Multiple sequence alignment - TraesCS2B01G552900

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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 TraesCS2B01G552900 chr2B 100.000 2960 0 0 1 2960 748702368 748705327 0.000000e+00 5467.0
1 TraesCS2B01G552900 chr2B 84.220 564 69 11 955 1503 748588962 748588404 5.620000e-147 531.0
2 TraesCS2B01G552900 chr2B 84.086 465 46 17 191 643 748589601 748589153 9.810000e-115 424.0
3 TraesCS2B01G552900 chr2B 77.349 596 97 23 914 1500 748573449 748572883 4.760000e-83 318.0
4 TraesCS2B01G552900 chr2B 84.190 253 19 13 2577 2811 748704463 748704712 2.970000e-55 226.0
5 TraesCS2B01G552900 chr2B 84.190 253 19 9 2096 2345 748704944 748705178 2.970000e-55 226.0
6 TraesCS2B01G552900 chr2B 78.832 274 50 6 1770 2037 748587912 748587641 8.430000e-41 178.0
7 TraesCS2B01G552900 chr2B 85.526 76 11 0 505 580 748581147 748581072 2.450000e-11 80.5
8 TraesCS2B01G552900 chr2D 90.570 859 49 17 1501 2345 613325424 613326264 0.000000e+00 1109.0
9 TraesCS2B01G552900 chr2D 91.842 760 42 7 760 1500 613324467 613325225 0.000000e+00 1042.0
10 TraesCS2B01G552900 chr2D 90.152 528 31 9 1 516 613323783 613324301 0.000000e+00 667.0
11 TraesCS2B01G552900 chr2D 83.511 564 73 13 954 1503 613235184 613234627 2.630000e-140 508.0
12 TraesCS2B01G552900 chr2D 85.470 468 44 16 191 647 613235871 613235417 1.610000e-127 466.0
13 TraesCS2B01G552900 chr2D 95.548 292 12 1 2577 2868 613326030 613326320 1.610000e-127 466.0
14 TraesCS2B01G552900 chr2D 82.600 500 66 12 768 1249 613238116 613237620 3.530000e-114 422.0
15 TraesCS2B01G552900 chr2D 85.330 409 39 12 2223 2629 613329522 613329911 1.280000e-108 403.0
16 TraesCS2B01G552900 chr2D 83.815 346 32 12 2143 2486 613326486 613326809 1.030000e-79 307.0
17 TraesCS2B01G552900 chr2D 86.007 293 20 14 209 493 613238702 613238423 8.020000e-76 294.0
18 TraesCS2B01G552900 chr2D 75.342 657 110 31 869 1500 613225008 613224379 4.860000e-68 268.0
19 TraesCS2B01G552900 chr2D 87.919 149 14 1 2494 2638 613326322 613326470 3.920000e-39 172.0
20 TraesCS2B01G552900 chr2D 92.308 52 3 1 2804 2855 408661568 408661518 4.090000e-09 73.1
21 TraesCS2B01G552900 chr2D 100.000 32 0 0 679 710 613324376 613324407 3.190000e-05 60.2
22 TraesCS2B01G552900 chr2A 83.916 858 104 19 1505 2342 744995323 744996166 0.000000e+00 789.0
23 TraesCS2B01G552900 chr2A 83.814 797 92 16 695 1480 744994343 744995113 0.000000e+00 723.0
24 TraesCS2B01G552900 chr2A 91.538 520 33 7 2351 2868 744982456 744982966 0.000000e+00 706.0
25 TraesCS2B01G552900 chr2A 89.905 525 35 8 1 516 744981256 744981771 0.000000e+00 660.0
26 TraesCS2B01G552900 chr2A 85.714 497 65 2 1013 1503 744905479 744904983 1.220000e-143 520.0
27 TraesCS2B01G552900 chr2A 87.349 332 25 9 2488 2803 744982961 744983291 6.030000e-97 364.0
28 TraesCS2B01G552900 chr2A 85.959 292 23 10 2333 2623 744999086 744999360 2.230000e-76 296.0
29 TraesCS2B01G552900 chr2A 85.774 239 20 6 2577 2802 744995925 744996162 1.060000e-59 241.0
30 TraesCS2B01G552900 chr2A 95.122 82 2 2 684 764 744981814 744981894 8.610000e-26 128.0
31 TraesCS2B01G552900 chr2A 91.111 45 4 0 1459 1503 744927842 744927798 8.860000e-06 62.1
32 TraesCS2B01G552900 chr2A 100.000 30 0 0 681 710 744994316 744994345 4.120000e-04 56.5
33 TraesCS2B01G552900 chr1D 84.775 289 25 7 2210 2486 254460105 254459824 3.760000e-69 272.0
34 TraesCS2B01G552900 chr1D 92.969 128 8 1 2681 2807 254460105 254459978 5.040000e-43 185.0
35 TraesCS2B01G552900 chr6B 84.615 286 23 9 2210 2483 450091447 450091723 6.290000e-67 265.0
36 TraesCS2B01G552900 chr6B 93.750 128 7 1 2681 2807 450091447 450091574 1.080000e-44 191.0
37 TraesCS2B01G552900 chr5D 84.561 285 24 10 2210 2483 6252580 6252855 6.290000e-67 265.0
38 TraesCS2B01G552900 chr5D 84.615 286 23 9 2210 2483 299971298 299971574 6.290000e-67 265.0
39 TraesCS2B01G552900 chr5D 88.276 145 15 2 1031 1174 410346740 410346883 3.920000e-39 172.0
40 TraesCS2B01G552900 chr5A 93.750 128 7 1 2681 2807 559031253 559031380 1.080000e-44 191.0
41 TraesCS2B01G552900 chr5A 90.345 145 12 2 1031 1174 521768588 521768731 3.890000e-44 189.0
42 TraesCS2B01G552900 chr5A 83.832 167 24 3 1047 1212 521797872 521798036 3.950000e-34 156.0
