Multiple sequence alignment - TraesCS2B01G291600

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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 TraesCS2B01G291600 chr2B 100.000 2792 0 0 1 2792 405269086 405271877 0.000000e+00 5156.0
1 TraesCS2B01G291600 chr2B 96.703 182 5 1 2610 2790 64891774 64891593 4.520000e-78 302.0
2 TraesCS2B01G291600 chr2D 93.221 1844 96 17 365 2195 338664636 338666463 0.000000e+00 2686.0
3 TraesCS2B01G291600 chr2D 91.509 212 11 2 2364 2573 338666843 338667049 4.550000e-73 285.0
4 TraesCS2B01G291600 chr2D 93.976 166 8 2 171 336 338663181 338663344 1.660000e-62 250.0
5 TraesCS2B01G291600 chr2D 81.481 81 14 1 200 280 534434307 534434228 6.460000e-07 65.8
6 TraesCS2B01G291600 chr2A 93.028 1420 75 13 783 2195 448498146 448499548 0.000000e+00 2052.0
7 TraesCS2B01G291600 chr2A 89.738 458 30 12 10 460 448494694 448495141 1.120000e-158 569.0
8 TraesCS2B01G291600 chr2A 89.911 337 24 5 467 795 448497793 448498127 2.570000e-115 425.0
9 TraesCS2B01G291600 chr2A 92.558 215 14 1 2360 2572 448499924 448500138 9.710000e-80 307.0
10 TraesCS2B01G291600 chr2A 91.667 60 4 1 225 284 615291424 615291482 6.410000e-12 82.4
11 TraesCS2B01G291600 chr3D 93.769 995 44 4 1419 2410 153506992 153506013 0.000000e+00 1478.0
12 TraesCS2B01G291600 chr3D 94.480 471 22 3 950 1419 153507699 153507232 0.000000e+00 723.0
13 TraesCS2B01G291600 chr3D 97.727 132 1 1 2444 2573 153506018 153505887 2.800000e-55 226.0
14 TraesCS2B01G291600 chr3D 84.416 231 17 3 410 622 153508602 153508373 2.820000e-50 209.0
15 TraesCS2B01G291600 chr3D 89.744 78 7 1 875 951 153507859 153507782 6.360000e-17 99.0
16 TraesCS2B01G291600 chr3A 94.705 831 34 8 1419 2239 176148240 176149070 0.000000e+00 1282.0
17 TraesCS2B01G291600 chr3A 94.904 471 20 3 950 1419 176147534 176148001 0.000000e+00 734.0
18 TraesCS2B01G291600 chr3A 92.337 261 18 2 2152 2410 176149072 176149332 1.220000e-98 370.0
19 TraesCS2B01G291600 chr3A 85.714 287 15 4 411 679 176146345 176146623 2.120000e-71 279.0
20 TraesCS2B01G291600 chr3A 95.489 133 3 2 2444 2573 176149327 176149459 2.820000e-50 209.0
21 TraesCS2B01G291600 chr3A 89.744 78 7 1 875 951 176147407 176147484 6.360000e-17 99.0
22 TraesCS2B01G291600 chr3B 96.321 598 20 2 1422 2017 225173163 225172566 0.000000e+00 981.0
23 TraesCS2B01G291600 chr3B 93.631 471 23 5 950 1419 225173870 225173406 0.000000e+00 697.0
24 TraesCS2B01G291600 chr3B 92.029 138 3 3 2444 2573 225172385 225172248 1.320000e-43 187.0
25 TraesCS2B01G291600 chr3B 83.784 222 10 8 410 606 225174950 225174730 1.320000e-43 187.0
26 TraesCS2B01G291600 chr3B 88.462 78 8 1 875 951 225174041 225173964 2.960000e-15 93.5
27 TraesCS2B01G291600 chrUn 94.550 367 16 3 950 1315 480868200 480867837 5.220000e-157 564.0
28 TraesCS2B01G291600 chr4B 98.352 182 2 1 2610 2791 666696962 666696782 4.490000e-83 318.0
29 TraesCS2B01G291600 chr4B 97.814 183 3 1 2610 2791 666660338 666660156 5.810000e-82 315.0
30 TraesCS2B01G291600 chr6B 98.870 177 1 1 2610 2786 624228867 624228692 5.810000e-82 315.0
31 TraesCS2B01G291600 chr5B 96.721 183 5 1 2609 2790 45710161 45709979 1.260000e-78 303.0
32 TraesCS2B01G291600 chr5B 97.740 177 3 1 2610 2786 532890293 532890468 1.260000e-78 303.0
33 TraesCS2B01G291600 chr4A 96.721 183 5 1 2606 2788 669399254 669399073 1.260000e-78 303.0
34 TraesCS2B01G291600 chr7B 93.500 200 9 2 2597 2792 48250340 48250539 7.560000e-76 294.0
35 TraesCS2B01G291600 chr7B 92.195 205 12 4 2589 2789 25669159 25669363 1.270000e-73 287.0


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 TraesCS2B01G291600 chr2B 405269086 405271877 2791 False 5156.000000 5156 100.000000 1 2792 1 chr2B.!!$F1 2791
1 TraesCS2B01G291600 chr2D 338663181 338667049 3868 False 1073.666667 2686 92.902000 171 2573 3 chr2D.!!$F1 2402
2 TraesCS2B01G291600 chr2A 448494694 448500138 5444 False 838.250000 2052 91.308750 10 2572 4 chr2A.!!$F2 2562
3 TraesCS2B01G291600 chr3D 153505887 153508602 2715 True 547.000000 1478 92.027200 410 2573 5 chr3D.!!$R1 2163
4 TraesCS2B01G291600 chr3A 176146345 176149459 3114 False 495.500000 1282 92.148833 411 2573 6 chr3A.!!$F1 2162
5 TraesCS2B01G291600 chr3B 225172248 225174950 2702 True 429.100000 981 90.845400 410 2573 5 chr3B.!!$R1 2163

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
