0.00 39.64 5.28
1246 1312 0.320374 TCGACGTGCCAGAGGAAATT 59.680 50.000 0.00 0.00 0.00 1.82
1274 1340 0.530870 GATGGCACCGAGGTAGAAGC 60.531 60.000 0.00 0.00 0.00 3.86
1291 1357 0.456221 ATCTCGACGTTGCCGAAGAT 59.544 50.000 0.00 0.00 35.48 2.40
1301 1367 0.175760 CACAATCCCCATCTCGACGT 59.824 55.000 0.00 0.00 0.00 4.34
1317 1383 1.378911 GATGAGCATGGCCACCACA 60.379 57.895 8.16 7.80 35.80 4.17
1339 1405 3.730761 GAGCAGCACCCGCAACAG 61.731 66.667 0.00 0.00 42.27 3.16
1378 1444 2.483288 CACGTTGCCCATAACCGC 59.517 61.111 0.00 0.00 0.00 5.68
1446 1544 2.038426 AGATGGTCGATTCCACACACAA 59.962 45.455 0.00 0.00 40.51 3.33
1449 1547 3.096852 AGTAGATGGTCGATTCCACACA 58.903 45.455 0.00 0.00 40.51 3.72
1491 1622 1.305297 ACCAGGTGATCCTCTCGCA 60.305 57.895 0.00 0.00 43.07 5.10
1506 1637 1.081041 CGTCGTCGTCAATCCACCA 60.081 57.895 0.00 0.00 0.00 4.17
1531 1662 1.407936 CCATGTCGAGGATGAGGTCT 58.592 55.000 6.01 0.00 0.00 3.85
1538 1669 2.103153 ATACCACCCATGTCGAGGAT 57.897 50.000 0.00 0.00 0.00 3.24
1588 1722 1.654317 CTCTGCTTGAGATGGTCAGC 58.346 55.000 1.85 0.00 45.39 4.26
1589 1723 1.066358 TGCTCTGCTTGAGATGGTCAG 60.066 52.381 10.67 0.00 45.39 3.51
1590 1724 0.978907 TGCTCTGCTTGAGATGGTCA 59.021 50.000 10.67 0.00 45.39 4.02
1591 1725 1.941294 CATGCTCTGCTTGAGATGGTC 59.059 52.381 10.67 0.00 45.39 4.02
1592 1726 1.281287 ACATGCTCTGCTTGAGATGGT 59.719 47.619 11.46 3.11 45.39 3.55
1593 1727 2.039818 ACATGCTCTGCTTGAGATGG 57.960 50.000 11.46 2.62 45.39 3.51
1594 1728 4.377897 TCATACATGCTCTGCTTGAGATG 58.622 43.478 11.46 12.54 45.39 2.90
1595 1729 4.684484 TCATACATGCTCTGCTTGAGAT 57.316 40.909 11.46 3.25 45.39 2.75
1658 1804 4.211374 GTCGAAATGCATACTCATACCACC 59.789 45.833 0.00 0.00 0.00 4.61
1794 1946 7.854943 ATCGTAGACAAATTGGAGGTGTCCG 62.855 48.000 0.00 2.75 43.70 4.79
1795 1947 3.000727 CGTAGACAAATTGGAGGTGTCC 58.999 50.000 0.00 0.00 42.15 4.02
1809 1961 2.687935 TGCAGCTGATACATCGTAGACA 59.312 45.455 20.43 0.00 42.51 3.41
1903 2058 3.202906 TGTGCTCTAGAACAAACCACAC 58.797 45.455 0.00 0.00 28.73 3.82
2024 2275 6.561737 TCTACCGCTATAAGATGACTGAAG 57.438 41.667 0.00 0.00 0.00 3.02
2102 2357 2.050077 GTGCCGCCAAAAGCAGAC 60.050 61.111 0.00 0.00 44.04 3.51
2104 2360 4.705519 CCGTGCCGCCAAAAGCAG 62.706 66.667 0.00 0.00 44.04 4.24
2120 2376 7.801716 TCTACACAAAATAGCCATGTAATCC 57.198 36.000 0.00 0.00 0.00 3.01
