Multiple sequence alignment - TraesCS1B01G426600

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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 TraesCS1B01G426600 chr1B 100.000 2593 0 0 662 3254 652467377 652469969 0.000000e+00 4789
1 TraesCS1B01G426600 chr1B 81.676 1790 235 46 780 2547 652518417 652520135 0.000000e+00 1402
2 TraesCS1B01G426600 chr1B 100.000 403 0 0 1 403 652466716 652467118 0.000000e+00 745
3 TraesCS1B01G426600 chr1B 84.791 743 107 6 990 1729 652569941 652570680 0.000000e+00 741
4 TraesCS1B01G426600 chr1B 81.876 789 131 9 965 1742 652459706 652460493 0.000000e+00 654
5 TraesCS1B01G426600 chr1B 77.373 632 117 19 1825 2444 652565428 652566045 5.170000e-93 351
6 TraesCS1B01G426600 chr1B 78.000 550 99 19 1825 2363 652633932 652634470 3.130000e-85 326
7 TraesCS1B01G426600 chr1B 77.820 523 100 10 1825 2336 653237756 653237239 3.150000e-80 309
8 TraesCS1B01G426600 chr1B 96.899 129 4 0 2619 2747 611613863 611613991 1.970000e-52 217
9 TraesCS1B01G426600 chr1A 93.800 1871 90 6 691 2554 563695071 563696922 0.000000e+00 2789
10 TraesCS1B01G426600 chr1A 82.327 1590 217 37 759 2331 563769460 563771002 0.000000e+00 1321
11 TraesCS1B01G426600 chr1A 82.510 789 124 13 964 1742 563690239 563691023 0.000000e+00 680
12 TraesCS1B01G426600 chr1A 82.420 785 129 9 964 1742 563765408 563766189 0.000000e+00 676
13 TraesCS1B01G426600 chr1A 81.865 783 136 5 965 1742 563686686 563687467 0.000000e+00 654
14 TraesCS1B01G426600 chr1A 91.184 397 22 9 2744 3130 563697082 563697475 8.000000e-146 527
15 TraesCS1B01G426600 chr1A 92.537 134 9 1 77 209 563694706 563694839 1.190000e-44 191
16 TraesCS1B01G426600 chr1A 97.500 80 2 0 1 80 563692911 563692990 1.570000e-28 137
17 TraesCS1B01G426600 chr1D 93.099 1594 95 12 691 2279 470084445 470086028 0.000000e+00 2320
18 TraesCS1B01G426600 chr1D 82.841 1795 266 27 769 2547 470180309 470182077 0.000000e+00 1570
19 TraesCS1B01G426600 chr1D 83.156 1407 194 22 885 2279 470135164 470136539 0.000000e+00 1245
20 TraesCS1B01G426600 chr1D 82.038 785 132 8 964 1742 470124138 470124919 0.000000e+00 660
21 TraesCS1B01G426600 chr1D 91.972 436 22 6 2819 3251 470086411 470086836 1.670000e-167 599
22 TraesCS1B01G426600 chr1D 90.301 299 26 3 1 296 470083976 470084274 3.940000e-104 388
23 TraesCS1B01G426600 chr1D 78.161 522 99 10 1825 2336 470524552 470524036 5.240000e-83 318
