Multiple sequence alignment - TraesCS3B01G534100

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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 TraesCS3B01G534100 chr3B 100.000 2492 0 0 1 2492 773883799 773881308 0.000000e+00 4602.0
1 TraesCS3B01G534100 chr3B 90.664 482 39 3 1533 2013 773747969 773748445 1.090000e-178 636.0
2 TraesCS3B01G534100 chr3B 83.667 600 53 16 973 1533 773747022 773747615 8.850000e-145 523.0
3 TraesCS3B01G534100 chr3B 79.481 424 64 13 1869 2274 685394812 685395230 2.120000e-71 279.0
4 TraesCS3B01G534100 chr3B 78.065 465 69 18 1061 1495 756440294 756439833 2.130000e-66 263.0
5 TraesCS3B01G534100 chr3B 80.058 346 53 9 105 438 773746164 773746505 2.780000e-60 243.0
6 TraesCS3B01G534100 chr3B 79.032 186 35 4 1583 1766 754331270 754331453 1.050000e-24 124.0
7 TraesCS3B01G534100 chr3B 98.571 70 0 1 2424 2492 115803638 115803569 3.770000e-24 122.0
8 TraesCS3B01G534100 chr3B 100.000 46 0 0 2744 2789 773881056 773881011 4.950000e-13 86.1
9 TraesCS3B01G534100 chr3B 84.524 84 13 0 1054 1137 754289370 754289453 1.780000e-12 84.2
10 TraesCS3B01G534100 chr3B 85.938 64 3 1 654 717 37739865 37739922 2.320000e-06 63.9
11 TraesCS3B01G534100 chr3B 100.000 33 0 0 810 842 773746793 773746825 8.340000e-06 62.1
12 TraesCS3B01G534100 chr3D 90.000 900 69 8 1531 2418 579399411 579400301 0.000000e+00 1144.0
13 TraesCS3B01G534100 chr3D 89.073 906 71 16 1532 2423 579581883 579580992 0.000000e+00 1099.0
14 TraesCS3B01G534100 chr3D 85.605 521 38 10 1048 1533 579398541 579399059 1.920000e-141 512.0
15 TraesCS3B01G534100 chr3D 83.223 602 46 14 973 1533 579582826 579582239 4.150000e-138 501.0
16 TraesCS3B01G534100 chr3D 86.709 158 21 0 1056 1213 567517030 567517187 2.860000e-40 176.0
17 TraesCS3B01G534100 chr3D 79.496 278 20 17 106 356 579583870 579583603 2.220000e-36 163.0
18 TraesCS3B01G534100 chr3D 86.667 60 5 2 1881 1939 573713608 573713551 2.320000e-06 63.9
19 TraesCS3B01G534100 chr4A 93.677 427 10 8 105 530 714667756 714667346 8.480000e-175 623.0
20 TraesCS3B01G534100 chr4A 95.935 123 4 1 1 123 531854940 531855061 6.090000e-47 198.0
21 TraesCS3B01G534100 chr4A 78.469 209 41 4 1595 1800 648794375 648794168 1.740000e-27 134.0
22 TraesCS3B01G534100 chr4A 98.551 69 1 0 2424 2492 705956314 705956382 3.770000e-24 122.0
23 TraesCS3B01G534100 chr4A 77.723 202 41 4 1595 1793 661279798 661279598 1.360000e-23 121.0
24 TraesCS3B01G534100 chr4A 97.101 69 2 0 2424 2492 706092290 706092358 1.760000e-22 117.0
25 TraesCS3B01G534100 chr4A 88.136 59 5 1 472 530 690620049 690620105 4.980000e-08 69.4
26 TraesCS3B01G534100 chr3A 86.082 582 49 11 973 1533 714595603 714596173 5.140000e-167 597.0
27 TraesCS3B01G534100 chr3A 91.826 367 29 1 1532 1897 714596529 714596895 6.890000e-141 510.0
28 TraesCS3B01G534100 chr3A 93.438 320 18 2 2104 2423 714597029 714597345 3.250000e-129 472.0
29 TraesCS3B01G534100 chr3A 80.889 450 50 15 105 527 714603652 714604092 3.470000e-84 322.0
30 TraesCS3B01G534100 chr3A 78.525 461 66 19 1056 1495 702421607 702421159 3.540000e-69 272.0
31 TraesCS3B01G534100 chr3A 79.204 452 48 21 105 519 714625226 714624784 3.540000e-69 272.0
32 TraesCS3B01G534100 chr3A 99.138 116 1 0 1 116 504994295 504994410 2.810000e-50 209.0
33 TraesCS3B01G534100 chr3A 87.831 189 7 9 654 842 714595235 714595407 1.010000e-49 207.0
34 TraesCS3B01G534100 chr3A 98.305 118 1 1 1 118 336479636 336479520 3.640000e-49 206.0
35 TraesCS3B01G534100 chr3A 98.291 117 2 0 1 117 642277483 642277599 3.640000e-49 206.0
36 TraesCS3B01G534100 chr3A 98.611 72 0 1 2422 2492 640867904 640867833 2.920000e-25 126.0
37 TraesCS3B01G534100 chr3A 86.667 60 5 2 1881 1939 708361988 708361931 2.320000e-06 63.9
38 TraesCS3B01G534100 chr3A 86.667 60 5 2 1881 1939 708383567 708383510 2.320000e-06 63.9
39 TraesCS3B01G534100 chr3A 100.000 34 0 0 2744 2777 714597342 714597375 2.320000e-06 63.9
40 TraesCS3B01G534100 chr4B 92.506 427 15 6 105 530 430672654 430672244 1.850000e-166 595.0
41 TraesCS3B01G534100 chr4B 80.479 292 37 12 248 530 622342020 622342300 3.640000e-49 206.0
42 TraesCS3B01G534100 chrUn 91.556 225 2 7 307 530 230760114 230759906 7.550000e-76 294.0
43 TraesCS3B01G534100 chrUn 87.135 171 21 1 1056 1225 48324552 48324382 2.830000e-45 193.0
44 TraesCS3B01G534100 chrUn 98.551 69 1 0 2424 2492 435013923 435013991 3.770000e-24 122.0