51 52 0.253044 ATGCTGTTATGTCGTGGCCT 59.747 50.0 3.32 0.0 0.0 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1804 6935 0.034574 ACTTGTCACTGCAACCCACA 60.035 50.0 0.0 0.0 0.0 4.17 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
22 23 1.339929 CTCGGGGAAAACAAAACAGGG 59.660 52.381 0.00 0.00 0.00 4.45
38 39 1.675641 GGGGCTTCAACGATGCTGT 60.676 57.895 0.00 0.00 33.95 4.40
45 46 3.782250 GCTTCAACGATGCTGTTATGTCG 60.782 47.826 0.00 0.00 39.78 4.35
47 48 2.666022 TCAACGATGCTGTTATGTCGTG 59.334 45.455 0.00 0.00 45.45 4.35
48 49 1.640428 ACGATGCTGTTATGTCGTGG 58.360 50.000 0.00 0.00 44.61 4.94
49 50 0.301687 CGATGCTGTTATGTCGTGGC 59.698 55.000 0.00 0.00 0.00 5.01
50 51 0.657840 GATGCTGTTATGTCGTGGCC 59.342 55.000 0.00 0.00 0.00 5.36
51 52 0.253044 ATGCTGTTATGTCGTGGCCT 59.747 50.000 3.32 0.00 0.00 5.19
69 74 2.686915 GCCTTGTGGGAGATCATTCTTG 59.313 50.000 0.00 0.00 37.23 3.02
70 75 2.686915 CCTTGTGGGAGATCATTCTTGC 59.313 50.000 0.00 0.00 37.23 4.01
73 78 0.811219 TGGGAGATCATTCTTGCGCG 60.811 55.000 0.00 0.00 30.30 6.86
79 84 4.172505 GAGATCATTCTTGCGCGATATCT 58.827 43.478 12.10 5.00 30.30 1.98
85 90 5.237127 TCATTCTTGCGCGATATCTGAAAAT 59.763 36.000 12.10 0.00 0.00 1.82
96 101 3.715628 ATCTGAAAATATTGTGGCGCC 57.284 42.857 22.73 22.73 0.00 6.53
106 111 2.102946 GTGGCGCCATAAGCTTGC 59.897 61.111 35.23 13.61 40.39 4.01
109 114 2.718107 GCGCCATAAGCTTGCTCC 59.282 61.111 9.86 0.00 40.39 4.70
110 115 3.017323 CGCCATAAGCTTGCTCCG 58.983 61.111 9.86 3.14 40.39 4.63
293 298 4.910195 ACATGACCTACAGATTGCTTGAA 58.090 39.130 0.00 0.00 0.00 2.69
470 4383 1.568504 AGGATTGCCAACGAGGTCTA 58.431 50.000 0.00 0.00 40.61 2.59
514 4428 0.744874 GACGATCCATTCCCTCGACA 59.255 55.000 0.00 0.00 36.32 4.35
684 4616 2.196997 TATTGCTGCCTCCCGTGCTT 62.197 55.000 0.00 0.00 0.00 3.91
717 5078 4.049186 CCCCGTACTGTATTTTGATCTCG 58.951 47.826 0.00 0.00 0.00 4.04
745 5106 9.388506 CTCAGTATCTCAAATGTCCAAAATACT 57.611 33.333 0.00 0.00 0.00 2.12
780 5141 5.184479 GGTTAATTCCCCTCACCAAAAGTAC 59.816 44.000 0.00 0.00 0.00 2.73
788 5149 6.445786 TCCCCTCACCAAAAGTACTAACATAT 59.554 38.462 0.00 0.00 0.00 1.78
850 5242 4.859798 CGTTGACTCTCCAGCTTAGTAAAG 59.140 45.833 0.00 0.00 35.68 1.85
855 5248 7.120051 TGACTCTCCAGCTTAGTAAAGTAGAT 58.880 38.462 0.00 0.00 34.99 1.98
882 5437 6.440436 ACGTAATGTAAAAACCAATCACCAC 58.560 36.000 0.00 0.00 0.00 4.16
895 5450 1.522668 TCACCACGGAATGCAGAAAG 58.477 50.000 0.00 0.00 0.00 2.62
1081 5732 3.367498 GGTCTACACTAGCTCAACAGGTG 60.367 52.174 0.00 0.00 0.00 4.00
1121 5772 1.063174 GGCAATCTGTGACATCGAAGC 59.937 52.381 0.00 0.00 34.13 3.86
1131 5782 6.091305 TCTGTGACATCGAAGCTTAGAATTTG 59.909 38.462 13.49 9.81 0.00 2.32
1154 5805 7.969536 TGTATCTTCTTCCTTTTCTGAACAG 57.030 36.000 0.00 0.00 0.00 3.16
1381 6033 1.354031 TGGCCTTGAACCAGATTAGCA 59.646 47.619 3.32 0.00 32.06 3.49
1457 6586 8.839343 TCTGCTTTAATCATACCATACATTGTG 58.161 33.333 0.00 0.00 0.00 3.33
1527 6658 6.367422 GGAAAATTATCTCATACTGCTCTCCG 59.633 42.308 0.00 0.00 0.00 4.63
1535 6666 3.630769 TCATACTGCTCTCCGACGTTTAT 59.369 43.478 0.00 0.00 0.00 1.40
1539 6670 4.194640 ACTGCTCTCCGACGTTTATACTA 58.805 43.478 0.00 0.00 0.00 1.82
1674 6805 2.275380 GGAAGGCCATGTGCGGTTT 61.275 57.895 5.01 0.00 42.61 3.27
1755 6886 0.535553 TCCACCCTGTTTACGCCAAC 60.536 55.000 0.00 0.00 0.00 3.77
1804 6935 4.039245 AGCTACTGTAGTGTTGATGTGTGT 59.961 41.667 15.71 0.00 0.00 3.72
1980 7111 7.392953 TGTCATTTTAAGTATCCATTCTGCACA 59.607 33.333 0.00 0.00 0.00 4.57
2146 7286 1.224075 CCATATGAACAGCTCGCCAG 58.776 55.000 3.65 0.00 0.00 4.85
2196 7426 0.250727 GGTGCTACCCACTGCTGAAA 60.251 55.000 0.00 0.00 44.08 2.69
2217 7448 7.195646 TGAAATTCAAGTGATTGTCTGTGTTC 58.804 34.615 0.00 0.00 0.00 3.18
2268 7499 2.773993 ACGGTATGGGTTGTTGTAGG 57.226 50.000 0.00 0.00 0.00 3.18
2355 7734 3.186409 GTCGCTGCTGTAATGTTTTCTGA 59.814 43.478 0.00 0.00 0.00 3.27
2412 7879 2.951642 CTGCTTTTCTGGTGTTTCTGGA 59.048 45.455 0.00 0.00 0.00 3.86
2421 7888 5.935945 TCTGGTGTTTCTGGATGTAGAAAA 58.064 37.500 2.83 0.00 45.33 2.29
2464 7931 2.370281 TTCTAACGCTCAGCAAGAGG 57.630 50.000 0.00 1.95 44.86 3.69
2597 8072 6.671614 TGTCTTAACACAAAGTTGTACAGG 57.328 37.500 0.00 0.00 41.50 4.00
2598 8073 6.174760 TGTCTTAACACAAAGTTGTACAGGT 58.825 36.000 0.00 0.00 41.50 4.00
2599 8074 7.329499 TGTCTTAACACAAAGTTGTACAGGTA 58.671 34.615 0.00 0.00 41.50 3.08
2600 8075 7.278424 TGTCTTAACACAAAGTTGTACAGGTAC 59.722 37.037 2.66 2.66 41.50 3.34
2601 8076 7.493645 GTCTTAACACAAAGTTGTACAGGTACT 59.506 37.037 10.62 0.00 41.50 2.73
2602 8077 8.694540 TCTTAACACAAAGTTGTACAGGTACTA 58.305 33.333 10.62 0.72 41.50 1.82