2209 2465 2.006805 TTTGTGAATGTCCCATGGCA 57.993 45.000 6.09 0.00 0.00 4.92
2210 2466 3.399440 TTTTTGTGAATGTCCCATGGC 57.601 42.857 6.09 0.00 0.00 4.40
2228 2484 8.020819 CGTCACTACATAACATGACCAATTTTT 58.979 33.333 0.00 0.00 38.59 1.94
2229 2485 7.389330 TCGTCACTACATAACATGACCAATTTT 59.611 33.333 0.00 0.00 38.59 1.82
2230 2486 6.876789 TCGTCACTACATAACATGACCAATTT 59.123 34.615 0.00 0.00 38.59 1.82
2231 2487 6.403049 TCGTCACTACATAACATGACCAATT 58.597 36.000 0.00 0.00 38.59 2.32
2232 2488 5.972935 TCGTCACTACATAACATGACCAAT 58.027 37.500 0.00 0.00 38.59 3.16
2233 2489 5.394224 TCGTCACTACATAACATGACCAA 57.606 39.130 0.00 0.00 38.59 3.67
2234 2490 5.592104 ATCGTCACTACATAACATGACCA 57.408 39.130 0.00 0.00 38.59 4.02
2235 2491 6.903883 AAATCGTCACTACATAACATGACC 57.096 37.500 0.00 0.00 38.59 4.02
2236 2492 8.186178 AGAAAATCGTCACTACATAACATGAC 57.814 34.615 0.00 0.00 38.46 3.06
2237 2493 9.863845 TTAGAAAATCGTCACTACATAACATGA 57.136 29.630 0.00 0.00 0.00 3.07
2772 3720 8.616799 AGGACCCTGGCAATATTTTAATAAAA 57.383 30.769 0.25 0.25 34.41 1.52
2776 3724 8.797436 ATAAAGGACCCTGGCAATATTTTAAT 57.203 30.769 0.00 0.00 0.00 1.40
2777 3725 8.616799 AATAAAGGACCCTGGCAATATTTTAA 57.383 30.769 0.00 0.00 0.00 1.52
2778 3726 8.616799 AAATAAAGGACCCTGGCAATATTTTA 57.383 30.769 0.00 0.00 0.00 1.52
2779 3727 7.509236 AAATAAAGGACCCTGGCAATATTTT 57.491 32.000 0.00 0.00 0.00 1.82
2780 3728 7.509236 AAAATAAAGGACCCTGGCAATATTT 57.491 32.000 0.00 0.00 0.00 1.40
2781 3729 7.181845 TGAAAAATAAAGGACCCTGGCAATATT 59.818 33.333 0.00 0.00 0.00 1.28
2782 3730 6.671779 TGAAAAATAAAGGACCCTGGCAATAT 59.328 34.615 0.00 0.00 0.00 1.28
2783 3731 6.019748 TGAAAAATAAAGGACCCTGGCAATA 58.980 36.000 0.00 0.00 0.00 1.90
2784 3732 4.843516 TGAAAAATAAAGGACCCTGGCAAT 59.156 37.500 0.00 0.00 0.00 3.56
2785 3733 4.227197 TGAAAAATAAAGGACCCTGGCAA 58.773 39.130 0.00 0.00 0.00 4.52
2786 3734 3.850752 TGAAAAATAAAGGACCCTGGCA 58.149 40.909 0.00 0.00 0.00 4.92
2787 3735 5.420725 AATGAAAAATAAAGGACCCTGGC 57.579 39.130 0.00 0.00 0.00 4.85
2788 3736 7.719193 ACAAAAATGAAAAATAAAGGACCCTGG 59.281 33.333 0.00 0.00 0.00 4.45
2789 3737 8.675705 ACAAAAATGAAAAATAAAGGACCCTG 57.324 30.769 0.00 0.00 0.00 4.45
2790 3738 9.996554 CTACAAAAATGAAAAATAAAGGACCCT 57.003 29.630 0.00 0.00 0.00 4.34
2791 3739 9.772973 ACTACAAAAATGAAAAATAAAGGACCC 57.227 29.630 0.00 0.00 0.00 4.46