43 TraesCS2B01G552900 chrUn 92.969 128 8 1 2681 2807 261567999 261568126 5.040000e-43 185.0
44 TraesCS2B01G552900 chrUn 92.969 128 8 1 2681 2807 357346908 357347035 5.040000e-43 185.0
45 TraesCS2B01G552900 chrUn 92.969 128 8 1 2681 2807 386224313 386224186 5.040000e-43 185.0
46 TraesCS2B01G552900 chr4D 84.158 202 19 6 2296 2486 329121540 329121341 1.810000e-42 183.0
47 TraesCS2B01G552900 chr7B 98.000 100 2 0 2861 2960 89921671 89921770 1.090000e-39 174.0
48 TraesCS2B01G552900 chr7B 93.750 96 6 0 2865 2960 724481307 724481402 8.550000e-31 145.0
49 TraesCS2B01G552900 chr3B 100.000 88 0 0 2873 2960 68895696 68895609 2.360000e-36 163.0
50 TraesCS2B01G552900 chr4A 95.098 102 2 2 2862 2960 706247078 706246977 1.100000e-34 158.0
51 TraesCS2B01G552900 chr5B 86.207 145 18 2 1031 1174 492262927 492263070 3.950000e-34 156.0
52 TraesCS2B01G552900 chr5B 96.774 93 2 1 2869 2960 550432298 550432206 1.420000e-33 154.0
53 TraesCS2B01G552900 chr5B 83.234 167 26 2 1047 1212 492373343 492373508 5.110000e-33 152.0
54 TraesCS2B01G552900 chr5B 94.000 100 3 3 2864 2960 279106930 279107029 6.610000e-32 148.0
55 TraesCS2B01G552900 chr5B 95.604 91 4 0 2870 2960 158795211 158795301 2.380000e-31 147.0
56 TraesCS2B01G552900 chr1B 92.929 99 7 0 2862 2960 307225941 307226039 8.550000e-31 145.0
57 TraesCS2B01G552900 chr4B 90.654 107 9 1 2855 2960 417221032 417220926 1.110000e-29 141.0


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 TraesCS2B01G552900 chr2B 748702368 748705327 2959 False 1973.000000 5467 89.460000 1 2960 3 chr2B.!!$F1 2959
1 TraesCS2B01G552900 chr2B 748587641 748589601 1960 True 377.666667 531 82.379333 191 2037 3 chr2B.!!$R3 1846
2 TraesCS2B01G552900 chr2B 748572883 748573449 566 True 318.000000 318 77.349000 914 1500 1 chr2B.!!$R1 586
3 TraesCS2B01G552900 chr2D 613323783 613329911 6128 False 528.275000 1109 90.647000 1 2868 8 chr2D.!!$F1 2867
4 TraesCS2B01G552900 chr2D 613234627 613238702 4075 True 422.500000 508 84.397000 191 1503 4 chr2D.!!$R3 1312
5 TraesCS2B01G552900 chr2D 613224379 613225008 629 True 268.000000 268 75.342000 869 1500 1 chr2D.!!$R2 631
6 TraesCS2B01G552900 chr2A 744981256 744983291 2035 False 464.500000 706 90.978500 1 2868 4 chr2A.!!$F1 2867
7 TraesCS2B01G552900 chr2A 744994316 744999360 5044 False 421.100000 789 87.892600 681 2802 5 chr2A.!!$F2 2121

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
581 680 0.110486 ACCGTCATTGGGCTTTGAGT 59.890 50.0 0.00 0.00 0.00 3.41 F
936 1141 0.317519 GAAAACGACCGTGCAAAGGG 60.318 55.0 13.32 6.32 41.07 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1663 4835 0.178975 TTTTGCCGTCCCTTGTCCAT 60.179 50.0 0.0 0.0 0.0 3.41 R
2875 12363 0.037605 CGGTCGGTTGAAGGTAAGCT 60.038 55.0 0.0 0.0 0.0 3.74 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
145 146 0.394899 AAGCAGGGCCTAAGCATGAC 60.395 55.000 17.20 0.00 42.56 3.06
177 178 3.391160 TTCAGCGGGATCGTCGTCG 62.391 63.158 8.50 0.00 38.89 5.12
203 216 3.211963 GGCGGCATGGACCATGTC 61.212 66.667 30.55 28.54 43.10 3.06
342 374 3.243975 ACCATCGTCTTCGTTTAACCTGT 60.244 43.478 0.00 0.00 38.33 4.00
367 402 1.135575 CAATGGCCACGAAGAAGAAGC 60.136 52.381 8.16 0.00 0.00 3.86
373 408 1.541233 CCACGAAGAAGAAGCTGGTGT 60.541 52.381 0.00 0.00 0.00 4.16
410 445 4.668118 GGGTTCGTCGTGCCGGAA 62.668 66.667 5.05 0.00 0.00 4.30
509 599 4.452114 TCCTGATGAAAACGACACATCTTG 59.548 41.667 0.00 0.00 40.39 3.02
538 637 7.557358 TGTGGTTTGAGCATATTATGATTCTGT 59.443 33.333 7.87 0.00 0.00 3.41
554 653 1.553248 TCTGTGCCTAGCAACCGTATT 59.447 47.619 0.00 0.00 41.47 1.89
565 664 2.601763 GCAACCGTATTACTCTTGACCG 59.398 50.000 5.11 0.00 0.00 4.79
566 665 3.841643 CAACCGTATTACTCTTGACCGT 58.158 45.455 0.00 0.00 0.00 4.83
580 679 0.804989 GACCGTCATTGGGCTTTGAG 59.195 55.000 0.00 0.00 32.64 3.02
581 680 0.110486 ACCGTCATTGGGCTTTGAGT 59.890 50.000 0.00 0.00 0.00 3.41
582 681 1.349688 ACCGTCATTGGGCTTTGAGTA 59.650 47.619 0.00 0.00 0.00 2.59
583 682 2.224670 ACCGTCATTGGGCTTTGAGTAA 60.225 45.455 0.00 0.00 0.00 2.24
584 683 3.016736 CCGTCATTGGGCTTTGAGTAAT 58.983 45.455 0.00 0.00 0.00 1.89
585 684 3.065371 CCGTCATTGGGCTTTGAGTAATC 59.935 47.826 0.00 0.00 0.00 1.75
587 686 4.273318 GTCATTGGGCTTTGAGTAATCCT 58.727 43.478 0.00 0.00 0.00 3.24