45 TraesCS3B01G534100 chr2B 80.872 298 37 12 248 536 120491529 120491243 1.680000e-52 217.0
46 TraesCS3B01G534100 chr2B 95.968 124 3 2 1 123 106830519 106830397 1.690000e-47 200.0
47 TraesCS3B01G534100 chr2B 87.654 162 20 0 1053 1214 68196165 68196326 3.670000e-44 189.0
48 TraesCS3B01G534100 chr2B 79.545 264 38 8 248 503 315136657 315136402 1.030000e-39 174.0
49 TraesCS3B01G534100 chr6A 96.774 124 3 1 1 123 597519562 597519685 3.640000e-49 206.0
50 TraesCS3B01G534100 chr6B 98.276 116 2 0 1 116 227761702 227761587 1.310000e-48 204.0
51 TraesCS3B01G534100 chr7A 95.312 128 3 2 1 128 450015828 450015704 1.690000e-47 200.0
52 TraesCS3B01G534100 chr7A 79.147 211 39 5 1595 1801 41047835 41047626 1.040000e-29 141.0
53 TraesCS3B01G534100 chr7A 89.831 59 4 1 472 530 35001623 35001679 1.070000e-09 75.0
54 TraesCS3B01G534100 chr7A 100.000 36 0 0 2425 2460 604852016 604851981 1.790000e-07 67.6
55 TraesCS3B01G534100 chr1A 93.333 135 8 1 2 136 418968990 418968857 6.090000e-47 198.0
56 TraesCS3B01G534100 chr1A 93.056 72 1 3 2424 2492 539324556 539324626 4.910000e-18 102.0
57 TraesCS3B01G534100 chr1B 79.530 298 41 12 248 536 670761694 670761408 7.880000e-46 195.0
58 TraesCS3B01G534100 chr7D 80.447 179 32 3 1617 1793 41600887 41600710 1.740000e-27 134.0
59 TraesCS3B01G534100 chr7D 98.571 70 0 1 2424 2492 3934436 3934505 3.770000e-24 122.0
60 TraesCS3B01G534100 chr7D 85.526 76 8 2 456 530 34471750 34471677 2.980000e-10 76.8
61 TraesCS3B01G534100 chr7D 86.154 65 7 1 472 536 34374962 34374900 4.980000e-08 69.4
62 TraesCS3B01G534100 chr7D 88.136 59 5 1 472 530 34755016 34755072 4.980000e-08 69.4
63 TraesCS3B01G534100 chr2A 95.714 70 2 1 2424 2492 17471165 17471096 8.170000e-21 111.0


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 TraesCS3B01G534100 chr3B 773881011 773883799 2788 True 2344.050000 4602 100.000000 1 2789 2 chr3B.!!$R3 2788
1 TraesCS3B01G534100 chr3B 773746164 773748445 2281 False 366.025000 636 88.597250 105 2013 4 chr3B.!!$F5 1908
2 TraesCS3B01G534100 chr3D 579398541 579400301 1760 False 828.000000 1144 87.802500 1048 2418 2 chr3D.!!$F2 1370
3 TraesCS3B01G534100 chr3D 579580992 579583870 2878 True 587.666667 1099 83.930667 106 2423 3 chr3D.!!$R2 2317
4 TraesCS3B01G534100 chr3A 714595235 714597375 2140 False 369.980000 597 91.835400 654 2777 5 chr3A.!!$F4 2123

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
988 1402 0.034059 CCGTCACTCCTCTTGCTTGT 59.966 55.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2437 3351 0.326927 GGCCCCTGTAGCTTACAACA 59.673 55.0 0.0 0.0 38.38 3.33 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
25 26 8.116624 CGATTTCCGGATAATACAGTTATAGC 57.883 38.462 4.15 0.00 33.91 2.97
26 27 7.758076 CGATTTCCGGATAATACAGTTATAGCA 59.242 37.037 4.15 0.00 33.91 3.49
27 28 9.601217 GATTTCCGGATAATACAGTTATAGCAT 57.399 33.333 4.15 0.00 0.00 3.79
28 29 8.771920 TTTCCGGATAATACAGTTATAGCATG 57.228 34.615 4.15 0.00 0.00 4.06
29 30 7.712204 TCCGGATAATACAGTTATAGCATGA 57.288 36.000 0.00 0.00 0.00 3.07
30 31 8.129496 TCCGGATAATACAGTTATAGCATGAA 57.871 34.615 0.00 0.00 0.00 2.57
31 32 8.758829 TCCGGATAATACAGTTATAGCATGAAT 58.241 33.333 0.00 0.00 0.00 2.57
105 106 4.437682 CCTCTAGGGCATATTTCCAACA 57.562 45.455 0.00 0.00 0.00 3.33
106 107 4.392940 CCTCTAGGGCATATTTCCAACAG 58.607 47.826 0.00 0.00 0.00 3.16
107 108 4.392940 CTCTAGGGCATATTTCCAACAGG 58.607 47.826 0.00 0.00 0.00 4.00
108 109 4.044308 TCTAGGGCATATTTCCAACAGGA 58.956 43.478 0.00 0.00 0.00 3.86
109 110 3.979501 AGGGCATATTTCCAACAGGAT 57.020 42.857 0.00 0.00 0.00 3.24
168 169 8.388656 ACTAACCAGAAAAGTATCCCTTATCA 57.611 34.615 0.00 0.00 31.48 2.15
169 170 8.265764 ACTAACCAGAAAAGTATCCCTTATCAC 58.734 37.037 0.00 0.00 31.48 3.06
170 171 6.636454 ACCAGAAAAGTATCCCTTATCACA 57.364 37.500 0.00 0.00 31.48 3.58
171 172 6.653989 ACCAGAAAAGTATCCCTTATCACAG 58.346 40.000 0.00 0.00 31.48 3.66
172 173 6.443849 ACCAGAAAAGTATCCCTTATCACAGA 59.556 38.462 0.00 0.00 31.48 3.41
173 174 7.037586 ACCAGAAAAGTATCCCTTATCACAGAA 60.038 37.037 0.00 0.00 31.48 3.02
174 175 7.995488 CCAGAAAAGTATCCCTTATCACAGAAT 59.005 37.037 0.00 0.00 31.48 2.40
210 212 4.245660 TCACTTGCACAGCTATGTAGAAC 58.754 43.478 0.00 0.00 37.65 3.01
221 223 7.915923 CACAGCTATGTAGAACTAGAAATCGAA 59.084 37.037 0.00 0.00 37.65 3.71
285 305 9.593134 AGACAATATTATTCAGACTGAGTTGAC 57.407 33.333 5.73 6.50 0.00 3.18
288 308 9.334947 CAATATTATTCAGACTGAGTTGACCAT 57.665 33.333 5.73 0.00 0.00 3.55