2603 8078 9.316730 CTTAACACAAAGTTGTACAGGTACTAA 57.683 33.333 10.62 1.85 41.50 2.24
2604 8079 7.543947 AACACAAAGTTGTACAGGTACTAAC 57.456 36.000 10.62 11.87 39.91 2.34
2605 8080 6.881570 ACACAAAGTTGTACAGGTACTAACT 58.118 36.000 10.62 13.48 39.91 2.24
2606 8081 7.333323 ACACAAAGTTGTACAGGTACTAACTT 58.667 34.615 21.18 21.18 42.28 2.66
2607 8082 7.825761 ACACAAAGTTGTACAGGTACTAACTTT 59.174 33.333 25.91 25.91 45.14 2.66
2608 8083 9.316730 CACAAAGTTGTACAGGTACTAACTTTA 57.683 33.333 28.02 6.21 44.14 1.85
2609 8084 9.317936 ACAAAGTTGTACAGGTACTAACTTTAC 57.682 33.333 28.02 12.79 44.14 2.01
2610 8085 8.482429 CAAAGTTGTACAGGTACTAACTTTACG 58.518 37.037 28.02 21.09 44.14 3.18
2611 8086 6.681777 AGTTGTACAGGTACTAACTTTACGG 58.318 40.000 10.62 0.00 36.02 4.02
2612 8087 5.059404 TGTACAGGTACTAACTTTACGGC 57.941 43.478 10.62 0.00 36.02 5.68
2613 8088 4.522405 TGTACAGGTACTAACTTTACGGCA 59.478 41.667 10.62 0.00 36.02 5.69
2614 8089 4.605640 ACAGGTACTAACTTTACGGCAA 57.394 40.909 0.00 0.00 36.02 4.52
2615 8090 5.156608 ACAGGTACTAACTTTACGGCAAT 57.843 39.130 0.00 0.00 36.02 3.56
2616 8091 4.933400 ACAGGTACTAACTTTACGGCAATG 59.067 41.667 0.00 0.00 36.02 2.82
2617 8092 3.937079 AGGTACTAACTTTACGGCAATGC 59.063 43.478 0.00 0.00 36.02 3.56
2618 8093 3.937079 GGTACTAACTTTACGGCAATGCT 59.063 43.478 4.82 0.00 0.00 3.79
2619 8094 5.105228 AGGTACTAACTTTACGGCAATGCTA 60.105 40.000 4.82 0.00 36.02 3.49
2620 8095 5.006068 GGTACTAACTTTACGGCAATGCTAC 59.994 44.000 4.82 0.00 0.00 3.58
2621 8096 4.571919 ACTAACTTTACGGCAATGCTACA 58.428 39.130 4.82 0.00 0.00 2.74
2622 8097 3.824414 AACTTTACGGCAATGCTACAC 57.176 42.857 4.82 0.00 0.00 2.90
2623 8098 1.730064 ACTTTACGGCAATGCTACACG 59.270 47.619 4.82 2.29 0.00 4.49
2624 8099 1.730064 CTTTACGGCAATGCTACACGT 59.270 47.619 4.82 8.83 41.10 4.49
2625 8100 2.651135 TTACGGCAATGCTACACGTA 57.349 45.000 4.82 7.76 38.79 3.57
2626 8101 1.912001 TACGGCAATGCTACACGTAC 58.088 50.000 4.82 0.00 38.79 3.67
2627 8102 0.038067 ACGGCAATGCTACACGTACA 60.038 50.000 4.82 0.00 35.85 2.90
2628 8103 1.072391 CGGCAATGCTACACGTACAA 58.928 50.000 4.82 0.00 0.00 2.41
2629 8104 1.461512 CGGCAATGCTACACGTACAAA 59.538 47.619 4.82 0.00 0.00 2.83
2630 8105 2.723618 CGGCAATGCTACACGTACAAAC 60.724 50.000 4.82 0.00 0.00 2.93
2647 8122 7.771219 GTACAAACGATTTACAGGCTTTTAC 57.229 36.000 0.00 0.00 0.00 2.01
2648 8123 6.380095 ACAAACGATTTACAGGCTTTTACA 57.620 33.333 0.00 0.00 0.00 2.41
2649 8124 6.435428 ACAAACGATTTACAGGCTTTTACAG 58.565 36.000 0.00 0.00 0.00 2.74
2650 8125 5.622770 AACGATTTACAGGCTTTTACAGG 57.377 39.130 0.00 0.00 0.00 4.00
2651 8126 4.901868 ACGATTTACAGGCTTTTACAGGA 58.098 39.130 0.00 0.00 0.00 3.86
2652 8127 5.497474 ACGATTTACAGGCTTTTACAGGAT 58.503 37.500 0.00 0.00 0.00 3.24
2653 8128 5.354234 ACGATTTACAGGCTTTTACAGGATG 59.646 40.000 0.00 0.00 46.00 3.51
2654 8129 5.220854 CGATTTACAGGCTTTTACAGGATGG 60.221 44.000 0.00 0.00 43.62 3.51
2655 8130 4.650972 TTACAGGCTTTTACAGGATGGT 57.349 40.909 0.00 0.00 43.62 3.55
2656 8131 3.525800 ACAGGCTTTTACAGGATGGTT 57.474 42.857 0.00 0.00 43.62 3.67
2657 8132 4.650972 ACAGGCTTTTACAGGATGGTTA 57.349 40.909 0.00 0.00 43.62 2.85
2658 8133 4.993028 ACAGGCTTTTACAGGATGGTTAA 58.007 39.130 0.00 0.00 43.62 2.01
2659 8134 4.765339 ACAGGCTTTTACAGGATGGTTAAC 59.235 41.667 0.00 0.00 43.62 2.01
2660 8135 4.157840 CAGGCTTTTACAGGATGGTTAACC 59.842 45.833 18.27 18.27 43.62 2.85
2661 8136 4.044191 AGGCTTTTACAGGATGGTTAACCT 59.956 41.667 24.78 10.91 43.62 3.50
2662 8137 4.770531 GGCTTTTACAGGATGGTTAACCTT 59.229 41.667 24.78 18.87 43.62 3.50
2663 8138 5.336451 GGCTTTTACAGGATGGTTAACCTTG 60.336 44.000 24.78 18.27 43.62 3.61
2664 8139 5.475564 GCTTTTACAGGATGGTTAACCTTGA 59.524 40.000 24.78 5.89 43.62 3.02
2665 8140 6.152831 GCTTTTACAGGATGGTTAACCTTGAT 59.847 38.462 24.78 10.77 43.62 2.57
2666 8141 7.309805 GCTTTTACAGGATGGTTAACCTTGATT 60.310 37.037 24.78 8.08 43.62 2.57
2667 8142 7.461182 TTTACAGGATGGTTAACCTTGATTG 57.539 36.000 24.78 17.36 43.62 2.67
2668 8143 4.344104 ACAGGATGGTTAACCTTGATTGG 58.656 43.478 24.78 11.00 43.62 3.16
2669 8144 4.202673 ACAGGATGGTTAACCTTGATTGGT 60.203 41.667 24.78 11.57 43.62 3.67
2670 8145 4.399303 CAGGATGGTTAACCTTGATTGGTC 59.601 45.833 24.78 9.78 39.83 4.02
2671 8146 4.044065 AGGATGGTTAACCTTGATTGGTCA 59.956 41.667 24.78 1.27 39.83 4.02
2672 8147 4.770010 GGATGGTTAACCTTGATTGGTCAA 59.230 41.667 24.78 0.73 41.89 3.18