589 688 5.185828 GTCATTGGGCTTTGAGTAATCCTTT 59.814 40.000 0.00 0.00 0.00 3.11
590 689 5.185635 TCATTGGGCTTTGAGTAATCCTTTG 59.814 40.000 0.00 0.00 0.00 2.77
591 690 4.380843 TGGGCTTTGAGTAATCCTTTGA 57.619 40.909 0.00 0.00 0.00 2.69
592 691 4.335416 TGGGCTTTGAGTAATCCTTTGAG 58.665 43.478 0.00 0.00 0.00 3.02
593 692 3.129462 GGGCTTTGAGTAATCCTTTGAGC 59.871 47.826 0.00 0.00 0.00 4.26
594 693 3.758554 GGCTTTGAGTAATCCTTTGAGCA 59.241 43.478 0.00 0.00 0.00 4.26
597 696 6.264067 GGCTTTGAGTAATCCTTTGAGCATAT 59.736 38.462 0.00 0.00 0.00 1.78
598 697 7.445402 GGCTTTGAGTAATCCTTTGAGCATATA 59.555 37.037 0.00 0.00 0.00 0.86
602 701 9.547753 TTGAGTAATCCTTTGAGCATATAAGAC 57.452 33.333 0.00 0.00 0.00 3.01
603 702 8.928448 TGAGTAATCCTTTGAGCATATAAGACT 58.072 33.333 0.00 0.00 0.00 3.24
604 703 9.202273 GAGTAATCCTTTGAGCATATAAGACTG 57.798 37.037 0.00 0.00 0.00 3.51
606 705 8.983724 GTAATCCTTTGAGCATATAAGACTGTC 58.016 37.037 0.00 0.00 0.00 3.51
608 707 6.577103 TCCTTTGAGCATATAAGACTGTCAG 58.423 40.000 10.88 0.00 0.00 3.51
609 708 5.236047 CCTTTGAGCATATAAGACTGTCAGC 59.764 44.000 10.88 4.25 0.00 4.26
610 709 3.969899 TGAGCATATAAGACTGTCAGCG 58.030 45.455 10.88 0.00 0.00 5.18
611 710 3.381590 TGAGCATATAAGACTGTCAGCGT 59.618 43.478 10.88 0.00 0.00 5.07
612 711 3.711086 AGCATATAAGACTGTCAGCGTG 58.289 45.455 10.88 3.61 0.00 5.34
613 712 3.131223 AGCATATAAGACTGTCAGCGTGT 59.869 43.478 10.88 0.00 0.00 4.49
614 713 4.338400 AGCATATAAGACTGTCAGCGTGTA 59.662 41.667 10.88 0.00 0.00 2.90
615 714 5.041287 GCATATAAGACTGTCAGCGTGTAA 58.959 41.667 10.88 0.00 0.00 2.41
616 715 5.692204 GCATATAAGACTGTCAGCGTGTAAT 59.308 40.000 10.88 0.00 0.00 1.89
617 716 6.861572 GCATATAAGACTGTCAGCGTGTAATA 59.138 38.462 10.88 0.00 0.00 0.98
618 717 7.148950 GCATATAAGACTGTCAGCGTGTAATAC 60.149 40.741 10.88 0.00 0.00 1.89
619 718 4.785511 AAGACTGTCAGCGTGTAATACT 57.214 40.909 10.88 0.00 0.00 2.12
620 719 4.785511 AGACTGTCAGCGTGTAATACTT 57.214 40.909 10.88 0.00 0.00 2.24
621 720 4.486090 AGACTGTCAGCGTGTAATACTTG 58.514 43.478 10.88 0.00 0.00 3.16
622 721 4.022242 AGACTGTCAGCGTGTAATACTTGT 60.022 41.667 10.88 0.00 0.00 3.16
623 722 3.987868 ACTGTCAGCGTGTAATACTTGTG 59.012 43.478 0.00 0.00 0.00 3.33
624 723 3.985008 TGTCAGCGTGTAATACTTGTGT 58.015 40.909 0.00 0.00 0.00 3.72
625 724 5.123805 TGTCAGCGTGTAATACTTGTGTA 57.876 39.130 0.00 0.00 0.00 2.90
626 725 4.919168 TGTCAGCGTGTAATACTTGTGTAC 59.081 41.667 0.00 0.00 0.00 2.90
627 726 4.919168 GTCAGCGTGTAATACTTGTGTACA 59.081 41.667 0.00 0.00 0.00 2.90
628 727 4.919168 TCAGCGTGTAATACTTGTGTACAC 59.081 41.667 19.36 19.36 42.65 2.90
629 728 4.682401 CAGCGTGTAATACTTGTGTACACA 59.318 41.667 24.62 24.62 45.09 3.72
630 729 4.921515 AGCGTGTAATACTTGTGTACACAG 59.078 41.667 26.52 21.74 45.09 3.66
631 730 4.433805 GCGTGTAATACTTGTGTACACAGC 60.434 45.833 26.52 18.60 45.09 4.40
632 731 4.921515 CGTGTAATACTTGTGTACACAGCT 59.078 41.667 26.52 18.10 45.09 4.24
633 732 5.404366 CGTGTAATACTTGTGTACACAGCTT 59.596 40.000 26.52 19.44 45.09 3.74
634 733 6.399669 CGTGTAATACTTGTGTACACAGCTTC 60.400 42.308 26.52 15.17 45.09 3.86
635 734 5.631929 TGTAATACTTGTGTACACAGCTTCG 59.368 40.000 26.52 16.22 42.94 3.79
636 735 1.865865 ACTTGTGTACACAGCTTCGG 58.134 50.000 26.52 15.87 42.94 4.30
637 736 1.138266 ACTTGTGTACACAGCTTCGGT 59.862 47.619 26.52 16.40 42.94 4.69
638 737 1.526887 CTTGTGTACACAGCTTCGGTG 59.473 52.381 26.52 8.74 42.94 4.94
640 739 1.682323 TGTGTACACAGCTTCGGTGTA 59.318 47.619 24.62 10.58 46.94 2.90
645 744 2.236766 ACACAGCTTCGGTGTACTAGT 58.763 47.619 6.53 0.00 46.94 2.57
646 745 2.626743 ACACAGCTTCGGTGTACTAGTT 59.373 45.455 6.53 0.00 46.94 2.24
647 746 3.069158 ACACAGCTTCGGTGTACTAGTTT 59.931 43.478 6.53 0.00 46.94 2.66
648 747 3.673809 CACAGCTTCGGTGTACTAGTTTC 59.326 47.826 0.00 0.00 42.60 2.78
649 748 3.251571 CAGCTTCGGTGTACTAGTTTCC 58.748 50.000 0.00 0.58 0.00 3.13
650 749 3.056749 CAGCTTCGGTGTACTAGTTTCCT 60.057 47.826 0.00 0.00 0.00 3.36
651 750 3.577415 AGCTTCGGTGTACTAGTTTCCTT 59.423 43.478 0.00 0.00 0.00 3.36
652 751 3.678548 GCTTCGGTGTACTAGTTTCCTTG 59.321 47.826 0.00 0.00 0.00 3.61
653 752 4.798593 GCTTCGGTGTACTAGTTTCCTTGT 60.799 45.833 0.00 0.00 0.00 3.16
654 753 4.247267 TCGGTGTACTAGTTTCCTTGTG 57.753 45.455 0.00 0.00 0.00 3.33