24 TraesCS1B01G426600 chr1D 75.516 727 132 28 1816 2532 470081866 470082556 6.780000e-82 315
25 TraesCS1B01G426600 chr1D 91.441 222 13 4 2328 2548 470086023 470086239 1.900000e-77 300
26 TraesCS1B01G426600 chr1D 96.899 129 4 0 2619 2747 271188165 271188037 1.970000e-52 217
27 TraesCS1B01G426600 chr7B 97.674 129 3 0 2619 2747 41806634 41806506 4.230000e-54 222
28 TraesCS1B01G426600 chr7B 96.241 133 5 0 2615 2747 639017343 639017475 5.470000e-53 219
29 TraesCS1B01G426600 chr3B 97.674 129 3 0 2619 2747 506791274 506791402 4.230000e-54 222
30 TraesCS1B01G426600 chr5D 95.556 135 6 0 2616 2750 394968355 394968489 1.970000e-52 217
31 TraesCS1B01G426600 chr4B 96.899 129 4 0 2619 2747 200628541 200628669 1.970000e-52 217
32 TraesCS1B01G426600 chr4B 96.899 129 4 0 2619 2747 418728307 418728179 1.970000e-52 217
33 TraesCS1B01G426600 chr2A 93.617 141 8 1 2609 2749 695163737 695163598 3.290000e-50 209


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 TraesCS1B01G426600 chr1B 652466716 652469969 3253 False 2767.000000 4789 100.000000 1 3254 2 chr1B.!!$F5 3253
1 TraesCS1B01G426600 chr1B 652518417 652520135 1718 False 1402.000000 1402 81.676000 780 2547 1 chr1B.!!$F3 1767
2 TraesCS1B01G426600 chr1B 652459706 652460493 787 False 654.000000 654 81.876000 965 1742 1 chr1B.!!$F2 777
3 TraesCS1B01G426600 chr1B 652565428 652570680 5252 False 546.000000 741 81.082000 990 2444 2 chr1B.!!$F6 1454
4 TraesCS1B01G426600 chr1B 652633932 652634470 538 False 326.000000 326 78.000000 1825 2363 1 chr1B.!!$F4 538
5 TraesCS1B01G426600 chr1B 653237239 653237756 517 True 309.000000 309 77.820000 1825 2336 1 chr1B.!!$R1 511
6 TraesCS1B01G426600 chr1A 563765408 563771002 5594 False 998.500000 1321 82.373500 759 2331 2 chr1A.!!$F2 1572
7 TraesCS1B01G426600 chr1A 563686686 563697475 10789 False 829.666667 2789 89.899333 1 3130 6 chr1A.!!$F1 3129
8 TraesCS1B01G426600 chr1D 470180309 470182077 1768 False 1570.000000 1570 82.841000 769 2547 1 chr1D.!!$F3 1778
9 TraesCS1B01G426600 chr1D 470135164 470136539 1375 False 1245.000000 1245 83.156000 885 2279 1 chr1D.!!$F2 1394
10 TraesCS1B01G426600 chr1D 470081866 470086836 4970 False 784.400000 2320 88.465800 1 3251 5 chr1D.!!$F4 3250
11 TraesCS1B01G426600 chr1D 470124138 470124919 781 False 660.000000 660 82.038000 964 1742 1 chr1D.!!$F1 778
12 TraesCS1B01G426600 chr1D 470524036 470524552 516 True 318.000000 318 78.161000 1825 2336 1 chr1D.!!$R2 511