2800 3748 9.710900 GGATGGAGAACTACAAAAATGAAAAAT 57.289 29.630 0.00 0.00 0.00 1.82
2801 3749 8.700051 TGGATGGAGAACTACAAAAATGAAAAA 58.300 29.630 0.00 0.00 0.00 1.94
2802 3750 8.243961 TGGATGGAGAACTACAAAAATGAAAA 57.756 30.769 0.00 0.00 0.00 2.29
2803 3751 7.831691 TGGATGGAGAACTACAAAAATGAAA 57.168 32.000 0.00 0.00 0.00 2.69
2804 3752 8.421249 AATGGATGGAGAACTACAAAAATGAA 57.579 30.769 0.00 0.00 0.00 2.57
2805 3753 8.306038 CAAATGGATGGAGAACTACAAAAATGA 58.694 33.333 0.00 0.00 0.00 2.57
2806 3754 8.090214 ACAAATGGATGGAGAACTACAAAAATG 58.910 33.333 0.00 0.00 0.00 2.32
2807 3755 8.090214 CACAAATGGATGGAGAACTACAAAAAT 58.910 33.333 0.00 0.00 0.00 1.82
2808 3756 7.069331 ACACAAATGGATGGAGAACTACAAAAA 59.931 33.333 0.00 0.00 0.00 1.94
2809 3757 6.549364 ACACAAATGGATGGAGAACTACAAAA 59.451 34.615 0.00 0.00 0.00 2.44
2810 3758 6.068010 ACACAAATGGATGGAGAACTACAAA 58.932 36.000 0.00 0.00 0.00 2.83
2811 3759 5.630121 ACACAAATGGATGGAGAACTACAA 58.370 37.500 0.00 0.00 0.00 2.41
2812 3760 5.241403 ACACAAATGGATGGAGAACTACA 57.759 39.130 0.00 0.00 0.00 2.74
2813 3761 4.636206 GGACACAAATGGATGGAGAACTAC 59.364 45.833 0.00 0.00 0.00 2.73
2814 3762 4.536090 AGGACACAAATGGATGGAGAACTA 59.464 41.667 0.00 0.00 0.00 2.24
2815 3763 3.331889 AGGACACAAATGGATGGAGAACT 59.668 43.478 0.00 0.00 0.00 3.01
2816 3764 3.690460 AGGACACAAATGGATGGAGAAC 58.310 45.455 0.00 0.00 0.00 3.01
2817 3765 3.619733 CGAGGACACAAATGGATGGAGAA 60.620 47.826 0.00 0.00 0.00 2.87
2818 3766 2.093500 CGAGGACACAAATGGATGGAGA 60.093 50.000 0.00 0.00 0.00 3.71
2819 3767 2.283298 CGAGGACACAAATGGATGGAG 58.717 52.381 0.00 0.00 0.00 3.86
2820 3768 1.065491 CCGAGGACACAAATGGATGGA 60.065 52.381 0.00 0.00 0.00 3.41
2821 3769 1.382522 CCGAGGACACAAATGGATGG 58.617 55.000 0.00 0.00 0.00 3.51
2822 3770 0.734889 GCCGAGGACACAAATGGATG 59.265 55.000 0.00 0.00 0.00 3.51
2823 3771 0.327924 TGCCGAGGACACAAATGGAT 59.672 50.000 0.00 0.00 0.00 3.41
2824 3772 0.327924 ATGCCGAGGACACAAATGGA 59.672 50.000 0.00 0.00 0.00 3.41
2825 3773 1.176527 AATGCCGAGGACACAAATGG 58.823 50.000 0.00 0.00 0.00 3.16
2826 3774 2.489329 AGAAATGCCGAGGACACAAATG 59.511 45.455 0.00 0.00 0.00 2.32
2827 3775 2.795329 AGAAATGCCGAGGACACAAAT 58.205 42.857 0.00 0.00 0.00 2.32
2828 3776 2.270352 AGAAATGCCGAGGACACAAA 57.730 45.000 0.00 0.00 0.00 2.83
2829 3777 2.037902 TGTAGAAATGCCGAGGACACAA 59.962 45.455 0.00 0.00 0.00 3.33