2673 8148 5.422012 GGATGGTTAACCTTGATTGGTCAAT 59.578 40.000 24.78 5.84 43.08 2.57
2674 8149 6.605594 GGATGGTTAACCTTGATTGGTCAATA 59.394 38.462 24.78 0.07 43.08 1.90
2675 8150 7.201821 GGATGGTTAACCTTGATTGGTCAATAG 60.202 40.741 24.78 0.00 43.08 1.73
2676 8151 5.949354 TGGTTAACCTTGATTGGTCAATAGG 59.051 40.000 24.78 9.71 43.08 2.57
2677 8152 5.949952 GGTTAACCTTGATTGGTCAATAGGT 59.050 40.000 17.83 10.70 43.99 3.08
2678 8153 6.127730 GGTTAACCTTGATTGGTCAATAGGTG 60.128 42.308 17.83 1.88 42.22 4.00
2679 8154 4.927267 ACCTTGATTGGTCAATAGGTGA 57.073 40.909 14.14 0.00 41.74 4.02
2680 8155 4.848357 ACCTTGATTGGTCAATAGGTGAG 58.152 43.478 14.14 2.65 41.74 3.51
2686 8161 3.086733 GTCAATAGGTGAGCAGGGC 57.913 57.895 0.00 0.00 36.74 5.19
2687 8162 0.811616 GTCAATAGGTGAGCAGGGCG 60.812 60.000 0.00 0.00 36.74 6.13
2688 8163 1.524621 CAATAGGTGAGCAGGGCGG 60.525 63.158 0.00 0.00 0.00 6.13
2689 8164 3.406595 AATAGGTGAGCAGGGCGGC 62.407 63.158 0.00 0.00 0.00 6.53
2703 8178 4.293671 CGGCCCACCCCCTGAAAA 62.294 66.667 0.00 0.00 0.00 2.29
2704 8179 2.449777 GGCCCACCCCCTGAAAAT 59.550 61.111 0.00 0.00 0.00 1.82
2705 8180 1.685765 GGCCCACCCCCTGAAAATC 60.686 63.158 0.00 0.00 0.00 2.17
2706 8181 1.078347 GCCCACCCCCTGAAAATCA 59.922 57.895 0.00 0.00 0.00 2.57
2707 8182 0.972471 GCCCACCCCCTGAAAATCAG 60.972 60.000 0.32 0.32 43.91 2.90
2728 8203 1.839424 GGGGGAGAGGTTTGTGATTG 58.161 55.000 0.00 0.00 0.00 2.67
2729 8204 1.616994 GGGGGAGAGGTTTGTGATTGG 60.617 57.143 0.00 0.00 0.00 3.16
2730 8205 1.075536 GGGGAGAGGTTTGTGATTGGT 59.924 52.381 0.00 0.00 0.00 3.67
2731 8206 2.490902 GGGGAGAGGTTTGTGATTGGTT 60.491 50.000 0.00 0.00 0.00 3.67
2732 8207 2.558359 GGGAGAGGTTTGTGATTGGTTG 59.442 50.000 0.00 0.00 0.00 3.77
2733 8208 3.222603 GGAGAGGTTTGTGATTGGTTGT 58.777 45.455 0.00 0.00 0.00 3.32
2734 8209 3.636764 GGAGAGGTTTGTGATTGGTTGTT 59.363 43.478 0.00 0.00 0.00 2.83
2735 8210 4.825085 GGAGAGGTTTGTGATTGGTTGTTA 59.175 41.667 0.00 0.00 0.00 2.41
2736 8211 5.048713 GGAGAGGTTTGTGATTGGTTGTTAG 60.049 44.000 0.00 0.00 0.00 2.34
2737 8212 5.690865 AGAGGTTTGTGATTGGTTGTTAGA 58.309 37.500 0.00 0.00 0.00 2.10
2738 8213 6.306987 AGAGGTTTGTGATTGGTTGTTAGAT 58.693 36.000 0.00 0.00 0.00 1.98
2739 8214 6.207417 AGAGGTTTGTGATTGGTTGTTAGATG 59.793 38.462 0.00 0.00 0.00 2.90
2740 8215 5.243730 AGGTTTGTGATTGGTTGTTAGATGG 59.756 40.000 0.00 0.00 0.00 3.51
2741 8216 5.242838 GGTTTGTGATTGGTTGTTAGATGGA 59.757 40.000 0.00 0.00 0.00 3.41
2742 8217 6.239176 GGTTTGTGATTGGTTGTTAGATGGAA 60.239 38.462 0.00 0.00 0.00 3.53
2743 8218 6.968263 TTGTGATTGGTTGTTAGATGGAAA 57.032 33.333 0.00 0.00 0.00 3.13
2744 8219 6.573664 TGTGATTGGTTGTTAGATGGAAAG 57.426 37.500 0.00 0.00 0.00 2.62
2745 8220 6.303054 TGTGATTGGTTGTTAGATGGAAAGA 58.697 36.000 0.00 0.00 0.00 2.52
2746 8221 6.430925 TGTGATTGGTTGTTAGATGGAAAGAG 59.569 38.462 0.00 0.00 0.00 2.85
2747 8222 5.415701 TGATTGGTTGTTAGATGGAAAGAGC 59.584 40.000 0.00 0.00 0.00 4.09
2748 8223 3.334691 TGGTTGTTAGATGGAAAGAGCG 58.665 45.455 0.00 0.00 0.00 5.03
2749 8224 3.244422 TGGTTGTTAGATGGAAAGAGCGT 60.244 43.478 0.00 0.00 0.00 5.07
2750 8225 3.125316 GGTTGTTAGATGGAAAGAGCGTG 59.875 47.826 0.00 0.00 0.00 5.34
2751 8226 3.678056 TGTTAGATGGAAAGAGCGTGT 57.322 42.857 0.00 0.00 0.00 4.49
2752 8227 4.794278 TGTTAGATGGAAAGAGCGTGTA 57.206 40.909 0.00 0.00 0.00 2.90
2753 8228 5.142061 TGTTAGATGGAAAGAGCGTGTAA 57.858 39.130 0.00 0.00 0.00 2.41
2754 8229 5.543714 TGTTAGATGGAAAGAGCGTGTAAA 58.456 37.500 0.00 0.00 0.00 2.01
2755 8230 5.992829 TGTTAGATGGAAAGAGCGTGTAAAA 59.007 36.000 0.00 0.00 0.00 1.52
2756 8231 6.147164 TGTTAGATGGAAAGAGCGTGTAAAAG 59.853 38.462 0.00 0.00 0.00 2.27
2757 8232 3.437049 AGATGGAAAGAGCGTGTAAAAGC 59.563 43.478 0.00 0.00 0.00 3.51
2758 8233 1.529438 TGGAAAGAGCGTGTAAAAGCG 59.471 47.619 0.00 0.00 38.61 4.68
2759 8234 1.529865 GGAAAGAGCGTGTAAAAGCGT 59.470 47.619 0.00 0.00 38.61 5.07
2760 8235 2.560896 GAAAGAGCGTGTAAAAGCGTG 58.439 47.619 0.00 0.00 38.61 5.34
2761 8236 1.578583 AAGAGCGTGTAAAAGCGTGT 58.421 45.000 0.00 0.00 38.61 4.49
2762 8237 2.427232 AGAGCGTGTAAAAGCGTGTA 57.573 45.000 0.00 0.00 38.61 2.90
2763 8238 2.746269 AGAGCGTGTAAAAGCGTGTAA 58.254 42.857 0.00 0.00 38.61 2.41
2764 8239 2.729882 AGAGCGTGTAAAAGCGTGTAAG 59.270 45.455 0.00 0.00 38.61 2.34
2765 8240 2.473984 GAGCGTGTAAAAGCGTGTAAGT 59.526 45.455 0.00 0.00 38.61 2.24
2766 8241 2.473984 AGCGTGTAAAAGCGTGTAAGTC 59.526 45.455 0.00 0.00 38.61 3.01