347 476 1.063006 CAAACCATGGCGATGCTCG 59.937 57.895 13.04 1.80 43.89 5.03
406 535 2.114411 GGCGTGGGGAGAAAACCA 59.886 61.111 0.00 0.00 0.00 3.67
411 540 2.322772 TGGGGAGAAAACCACCACA 58.677 52.632 0.00 0.00 36.54 4.17
414 543 1.480498 GGGGAGAAAACCACCACACAT 60.480 52.381 0.00 0.00 0.00 3.21
415 544 2.316108 GGGAGAAAACCACCACACATT 58.684 47.619 0.00 0.00 0.00 2.71
449 578 8.237267 GGAAACCACACACTGATAAAATCTAAG 58.763 37.037 0.00 0.00 0.00 2.18
450 579 8.691661 AAACCACACACTGATAAAATCTAAGT 57.308 30.769 0.00 0.00 0.00 2.24
452 581 8.324163 ACCACACACTGATAAAATCTAAGTTC 57.676 34.615 0.00 0.00 0.00 3.01
453 582 7.936847 ACCACACACTGATAAAATCTAAGTTCA 59.063 33.333 0.00 0.00 0.00 3.18
454 583 8.446273 CCACACACTGATAAAATCTAAGTTCAG 58.554 37.037 0.00 0.00 37.27 3.02
455 584 9.208022 CACACACTGATAAAATCTAAGTTCAGA 57.792 33.333 4.87 0.00 35.65 3.27
486 615 5.356882 TGAACGGTTGACTTGAATTCATC 57.643 39.130 9.40 5.53 0.00 2.92
487 616 4.215399 TGAACGGTTGACTTGAATTCATCC 59.785 41.667 9.40 2.37 31.79 3.51
511 640 8.010697 TCCAAGTTCAGAAGAGGGATACATATA 58.989 37.037 0.00 0.00 39.74 0.86
519 695 3.951037 AGAGGGATACATATAGCTCTGCG 59.049 47.826 0.00 0.00 39.74 5.18
549 779 3.185246 GCTGCAGGCTAATCTAACTCA 57.815 47.619 17.12 0.00 38.06 3.41
551 781 3.559242 GCTGCAGGCTAATCTAACTCAAG 59.441 47.826 17.12 0.00 38.06 3.02
552 782 4.125703 CTGCAGGCTAATCTAACTCAAGG 58.874 47.826 5.57 0.00 0.00 3.61
553 783 2.875317 GCAGGCTAATCTAACTCAAGGC 59.125 50.000 0.00 0.00 0.00 4.35
557 787 3.370527 GGCTAATCTAACTCAAGGCCACA 60.371 47.826 5.01 0.00 38.35 4.17
558 788 4.261801 GCTAATCTAACTCAAGGCCACAA 58.738 43.478 5.01 0.00 0.00 3.33
559 789 4.333926 GCTAATCTAACTCAAGGCCACAAG 59.666 45.833 5.01 0.32 0.00 3.16
577 837 6.402226 GCCACAAGCTAATCTAACAGTACAAC 60.402 42.308 0.00 0.00 38.99 3.32
579 839 7.334421 CCACAAGCTAATCTAACAGTACAACAT 59.666 37.037 0.00 0.00 0.00 2.71
580 840 8.171196 CACAAGCTAATCTAACAGTACAACATG 58.829 37.037 0.00 0.00 0.00 3.21
581 841 7.878127 ACAAGCTAATCTAACAGTACAACATGT 59.122 33.333 0.00 0.00 0.00 3.21
582 842 8.383619 CAAGCTAATCTAACAGTACAACATGTC 58.616 37.037 0.00 0.00 0.00 3.06
584 844 7.545965 AGCTAATCTAACAGTACAACATGTCAC 59.454 37.037 0.00 0.00 0.00 3.67
586 846 4.552355 TCTAACAGTACAACATGTCACCG 58.448 43.478 0.00 0.00 0.00 4.94
588 848 2.750948 ACAGTACAACATGTCACCGAC 58.249 47.619 0.00 0.00 0.00 4.79
589 849 2.101750 ACAGTACAACATGTCACCGACA 59.898 45.455 0.00 0.00 46.90 4.35
590 850 3.127589 CAGTACAACATGTCACCGACAA 58.872 45.455 0.00 0.00 45.96 3.18
591 851 3.184379 CAGTACAACATGTCACCGACAAG 59.816 47.826 0.00 0.00 45.96 3.16
592 852 0.944386 ACAACATGTCACCGACAAGC 59.056 50.000 0.00 0.00 45.96 4.01
593 853 0.943673 CAACATGTCACCGACAAGCA 59.056 50.000 0.00 0.00 45.96 3.91
594 854 1.536766 CAACATGTCACCGACAAGCAT 59.463 47.619 0.00 0.00 45.96 3.79
595 855 2.741517 CAACATGTCACCGACAAGCATA 59.258 45.455 0.00 0.00 45.96 3.14
596 856 2.621338 ACATGTCACCGACAAGCATAG 58.379 47.619 0.22 0.00 45.96 2.23
597 857 2.233676 ACATGTCACCGACAAGCATAGA 59.766 45.455 0.22 0.00 45.96 1.98
598 858 3.118629 ACATGTCACCGACAAGCATAGAT 60.119 43.478 0.22 0.00 45.96 1.98
599 859 3.610040 TGTCACCGACAAGCATAGATT 57.390 42.857 0.00 0.00 39.78 2.40
600 860 3.937814 TGTCACCGACAAGCATAGATTT 58.062 40.909 0.00 0.00 39.78 2.17
601 861 3.932710 TGTCACCGACAAGCATAGATTTC 59.067 43.478 0.00 0.00 39.78 2.17
602 862 3.932710 GTCACCGACAAGCATAGATTTCA 59.067 43.478 0.00 0.00 32.09 2.69
603 863 4.033358 GTCACCGACAAGCATAGATTTCAG 59.967 45.833 0.00 0.00 32.09 3.02
604 864 4.081697 TCACCGACAAGCATAGATTTCAGA 60.082 41.667 0.00 0.00 0.00 3.27
605 865 4.813161 CACCGACAAGCATAGATTTCAGAT 59.187 41.667 0.00 0.00 0.00 2.90
606 866 4.813161 ACCGACAAGCATAGATTTCAGATG 59.187 41.667 0.00 0.00 0.00 2.90
607 867 5.052481 CCGACAAGCATAGATTTCAGATGA 58.948 41.667 0.00 0.00 0.00 2.92
608 868 5.050499 CCGACAAGCATAGATTTCAGATGAC 60.050 44.000 0.00 0.00 0.00 3.06
609 869 5.332130 CGACAAGCATAGATTTCAGATGACG 60.332 44.000 0.00 0.00 0.00 4.35
610 870 5.664457 ACAAGCATAGATTTCAGATGACGA 58.336 37.500 0.00 0.00 0.00 4.20
611 871 5.521735 ACAAGCATAGATTTCAGATGACGAC 59.478 40.000 0.00 0.00 0.00 4.34
612 872 4.626042 AGCATAGATTTCAGATGACGACC 58.374 43.478 0.00 0.00 0.00 4.79
613 873 4.343526 AGCATAGATTTCAGATGACGACCT 59.656 41.667 0.00 0.00 0.00 3.85
614 874 5.536538 AGCATAGATTTCAGATGACGACCTA 59.463 40.000 0.00 0.00 0.00 3.08