2830 3778 1.621317 TGTAGAAATGCCGAGGACACA 59.379 47.619 0.00 0.00 0.00 3.72
2831 3779 2.380084 TGTAGAAATGCCGAGGACAC 57.620 50.000 0.00 0.00 0.00 3.67
2832 3780 3.071479 GTTTGTAGAAATGCCGAGGACA 58.929 45.455 0.00 0.00 0.00 4.02
2833 3781 3.071479 TGTTTGTAGAAATGCCGAGGAC 58.929 45.455 0.00 0.00 0.00 3.85
2834 3782 3.334691 CTGTTTGTAGAAATGCCGAGGA 58.665 45.455 0.00 0.00 0.00 3.71
2835 3783 2.420022 CCTGTTTGTAGAAATGCCGAGG 59.580 50.000 0.00 0.00 0.00 4.63
2836 3784 2.159517 GCCTGTTTGTAGAAATGCCGAG 60.160 50.000 0.00 0.00 0.00 4.63
2837 3785 1.810151 GCCTGTTTGTAGAAATGCCGA 59.190 47.619 0.00 0.00 0.00 5.54
2838 3786 1.539388 TGCCTGTTTGTAGAAATGCCG 59.461 47.619 0.00 0.00 0.00 5.69
2839 3787 3.658757 TTGCCTGTTTGTAGAAATGCC 57.341 42.857 0.00 0.00 0.00 4.40
2840 3788 3.928375 CCATTGCCTGTTTGTAGAAATGC 59.072 43.478 0.00 0.00 0.00 3.56
2841 3789 4.497300 CCCATTGCCTGTTTGTAGAAATG 58.503 43.478 0.00 0.00 0.00 2.32
2842 3790 3.055891 GCCCATTGCCTGTTTGTAGAAAT 60.056 43.478 0.00 0.00 0.00 2.17
2843 3791 2.298729 GCCCATTGCCTGTTTGTAGAAA 59.701 45.455 0.00 0.00 0.00 2.52
2844 3792 1.892474 GCCCATTGCCTGTTTGTAGAA 59.108 47.619 0.00 0.00 0.00 2.10
2845 3793 1.202989 TGCCCATTGCCTGTTTGTAGA 60.203 47.619 0.00 0.00 40.16 2.59
2846 3794 1.203052 CTGCCCATTGCCTGTTTGTAG 59.797 52.381 0.00 0.00 40.16 2.74
2847 3795 1.255882 CTGCCCATTGCCTGTTTGTA 58.744 50.000 0.00 0.00 40.16 2.41
2848 3796 2.051941 CTGCCCATTGCCTGTTTGT 58.948 52.632 0.00 0.00 40.16 2.83
2849 3797 1.375013 GCTGCCCATTGCCTGTTTG 60.375 57.895 0.00 0.00 40.16 2.93
2850 3798 2.934570 CGCTGCCCATTGCCTGTTT 61.935 57.895 0.00 0.00 40.16 2.83
2851 3799 3.376078 CGCTGCCCATTGCCTGTT 61.376 61.111 0.00 0.00 40.16 3.16
2863 3811 3.869272 CATGTCCTTCGGCGCTGC 61.869 66.667 12.58 0.00 0.00 5.25
2864 3812 3.197790 CCATGTCCTTCGGCGCTG 61.198 66.667 10.86 10.86 0.00 5.18
2868 3816 2.189499 GGATGCCATGTCCTTCGGC 61.189 63.158 0.00 0.00 46.43 5.54
2869 3817 1.528824 AGGATGCCATGTCCTTCGG 59.471 57.895 0.00 0.00 43.52 4.30
2874 3822 2.484062 CGCCAAGGATGCCATGTCC 61.484 63.158 0.00 0.00 35.94 4.02
2875 3823 2.484062 CCGCCAAGGATGCCATGTC 61.484 63.158 0.00 0.00 45.00 3.06
2876 3824 2.440796 CCGCCAAGGATGCCATGT 60.441 61.111 0.00 0.00 45.00 3.21


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

AutoCloner maintained by Alex Coulton.