655 754 3.638160 TCGGTGTACTAGTTTCCTTGTGT 59.362 43.478 0.00 0.00 0.00 3.72
656 755 4.826733 TCGGTGTACTAGTTTCCTTGTGTA 59.173 41.667 0.00 0.00 0.00 2.90
657 756 4.919754 CGGTGTACTAGTTTCCTTGTGTAC 59.080 45.833 0.00 0.00 0.00 2.90
658 757 5.507817 CGGTGTACTAGTTTCCTTGTGTACA 60.508 44.000 0.00 0.00 38.18 2.90
659 758 6.760161 GTGTACTAGTTTCCTTGTGTACAC 57.240 41.667 19.36 19.36 46.83 2.90
666 765 2.148916 TCCTTGTGTACACAGCTTCG 57.851 50.000 26.52 14.14 42.94 3.79
676 775 1.138266 ACACAGCTTCGGTGTACTTGT 59.862 47.619 6.53 0.00 46.94 3.16
734 915 7.567571 CGTCTATGAACGAAATTGCATTATCT 58.432 34.615 0.00 0.00 45.37 1.98
788 973 5.146460 TGAAATTTCGAAATCTTCTGTGCG 58.854 37.500 27.09 0.00 0.00 5.34
795 980 3.291585 GAAATCTTCTGTGCGTGTTGTG 58.708 45.455 0.00 0.00 0.00 3.33
801 993 1.129624 TCTGTGCGTGTTGTGTCAAAC 59.870 47.619 0.00 0.00 0.00 2.93
835 1038 4.641396 TCATCACGTTCTCACCAAAGAAT 58.359 39.130 0.00 0.00 37.59 2.40
855 1058 8.814038 AAGAATCTTTCCAAATAGCAGTACAT 57.186 30.769 0.00 0.00 0.00 2.29
894 1097 3.154827 ACCAAGTCGGAATCAAACCAT 57.845 42.857 0.00 0.00 38.63 3.55
936 1141 0.317519 GAAAACGACCGTGCAAAGGG 60.318 55.000 13.32 6.32 41.07 3.95
997 1217 5.481473 AGCAAGAAGGGAAAATAGATTGCAA 59.519 36.000 0.00 0.00 43.13 4.08
999 1219 6.690530 CAAGAAGGGAAAATAGATTGCAACA 58.309 36.000 0.00 0.00 0.00 3.33
1045 1265 3.222354 GAGTTGCCCACGGACGTCT 62.222 63.158 16.46 0.00 0.00 4.18
1219 1449 4.373116 TCGGCGACCTGTCCAAGC 62.373 66.667 4.99 0.00 0.00 4.01
1278 1746 0.944311 GAGCGGTACCATACATGCGG 60.944 60.000 13.54 0.00 36.90 5.69
1438 4409 1.679680 CACTCTCGTATTTCCCGCCTA 59.320 52.381 0.00 0.00 0.00 3.93
1599 4771 2.179427 CCTGATCACTACCACCTGACA 58.821 52.381 0.00 0.00 0.00 3.58
1663 4835 4.409187 GGGAACAATAAAGGTGTGGGTTA 58.591 43.478 0.00 0.00 0.00 2.85
1674 4846 1.353022 GTGTGGGTTATGGACAAGGGA 59.647 52.381 0.00 0.00 0.00 4.20
1679 4851 0.035820 GTTATGGACAAGGGACGGCA 60.036 55.000 0.00 0.00 0.00 5.69
1704 4876 2.029623 TGGAGCTATCGGTACAACCTC 58.970 52.381 0.00 0.00 35.66 3.85
1782 4981 1.410517 CAGGAGTGCTCGATATGTGGT 59.589 52.381 0.00 0.00 0.00 4.16
1785 4984 2.036475 GGAGTGCTCGATATGTGGTCAT 59.964 50.000 0.00 0.00 38.00 3.06
1822 5021 3.220674 TGTGGTCATCATCCAACAACA 57.779 42.857 0.00 0.00 36.68 3.33
1864 5063 2.685017 AGGCTCATGGGACGCTGA 60.685 61.111 0.00 0.00 0.00 4.26
1866 5065 1.890979 GGCTCATGGGACGCTGATG 60.891 63.158 0.00 0.00 0.00 3.07
1917 5116 7.892196 GGACATTCTCCTACGTCAAGACGATA 61.892 46.154 27.09 14.70 45.65 2.92
2039 5456 5.390779 CCCTTGCTGTGTTGTTTTCTTTTTG 60.391 40.000 0.00 0.00 0.00 2.44
2178 5665 5.729974 AACGAAAATCCTAGATTTACGGC 57.270 39.130 3.15 0.00 0.00 5.68
2184 5671 2.037144 TCCTAGATTTACGGCCAGGTC 58.963 52.381 2.24 0.00 0.00 3.85
2196 5686 1.414550 GGCCAGGTCCTACTCATCTTC 59.585 57.143 0.00 0.00 0.00 2.87
2199 5689 1.067821 CAGGTCCTACTCATCTTCGGC 59.932 57.143 0.00 0.00 0.00 5.54
2212 5702 6.127310 ACTCATCTTCGGCTAAGTCTATTTGT 60.127 38.462 0.00 0.00 36.51 2.83
2338 5829 7.963981 TCGTGCACTCTTTTCTTATTTATCTG 58.036 34.615 16.19 0.00 0.00 2.90
2412 8831 4.497291 AACTGACACACACTCCCTTAAA 57.503 40.909 0.00 0.00 0.00 1.52
2413 8832 4.497291 ACTGACACACACTCCCTTAAAA 57.503 40.909 0.00 0.00 0.00 1.52
2439 8858 5.555966 ACAAAAATCAAAACACCAACCACT 58.444 33.333 0.00 0.00 0.00 4.00
2448 8867 5.362105 AAACACCAACCACTACAGTTAGA 57.638 39.130 0.00 0.00 0.00 2.10
2486 8930 8.421784 TGTTGGTAAAATGTTGCTATTAAACCA 58.578 29.630 0.00 0.00 35.16 3.67
2487 8931 9.262358 GTTGGTAAAATGTTGCTATTAAACCAA 57.738 29.630 15.62 15.62 39.77 3.67
2505 8949 6.904463 AACCAATTTATTAGGTTTGTCGGT 57.096 33.333 0.00 0.00 42.72 4.69
2506 8950 7.999450 AACCAATTTATTAGGTTTGTCGGTA 57.001 32.000 0.00 0.00 42.72 4.02
2507 8951 7.999450 ACCAATTTATTAGGTTTGTCGGTAA 57.001 32.000 0.00 0.00 29.58 2.85
2508 8952 8.406730 ACCAATTTATTAGGTTTGTCGGTAAA 57.593 30.769 0.00 0.00 29.58 2.01
2509 8953 8.858094 ACCAATTTATTAGGTTTGTCGGTAAAA 58.142 29.630 0.00 0.00 29.58 1.52
2510 8954 9.863845 CCAATTTATTAGGTTTGTCGGTAAAAT 57.136 29.630 0.00 0.00 0.00 1.82
2516 8960 7.999450 TTAGGTTTGTCGGTAAAATATTGGT 57.001 32.000 0.00 0.00 0.00 3.67
2517 8961 9.683870 ATTAGGTTTGTCGGTAAAATATTGGTA 57.316 29.630 0.00 0.00 0.00 3.25
2518 8962 9.683870 TTAGGTTTGTCGGTAAAATATTGGTAT 57.316 29.630 0.00 0.00 0.00 2.73