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
393 3155 0.104304 CCTGGGCTGTACGTATCCAC 59.896 60.0 0.00 0.0 0.00 4.02 F
686 3448 0.173935 TACGTATCCACTTGGCACGG 59.826 55.0 19.86 0.0 43.19 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2046 11687 0.101759 GTAAGCCATACCGAGACGCA 59.898 55.0 0.0 0.0 0.0 5.24 R
2413 12070 0.907704 TCACGGCTTGTATGGGACCT 60.908 55.0 0.0 0.0 0.0 3.85 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
32 2084 9.758651 GTGTAACCCATTATTCTTTTTGAAACT 57.241 29.630 0.00 0.00 38.29 2.66
36 2088 8.485578 ACCCATTATTCTTTTTGAAACTACCA 57.514 30.769 0.00 0.00 38.29 3.25
37 2089 8.929487 ACCCATTATTCTTTTTGAAACTACCAA 58.071 29.630 0.00 0.00 38.29 3.67
42 2094 7.770801 ATTCTTTTTGAAACTACCAAGTTGC 57.229 32.000 0.00 0.00 45.37 4.17
88 2816 9.871238 ACATATTTCGTAGACTAACACTTCAAT 57.129 29.630 0.00 0.00 34.32 2.57
148 2879 8.672823 ACCTAAATATTTTTCCATAGACCGTC 57.327 34.615 5.91 0.00 0.00 4.79
149 2880 8.269317 ACCTAAATATTTTTCCATAGACCGTCA 58.731 33.333 5.91 0.00 0.00 4.35
163 2894 5.599999 AGACCGTCAGCATATTAGAAACT 57.400 39.130 0.40 0.00 0.00 2.66
164 2895 5.352284 AGACCGTCAGCATATTAGAAACTG 58.648 41.667 0.40 0.00 0.00 3.16
165 2896 5.086104 ACCGTCAGCATATTAGAAACTGT 57.914 39.130 0.00 0.00 0.00 3.55
166 2897 5.488341 ACCGTCAGCATATTAGAAACTGTT 58.512 37.500 0.00 0.00 0.00 3.16
170 2901 8.116753 CCGTCAGCATATTAGAAACTGTTTTAG 58.883 37.037 7.28 0.00 0.00 1.85
173 2904 9.905713 TCAGCATATTAGAAACTGTTTTAGGAT 57.094 29.630 7.28 3.14 0.00 3.24
201 2934 5.273674 TGAACATTTTCTTTCACATGCCA 57.726 34.783 0.00 0.00 32.36 4.92
203 2936 5.754406 TGAACATTTTCTTTCACATGCCAAG 59.246 36.000 0.00 0.00 32.36 3.61
204 2937 4.060205 ACATTTTCTTTCACATGCCAAGC 58.940 39.130 0.00 0.00 0.00 4.01
205 2938 3.815856 TTTTCTTTCACATGCCAAGCA 57.184 38.095 0.00 0.00 44.86 3.91
218 2951 4.613925 TGCCAAGCATTTGTTCCAATTA 57.386 36.364 0.00 0.00 31.71 1.40
219 2952 4.965814 TGCCAAGCATTTGTTCCAATTAA 58.034 34.783 0.00 0.00 31.71 1.40
222 2955 6.149142 TGCCAAGCATTTGTTCCAATTAATTC 59.851 34.615 0.00 0.00 31.71 2.17
223 2956 6.149142 GCCAAGCATTTGTTCCAATTAATTCA 59.851 34.615 0.00 0.00 32.21 2.57
250 2983 6.990341 AAATATGCTTTTTGAATTGGCCTC 57.010 33.333 3.32 0.00 0.00 4.70
251 2984 2.837532 TGCTTTTTGAATTGGCCTCC 57.162 45.000 3.32 0.00 0.00 4.30
255 2988 4.074259 GCTTTTTGAATTGGCCTCCATTT 58.926 39.130 3.32 0.00 31.53 2.32