2767 8242 2.473984 GCGTGTAAAAGCGTGTAAGTCT 59.526 45.455 0.00 0.00 0.00 3.24
2768 8243 3.060070 GCGTGTAAAAGCGTGTAAGTCTT 60.060 43.478 0.00 0.00 0.00 3.01
2769 8244 4.551410 GCGTGTAAAAGCGTGTAAGTCTTT 60.551 41.667 0.00 0.00 0.00 2.52
2770 8245 4.896238 CGTGTAAAAGCGTGTAAGTCTTTG 59.104 41.667 0.00 0.00 31.21 2.77
2771 8246 5.501252 CGTGTAAAAGCGTGTAAGTCTTTGT 60.501 40.000 0.00 0.00 31.21 2.83
2772 8247 6.291743 CGTGTAAAAGCGTGTAAGTCTTTGTA 60.292 38.462 0.00 0.00 31.21 2.41
2773 8248 7.568134 CGTGTAAAAGCGTGTAAGTCTTTGTAT 60.568 37.037 0.00 0.00 31.21 2.29
2774 8249 7.529519 GTGTAAAAGCGTGTAAGTCTTTGTATG 59.470 37.037 0.00 0.00 31.21 2.39
2775 8250 6.613755 AAAAGCGTGTAAGTCTTTGTATGT 57.386 33.333 0.00 0.00 31.21 2.29
2776 8251 5.840940 AAGCGTGTAAGTCTTTGTATGTC 57.159 39.130 0.00 0.00 0.00 3.06
2777 8252 5.135508 AGCGTGTAAGTCTTTGTATGTCT 57.864 39.130 0.00 0.00 0.00 3.41
2778 8253 6.263516 AGCGTGTAAGTCTTTGTATGTCTA 57.736 37.500 0.00 0.00 0.00 2.59
2779 8254 6.323266 AGCGTGTAAGTCTTTGTATGTCTAG 58.677 40.000 0.00 0.00 0.00 2.43
2780 8255 5.004535 GCGTGTAAGTCTTTGTATGTCTAGC 59.995 44.000 0.00 0.00 0.00 3.42
2781 8256 6.090783 CGTGTAAGTCTTTGTATGTCTAGCA 58.909 40.000 0.00 0.00 0.00 3.49
2782 8257 6.752351 CGTGTAAGTCTTTGTATGTCTAGCAT 59.248 38.462 0.00 5.25 41.42 3.79
2783 8258 7.275779 CGTGTAAGTCTTTGTATGTCTAGCATT 59.724 37.037 5.22 0.00 38.94 3.56
2784 8259 8.936864 GTGTAAGTCTTTGTATGTCTAGCATTT 58.063 33.333 5.22 0.00 38.94 2.32
2785 8260 9.502091 TGTAAGTCTTTGTATGTCTAGCATTTT 57.498 29.630 5.22 0.00 38.94 1.82
2788 8263 7.308435 AGTCTTTGTATGTCTAGCATTTTTGC 58.692 34.615 5.22 0.00 38.94 3.68
2790 8265 8.450964 GTCTTTGTATGTCTAGCATTTTTGCTA 58.549 33.333 7.41 7.41 44.28 3.49
2791 8266 9.008965 TCTTTGTATGTCTAGCATTTTTGCTAA 57.991 29.630 8.83 0.00 45.46 3.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.034179 CCTGTTTTGTTTTCCCCGAGAC 59.966 50.000 0.00 0.00 0.00 3.36
1 2 2.303175 CCTGTTTTGTTTTCCCCGAGA 58.697 47.619 0.00 0.00 0.00 4.04
2 3 1.339929 CCCTGTTTTGTTTTCCCCGAG 59.660 52.381 0.00 0.00 0.00 4.63
3 4 1.404843 CCCTGTTTTGTTTTCCCCGA 58.595 50.000 0.00 0.00 0.00 5.14
4 5 0.391228 CCCCTGTTTTGTTTTCCCCG 59.609 55.000 0.00 0.00 0.00 5.73
5 6 0.107831 GCCCCTGTTTTGTTTTCCCC 59.892 55.000 0.00 0.00 0.00 4.81
6 7 1.128200 AGCCCCTGTTTTGTTTTCCC 58.872 50.000 0.00 0.00 0.00 3.97
7 8 2.169561 TGAAGCCCCTGTTTTGTTTTCC 59.830 45.455 0.00 0.00 0.00 3.13
8 9 3.535280 TGAAGCCCCTGTTTTGTTTTC 57.465 42.857 0.00 0.00 0.00 2.29
13 14 1.028905 TCGTTGAAGCCCCTGTTTTG 58.971 50.000 0.00 0.00 0.00 2.44
17 18 1.675641 GCATCGTTGAAGCCCCTGT 60.676 57.895 0.00 0.00 0.00 4.00
22 23 2.420022 ACATAACAGCATCGTTGAAGCC 59.580 45.455 0.00 0.00 0.00 4.35
38 39 0.322098 CCCACAAGGCCACGACATAA 60.322 55.000 5.01 0.00 0.00 1.90
45 46 0.257039 ATGATCTCCCACAAGGCCAC 59.743 55.000 5.01 0.00 34.51 5.01
47 48 1.213926 AGAATGATCTCCCACAAGGCC 59.786 52.381 0.00 0.00 34.51 5.19
48 49 2.686915 CAAGAATGATCTCCCACAAGGC 59.313 50.000 0.00 0.00 33.77 4.35
49 50 2.686915 GCAAGAATGATCTCCCACAAGG 59.313 50.000 0.00 0.00 33.77 3.61
50 51 2.353889 CGCAAGAATGATCTCCCACAAG 59.646 50.000 0.00 0.00 43.02 3.16
51 52 2.358957 CGCAAGAATGATCTCCCACAA 58.641 47.619 0.00 0.00 43.02 3.33
69 74 5.082059 CCACAATATTTTCAGATATCGCGC 58.918 41.667 0.00 0.00 0.00 6.86
70 75 5.082059 GCCACAATATTTTCAGATATCGCG 58.918 41.667 0.00 0.00 0.00 5.87
73 78 5.048782 TGGCGCCACAATATTTTCAGATATC 60.049 40.000 29.03 0.00 0.00 1.63
79 84 4.736168 GCTTATGGCGCCACAATATTTTCA 60.736 41.667 35.50 3.63 0.00 2.69
120 125 8.798975 TCTGTATAAAAGATAGAACCCTGGAT 57.201 34.615 0.00 0.00 0.00 3.41
121 126 8.065627 TCTCTGTATAAAAGATAGAACCCTGGA 58.934 37.037 0.00 0.00 0.00 3.86
122 127 8.251383 TCTCTGTATAAAAGATAGAACCCTGG 57.749 38.462 0.00 0.00 0.00 4.45
313 318 7.753132 GCGTAATATGTTGGAACATTTCAAGAA 59.247 33.333 10.18 0.00 46.95 2.52
323 328 5.954434 TCGTAAGCGTAATATGTTGGAAC 57.046 39.130 0.00 0.00 39.49 3.62
470 4383 2.041686 GTGGAGCGAGACGAGGACT 61.042 63.158 0.00 0.00 0.00 3.85
717 5078 7.672983 TTTTGGACATTTGAGATACTGAGAC 57.327 36.000 0.00 0.00 0.00 3.36
745 5106 6.069705 AGGGGAATTAACCGAACAGAAATA 57.930 37.500 0.00 0.00 0.00 1.40
763 5124 3.975312 TGTTAGTACTTTTGGTGAGGGGA 59.025 43.478 0.00 0.00 0.00 4.81
788 5149 4.383118 GGCCTTCACTAAGCTATGTTCTGA 60.383 45.833 0.00 0.00 0.00 3.27
799 5191 3.486383 TGTCCAAAAGGCCTTCACTAAG 58.514 45.455 20.79 5.04 0.00 2.18
806 5198 3.368323 CGCATAAATGTCCAAAAGGCCTT 60.368 43.478 13.78 13.78 0.00 4.35