615 875 6.040955 AGCATAGATTTCAGATGACGACCTAA 59.959 38.462 0.00 0.00 0.00 2.69
616 876 6.870965 GCATAGATTTCAGATGACGACCTAAT 59.129 38.462 0.00 0.00 0.00 1.73
617 877 7.062839 GCATAGATTTCAGATGACGACCTAATC 59.937 40.741 0.00 0.00 0.00 1.75
618 878 6.723298 AGATTTCAGATGACGACCTAATCT 57.277 37.500 0.00 0.00 0.00 2.40
619 879 7.825331 AGATTTCAGATGACGACCTAATCTA 57.175 36.000 0.00 0.00 31.39 1.98
620 880 8.239038 AGATTTCAGATGACGACCTAATCTAA 57.761 34.615 0.00 0.00 31.39 2.10
621 881 8.356657 AGATTTCAGATGACGACCTAATCTAAG 58.643 37.037 0.00 0.00 31.39 2.18
622 882 7.406031 TTTCAGATGACGACCTAATCTAAGT 57.594 36.000 0.00 0.00 0.00 2.24
623 883 8.515695 TTTCAGATGACGACCTAATCTAAGTA 57.484 34.615 0.00 0.00 0.00 2.24
624 884 7.493743 TCAGATGACGACCTAATCTAAGTAC 57.506 40.000 0.00 0.00 0.00 2.73
625 885 7.052248 TCAGATGACGACCTAATCTAAGTACA 58.948 38.462 0.00 0.00 0.00 2.90
626 886 7.226918 TCAGATGACGACCTAATCTAAGTACAG 59.773 40.741 0.00 0.00 0.00 2.74
627 887 5.496133 TGACGACCTAATCTAAGTACAGC 57.504 43.478 0.00 0.00 0.00 4.40
628 888 4.945543 TGACGACCTAATCTAAGTACAGCA 59.054 41.667 0.00 0.00 0.00 4.41
629 889 5.593095 TGACGACCTAATCTAAGTACAGCAT 59.407 40.000 0.00 0.00 0.00 3.79
630 890 6.074544 ACGACCTAATCTAAGTACAGCATC 57.925 41.667 0.00 0.00 0.00 3.91
631 891 5.828859 ACGACCTAATCTAAGTACAGCATCT 59.171 40.000 0.00 0.00 0.00 2.90
741 1022 1.134901 CCGAGGACGACTGAACGAG 59.865 63.158 0.00 0.00 42.66 4.18
742 1023 1.512310 CGAGGACGACTGAACGAGC 60.512 63.158 0.00 0.00 42.66 5.03
743 1024 1.877367 GAGGACGACTGAACGAGCT 59.123 57.895 0.00 0.00 37.03 4.09
744 1025 0.179184 GAGGACGACTGAACGAGCTC 60.179 60.000 2.73 2.73 37.03 4.09
745 1026 1.153997 GGACGACTGAACGAGCTCC 60.154 63.158 8.47 0.00 37.03 4.70
746 1027 1.512310 GACGACTGAACGAGCTCCG 60.512 63.158 8.47 6.44 45.44 4.63
747 1028 1.909141 GACGACTGAACGAGCTCCGA 61.909 60.000 8.47 0.00 41.76 4.55
750 1031 0.098025 GACTGAACGAGCTCCGAGAG 59.902 60.000 8.47 2.07 41.76 3.20
869 1199 2.732289 GCCAGTTGAAGGCCTCAAA 58.268 52.632 5.23 0.00 45.67 2.69
921 1298 3.056322 GCATTTCTTCTGCCTGTTTCCAT 60.056 43.478 0.00 0.00 33.44 3.41
988 1402 0.034059 CCGTCACTCCTCTTGCTTGT 59.966 55.000 0.00 0.00 0.00 3.16
1028 1442 2.037136 CCGCAAGAGGAGCAACAGG 61.037 63.158 0.00 0.00 43.02 4.00
1091 1505 0.558220 ATCTGGGAGATCCTCGTCCA 59.442 55.000 0.00 0.00 34.14 4.02
1092 1506 0.395862 TCTGGGAGATCCTCGTCCAC 60.396 60.000 0.00 0.00 34.14 4.02
1098 1512 2.039624 ATCCTCGTCCACCTGCCT 59.960 61.111 0.00 0.00 0.00 4.75
1110 1524 1.379044 CCTGCCTCCCAAATCGCTT 60.379 57.895 0.00 0.00 0.00 4.68
1214 1628 2.392816 CCCTCCCCCTCCTCTACGA 61.393 68.421 0.00 0.00 0.00 3.43
1269 1683 0.541863 ACATCATCCCCTTCGACCAC 59.458 55.000 0.00 0.00 0.00 4.16
1270 1684 0.530650 CATCATCCCCTTCGACCACG 60.531 60.000 0.00 0.00 41.26 4.94
1271 1685 2.311688 ATCATCCCCTTCGACCACGC 62.312 60.000 0.00 0.00 39.58 5.34
1272 1686 3.782443 ATCCCCTTCGACCACGCC 61.782 66.667 0.00 0.00 39.58 5.68
1311 1758 2.222027 CTTCAACAAGCCTCCGACTTT 58.778 47.619 0.00 0.00 0.00 2.66
1332 1779 2.677289 CCATCTGGAGGCCTGCTGT 61.677 63.158 25.93 12.36 37.39 4.40
1389 1848 1.377725 CTTCGCCATCTGCAACCCT 60.378 57.895 0.00 0.00 41.33 4.34
1458 1917 0.468400 AGTACTCGCTCCTGGGGATC 60.468 60.000 0.00 0.00 36.31 3.36
1504 1963 1.389609 CCGGCTACTGATGTACCGGT 61.390 60.000 13.98 13.98 46.30 5.28
1510 1969 3.243002 GCTACTGATGTACCGGTACTCAC 60.243 52.174 37.37 28.09 37.00 3.51
1546 2362 0.250209 ACTGGTTGCAGAGCTCACTG 60.250 55.000 17.77 7.60 40.43 3.66
1554 2370 1.005630 AGAGCTCACTGTGCGGTTC 60.006 57.895 17.77 6.63 35.28 3.62
1559 2375 1.284982 CTCACTGTGCGGTTCGGAAG 61.285 60.000 2.12 0.00 0.00 3.46
1632 2448 4.394729 TCCTACTGGTCAATTTTGGTGAC 58.605 43.478 0.00 0.00 43.87 3.67
1663 2479 0.244721 GGTTGACATTGAGGGCAAGC 59.755 55.000 0.00 0.00 37.45 4.01
1758 2574 1.376037 CTTTCCGACACTGGAGGGC 60.376 63.158 0.00 0.00 39.72 5.19
1767 2583 0.035152 CACTGGAGGGCTATGTTGCA 60.035 55.000 0.00 0.00 34.04 4.08
1812 2628 2.865119 TGTCATGTCAGGTGCTGATT 57.135 45.000 0.00 0.00 42.73 2.57
1813 2629 2.703416 TGTCATGTCAGGTGCTGATTC 58.297 47.619 0.00 0.00 42.73 2.52
1814 2630 2.303890 TGTCATGTCAGGTGCTGATTCT 59.696 45.455 0.00 0.00 42.73 2.40
1815 2631 3.515104 TGTCATGTCAGGTGCTGATTCTA 59.485 43.478 0.00 0.00 42.73 2.10
1849 2669 3.118629 TGTCAGTATCCTCATGAGTTGCC 60.119 47.826 21.11 6.76 0.00 4.52
1864 2684 3.407698 AGTTGCCGTGTGTATGAATTCA 58.592 40.909 11.26 11.26 0.00 2.57