257 2990 5.563280 GCTTTTTGAATTGGCCTCCATTTTG 60.563 40.000 3.32 0.00 31.53 2.44
258 2991 4.970860 TTTGAATTGGCCTCCATTTTGA 57.029 36.364 3.32 0.00 31.53 2.69
261 2994 3.264947 GAATTGGCCTCCATTTTGAAGC 58.735 45.455 3.32 0.00 31.53 3.86
262 2995 2.014010 TTGGCCTCCATTTTGAAGCT 57.986 45.000 3.32 0.00 31.53 3.74
265 2998 2.224992 TGGCCTCCATTTTGAAGCTACA 60.225 45.455 3.32 0.00 0.00 2.74
266 2999 3.026694 GGCCTCCATTTTGAAGCTACAT 58.973 45.455 0.00 0.00 0.00 2.29
271 3021 3.119531 TCCATTTTGAAGCTACATTGCCG 60.120 43.478 0.00 0.00 0.00 5.69
283 3033 1.944024 ACATTGCCGACTGAAAACGAA 59.056 42.857 0.00 0.00 0.00 3.85
284 3034 2.032030 ACATTGCCGACTGAAAACGAAG 60.032 45.455 0.00 0.00 0.00 3.79
341 3091 8.716646 ACCTCTTTTTATTTTGTTTTCCAGTG 57.283 30.769 0.00 0.00 0.00 3.66
342 3092 8.536175 ACCTCTTTTTATTTTGTTTTCCAGTGA 58.464 29.630 0.00 0.00 0.00 3.41
343 3093 9.034544 CCTCTTTTTATTTTGTTTTCCAGTGAG 57.965 33.333 0.00 0.00 0.00 3.51
344 3094 8.419076 TCTTTTTATTTTGTTTTCCAGTGAGC 57.581 30.769 0.00 0.00 0.00 4.26
345 3095 6.820470 TTTTATTTTGTTTTCCAGTGAGCG 57.180 33.333 0.00 0.00 0.00 5.03
346 3096 2.861462 TTTTGTTTTCCAGTGAGCGG 57.139 45.000 0.00 0.00 0.00 5.52
349 3111 1.896660 GTTTTCCAGTGAGCGGGCA 60.897 57.895 0.00 0.00 0.00 5.36
352 3114 2.410322 TTTCCAGTGAGCGGGCATGT 62.410 55.000 0.00 0.00 0.00 3.21
385 3147 4.426313 GGTGGGCCTGGGCTGTAC 62.426 72.222 20.47 15.49 41.60 2.90
386 3148 4.778143 GTGGGCCTGGGCTGTACG 62.778 72.222 20.47 0.00 41.60 3.67
388 3150 3.078836 GGGCCTGGGCTGTACGTA 61.079 66.667 20.47 0.00 41.60 3.57
389 3151 2.440817 GGGCCTGGGCTGTACGTAT 61.441 63.158 20.47 0.00 41.60 3.06
391 3153 1.069258 GCCTGGGCTGTACGTATCC 59.931 63.158 0.00 0.61 38.26 2.59
392 3154 1.682451 GCCTGGGCTGTACGTATCCA 61.682 60.000 0.00 4.32 38.26 3.41
393 3155 0.104304 CCTGGGCTGTACGTATCCAC 59.896 60.000 0.00 0.00 0.00 4.02
680 3442 2.961526 AGGCTGTACGTATCCACTTG 57.038 50.000 0.00 0.00 0.00 3.16
681 3443 1.480954 AGGCTGTACGTATCCACTTGG 59.519 52.381 0.00 0.00 0.00 3.61
682 3444 1.287425 GCTGTACGTATCCACTTGGC 58.713 55.000 0.00 0.00 34.44 4.52
683 3445 1.404986 GCTGTACGTATCCACTTGGCA 60.405 52.381 0.00 0.00 34.44 4.92
685 3447 1.274596 GTACGTATCCACTTGGCACG 58.725 55.000 16.27 16.27 43.92 5.34
686 3448 0.173935 TACGTATCCACTTGGCACGG 59.826 55.000 19.86 0.00 43.19 4.94
687 3449 2.461110 CGTATCCACTTGGCACGGC 61.461 63.158 12.10 0.00 38.69 5.68