826 5218 1.067495 ACTAAGCTGGAGAGTCAACGC 60.067 52.381 2.97 0.00 0.00 4.84
827 5219 4.436242 TTACTAAGCTGGAGAGTCAACG 57.564 45.455 2.97 0.00 0.00 4.10
855 5248 7.140048 GGTGATTGGTTTTTACATTACGTTGA 58.860 34.615 0.00 0.00 0.00 3.18
873 5428 1.452110 TCTGCATTCCGTGGTGATTG 58.548 50.000 0.00 0.00 0.00 2.67
882 5437 0.449388 GTGCCTCTTTCTGCATTCCG 59.551 55.000 0.00 0.00 40.07 4.30
895 5450 5.954296 ATTATACTCATGCATTGTGCCTC 57.046 39.130 0.00 0.00 44.23 4.70
1099 5750 3.785486 CTTCGATGTCACAGATTGCCTA 58.215 45.455 0.00 0.00 0.00 3.93
1100 5751 2.625737 CTTCGATGTCACAGATTGCCT 58.374 47.619 0.00 0.00 0.00 4.75
1101 5752 1.063174 GCTTCGATGTCACAGATTGCC 59.937 52.381 0.00 0.00 0.00 4.52
1105 5756 4.991153 TCTAAGCTTCGATGTCACAGAT 57.009 40.909 0.00 0.00 0.00 2.90
1131 5782 6.937465 ACCTGTTCAGAAAAGGAAGAAGATAC 59.063 38.462 24.56 0.00 34.97 2.24
1154 5805 5.594317 ACATACAAAATAAGATCAGGCCACC 59.406 40.000 5.01 0.00 0.00 4.61
1457 6586 0.721718 GCACAGCGACTACCAATGTC 59.278 55.000 0.00 0.00 0.00 3.06
1501 6631 6.652900 GGAGAGCAGTATGAGATAATTTTCCC 59.347 42.308 0.00 0.00 39.69 3.97
1674 6805 1.134699 CCAGTCAGCTTATTCCGCTCA 60.135 52.381 0.00 0.00 35.07 4.26
1755 6886 3.730761 GCTGCAGTGGCTGAACCG 61.731 66.667 16.64 0.00 43.94 4.44
1804 6935 0.034574 ACTTGTCACTGCAACCCACA 60.035 50.000 0.00 0.00 0.00 4.17
2018 7150 1.810755 TCAGAGAAAAGCAGCAGCATG 59.189 47.619 3.17 0.00 45.49 4.06
2183 7413 2.624838 CACTTGAATTTCAGCAGTGGGT 59.375 45.455 17.78 2.38 33.69 4.51
2187 7417 5.533903 AGACAATCACTTGAATTTCAGCAGT 59.466 36.000 0.00 0.00 36.20 4.40
2196 7426 6.064846 GTGAACACAGACAATCACTTGAAT 57.935 37.500 0.00 0.00 39.21 2.57
2217 7448 1.195448 GGACACATTCAGAACGCAGTG 59.805 52.381 0.00 0.00 45.00 3.66
2268 7499 4.632538 ACACTAGCAAACAAGGTTTCAC 57.367 40.909 0.00 0.00 0.00 3.18
2288 7665 9.545105 AAGAAGTATCATGATGATCTGAGAAAC 57.455 33.333 18.72 2.76 38.26 2.78
2318 7696 1.009389 GCGACGCAGAAAGCTACTGT 61.009 55.000 16.42 3.97 42.61 3.55
2338 7717 8.565896 ACATTCTATCAGAAAACATTACAGCA 57.434 30.769 0.00 0.00 37.82 4.41
2380 7847 5.385198 ACCAGAAAAGCAGGTGAAATAGAA 58.615 37.500 0.00 0.00 34.71 2.10
2421 7888 4.939439 ACGAACTGTCTTAACACAACCTTT 59.061 37.500 0.00 0.00 0.00 3.11
2423 7890 4.133013 ACGAACTGTCTTAACACAACCT 57.867 40.909 0.00 0.00 0.00 3.50
2464 7931 5.612709 GCTCTGATAAATTTCCGCGTACATC 60.613 44.000 4.92 0.00 0.00 3.06
2574 8049 6.174760 ACCTGTACAACTTTGTGTTAAGACA 58.825 36.000 0.45 0.45 42.31 3.41
2575 8050 6.673154 ACCTGTACAACTTTGTGTTAAGAC 57.327 37.500 4.82 0.00 42.31 3.01
2576 8051 7.558604 AGTACCTGTACAACTTTGTGTTAAGA 58.441 34.615 9.90 0.00 42.31 2.10
2577 8052 7.781548 AGTACCTGTACAACTTTGTGTTAAG 57.218 36.000 9.90 0.00 42.31 1.85
2578 8053 9.097257 GTTAGTACCTGTACAACTTTGTGTTAA 57.903 33.333 9.90 0.00 42.31 2.01
2579 8054 8.477256 AGTTAGTACCTGTACAACTTTGTGTTA 58.523 33.333 9.90 0.00 42.31 2.41
2580 8055 7.333323 AGTTAGTACCTGTACAACTTTGTGTT 58.667 34.615 9.90 0.00 42.31 3.32
2581 8056 6.881570 AGTTAGTACCTGTACAACTTTGTGT 58.118 36.000 9.90 0.00 42.31 3.72
2582 8057 7.781548 AAGTTAGTACCTGTACAACTTTGTG 57.218 36.000 20.15 0.00 40.33 3.33
2583 8058 9.317936 GTAAAGTTAGTACCTGTACAACTTTGT 57.682 33.333 30.44 21.16 44.68 2.83
2584 8059 8.482429 CGTAAAGTTAGTACCTGTACAACTTTG 58.518 37.037 30.44 22.11 44.68 2.77
2585 8060 7.653311 CCGTAAAGTTAGTACCTGTACAACTTT 59.347 37.037 28.53 28.53 45.50 2.66
2586 8061 7.147976 CCGTAAAGTTAGTACCTGTACAACTT 58.852 38.462 20.15 20.15 42.28 2.66
2587 8062 6.681777 CCGTAAAGTTAGTACCTGTACAACT 58.318 40.000 9.90 12.50 38.15 3.16
2588 8063 5.346011 GCCGTAAAGTTAGTACCTGTACAAC 59.654 44.000 9.90 10.84 38.48 3.32
2589 8064 5.010516 TGCCGTAAAGTTAGTACCTGTACAA 59.989 40.000 9.90 0.49 38.48 2.41
2590 8065 4.522405 TGCCGTAAAGTTAGTACCTGTACA 59.478 41.667 9.90 0.00 38.48 2.90
2591 8066 5.059404 TGCCGTAAAGTTAGTACCTGTAC 57.941 43.478 0.00 0.00 36.35 2.90
2592 8067 5.720371 TTGCCGTAAAGTTAGTACCTGTA 57.280 39.130 0.00 0.00 0.00 2.74
2593 8068 4.605640 TTGCCGTAAAGTTAGTACCTGT 57.394 40.909 0.00 0.00 0.00 4.00
2594 8069 4.201783 GCATTGCCGTAAAGTTAGTACCTG 60.202 45.833 0.00 0.00 0.00 4.00
2595 8070 3.937079 GCATTGCCGTAAAGTTAGTACCT 59.063 43.478 0.00 0.00 0.00 3.08
2596 8071 3.937079 AGCATTGCCGTAAAGTTAGTACC 59.063 43.478 4.70 0.00 0.00 3.34
2597 8072 5.577945 TGTAGCATTGCCGTAAAGTTAGTAC 59.422 40.000 4.70 0.00 0.00 2.73
2598 8073 5.577945 GTGTAGCATTGCCGTAAAGTTAGTA 59.422 40.000 4.70 0.00 0.00 1.82