1876 2696 5.822519 GTGTATGAATTCAGCCCACTATGAA 59.177 40.000 14.54 0.00 39.59 2.57
1984 2850 2.595463 GTGCTGAAGTGGCTGCCA 60.595 61.111 19.30 19.30 32.49 4.92
2003 2869 4.156556 TGCCATGAGTCTTGATGCTAAAAC 59.843 41.667 7.57 0.00 0.00 2.43
2044 2943 8.850007 ACTTAACTGAAGAATTAACTTCTCCC 57.150 34.615 0.00 2.38 43.60 4.30
2161 3068 8.070034 TGACAATGAAATGAGGCAAATTATCT 57.930 30.769 0.00 0.00 0.00 1.98
2240 3151 5.447757 TCATGATTCCATTGCATCTGGTTA 58.552 37.500 13.80 6.00 35.19 2.85
2400 3314 6.030228 GCTCGAGAAATGGAACCTTTATTTG 58.970 40.000 18.75 0.00 0.00 2.32
2428 3342 8.012957 AGTAGTAGAAAGGTTATCATCAGTGG 57.987 38.462 0.00 0.00 0.00 4.00
2429 3343 5.675538 AGTAGAAAGGTTATCATCAGTGGC 58.324 41.667 0.00 0.00 0.00 5.01
2430 3344 3.535561 AGAAAGGTTATCATCAGTGGCG 58.464 45.455 0.00 0.00 0.00 5.69
2431 3345 2.332063 AAGGTTATCATCAGTGGCGG 57.668 50.000 0.00 0.00 0.00 6.13
2432 3346 1.496060 AGGTTATCATCAGTGGCGGA 58.504 50.000 0.00 0.00 0.00 5.54
2433 3347 1.414181 AGGTTATCATCAGTGGCGGAG 59.586 52.381 0.00 0.00 0.00 4.63
2454 3368 3.467803 GCTATGTTGTAAGCTACAGGGG 58.532 50.000 0.00 0.00 40.24 4.79
2455 3369 2.420058 ATGTTGTAAGCTACAGGGGC 57.580 50.000 0.00 0.00 40.24 5.80
2456 3370 0.326927 TGTTGTAAGCTACAGGGGCC 59.673 55.000 0.00 0.00 40.24 5.80
2457 3371 0.326927 GTTGTAAGCTACAGGGGCCA 59.673 55.000 4.39 0.00 40.24 5.36
2458 3372 1.064685 GTTGTAAGCTACAGGGGCCAT 60.065 52.381 4.39 0.00 40.24 4.40
2459 3373 0.546122 TGTAAGCTACAGGGGCCATG 59.454 55.000 18.06 18.06 34.06 3.66
2460 3374 0.819666 GTAAGCTACAGGGGCCATGC 60.820 60.000 19.71 4.17 0.00 4.06
2484 3398 5.675684 CCCCCAGCTTTTGTAAAATATGT 57.324 39.130 0.00 0.00 0.00 2.29
2485 3399 5.418676 CCCCCAGCTTTTGTAAAATATGTG 58.581 41.667 0.00 0.00 0.00 3.21
2486 3400 5.186797 CCCCCAGCTTTTGTAAAATATGTGA 59.813 40.000 0.00 0.00 0.00 3.58
2487 3401 6.295575 CCCCCAGCTTTTGTAAAATATGTGAA 60.296 38.462 0.00 0.00 0.00 3.18
2488 3402 6.813152 CCCCAGCTTTTGTAAAATATGTGAAG 59.187 38.462 0.00 0.00 0.00 3.02
2489 3403 6.813152 CCCAGCTTTTGTAAAATATGTGAAGG 59.187 38.462 0.00 0.00 0.00 3.46
2490 3404 7.309744 CCCAGCTTTTGTAAAATATGTGAAGGA 60.310 37.037 0.00 0.00 0.00 3.36
2491 3405 8.087750 CCAGCTTTTGTAAAATATGTGAAGGAA 58.912 33.333 0.00 0.00 0.00 3.36
2777 3691 4.825422 TCAGTTTCTAGATTGTGCTCCAG 58.175 43.478 0.00 0.00 0.00 3.86
2778 3692 3.373439 CAGTTTCTAGATTGTGCTCCAGC 59.627 47.826 0.00 0.00 42.50 4.85
2779 3693 2.680339 GTTTCTAGATTGTGCTCCAGCC 59.320 50.000 0.00 0.00 41.18 4.85
2780 3694 1.571955 TCTAGATTGTGCTCCAGCCA 58.428 50.000 0.00 0.00 41.18 4.75
2781 3695 2.121948 TCTAGATTGTGCTCCAGCCAT 58.878 47.619 0.00 0.00 41.18 4.40
2782 3696 2.158856 TCTAGATTGTGCTCCAGCCATG 60.159 50.000 0.00 0.00 41.18 3.66
2783 3697 0.330604 AGATTGTGCTCCAGCCATGT 59.669 50.000 0.00 0.00 41.18 3.21
2784 3698 1.180029 GATTGTGCTCCAGCCATGTT 58.820 50.000 0.00 0.00 41.18 2.71
2785 3699 1.133790 GATTGTGCTCCAGCCATGTTC 59.866 52.381 0.00 0.00 41.18 3.18
2786 3700 0.111061 TTGTGCTCCAGCCATGTTCT 59.889 50.000 0.00 0.00 41.18 3.01
2787 3701 0.111061 TGTGCTCCAGCCATGTTCTT 59.889 50.000 0.00 0.00 41.18 2.52
2788 3702 1.251251 GTGCTCCAGCCATGTTCTTT 58.749 50.000 0.00 0.00 41.18 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 8.997621 TGCTATAACTGTATTATCCGGAAATC 57.002 34.615 9.01 5.33 0.00 2.17
2 3 9.383519 CATGCTATAACTGTATTATCCGGAAAT 57.616 33.333 9.01 12.31 0.00 2.17
3 4 8.590204 TCATGCTATAACTGTATTATCCGGAAA 58.410 33.333 9.01 4.74 0.00 3.13
4 5 8.129496 TCATGCTATAACTGTATTATCCGGAA 57.871 34.615 9.01 0.00 0.00 4.30
6 7 8.948631 ATTCATGCTATAACTGTATTATCCGG 57.051 34.615 0.00 0.00 0.00 5.14
84 85 4.392940 CTGTTGGAAATATGCCCTAGAGG 58.607 47.826 0.00 0.00 39.47 3.69
85 86 4.103153 TCCTGTTGGAAATATGCCCTAGAG 59.897 45.833 0.00 0.00 39.87 2.43
86 87 4.044308 TCCTGTTGGAAATATGCCCTAGA 58.956 43.478 0.00 0.00 39.87 2.43
87 88 4.437682 TCCTGTTGGAAATATGCCCTAG 57.562 45.455 0.00 0.00 39.87 3.02
88 89 4.415179 TGATCCTGTTGGAAATATGCCCTA 59.585 41.667 0.00 0.00 46.80 3.53
89 90 3.205056 TGATCCTGTTGGAAATATGCCCT 59.795 43.478 0.00 0.00 46.80 5.19
90 91 3.565307 TGATCCTGTTGGAAATATGCCC 58.435 45.455 0.00 0.00 46.80 5.36
91 92 4.500375 GCTTGATCCTGTTGGAAATATGCC 60.500 45.833 0.00 0.00 46.80 4.40
92 93 4.098349 TGCTTGATCCTGTTGGAAATATGC 59.902 41.667 0.00 0.00 46.80 3.14
93 94 5.840243 TGCTTGATCCTGTTGGAAATATG 57.160 39.130 0.00 0.00 46.80 1.78