2519 8963 8.584063 AGGTTTGTCGGTAAAATATTGGTATT 57.416 30.769 0.00 0.00 31.89 1.89
2520 8964 9.683870 AGGTTTGTCGGTAAAATATTGGTATTA 57.316 29.630 0.00 0.00 30.42 0.98
2538 8982 5.010213 GGTATTAAACCCAAAACTGTCAGCA 59.990 40.000 0.00 0.00 43.16 4.41
2543 8987 2.158623 ACCCAAAACTGTCAGCAGATGA 60.159 45.455 0.00 0.00 45.28 2.92
2656 9136 9.643735 TTTGGTTAACAAAAATCCTAGACCTAA 57.356 29.630 5.65 0.00 45.59 2.69
2667 9157 5.222278 TCCTAGACCTAAGGACCATCTTT 57.778 43.478 0.00 0.00 0.00 2.52
2795 12240 3.181503 CGAGATCATGCACCCTTTTCTTG 60.182 47.826 0.00 0.00 0.00 3.02
2816 12304 8.475331 TCTTGTTTATCCGAAATAGACAACTC 57.525 34.615 8.71 0.00 29.39 3.01
2827 12315 0.747255 AGACAACTCGCACACACTCT 59.253 50.000 0.00 0.00 0.00 3.24
2834 12322 0.750249 TCGCACACACTCTCTTTCCA 59.250 50.000 0.00 0.00 0.00 3.53
2886 12374 5.941555 TTTTTGGGAAAAGCTTACCTTCA 57.058 34.783 18.01 9.03 36.34 3.02
2887 12375 5.941555 TTTTGGGAAAAGCTTACCTTCAA 57.058 34.783 18.01 13.13 36.34 2.69
2888 12376 4.929819 TTGGGAAAAGCTTACCTTCAAC 57.070 40.909 18.01 8.63 36.34 3.18
2889 12377 3.227614 TGGGAAAAGCTTACCTTCAACC 58.772 45.455 18.01 9.13 36.34 3.77
2890 12378 2.228103 GGGAAAAGCTTACCTTCAACCG 59.772 50.000 18.01 0.00 31.91 4.44
2892 12380 3.058432 GGAAAAGCTTACCTTCAACCGAC 60.058 47.826 0.00 0.00 31.99 4.79
2893 12381 2.180432 AAGCTTACCTTCAACCGACC 57.820 50.000 0.00 0.00 0.00 4.79
2894 12382 0.037605 AGCTTACCTTCAACCGACCG 60.038 55.000 0.00 0.00 0.00 4.79
2896 12384 1.405121 GCTTACCTTCAACCGACCGAT 60.405 52.381 0.00 0.00 0.00 4.18
2897 12385 2.159198 GCTTACCTTCAACCGACCGATA 60.159 50.000 0.00 0.00 0.00 2.92
2898 12386 3.676873 GCTTACCTTCAACCGACCGATAA 60.677 47.826 0.00 0.00 0.00 1.75
2899 12387 2.375173 ACCTTCAACCGACCGATAAC 57.625 50.000 0.00 0.00 0.00 1.89
2900 12388 1.274596 CCTTCAACCGACCGATAACG 58.725 55.000 0.00 0.00 39.43 3.18
2901 12389 0.643820 CTTCAACCGACCGATAACGC 59.356 55.000 0.00 0.00 38.29 4.84
2903 12391 0.179156 TCAACCGACCGATAACGCTC 60.179 55.000 0.00 0.00 38.29 5.03
2904 12392 1.226491 AACCGACCGATAACGCTCG 60.226 57.895 3.40 3.40 44.01 5.03
2905 12393 3.022914 CCGACCGATAACGCTCGC 61.023 66.667 4.74 0.00 43.36 5.03
2906 12394 3.376464 CGACCGATAACGCTCGCG 61.376 66.667 10.06 10.06 39.89 5.87
2907 12395 3.679326 GACCGATAACGCTCGCGC 61.679 66.667 11.65 0.00 44.19 6.86
2938 12426 4.471726 GCGTCCGTCGGATCGTGT 62.472 66.667 25.99 0.00 40.26 4.49
2940 12428 2.564975 GTCCGTCGGATCGTGTGT 59.435 61.111 18.75 0.00 32.73 3.72
2941 12429 1.080974 GTCCGTCGGATCGTGTGTT 60.081 57.895 18.75 0.00 32.73 3.32
2942 12430 1.081041 TCCGTCGGATCGTGTGTTG 60.081 57.895 10.71 0.00 0.00 3.33
2943 12431 1.081041 CCGTCGGATCGTGTGTTGA 60.081 57.895 4.91 0.00 0.00 3.18
2945 12433 0.914551 CGTCGGATCGTGTGTTGATC 59.085 55.000 0.00 0.00 41.20 2.92
2946 12434 1.731098 CGTCGGATCGTGTGTTGATCA 60.731 52.381 0.00 0.00 43.21 2.92
2949 12437 1.920574 CGGATCGTGTGTTGATCAGAC 59.079 52.381 0.00 0.00 43.21 3.51
2954 12442 1.060713 GTGTGTTGATCAGACGGACG 58.939 55.000 0.00 0.00 30.96 4.79
2955 12443 0.955905 TGTGTTGATCAGACGGACGA 59.044 50.000 0.00 0.00 0.00 4.20
2957 12445 1.199327 GTGTTGATCAGACGGACGAGA 59.801 52.381 0.00 0.00 0.00 4.04
2958 12446 1.468914 TGTTGATCAGACGGACGAGAG 59.531 52.381 0.00 0.00 0.00 3.20
2959 12447 0.452184 TTGATCAGACGGACGAGAGC 59.548 55.000 0.00 0.00 0.00 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 3.883744 AACTTCTCACAGCCGGCGG 62.884 63.158 25.72 25.72 0.00 6.13
186 199 3.211963 GACATGGTCCATGCCGCC 61.212 66.667 28.57 13.49 44.80 6.13
203 216 1.686052 CCGGGGAGAGAAGAAGAGATG 59.314 57.143 0.00 0.00 0.00 2.90
230 243 4.426112 TCGCCGCAGCAGTCTGAG 62.426 66.667 3.32 0.00 42.95 3.35
253 280 0.036952 ACTCTGCATGTGTTCTCCCG 60.037 55.000 0.00 0.00 0.00 5.14
256 283 0.801251 GCCACTCTGCATGTGTTCTC 59.199 55.000 15.69 2.81 33.92 2.87
257 284 0.109153 TGCCACTCTGCATGTGTTCT 59.891 50.000 15.69 0.00 36.04 3.01
258 285 0.520404 CTGCCACTCTGCATGTGTTC 59.480 55.000 15.69 9.50 41.16 3.18
355 387 2.622064 AACACCAGCTTCTTCTTCGT 57.378 45.000 0.00 0.00 0.00 3.85
356 388 2.413453 GCTAACACCAGCTTCTTCTTCG 59.587 50.000 0.00 0.00 38.57 3.79
357 389 2.744741 GGCTAACACCAGCTTCTTCTTC 59.255 50.000 0.00 0.00 41.50 2.87
367 402 2.267961 GGTCCCGGCTAACACCAG 59.732 66.667 0.00 0.00 0.00 4.00