2599 8074 4.390909 GTGTAGCATTGCCGTAAAGTTAGT 59.609 41.667 4.70 0.00 0.00 2.24
2600 8075 4.491924 CGTGTAGCATTGCCGTAAAGTTAG 60.492 45.833 4.70 0.00 0.00 2.34
2601 8076 3.368539 CGTGTAGCATTGCCGTAAAGTTA 59.631 43.478 4.70 0.00 0.00 2.24
2602 8077 2.158841 CGTGTAGCATTGCCGTAAAGTT 59.841 45.455 4.70 0.00 0.00 2.66
2603 8078 1.730064 CGTGTAGCATTGCCGTAAAGT 59.270 47.619 4.70 0.00 0.00 2.66
2604 8079 1.730064 ACGTGTAGCATTGCCGTAAAG 59.270 47.619 4.70 0.00 0.00 1.85
2605 8080 1.798283 ACGTGTAGCATTGCCGTAAA 58.202 45.000 4.70 0.00 0.00 2.01
2606 8081 2.261345 GTACGTGTAGCATTGCCGTAA 58.739 47.619 15.97 2.87 35.98 3.18
2607 8082 1.201880 TGTACGTGTAGCATTGCCGTA 59.798 47.619 11.99 11.99 33.32 4.02
2608 8083 0.038067 TGTACGTGTAGCATTGCCGT 60.038 50.000 13.66 13.66 35.68 5.68
2609 8084 1.072391 TTGTACGTGTAGCATTGCCG 58.928 50.000 4.70 4.23 0.00 5.69
2610 8085 2.723618 CGTTTGTACGTGTAGCATTGCC 60.724 50.000 4.70 0.00 42.72 4.52
2611 8086 2.492001 CGTTTGTACGTGTAGCATTGC 58.508 47.619 0.00 0.00 42.72 3.56
2623 8098 7.354257 TGTAAAAGCCTGTAAATCGTTTGTAC 58.646 34.615 0.00 0.00 0.00 2.90
2624 8099 7.308109 CCTGTAAAAGCCTGTAAATCGTTTGTA 60.308 37.037 0.00 0.00 0.00 2.41
2625 8100 6.380095 TGTAAAAGCCTGTAAATCGTTTGT 57.620 33.333 0.00 0.00 0.00 2.83
2626 8101 5.856455 CCTGTAAAAGCCTGTAAATCGTTTG 59.144 40.000 0.00 0.00 0.00 2.93
2627 8102 5.766174 TCCTGTAAAAGCCTGTAAATCGTTT 59.234 36.000 0.00 0.00 0.00 3.60
2628 8103 5.310451 TCCTGTAAAAGCCTGTAAATCGTT 58.690 37.500 0.00 0.00 0.00 3.85
2629 8104 4.901868 TCCTGTAAAAGCCTGTAAATCGT 58.098 39.130 0.00 0.00 0.00 3.73
2630 8105 5.220854 CCATCCTGTAAAAGCCTGTAAATCG 60.221 44.000 0.00 0.00 0.00 3.34
2631 8106 5.652452 ACCATCCTGTAAAAGCCTGTAAATC 59.348 40.000 0.00 0.00 0.00 2.17
2632 8107 5.580022 ACCATCCTGTAAAAGCCTGTAAAT 58.420 37.500 0.00 0.00 0.00 1.40
2633 8108 4.993028 ACCATCCTGTAAAAGCCTGTAAA 58.007 39.130 0.00 0.00 0.00 2.01
2634 8109 4.650972 ACCATCCTGTAAAAGCCTGTAA 57.349 40.909 0.00 0.00 0.00 2.41
2635 8110 4.650972 AACCATCCTGTAAAAGCCTGTA 57.349 40.909 0.00 0.00 0.00 2.74
2636 8111 3.525800 AACCATCCTGTAAAAGCCTGT 57.474 42.857 0.00 0.00 0.00 4.00
2637 8112 4.157840 GGTTAACCATCCTGTAAAAGCCTG 59.842 45.833 20.12 0.00 35.64 4.85
2638 8113 4.044191 AGGTTAACCATCCTGTAAAAGCCT 59.956 41.667 26.26 0.00 38.89 4.58
2639 8114 4.341487 AGGTTAACCATCCTGTAAAAGCC 58.659 43.478 26.26 0.00 38.89 4.35
2640 8115 5.475564 TCAAGGTTAACCATCCTGTAAAAGC 59.524 40.000 26.26 0.00 38.89 3.51
2641 8116 7.703058 ATCAAGGTTAACCATCCTGTAAAAG 57.297 36.000 26.26 0.00 38.89 2.27
2642 8117 7.039363 CCAATCAAGGTTAACCATCCTGTAAAA 60.039 37.037 26.26 3.19 38.89 1.52
2643 8118 6.435904 CCAATCAAGGTTAACCATCCTGTAAA 59.564 38.462 26.26 3.51 38.89 2.01
2644 8119 5.949354 CCAATCAAGGTTAACCATCCTGTAA 59.051 40.000 26.26 3.53 38.89 2.41
2645 8120 5.014755 ACCAATCAAGGTTAACCATCCTGTA 59.985 40.000 26.26 5.02 39.34 2.74
2646 8121 4.202673 ACCAATCAAGGTTAACCATCCTGT 60.203 41.667 26.26 11.13 39.34 4.00
2647 8122 4.344104 ACCAATCAAGGTTAACCATCCTG 58.656 43.478 26.26 16.38 39.34 3.86
2648 8123 4.044065 TGACCAATCAAGGTTAACCATCCT 59.956 41.667 26.26 2.59 43.38 3.24
2649 8124 4.340617 TGACCAATCAAGGTTAACCATCC 58.659 43.478 26.26 0.00 43.38 3.51
2650 8125 5.975693 TTGACCAATCAAGGTTAACCATC 57.024 39.130 26.26 10.34 43.38 3.51
2662 8137 3.370846 CCTGCTCACCTATTGACCAATCA 60.371 47.826 0.00 0.00 32.50 2.57
2663 8138 3.209410 CCTGCTCACCTATTGACCAATC 58.791 50.000 0.00 0.00 32.50 2.67
2664 8139 2.092212 CCCTGCTCACCTATTGACCAAT 60.092 50.000 0.64 0.64 34.93 3.16
2665 8140 1.281867 CCCTGCTCACCTATTGACCAA 59.718 52.381 0.00 0.00 0.00 3.67
2666 8141 0.911769 CCCTGCTCACCTATTGACCA 59.088 55.000 0.00 0.00 0.00 4.02
2667 8142 0.464554 GCCCTGCTCACCTATTGACC 60.465 60.000 0.00 0.00 0.00 4.02
2668 8143 0.811616 CGCCCTGCTCACCTATTGAC 60.812 60.000 0.00 0.00 0.00 3.18
2669 8144 1.522092 CGCCCTGCTCACCTATTGA 59.478 57.895 0.00 0.00 0.00 2.57
2670 8145 1.524621 CCGCCCTGCTCACCTATTG 60.525 63.158 0.00 0.00 0.00 1.90
2671 8146 2.911143 CCGCCCTGCTCACCTATT 59.089 61.111 0.00 0.00 0.00 1.73
2672 8147 3.866582 GCCGCCCTGCTCACCTAT 61.867 66.667 0.00 0.00 0.00 2.57
2686 8161 3.600410 ATTTTCAGGGGGTGGGCCG 62.600 63.158 0.00 0.00 34.97 6.13
2687 8162 1.685765 GATTTTCAGGGGGTGGGCC 60.686 63.158 0.00 0.00 0.00 5.80
2688 8163 0.972471 CTGATTTTCAGGGGGTGGGC 60.972 60.000 0.00 0.00 40.71 5.36
2689 8164 3.288099 CTGATTTTCAGGGGGTGGG 57.712 57.895 0.00 0.00 40.71 4.61
2709 8184 1.616994 CCAATCACAAACCTCTCCCCC 60.617 57.143 0.00 0.00 0.00 5.40