94 95 5.163478 GCTTGCTTGATCCTGTTGGAAATAT 60.163 40.000 0.00 0.00 46.80 1.28
95 96 4.158394 GCTTGCTTGATCCTGTTGGAAATA 59.842 41.667 0.00 0.00 46.80 1.40
96 97 3.056322 GCTTGCTTGATCCTGTTGGAAAT 60.056 43.478 0.00 0.00 46.80 2.17
97 98 2.297033 GCTTGCTTGATCCTGTTGGAAA 59.703 45.455 0.00 0.00 46.80 3.13
98 99 1.888512 GCTTGCTTGATCCTGTTGGAA 59.111 47.619 0.00 0.00 46.80 3.53
100 101 0.529378 GGCTTGCTTGATCCTGTTGG 59.471 55.000 0.00 0.00 0.00 3.77
101 102 0.169672 CGGCTTGCTTGATCCTGTTG 59.830 55.000 0.00 0.00 0.00 3.33
102 103 0.962356 CCGGCTTGCTTGATCCTGTT 60.962 55.000 0.00 0.00 0.00 3.16
103 104 1.377725 CCGGCTTGCTTGATCCTGT 60.378 57.895 0.00 0.00 0.00 4.00
104 105 2.117156 CCCGGCTTGCTTGATCCTG 61.117 63.158 0.00 0.00 0.00 3.86
105 106 2.273449 CCCGGCTTGCTTGATCCT 59.727 61.111 0.00 0.00 0.00 3.24
106 107 2.608970 TAGCCCGGCTTGCTTGATCC 62.609 60.000 19.35 0.00 40.44 3.36
107 108 0.748005 TTAGCCCGGCTTGCTTGATC 60.748 55.000 19.35 0.00 40.44 2.92
108 109 0.323360 TTTAGCCCGGCTTGCTTGAT 60.323 50.000 19.35 0.00 40.44 2.57
109 110 0.323360 ATTTAGCCCGGCTTGCTTGA 60.323 50.000 19.35 0.00 40.44 3.02
169 170 9.760660 GCAAGTGAGTTATAGTTGTTTATTCTG 57.239 33.333 0.00 0.00 32.40 3.02
170 171 9.502091 TGCAAGTGAGTTATAGTTGTTTATTCT 57.498 29.630 0.00 0.00 32.40 2.40
171 172 9.543018 GTGCAAGTGAGTTATAGTTGTTTATTC 57.457 33.333 0.00 0.00 32.40 1.75
172 173 9.062524 TGTGCAAGTGAGTTATAGTTGTTTATT 57.937 29.630 0.00 0.00 32.40 1.40
173 174 8.615878 TGTGCAAGTGAGTTATAGTTGTTTAT 57.384 30.769 0.00 0.00 32.40 1.40
174 175 7.307751 GCTGTGCAAGTGAGTTATAGTTGTTTA 60.308 37.037 0.00 0.00 32.40 2.01
186 187 2.847327 ACATAGCTGTGCAAGTGAGT 57.153 45.000 10.79 0.00 33.22 3.41
191 192 5.895928 TCTAGTTCTACATAGCTGTGCAAG 58.104 41.667 10.79 8.58 36.79 4.01
273 293 2.614259 ACCTCATGGTCAACTCAGTCT 58.386 47.619 0.00 0.00 44.78 3.24
285 305 8.525290 ACCAATTAGAATCTAAAACCTCATGG 57.475 34.615 6.82 9.04 39.83 3.66
288 308 7.947890 ACCAACCAATTAGAATCTAAAACCTCA 59.052 33.333 6.82 0.00 0.00 3.86
296 316 9.753674 AATCTGAAACCAACCAATTAGAATCTA 57.246 29.630 0.00 0.00 0.00 1.98
347 476 3.499737 CCCGCGCATTGGAGACAC 61.500 66.667 8.75 0.00 42.67 3.67
385 514 0.958876 GTTTTCTCCCCACGCCGATT 60.959 55.000 0.00 0.00 0.00 3.34
415 544 4.524714 TCAGTGTGTGGTTTCCTTGAAAAA 59.475 37.500 0.00 0.00 33.14 1.94
449 578 3.560068 ACCGTTCATCTTGTGTTCTGAAC 59.440 43.478 13.49 13.49 42.44 3.18
450 579 3.804036 ACCGTTCATCTTGTGTTCTGAA 58.196 40.909 0.00 0.00 0.00 3.02
452 581 3.559655 TCAACCGTTCATCTTGTGTTCTG 59.440 43.478 0.00 0.00 0.00 3.02
453 582 3.560068 GTCAACCGTTCATCTTGTGTTCT 59.440 43.478 0.00 0.00 0.00 3.01
454 583 3.560068 AGTCAACCGTTCATCTTGTGTTC 59.440 43.478 0.00 0.00 0.00 3.18
455 584 3.541632 AGTCAACCGTTCATCTTGTGTT 58.458 40.909 0.00 0.00 0.00 3.32
461 590 5.063204 TGAATTCAAGTCAACCGTTCATCT 58.937 37.500 5.45 0.00 0.00 2.90
486 615 4.826274 TGTATCCCTCTTCTGAACTTGG 57.174 45.455 0.00 0.00 0.00 3.61
487 616 7.816995 GCTATATGTATCCCTCTTCTGAACTTG 59.183 40.741 0.00 0.00 0.00 3.16
498 627 3.490078 GCGCAGAGCTATATGTATCCCTC 60.490 52.174 0.30 0.00 44.04 4.30
519 695 3.048941 GCCTGCAGCTGCTACAAGC 62.049 63.158 36.61 26.24 43.88 4.01
547 777 4.261801 GTTAGATTAGCTTGTGGCCTTGA 58.738 43.478 3.32 0.00 43.05 3.02
548 778 4.009675 TGTTAGATTAGCTTGTGGCCTTG 58.990 43.478 3.32 0.00 43.05 3.61
549 779 4.263506 ACTGTTAGATTAGCTTGTGGCCTT 60.264 41.667 3.32 0.00 43.05 4.35
551 781 3.610911 ACTGTTAGATTAGCTTGTGGCC 58.389 45.455 0.00 0.00 43.05 5.36
552 782 5.175859 TGTACTGTTAGATTAGCTTGTGGC 58.824 41.667 0.00 0.00 42.19 5.01
553 783 6.649141 TGTTGTACTGTTAGATTAGCTTGTGG 59.351 38.462 0.00 0.00 0.00 4.17
557 787 8.094548 TGACATGTTGTACTGTTAGATTAGCTT 58.905 33.333 0.00 0.00 0.00 3.74
558 788 7.545965 GTGACATGTTGTACTGTTAGATTAGCT 59.454 37.037 0.00 0.00 0.00 3.32
559 789 7.201530 GGTGACATGTTGTACTGTTAGATTAGC 60.202 40.741 0.00 0.00 0.00 3.09
577 837 2.892374 TCTATGCTTGTCGGTGACATG 58.108 47.619 0.00 4.62 42.40 3.21
579 839 3.610040 AATCTATGCTTGTCGGTGACA 57.390 42.857 0.00 0.00 41.09 3.58
580 840 3.932710 TGAAATCTATGCTTGTCGGTGAC 59.067 43.478 0.00 0.00 0.00 3.67
581 841 4.081697 TCTGAAATCTATGCTTGTCGGTGA 60.082 41.667 0.00 0.00 0.00 4.02
582 842 4.183865 TCTGAAATCTATGCTTGTCGGTG 58.816 43.478 0.00 0.00 0.00 4.94
584 844 5.050499 GTCATCTGAAATCTATGCTTGTCGG 60.050 44.000 0.00 0.00 0.00 4.79
586 846 5.750547 TCGTCATCTGAAATCTATGCTTGTC 59.249 40.000 0.00 0.00 0.00 3.18