373 408 1.612442 AAGCTCTGGTCCCGGCTAA 60.612 57.895 0.00 0.00 34.40 3.09
410 445 3.953775 CCACCGTGCACCCTTCCT 61.954 66.667 12.15 0.00 0.00 3.36
509 599 6.435430 TCATAATATGCTCAAACCACACAC 57.565 37.500 0.00 0.00 0.00 3.82
516 606 6.860023 GGCACAGAATCATAATATGCTCAAAC 59.140 38.462 0.00 0.00 0.00 2.93
538 637 3.028850 AGAGTAATACGGTTGCTAGGCA 58.971 45.455 0.00 0.00 36.47 4.75
554 653 1.066430 GCCCAATGACGGTCAAGAGTA 60.066 52.381 15.72 0.00 0.00 2.59
565 664 4.273318 AGGATTACTCAAAGCCCAATGAC 58.727 43.478 0.00 0.00 45.32 3.06
566 665 4.591321 AGGATTACTCAAAGCCCAATGA 57.409 40.909 0.00 0.00 45.32 2.57
580 679 8.894768 ACAGTCTTATATGCTCAAAGGATTAC 57.105 34.615 0.00 0.00 0.00 1.89
581 680 8.704668 TGACAGTCTTATATGCTCAAAGGATTA 58.295 33.333 1.31 0.00 0.00 1.75
582 681 7.568349 TGACAGTCTTATATGCTCAAAGGATT 58.432 34.615 1.31 0.00 0.00 3.01
583 682 7.129457 TGACAGTCTTATATGCTCAAAGGAT 57.871 36.000 1.31 0.00 0.00 3.24
584 683 6.544928 TGACAGTCTTATATGCTCAAAGGA 57.455 37.500 1.31 0.00 0.00 3.36
585 684 5.236047 GCTGACAGTCTTATATGCTCAAAGG 59.764 44.000 3.99 0.00 0.00 3.11
587 686 4.805719 CGCTGACAGTCTTATATGCTCAAA 59.194 41.667 3.99 0.00 0.00 2.69
589 688 3.381590 ACGCTGACAGTCTTATATGCTCA 59.618 43.478 3.99 0.00 0.00 4.26
590 689 3.733224 CACGCTGACAGTCTTATATGCTC 59.267 47.826 3.99 0.00 0.00 4.26
591 690 3.131223 ACACGCTGACAGTCTTATATGCT 59.869 43.478 3.99 0.00 0.00 3.79
592 691 3.448686 ACACGCTGACAGTCTTATATGC 58.551 45.455 3.99 0.00 0.00 3.14
593 692 8.076781 AGTATTACACGCTGACAGTCTTATATG 58.923 37.037 3.99 0.00 0.00 1.78
594 693 8.167605 AGTATTACACGCTGACAGTCTTATAT 57.832 34.615 3.99 0.00 0.00 0.86
597 696 5.892160 AGTATTACACGCTGACAGTCTTA 57.108 39.130 3.99 0.00 0.00 2.10
598 697 4.785511 AGTATTACACGCTGACAGTCTT 57.214 40.909 3.99 0.00 0.00 3.01
601 700 3.987868 CACAAGTATTACACGCTGACAGT 59.012 43.478 3.99 0.00 0.00 3.55
602 701 3.987868 ACACAAGTATTACACGCTGACAG 59.012 43.478 0.00 0.00 0.00 3.51
603 702 3.985008 ACACAAGTATTACACGCTGACA 58.015 40.909 0.00 0.00 0.00 3.58
604 703 4.919168 TGTACACAAGTATTACACGCTGAC 59.081 41.667 0.00 0.00 31.84 3.51
606 705 4.682401 TGTGTACACAAGTATTACACGCTG 59.318 41.667 26.07 0.00 45.72 5.18
608 707 4.433805 GCTGTGTACACAAGTATTACACGC 60.434 45.833 27.66 19.13 45.72 5.34
609 708 4.921515 AGCTGTGTACACAAGTATTACACG 59.078 41.667 27.66 13.87 45.72 4.49
610 709 6.399669 CGAAGCTGTGTACACAAGTATTACAC 60.400 42.308 27.66 11.93 43.91 2.90
611 710 5.631929 CGAAGCTGTGTACACAAGTATTACA 59.368 40.000 27.66 3.63 41.33 2.41
612 711 5.061808 CCGAAGCTGTGTACACAAGTATTAC 59.938 44.000 27.66 14.49 41.33 1.89
613 712 5.165676 CCGAAGCTGTGTACACAAGTATTA 58.834 41.667 27.66 5.02 41.33 0.98
614 713 3.994392 CCGAAGCTGTGTACACAAGTATT 59.006 43.478 27.66 18.88 41.33 1.89
615 714 3.006537 ACCGAAGCTGTGTACACAAGTAT 59.993 43.478 27.66 15.00 41.33 2.12
616 715 2.363038 ACCGAAGCTGTGTACACAAGTA 59.637 45.455 27.66 6.86 41.33 2.24
617 716 1.138266 ACCGAAGCTGTGTACACAAGT 59.862 47.619 27.66 15.79 41.33 3.16
618 717 1.526887 CACCGAAGCTGTGTACACAAG 59.473 52.381 27.66 21.31 41.33 3.16
619 718 1.134640 ACACCGAAGCTGTGTACACAA 60.135 47.619 27.66 12.99 44.73 3.33
620 719 0.462375 ACACCGAAGCTGTGTACACA 59.538 50.000 26.37 26.37 44.73 3.72
621 720 2.427232 TACACCGAAGCTGTGTACAC 57.573 50.000 19.36 19.36 44.73 2.90
624 723 3.415212 ACTAGTACACCGAAGCTGTGTA 58.585 45.455 10.58 10.58 44.73 2.90
626 725 3.299340 AACTAGTACACCGAAGCTGTG 57.701 47.619 0.00 1.32 39.63 3.66
627 726 3.305881 GGAAACTAGTACACCGAAGCTGT 60.306 47.826 0.00 0.00 0.00 4.40
628 727 3.056749 AGGAAACTAGTACACCGAAGCTG 60.057 47.826 0.00 0.00 40.61 4.24
629 728 3.163467 AGGAAACTAGTACACCGAAGCT 58.837 45.455 0.00 0.00 40.61 3.74
630 729 3.589495 AGGAAACTAGTACACCGAAGC 57.411 47.619 0.00 0.00 40.61 3.86
631 730 4.684703 CACAAGGAAACTAGTACACCGAAG 59.315 45.833 0.00 0.00 42.68 3.79
632 731 4.099881 ACACAAGGAAACTAGTACACCGAA 59.900 41.667 0.00 0.00 42.68 4.30
633 732 3.638160 ACACAAGGAAACTAGTACACCGA 59.362 43.478 0.00 0.00 42.68 4.69
634 733 3.986277 ACACAAGGAAACTAGTACACCG 58.014 45.455 0.00 0.00 42.68 4.94
635 734 5.846203 TGTACACAAGGAAACTAGTACACC 58.154 41.667 0.00 0.04 42.89 4.16
637 736 6.468333 TGTGTACACAAGGAAACTAGTACA 57.532 37.500 26.07 0.00 44.21 2.90
638 737 5.404667 GCTGTGTACACAAGGAAACTAGTAC 59.595 44.000 27.66 0.00 42.68 2.73