2710 8185 1.075536 ACCAATCACAAACCTCTCCCC 59.924 52.381 0.00 0.00 0.00 4.81
2711 8186 2.558359 CAACCAATCACAAACCTCTCCC 59.442 50.000 0.00 0.00 0.00 4.30
2712 8187 3.222603 ACAACCAATCACAAACCTCTCC 58.777 45.455 0.00 0.00 0.00 3.71
2713 8188 4.918810 AACAACCAATCACAAACCTCTC 57.081 40.909 0.00 0.00 0.00 3.20
2714 8189 5.690865 TCTAACAACCAATCACAAACCTCT 58.309 37.500 0.00 0.00 0.00 3.69
2715 8190 6.381801 CATCTAACAACCAATCACAAACCTC 58.618 40.000 0.00 0.00 0.00 3.85
2716 8191 5.243730 CCATCTAACAACCAATCACAAACCT 59.756 40.000 0.00 0.00 0.00 3.50
2717 8192 5.242838 TCCATCTAACAACCAATCACAAACC 59.757 40.000 0.00 0.00 0.00 3.27
2718 8193 6.325919 TCCATCTAACAACCAATCACAAAC 57.674 37.500 0.00 0.00 0.00 2.93
2719 8194 6.968263 TTCCATCTAACAACCAATCACAAA 57.032 33.333 0.00 0.00 0.00 2.83
2720 8195 6.775142 TCTTTCCATCTAACAACCAATCACAA 59.225 34.615 0.00 0.00 0.00 3.33
2721 8196 6.303054 TCTTTCCATCTAACAACCAATCACA 58.697 36.000 0.00 0.00 0.00 3.58
2722 8197 6.623767 GCTCTTTCCATCTAACAACCAATCAC 60.624 42.308 0.00 0.00 0.00 3.06
2723 8198 5.415701 GCTCTTTCCATCTAACAACCAATCA 59.584 40.000 0.00 0.00 0.00 2.57
2724 8199 5.447818 CGCTCTTTCCATCTAACAACCAATC 60.448 44.000 0.00 0.00 0.00 2.67
2725 8200 4.396166 CGCTCTTTCCATCTAACAACCAAT 59.604 41.667 0.00 0.00 0.00 3.16
2726 8201 3.751175 CGCTCTTTCCATCTAACAACCAA 59.249 43.478 0.00 0.00 0.00 3.67
2727 8202 3.244422 ACGCTCTTTCCATCTAACAACCA 60.244 43.478 0.00 0.00 0.00 3.67
2728 8203 3.125316 CACGCTCTTTCCATCTAACAACC 59.875 47.826 0.00 0.00 0.00 3.77
2729 8204 3.746492 ACACGCTCTTTCCATCTAACAAC 59.254 43.478 0.00 0.00 0.00 3.32
2730 8205 4.002906 ACACGCTCTTTCCATCTAACAA 57.997 40.909 0.00 0.00 0.00 2.83
2731 8206 3.678056 ACACGCTCTTTCCATCTAACA 57.322 42.857 0.00 0.00 0.00 2.41
2732 8207 6.476243 TTTTACACGCTCTTTCCATCTAAC 57.524 37.500 0.00 0.00 0.00 2.34
2733 8208 5.121768 GCTTTTACACGCTCTTTCCATCTAA 59.878 40.000 0.00 0.00 0.00 2.10
2734 8209 4.630069 GCTTTTACACGCTCTTTCCATCTA 59.370 41.667 0.00 0.00 0.00 1.98
2735 8210 3.437049 GCTTTTACACGCTCTTTCCATCT 59.563 43.478 0.00 0.00 0.00 2.90
2736 8211 3.725010 CGCTTTTACACGCTCTTTCCATC 60.725 47.826 0.00 0.00 0.00 3.51
2737 8212 2.159627 CGCTTTTACACGCTCTTTCCAT 59.840 45.455 0.00 0.00 0.00 3.41
2738 8213 1.529438 CGCTTTTACACGCTCTTTCCA 59.471 47.619 0.00 0.00 0.00 3.53
2739 8214 1.529865 ACGCTTTTACACGCTCTTTCC 59.470 47.619 0.00 0.00 0.00 3.13
2740 8215 2.033151 ACACGCTTTTACACGCTCTTTC 60.033 45.455 0.00 0.00 0.00 2.62
2741 8216 1.937899 ACACGCTTTTACACGCTCTTT 59.062 42.857 0.00 0.00 0.00 2.52
2742 8217 1.578583 ACACGCTTTTACACGCTCTT 58.421 45.000 0.00 0.00 0.00 2.85
2743 8218 2.427232 TACACGCTTTTACACGCTCT 57.573 45.000 0.00 0.00 0.00 4.09
2744 8219 2.473984 ACTTACACGCTTTTACACGCTC 59.526 45.455 0.00 0.00 0.00 5.03
2745 8220 2.473984 GACTTACACGCTTTTACACGCT 59.526 45.455 0.00 0.00 0.00 5.07
2746 8221 2.473984 AGACTTACACGCTTTTACACGC 59.526 45.455 0.00 0.00 0.00 5.34
2747 8222 4.703899 AAGACTTACACGCTTTTACACG 57.296 40.909 0.00 0.00 0.00 4.49
2748 8223 5.803118 ACAAAGACTTACACGCTTTTACAC 58.197 37.500 0.00 0.00 30.00 2.90
2749 8224 7.225145 ACATACAAAGACTTACACGCTTTTACA 59.775 33.333 0.00 0.00 30.00 2.41
2750 8225 7.570161 ACATACAAAGACTTACACGCTTTTAC 58.430 34.615 0.00 0.00 30.00 2.01
2751 8226 7.654520 AGACATACAAAGACTTACACGCTTTTA 59.345 33.333 0.00 0.00 30.00 1.52
2752 8227 6.482308 AGACATACAAAGACTTACACGCTTTT 59.518 34.615 0.00 0.00 30.00 2.27
2753 8228 5.989777 AGACATACAAAGACTTACACGCTTT 59.010 36.000 0.00 0.00 32.46 3.51
2754 8229 5.539048 AGACATACAAAGACTTACACGCTT 58.461 37.500 0.00 0.00 0.00 4.68
2755 8230 5.135508 AGACATACAAAGACTTACACGCT 57.864 39.130 0.00 0.00 0.00 5.07
2756 8231 5.004535 GCTAGACATACAAAGACTTACACGC 59.995 44.000 0.00 0.00 0.00 5.34
2757 8232 6.090783 TGCTAGACATACAAAGACTTACACG 58.909 40.000 0.00 0.00 0.00 4.49
2758 8233 8.480643 AATGCTAGACATACAAAGACTTACAC 57.519 34.615 0.00 0.00 38.34 2.90
2759 8234 9.502091 AAAATGCTAGACATACAAAGACTTACA 57.498 29.630 0.00 0.00 38.34 2.41
2762 8237 7.809806 GCAAAAATGCTAGACATACAAAGACTT 59.190 33.333 0.00 0.00 38.34 3.01
2763 8238 7.175641 AGCAAAAATGCTAGACATACAAAGACT 59.824 33.333 0.67 0.00 44.28 3.24
2764 8239 7.308435 AGCAAAAATGCTAGACATACAAAGAC 58.692 34.615 0.67 0.00 44.28 3.01
2765 8240 7.452880 AGCAAAAATGCTAGACATACAAAGA 57.547 32.000 0.67 0.00 44.28 2.52


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

AutoCloner maintained by Alex Coulton.