704 3466 2.765969 CCCCAGCCACATTCCACT 59.234 61.111 0.00 0.00 0.00 4.00
716 3478 3.688185 CACATTCCACTCACTCCATTCTG 59.312 47.826 0.00 0.00 0.00 3.02
724 3486 1.376424 ACTCCATTCTGCACGCCAG 60.376 57.895 0.00 0.00 43.17 4.85
726 3488 4.170062 CCATTCTGCACGCCAGCG 62.170 66.667 11.05 11.05 41.50 5.18
728 3490 3.121030 ATTCTGCACGCCAGCGAC 61.121 61.111 20.32 10.74 41.50 5.19
821 10430 2.492090 CGCCACTCCTTCTCCTCG 59.508 66.667 0.00 0.00 0.00 4.63
833 10442 3.343788 CTCCTCGCGAGCGTTCCTT 62.344 63.158 30.49 0.00 40.74 3.36
839 10448 1.517475 GCGAGCGTTCCTTCTCTCC 60.517 63.158 0.00 0.00 0.00 3.71
840 10449 1.139947 CGAGCGTTCCTTCTCTCCC 59.860 63.158 0.00 0.00 0.00 4.30
841 10450 1.518302 GAGCGTTCCTTCTCTCCCC 59.482 63.158 0.00 0.00 0.00 4.81
842 10451 0.973496 GAGCGTTCCTTCTCTCCCCT 60.973 60.000 0.00 0.00 0.00 4.79
843 10452 0.545548 AGCGTTCCTTCTCTCCCCTT 60.546 55.000 0.00 0.00 0.00 3.95
844 10453 0.391793 GCGTTCCTTCTCTCCCCTTG 60.392 60.000 0.00 0.00 0.00 3.61
856 10469 2.430610 CCCCTTGCTCTCTCTCGGG 61.431 68.421 0.00 0.00 0.00 5.14
982 10600 2.481568 TCTTCGCTGATGCTGTTTCTTG 59.518 45.455 0.00 0.00 36.97 3.02
1017 10639 1.376543 CGATGGCAGCAGAGAACAAT 58.623 50.000 2.73 0.00 0.00 2.71
1027 10649 0.976641 AGAGAACAATCGGCACTGGA 59.023 50.000 0.00 0.00 0.00 3.86
1163 10794 2.350514 AGCCAGGCAGAAGCTGAC 59.649 61.111 15.80 0.00 40.37 3.51
1393 11025 1.675310 CGGCCTCCAAATGCAGTCA 60.675 57.895 0.00 0.00 0.00 3.41
1488 11123 3.881688 AGGAGCTGCACATAATTAAGCTG 59.118 43.478 12.26 10.49 44.00 4.24
2017 11658 2.162681 GGGATGACCAGGTTCTGTTTG 58.837 52.381 0.00 0.00 39.85 2.93
2046 11687 2.121385 TGCTCCAGGGCTCTGTCT 59.879 61.111 13.79 0.00 39.31 3.41
2139 11780 2.983402 TCTACGACAAGGAGAACACG 57.017 50.000 0.00 0.00 36.73 4.49
2214 11855 4.634703 TCCTGGAAGCGCCGCAAA 62.635 61.111 13.36 0.00 40.66 3.68
2264 11905 1.815003 CCAGGACTGAATTGAAGGTGC 59.185 52.381 0.00 0.00 0.00 5.01
2286 11931 5.010516 TGCTATATTGTTGTTGGCTTGTTGT 59.989 36.000 0.00 0.00 0.00 3.32
2380 12037 5.068329 TGCTCACAGGTTATCTATCTGACTG 59.932 44.000 0.00 0.00 33.19 3.51
2381 12038 5.068460 GCTCACAGGTTATCTATCTGACTGT 59.932 44.000 0.00 0.00 38.13 3.55
2413 12070 2.623535 CGGTTCATTATGGTGTTCGGA 58.376 47.619 0.00 0.00 0.00 4.55
2445 12102 0.451783 GCCGTGAAATGCCTTAGTGG 59.548 55.000 0.00 0.00 39.35 4.00
2572 12331 3.654414 CACAGTTCAGTGGTTCTCCTAC 58.346 50.000 0.00 0.00 35.88 3.18