588 848 5.050499 GGTCGTCATCTGAAATCTATGCTTG 60.050 44.000 0.00 0.00 0.00 4.01
589 849 5.053145 GGTCGTCATCTGAAATCTATGCTT 58.947 41.667 0.00 0.00 0.00 3.91
590 850 4.343526 AGGTCGTCATCTGAAATCTATGCT 59.656 41.667 0.00 0.00 0.00 3.79
591 851 4.626042 AGGTCGTCATCTGAAATCTATGC 58.374 43.478 0.00 0.00 0.00 3.14
592 852 8.303156 AGATTAGGTCGTCATCTGAAATCTATG 58.697 37.037 0.00 0.00 32.27 2.23
593 853 8.415950 AGATTAGGTCGTCATCTGAAATCTAT 57.584 34.615 0.00 0.00 32.27 1.98
594 854 7.825331 AGATTAGGTCGTCATCTGAAATCTA 57.175 36.000 0.00 0.00 32.27 1.98
595 855 6.723298 AGATTAGGTCGTCATCTGAAATCT 57.277 37.500 0.00 0.00 0.00 2.40
596 856 8.138712 ACTTAGATTAGGTCGTCATCTGAAATC 58.861 37.037 0.46 0.00 0.00 2.17
597 857 8.012957 ACTTAGATTAGGTCGTCATCTGAAAT 57.987 34.615 0.46 0.00 0.00 2.17
598 858 7.406031 ACTTAGATTAGGTCGTCATCTGAAA 57.594 36.000 0.46 0.00 0.00 2.69
599 859 7.555195 TGTACTTAGATTAGGTCGTCATCTGAA 59.445 37.037 0.00 0.00 0.00 3.02
600 860 7.052248 TGTACTTAGATTAGGTCGTCATCTGA 58.948 38.462 0.00 0.00 0.00 3.27
601 861 7.260558 TGTACTTAGATTAGGTCGTCATCTG 57.739 40.000 0.00 0.00 0.00 2.90
602 862 6.016943 GCTGTACTTAGATTAGGTCGTCATCT 60.017 42.308 0.00 0.00 0.00 2.90
603 863 6.144175 GCTGTACTTAGATTAGGTCGTCATC 58.856 44.000 0.00 0.00 0.00 2.92
604 864 5.593095 TGCTGTACTTAGATTAGGTCGTCAT 59.407 40.000 0.00 0.00 0.00 3.06
605 865 4.945543 TGCTGTACTTAGATTAGGTCGTCA 59.054 41.667 0.00 0.00 0.00 4.35
606 866 5.496133 TGCTGTACTTAGATTAGGTCGTC 57.504 43.478 0.00 0.00 0.00 4.20
607 867 5.828859 AGATGCTGTACTTAGATTAGGTCGT 59.171 40.000 0.00 0.00 0.00 4.34
608 868 6.017026 TGAGATGCTGTACTTAGATTAGGTCG 60.017 42.308 0.00 0.00 0.00 4.79
609 869 7.013846 AGTGAGATGCTGTACTTAGATTAGGTC 59.986 40.741 0.00 0.00 0.00 3.85
610 870 6.836527 AGTGAGATGCTGTACTTAGATTAGGT 59.163 38.462 0.00 0.00 0.00 3.08
611 871 7.283625 AGTGAGATGCTGTACTTAGATTAGG 57.716 40.000 0.00 0.00 0.00 2.69
614 874 8.364142 GGATAAGTGAGATGCTGTACTTAGATT 58.636 37.037 0.00 0.00 38.55 2.40
615 875 7.728083 AGGATAAGTGAGATGCTGTACTTAGAT 59.272 37.037 0.00 0.00 38.55 1.98
616 876 7.063593 AGGATAAGTGAGATGCTGTACTTAGA 58.936 38.462 0.00 0.00 38.55 2.10
617 877 7.283625 AGGATAAGTGAGATGCTGTACTTAG 57.716 40.000 0.00 0.00 38.55 2.18
618 878 7.342026 TGAAGGATAAGTGAGATGCTGTACTTA 59.658 37.037 0.00 0.00 39.22 2.24
619 879 6.155221 TGAAGGATAAGTGAGATGCTGTACTT 59.845 38.462 0.00 0.00 37.21 2.24
620 880 5.658634 TGAAGGATAAGTGAGATGCTGTACT 59.341 40.000 0.00 0.00 0.00 2.73
621 881 5.907207 TGAAGGATAAGTGAGATGCTGTAC 58.093 41.667 0.00 0.00 0.00 2.90
622 882 6.155221 AGTTGAAGGATAAGTGAGATGCTGTA 59.845 38.462 0.00 0.00 0.00 2.74
623 883 5.046014 AGTTGAAGGATAAGTGAGATGCTGT 60.046 40.000 0.00 0.00 0.00 4.40
624 884 5.426504 AGTTGAAGGATAAGTGAGATGCTG 58.573 41.667 0.00 0.00 0.00 4.41
625 885 5.690464 AGTTGAAGGATAAGTGAGATGCT 57.310 39.130 0.00 0.00 0.00 3.79
626 886 6.749923 AAAGTTGAAGGATAAGTGAGATGC 57.250 37.500 0.00 0.00 0.00 3.91
627 887 9.219603 TGTAAAAGTTGAAGGATAAGTGAGATG 57.780 33.333 0.00 0.00 0.00 2.90
628 888 9.793259 TTGTAAAAGTTGAAGGATAAGTGAGAT 57.207 29.630 0.00 0.00 0.00 2.75
629 889 9.793259 ATTGTAAAAGTTGAAGGATAAGTGAGA 57.207 29.630 0.00 0.00 0.00 3.27
658 926 7.472334 AGAGCAAGGTGAATGTTATTCATTT 57.528 32.000 7.42 3.81 45.49 2.32
745 1026 3.109612 CTACACGGTCGGCCTCTCG 62.110 68.421 3.66 3.89 0.00 4.04
746 1027 2.045131 ACTACACGGTCGGCCTCTC 61.045 63.158 3.66 0.00 0.00 3.20
747 1028 2.035312 ACTACACGGTCGGCCTCT 59.965 61.111 3.66 0.00 0.00 3.69
752 1033 4.789075 CCGCCACTACACGGTCGG 62.789 72.222 0.00 0.00 44.46 4.79
807 1088 1.208293 CTTCAGCTCTGAACCCTACCC 59.792 57.143 8.14 0.00 43.90 3.69
869 1199 2.612115 CCTGGGTTGCCTCCTCCT 60.612 66.667 0.00 0.00 0.00 3.69
880 1210 1.153756 CTTTGAACTGGGCCTGGGT 59.846 57.895 15.36 0.91 0.00 4.51
921 1298 1.696336 AGGTTTTGCTCTGCTCTCTCA 59.304 47.619 0.00 0.00 0.00 3.27
1005 1419 2.188994 GCTCCTCTTGCGGCATCT 59.811 61.111 2.28 0.00 0.00 2.90
1091 1505 2.044946 GCGATTTGGGAGGCAGGT 60.045 61.111 0.00 0.00 0.00 4.00
1092 1506 1.379044 AAGCGATTTGGGAGGCAGG 60.379 57.895 0.00 0.00 0.00 4.85
1098 1512 1.449601 GCGGAGAAGCGATTTGGGA 60.450 57.895 0.00 0.00 0.00 4.37
1301 1748 1.406069 CCAGATGGTGAAAGTCGGAGG 60.406 57.143 0.00 0.00 0.00 4.30
1311 1758 2.673200 GCAGGCCTCCAGATGGTGA 61.673 63.158 0.00 0.00 36.34 4.02
1458 1917 4.778143 GTGGGGCTGTGCGGGTAG 62.778 72.222 0.00 0.00 0.00 3.18