639 738 5.303589 AGCTGTGTACACAAGGAAACTAGTA 59.696 40.000 27.66 2.12 42.68 1.82
640 739 4.101119 AGCTGTGTACACAAGGAAACTAGT 59.899 41.667 27.66 0.00 42.68 2.57
641 740 4.632153 AGCTGTGTACACAAGGAAACTAG 58.368 43.478 27.66 14.54 42.68 2.57
642 741 4.682778 AGCTGTGTACACAAGGAAACTA 57.317 40.909 27.66 3.56 42.68 2.24
644 743 3.303132 CGAAGCTGTGTACACAAGGAAAC 60.303 47.826 27.66 15.81 41.33 2.78
645 744 2.869801 CGAAGCTGTGTACACAAGGAAA 59.130 45.455 27.66 5.75 41.33 3.13
646 745 2.479837 CGAAGCTGTGTACACAAGGAA 58.520 47.619 27.66 6.48 41.33 3.36
647 746 1.270094 CCGAAGCTGTGTACACAAGGA 60.270 52.381 27.66 6.86 41.33 3.36
648 747 1.148310 CCGAAGCTGTGTACACAAGG 58.852 55.000 27.66 18.60 41.33 3.61
649 748 1.526887 CACCGAAGCTGTGTACACAAG 59.473 52.381 27.66 21.31 41.33 3.16
650 749 1.134640 ACACCGAAGCTGTGTACACAA 60.135 47.619 27.66 12.99 44.73 3.33
651 750 0.462375 ACACCGAAGCTGTGTACACA 59.538 50.000 26.37 26.37 44.73 3.72
652 751 2.427232 TACACCGAAGCTGTGTACAC 57.573 50.000 19.36 19.36 44.73 2.90
655 754 2.363038 ACAAGTACACCGAAGCTGTGTA 59.637 45.455 10.58 10.58 44.73 2.90
657 756 1.865865 ACAAGTACACCGAAGCTGTG 58.134 50.000 1.32 1.32 39.63 3.66
658 757 2.614829 AACAAGTACACCGAAGCTGT 57.385 45.000 0.00 0.00 0.00 4.40
659 758 2.223377 GGAAACAAGTACACCGAAGCTG 59.777 50.000 0.00 0.00 0.00 4.24
666 765 4.877251 TGTACACAAGGAAACAAGTACACC 59.123 41.667 0.00 0.00 37.49 4.16
676 775 4.141711 ACTGAAGCTCTGTACACAAGGAAA 60.142 41.667 0.00 0.00 0.00 3.13
734 915 5.752892 TTTGCGTACCAATACAAGTTCAA 57.247 34.783 0.00 0.00 32.49 2.69
788 973 2.477189 CGGAACAGGTTTGACACAACAC 60.477 50.000 0.00 0.00 0.00 3.32
795 980 4.723248 GATGAAATCGGAACAGGTTTGAC 58.277 43.478 0.00 0.00 31.13 3.18
855 1058 6.999871 ACTTGGTAACCGATTTCCTCTTTAAA 59.000 34.615 0.00 0.00 0.00 1.52
863 1066 2.004733 CCGACTTGGTAACCGATTTCC 58.995 52.381 0.00 0.00 0.00 3.13
894 1097 5.868258 TCGTTTGTATTTAACATCACGGCTA 59.132 36.000 9.27 0.00 41.84 3.93
936 1141 1.440353 GTTCACCACGATGCGTTGC 60.440 57.895 0.00 0.00 38.32 4.17
997 1217 1.745115 CGTCGTCCATGGCCATTGT 60.745 57.895 17.92 0.00 0.00 2.71
999 1219 2.824041 GCGTCGTCCATGGCCATT 60.824 61.111 17.92 0.00 0.00 3.16
1045 1265 1.300963 GCAGCAGGATCTCCACCAA 59.699 57.895 0.00 0.00 38.89 3.67
1132 1352 2.046988 CTGCATCTCCGTGGTGCA 60.047 61.111 12.04 12.04 45.69 4.57
1278 1746 2.768344 TGCAGGCTACTAGGGGGC 60.768 66.667 0.00 0.00 0.00 5.80
1438 4409 3.152400 GGAGGTGTATCGCCCCGT 61.152 66.667 0.00 0.00 33.99 5.28
1506 4678 1.600023 GGTCAAATGACACGACCCAA 58.400 50.000 14.93 0.00 46.47 4.12
1574 4746 0.462759 GTGGTAGTGATCAGGCCTGC 60.463 60.000 28.91 15.67 0.00 4.85
1599 4771 2.120718 AGCCTCCCGTTCACCTCT 59.879 61.111 0.00 0.00 0.00 3.69
1663 4835 0.178975 TTTTGCCGTCCCTTGTCCAT 60.179 50.000 0.00 0.00 0.00 3.41
1674 4846 1.739067 GATAGCTCCACTTTTGCCGT 58.261 50.000 0.00 0.00 0.00 5.68
1679 4851 4.251268 GTTGTACCGATAGCTCCACTTTT 58.749 43.478 0.00 0.00 0.00 2.27
1782 4981 5.589855 CCACATGCCTTTATGTCTGTAATGA 59.410 40.000 0.00 0.00 39.17 2.57
1785 4984 4.917385 ACCACATGCCTTTATGTCTGTAA 58.083 39.130 0.00 0.00 39.17 2.41
1842 5041 2.439156 GTCCCATGAGCCTGGTGC 60.439 66.667 0.00 0.00 41.71 5.01
1872 5071 3.927555 GCACCAGCCGGCTATTATA 57.072 52.632 32.30 0.00 34.57 0.98
1917 5116 6.038714 GCAACTTATAAATGCTAAGTGGCTCT 59.961 38.462 12.63 0.00 46.09 4.09
2152 5639 8.177013 GCCGTAAATCTAGGATTTTCGTTAAAA 58.823 33.333 21.10 0.00 38.87 1.52
2153 5640 7.201635 GGCCGTAAATCTAGGATTTTCGTTAAA 60.202 37.037 21.10 0.64 32.47 1.52
2178 5665 1.683917 CCGAAGATGAGTAGGACCTGG 59.316 57.143 3.53 0.00 0.00 4.45
2184 5671 3.886505 AGACTTAGCCGAAGATGAGTAGG 59.113 47.826 3.08 0.00 38.65 3.18
2196 5686 9.745880 TCTCTATAAAACAAATAGACTTAGCCG 57.254 33.333 0.00 0.00 33.45 5.52
2309 5799 9.817809 ATAAATAAGAAAAGAGTGCACGATCTA 57.182 29.630 12.01 0.00 0.00 1.98
2390 8809 5.617528 TTTAAGGGAGTGTGTGTCAGTTA 57.382 39.130 0.00 0.00 0.00 2.24
2412 8831 7.649705 GTGGTTGGTGTTTTGATTTTTGTTTTT 59.350 29.630 0.00 0.00 0.00 1.94
2413 8832 7.013750 AGTGGTTGGTGTTTTGATTTTTGTTTT 59.986 29.630 0.00 0.00 0.00 2.43
2490 8934 9.683870 ACCAATATTTTACCGACAAACCTAATA 57.316 29.630 0.00 0.00 0.00 0.98
2491 8935 8.584063 ACCAATATTTTACCGACAAACCTAAT 57.416 30.769 0.00 0.00 0.00 1.73