2573 12332 3.069586 CACAGTTCAGTGGTTCTCCTACA 59.930 47.826 0.00 0.00 35.88 2.74
2583 12342 1.877443 GTTCTCCTACAAGCCGCAAAA 59.123 47.619 0.00 0.00 0.00 2.44
2586 12345 2.083774 CTCCTACAAGCCGCAAAATGA 58.916 47.619 0.00 0.00 0.00 2.57
2587 12346 2.684881 CTCCTACAAGCCGCAAAATGAT 59.315 45.455 0.00 0.00 0.00 2.45
2589 12348 4.265893 TCCTACAAGCCGCAAAATGATTA 58.734 39.130 0.00 0.00 0.00 1.75
2590 12349 4.335315 TCCTACAAGCCGCAAAATGATTAG 59.665 41.667 0.00 0.00 0.00 1.73
2591 12350 2.879826 ACAAGCCGCAAAATGATTAGC 58.120 42.857 0.00 0.00 0.00 3.09
2592 12351 2.230992 ACAAGCCGCAAAATGATTAGCA 59.769 40.909 0.00 0.00 0.00 3.49
2593 12352 2.566952 AGCCGCAAAATGATTAGCAC 57.433 45.000 0.00 0.00 0.00 4.40
2622 12381 9.887406 GTATCTATCTGAGCTTTGTTACTACTC 57.113 37.037 0.00 0.00 0.00 2.59
2623 12382 7.336161 TCTATCTGAGCTTTGTTACTACTCC 57.664 40.000 0.00 0.00 0.00 3.85
2624 12383 4.803098 TCTGAGCTTTGTTACTACTCCC 57.197 45.455 0.00 0.00 0.00 4.30
2625 12384 4.417437 TCTGAGCTTTGTTACTACTCCCT 58.583 43.478 0.00 0.00 0.00 4.20
2626 12385 4.463186 TCTGAGCTTTGTTACTACTCCCTC 59.537 45.833 0.00 0.00 0.00 4.30
2627 12386 3.514309 TGAGCTTTGTTACTACTCCCTCC 59.486 47.826 0.00 0.00 0.00 4.30
2628 12387 2.496470 AGCTTTGTTACTACTCCCTCCG 59.504 50.000 0.00 0.00 0.00 4.63
2629 12388 2.233186 GCTTTGTTACTACTCCCTCCGT 59.767 50.000 0.00 0.00 0.00 4.69
2630 12389 3.675502 GCTTTGTTACTACTCCCTCCGTC 60.676 52.174 0.00 0.00 0.00 4.79
2631 12390 2.134789 TGTTACTACTCCCTCCGTCC 57.865 55.000 0.00 0.00 0.00 4.79
2632 12391 1.637553 TGTTACTACTCCCTCCGTCCT 59.362 52.381 0.00 0.00 0.00 3.85
2633 12392 2.846206 TGTTACTACTCCCTCCGTCCTA 59.154 50.000 0.00 0.00 0.00 2.94
2634 12393 3.266772 TGTTACTACTCCCTCCGTCCTAA 59.733 47.826 0.00 0.00 0.00 2.69
2635 12394 4.263905 TGTTACTACTCCCTCCGTCCTAAA 60.264 45.833 0.00 0.00 0.00 1.85
2636 12395 3.463048 ACTACTCCCTCCGTCCTAAAA 57.537 47.619 0.00 0.00 0.00 1.52
2637 12396 3.991683 ACTACTCCCTCCGTCCTAAAAT 58.008 45.455 0.00 0.00 0.00 1.82
2638 12397 4.359996 ACTACTCCCTCCGTCCTAAAATT 58.640 43.478 0.00 0.00 0.00 1.82
2639 12398 3.908643 ACTCCCTCCGTCCTAAAATTC 57.091 47.619 0.00 0.00 0.00 2.17
2640 12399 3.178865 ACTCCCTCCGTCCTAAAATTCA 58.821 45.455 0.00 0.00 0.00 2.57
2641 12400 3.780850 ACTCCCTCCGTCCTAAAATTCAT 59.219 43.478 0.00 0.00 0.00 2.57
2642 12401 4.130118 CTCCCTCCGTCCTAAAATTCATG 58.870 47.826 0.00 0.00 0.00 3.07