1491 1950 2.097825 GGTGAGTACCGGTACATCAGT 58.902 52.381 38.79 22.82 37.19 3.41
1492 1951 2.865343 GGTGAGTACCGGTACATCAG 57.135 55.000 38.79 0.00 37.19 2.90
1504 1963 5.038651 TCATCATGCATCAATGGTGAGTA 57.961 39.130 15.31 0.00 41.64 2.59
1510 1969 3.383505 ACCAGTTCATCATGCATCAATGG 59.616 43.478 15.31 10.12 0.00 3.16
1546 2362 1.161563 TCAAACCTTCCGAACCGCAC 61.162 55.000 0.00 0.00 0.00 5.34
1554 2370 2.870411 AGAACTTTCGTCAAACCTTCCG 59.130 45.455 0.00 0.00 0.00 4.30
1559 2375 2.686405 ACCCAAGAACTTTCGTCAAACC 59.314 45.455 0.00 0.00 0.00 3.27
1632 2448 2.839486 TGTCAACCTGAAGTAGCCAG 57.161 50.000 0.00 0.00 0.00 4.85
1663 2479 1.560923 CGATGGAAAGTAGCGACCAG 58.439 55.000 0.00 0.00 35.84 4.00
1758 2574 1.398390 GGCGGAGAGTTTGCAACATAG 59.602 52.381 0.00 0.00 0.00 2.23
1767 2583 2.303022 TCAGATGAAAGGCGGAGAGTTT 59.697 45.455 0.00 0.00 0.00 2.66
1796 2612 4.958509 AGATAGAATCAGCACCTGACATG 58.041 43.478 0.00 0.00 43.63 3.21
1803 2619 2.634940 TGGGCTAGATAGAATCAGCACC 59.365 50.000 0.00 9.42 36.59 5.01
1812 2628 3.982516 ACTGACAGTTGGGCTAGATAGA 58.017 45.455 1.07 0.00 0.00 1.98
1813 2629 5.047660 GGATACTGACAGTTGGGCTAGATAG 60.048 48.000 14.50 0.00 0.00 2.08
1814 2630 4.833380 GGATACTGACAGTTGGGCTAGATA 59.167 45.833 14.50 0.00 0.00 1.98
1815 2631 3.643792 GGATACTGACAGTTGGGCTAGAT 59.356 47.826 14.50 0.00 0.00 1.98
1849 2669 2.095853 GTGGGCTGAATTCATACACACG 59.904 50.000 21.44 6.31 30.24 4.49
1864 2684 1.765314 CTAGCTGGTTCATAGTGGGCT 59.235 52.381 0.00 0.00 0.00 5.19
1876 2696 4.081406 TGCATCAAATGAAACTAGCTGGT 58.919 39.130 0.00 0.00 0.00 4.00
1968 2834 1.974875 CATGGCAGCCACTTCAGCA 60.975 57.895 19.10 0.00 35.80 4.41
1984 2850 5.005740 TGCAGTTTTAGCATCAAGACTCAT 58.994 37.500 0.00 0.00 37.02 2.90
2003 2869 6.701841 TCAGTTAAGTAAACAGAGACTTGCAG 59.298 38.462 0.00 0.00 40.83 4.41
2074 2973 9.534565 CATTTGCTAGTATTAAGAAGAGCACTA 57.465 33.333 6.67 0.77 39.51 2.74
2262 3173 6.198650 TGATACAACATGAAGGCAGAATTG 57.801 37.500 0.00 0.00 0.00 2.32
2319 3230 8.335532 TGATTCCTTAAAATGGTTACAGACAG 57.664 34.615 0.00 0.00 0.00 3.51
2321 3232 9.573133 CATTGATTCCTTAAAATGGTTACAGAC 57.427 33.333 0.00 0.00 0.00 3.51
2423 3337 0.391661 ACAACATAGCTCCGCCACTG 60.392 55.000 0.00 0.00 0.00 3.66
2424 3338 1.191535 TACAACATAGCTCCGCCACT 58.808 50.000 0.00 0.00 0.00 4.00
2425 3339 1.933853 CTTACAACATAGCTCCGCCAC 59.066 52.381 0.00 0.00 0.00 5.01
2426 3340 1.742411 GCTTACAACATAGCTCCGCCA 60.742 52.381 0.00 0.00 34.57 5.69
2427 3341 0.938008 GCTTACAACATAGCTCCGCC 59.062 55.000 0.00 0.00 34.57 6.13
2428 3342 1.941325 AGCTTACAACATAGCTCCGC 58.059 50.000 0.00 0.00 44.05 5.54
2429 3343 4.041740 TGTAGCTTACAACATAGCTCCG 57.958 45.455 0.00 0.00 44.05 4.63
2430 3344 4.372656 CCTGTAGCTTACAACATAGCTCC 58.627 47.826 0.00 0.00 44.05 4.70
2431 3345 4.372656 CCCTGTAGCTTACAACATAGCTC 58.627 47.826 0.00 0.00 44.05 4.09
2433 3347 3.467803 CCCCTGTAGCTTACAACATAGC 58.532 50.000 0.00 0.00 38.38 2.97
2434 3348 3.467803 GCCCCTGTAGCTTACAACATAG 58.532 50.000 0.00 0.00 38.38 2.23
2435 3349 2.171870 GGCCCCTGTAGCTTACAACATA 59.828 50.000 0.00 0.00 38.38 2.29
2436 3350 1.064685 GGCCCCTGTAGCTTACAACAT 60.065 52.381 0.00 0.00 38.38 2.71
2437 3351 0.326927 GGCCCCTGTAGCTTACAACA 59.673 55.000 0.00 0.00 38.38 3.33
2438 3352 0.326927 TGGCCCCTGTAGCTTACAAC 59.673 55.000 0.00 0.00 38.38 3.32
2439 3353 1.064758 CATGGCCCCTGTAGCTTACAA 60.065 52.381 0.00 0.00 38.38 2.41
2440 3354 0.546122 CATGGCCCCTGTAGCTTACA 59.454 55.000 0.00 0.00 37.13 2.41
2441 3355 0.819666 GCATGGCCCCTGTAGCTTAC 60.820 60.000 0.00 0.00 0.00 2.34
2442 3356 1.531748 GCATGGCCCCTGTAGCTTA 59.468 57.895 0.00 0.00 0.00 3.09
2443 3357 2.276740 GCATGGCCCCTGTAGCTT 59.723 61.111 0.00 0.00 0.00 3.74
2444 3358 3.813724 GGCATGGCCCCTGTAGCT 61.814 66.667 8.35 0.00 44.06 3.32
2462 3376 5.186797 TCACATATTTTACAAAAGCTGGGGG 59.813 40.000 0.00 0.00 0.00 5.40
2463 3377 6.279513 TCACATATTTTACAAAAGCTGGGG 57.720 37.500 0.00 0.00 0.00 4.96
2464 3378 6.813152 CCTTCACATATTTTACAAAAGCTGGG 59.187 38.462 0.00 0.00 0.00 4.45
2465 3379 7.601856 TCCTTCACATATTTTACAAAAGCTGG 58.398 34.615 0.00 0.00 0.00 4.85
2743 3657 1.980765 AGAAACTGAGCCTGACCATGA 59.019 47.619 0.00 0.00 0.00 3.07
2744 3658 2.486472 AGAAACTGAGCCTGACCATG 57.514 50.000 0.00 0.00 0.00 3.66
2745 3659 3.445008 TCTAGAAACTGAGCCTGACCAT 58.555 45.455 0.00 0.00 0.00 3.55
2746 3660 2.889512 TCTAGAAACTGAGCCTGACCA 58.110 47.619 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.