2492 8936 7.999450 ACCAATATTTTACCGACAAACCTAA 57.001 32.000 0.00 0.00 0.00 2.69
2493 8937 9.683870 AATACCAATATTTTACCGACAAACCTA 57.316 29.630 0.00 0.00 0.00 3.08
2494 8938 8.584063 AATACCAATATTTTACCGACAAACCT 57.416 30.769 0.00 0.00 0.00 3.50
2513 8957 9.081200 CTGCTGACAGTTTTGGGTTTAATACCA 62.081 40.741 3.99 2.65 42.96 3.25
2514 8958 5.010213 TGCTGACAGTTTTGGGTTTAATACC 59.990 40.000 3.99 0.00 46.99 2.73
2515 8959 6.016610 TCTGCTGACAGTTTTGGGTTTAATAC 60.017 38.462 3.99 0.00 44.77 1.89
2516 8960 6.065374 TCTGCTGACAGTTTTGGGTTTAATA 58.935 36.000 3.99 0.00 44.77 0.98
2517 8961 4.892934 TCTGCTGACAGTTTTGGGTTTAAT 59.107 37.500 3.99 0.00 44.77 1.40
2518 8962 4.274147 TCTGCTGACAGTTTTGGGTTTAA 58.726 39.130 3.99 0.00 44.77 1.52
2519 8963 3.892284 TCTGCTGACAGTTTTGGGTTTA 58.108 40.909 3.99 0.00 44.77 2.01
2520 8964 2.733956 TCTGCTGACAGTTTTGGGTTT 58.266 42.857 3.99 0.00 44.77 3.27
2521 8965 2.435372 TCTGCTGACAGTTTTGGGTT 57.565 45.000 3.99 0.00 44.77 4.11
2522 8966 2.158623 TCATCTGCTGACAGTTTTGGGT 60.159 45.455 3.99 0.00 44.77 4.51
2523 8967 2.507484 TCATCTGCTGACAGTTTTGGG 58.493 47.619 3.99 0.00 44.77 4.12
2575 9025 5.981315 ACATGCACAACAGAGAAGAAAAATG 59.019 36.000 0.00 0.00 0.00 2.32
2640 9120 6.678857 AGATGGTCCTTAGGTCTAGGATTTTT 59.321 38.462 0.00 0.00 33.91 1.94
2667 9157 9.060137 TCCCTATAAACCAAATAGACTTAACCA 57.940 33.333 0.00 0.00 0.00 3.67
2691 9181 8.190784 ACTCATTGGTAAATCGATTTTGATTCC 58.809 33.333 27.10 19.74 37.59 3.01
2702 9192 4.433186 TTTGGCACTCATTGGTAAATCG 57.567 40.909 0.00 0.00 0.00 3.34
2795 12240 5.290158 TGCGAGTTGTCTATTTCGGATAAAC 59.710 40.000 0.00 0.00 33.89 2.01
2816 12304 1.581934 TTGGAAAGAGAGTGTGTGCG 58.418 50.000 0.00 0.00 0.00 5.34
2868 12356 3.227614 GGTTGAAGGTAAGCTTTTCCCA 58.772 45.455 3.20 0.08 0.00 4.37
2870 12358 3.058432 GTCGGTTGAAGGTAAGCTTTTCC 60.058 47.826 3.20 8.30 0.00 3.13
2871 12359 3.058432 GGTCGGTTGAAGGTAAGCTTTTC 60.058 47.826 3.20 3.03 0.00 2.29
2872 12360 2.882761 GGTCGGTTGAAGGTAAGCTTTT 59.117 45.455 3.20 0.00 0.00 2.27
2873 12361 2.501261 GGTCGGTTGAAGGTAAGCTTT 58.499 47.619 3.20 0.00 0.00 3.51
2874 12362 1.607251 CGGTCGGTTGAAGGTAAGCTT 60.607 52.381 3.48 3.48 0.00 3.74
2875 12363 0.037605 CGGTCGGTTGAAGGTAAGCT 60.038 55.000 0.00 0.00 0.00 3.74
2876 12364 0.037975 TCGGTCGGTTGAAGGTAAGC 60.038 55.000 0.00 0.00 0.00 3.09
2877 12365 2.667473 ATCGGTCGGTTGAAGGTAAG 57.333 50.000 0.00 0.00 0.00 2.34
2878 12366 3.673052 CGTTATCGGTCGGTTGAAGGTAA 60.673 47.826 0.00 0.00 0.00 2.85
2881 12369 1.274596 CGTTATCGGTCGGTTGAAGG 58.725 55.000 0.00 0.00 0.00 3.46
2882 12370 0.643820 GCGTTATCGGTCGGTTGAAG 59.356 55.000 0.00 0.00 37.56 3.02
2883 12371 0.244450 AGCGTTATCGGTCGGTTGAA 59.756 50.000 0.00 0.00 44.62 2.69
2885 12373 4.489249 AGCGTTATCGGTCGGTTG 57.511 55.556 0.00 0.00 44.62 3.77
2921 12409 4.471726 ACACGATCCGACGGACGC 62.472 66.667 27.32 19.00 41.07 5.19
2922 12410 2.576053 CACACGATCCGACGGACG 60.576 66.667 26.39 26.39 42.18 4.79
2923 12411 1.080974 AACACACGATCCGACGGAC 60.081 57.895 21.02 12.25 32.98 4.79
2924 12412 1.081041 CAACACACGATCCGACGGA 60.081 57.895 20.85 20.85 37.61 4.69
2925 12413 0.457853 ATCAACACACGATCCGACGG 60.458 55.000 7.84 7.84 37.61 4.79
2926 12414 0.914551 GATCAACACACGATCCGACG 59.085 55.000 0.00 0.00 34.42 5.12
2928 12416 1.816224 TCTGATCAACACACGATCCGA 59.184 47.619 0.00 0.00 38.83 4.55
2929 12417 1.920574 GTCTGATCAACACACGATCCG 59.079 52.381 0.00 0.00 38.83 4.18
2930 12418 1.920574 CGTCTGATCAACACACGATCC 59.079 52.381 9.45 0.00 41.94 3.36
2931 12419 1.920574 CCGTCTGATCAACACACGATC 59.079 52.381 14.47 0.00 41.94 3.69
2932 12420 1.544246 TCCGTCTGATCAACACACGAT 59.456 47.619 14.47 0.00 41.94 3.73
2933 12421 0.955905 TCCGTCTGATCAACACACGA 59.044 50.000 14.47 0.00 41.94 4.35
2934 12422 1.060713 GTCCGTCTGATCAACACACG 58.939 55.000 0.00 3.19 39.80 4.49
2935 12423 1.060713 CGTCCGTCTGATCAACACAC 58.939 55.000 0.00 0.00 0.00 3.82
2937 12425 1.199327 TCTCGTCCGTCTGATCAACAC 59.801 52.381 0.00 0.00 0.00 3.32
2938 12426 1.468914 CTCTCGTCCGTCTGATCAACA 59.531 52.381 0.00 0.00 0.00 3.33
2940 12428 0.452184 GCTCTCGTCCGTCTGATCAA 59.548 55.000 0.00 0.00 0.00 2.57
2941 12429 2.099143 GCTCTCGTCCGTCTGATCA 58.901 57.895 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.