2643 12402 3.521937 TCCCTCCGTCCTAAAATTCATGT 59.478 43.478 0.00 0.00 0.00 3.21
2644 12403 3.877508 CCCTCCGTCCTAAAATTCATGTC 59.122 47.826 0.00 0.00 0.00 3.06
2645 12404 4.384208 CCCTCCGTCCTAAAATTCATGTCT 60.384 45.833 0.00 0.00 0.00 3.41
2646 12405 5.186198 CCTCCGTCCTAAAATTCATGTCTT 58.814 41.667 0.00 0.00 0.00 3.01
2647 12406 6.346096 CCTCCGTCCTAAAATTCATGTCTTA 58.654 40.000 0.00 0.00 0.00 2.10
2648 12407 6.821665 CCTCCGTCCTAAAATTCATGTCTTAA 59.178 38.462 0.00 0.00 0.00 1.85
2649 12408 7.335924 CCTCCGTCCTAAAATTCATGTCTTAAA 59.664 37.037 0.00 0.00 0.00 1.52
2650 12409 8.801882 TCCGTCCTAAAATTCATGTCTTAAAT 57.198 30.769 0.00 0.00 0.00 1.40
2651 12410 9.238368 TCCGTCCTAAAATTCATGTCTTAAATT 57.762 29.630 0.00 0.00 0.00 1.82
2652 12411 9.855021 CCGTCCTAAAATTCATGTCTTAAATTT 57.145 29.630 0.00 0.00 34.86 1.82
2720 12479 9.095065 ACATCCGTATCTAAACAAATGTAAGAC 57.905 33.333 1.86 0.00 0.00 3.01
2721 12480 9.093970 CATCCGTATCTAAACAAATGTAAGACA 57.906 33.333 1.86 0.00 0.00 3.41
2722 12481 9.661563 ATCCGTATCTAAACAAATGTAAGACAA 57.338 29.630 1.86 0.00 0.00 3.18
2723 12482 9.146984 TCCGTATCTAAACAAATGTAAGACAAG 57.853 33.333 1.86 0.00 0.00 3.16
2724 12483 9.146984 CCGTATCTAAACAAATGTAAGACAAGA 57.853 33.333 1.86 0.00 0.00 3.02
2732 12491 8.661352 AACAAATGTAAGACAAGAATTTTGGG 57.339 30.769 7.26 0.00 31.16 4.12
2733 12492 8.017418 ACAAATGTAAGACAAGAATTTTGGGA 57.983 30.769 7.26 0.00 31.16 4.37
2734 12493 7.926018 ACAAATGTAAGACAAGAATTTTGGGAC 59.074 33.333 7.26 0.00 31.16 4.46
2735 12494 5.682943 TGTAAGACAAGAATTTTGGGACG 57.317 39.130 5.68 0.00 0.00 4.79
2736 12495 4.517453 TGTAAGACAAGAATTTTGGGACGG 59.483 41.667 0.00 0.00 0.00 4.79
2737 12496 3.502123 AGACAAGAATTTTGGGACGGA 57.498 42.857 0.00 0.00 0.00 4.69
2738 12497 3.412386 AGACAAGAATTTTGGGACGGAG 58.588 45.455 0.00 0.00 0.00 4.63
2739 12498 2.488153 GACAAGAATTTTGGGACGGAGG 59.512 50.000 0.00 0.00 0.00 4.30
2740 12499 1.818674 CAAGAATTTTGGGACGGAGGG 59.181 52.381 0.00 0.00 0.00 4.30
2741 12500 1.368374 AGAATTTTGGGACGGAGGGA 58.632 50.000 0.00 0.00 0.00 4.20
2742 12501 1.282157 AGAATTTTGGGACGGAGGGAG 59.718 52.381 0.00 0.00 0.00 4.30
2743 12502 1.004394 GAATTTTGGGACGGAGGGAGT 59.996 52.381 0.00 0.00 0.00 3.85
2744 12503 1.961133 ATTTTGGGACGGAGGGAGTA 58.039 50.000 0.00 0.00 0.00 2.59
2745 12504 0.978907 TTTTGGGACGGAGGGAGTAC 59.021 55.000 0.00 0.00 0.00 2.73
2762 12521 5.642491 GGGAGTACTTGTTAAGTGCCTTTAG 59.358 44.000 0.00 0.00 44.04 1.85
2769 12528 5.031066 TGTTAAGTGCCTTTAGTCAGTGT 57.969 39.130 0.00 0.00 0.00 3.55
2790 12549 6.772716 AGTGTTTTGTCTGAACTTATGATGGT 59.227 34.615 0.00 0.00 0.00 3.55
2808 12567 6.125029 TGATGGTGGAGTACTTACTACTACC 58.875 44.000 0.00 1.81 35.56 3.18
2810 12569 5.503927 TGGTGGAGTACTTACTACTACCAG 58.496 45.833 11.31 0.00 38.59 4.00
2812 12571 5.588246 GGTGGAGTACTTACTACTACCAGTC 59.412 48.000 8.61 0.00 35.56 3.51
2813 12572 6.176183 GTGGAGTACTTACTACTACCAGTCA 58.824 44.000 0.00 0.00 35.56 3.41
2814 12573 6.315891 GTGGAGTACTTACTACTACCAGTCAG 59.684 46.154 0.00 0.00 35.56 3.51
2816 12575 7.108847 GGAGTACTTACTACTACCAGTCAGAA 58.891 42.308 0.00 0.00 35.66 3.02
2817 12576 7.280652 GGAGTACTTACTACTACCAGTCAGAAG 59.719 44.444 0.00 0.00 35.66 2.85
2818 12577 7.688343 AGTACTTACTACTACCAGTCAGAAGT 58.312 38.462 0.00 0.00 33.53 3.01
2819 12578 8.162746 AGTACTTACTACTACCAGTCAGAAGTT 58.837 37.037 0.00 0.00 33.53 2.66
2820 12579 7.836479 ACTTACTACTACCAGTCAGAAGTTT 57.164 36.000 0.00 0.00 0.00 2.66
2821 12580 8.247666 ACTTACTACTACCAGTCAGAAGTTTT 57.752 34.615 0.00 0.00 0.00 2.43
2823 12582 9.194271 CTTACTACTACCAGTCAGAAGTTTTTC 57.806 37.037 0.00 0.00 0.00 2.29
2824 12583 7.120923 ACTACTACCAGTCAGAAGTTTTTCA 57.879 36.000 0.00 0.00 35.70 2.69
2825 12584 7.562135 ACTACTACCAGTCAGAAGTTTTTCAA 58.438 34.615 0.00 0.00 35.70 2.69
2870 12639 4.637534 GCCTCTGAATGATCTTAAACTGCA 59.362 41.667 0.00 0.00 0.00 4.41
2897 12666 7.446931 TCACTGTATCTTTGGCTTGTTGATTTA 59.553 33.333 0.00 0.00 0.00 1.40
3085 12854 2.489329 CTGGTCGAAGGCAACATGAATT 59.511 45.455 0.00 0.00 41.41 2.17
3121 12890 3.436470 GGGATAAGCTGGGAAGCCATTTA 60.436 47.826 0.00 0.00 34.90 1.40
3130 12899 5.400066 TGGGAAGCCATTTAAAAAGCTAC 57.600 39.130 13.82 10.57 34.49 3.58
3131 12900 5.083821 TGGGAAGCCATTTAAAAAGCTACT 58.916 37.500 13.82 2.26 34.49 2.57
3132 12901 6.249951 TGGGAAGCCATTTAAAAAGCTACTA 58.750 36.000 13.82 7.30 34.49 1.82
3133 12902 6.895204 TGGGAAGCCATTTAAAAAGCTACTAT 59.105 34.615 13.82 1.36 34.49 2.12
3167 12936 5.488262 AATTAACCAGCTTGCAAAGGAAT 57.512 34.783 16.54 6.38 46.35 3.01
3176 12945 3.493176 GCTTGCAAAGGAATGAACAAGGT 60.493 43.478 0.00 0.00 46.35 3.50
3180 12949 4.081198 TGCAAAGGAATGAACAAGGTGTTT 60.081 37.500 0.00 0.00 41.28 2.83
3191 12960 2.943033 ACAAGGTGTTTCAGTTCTTCCG 59.057 45.455 0.00 0.00 0.00 4.30
3204 12973 3.447944 AGTTCTTCCGTTCCATCTACTCC 59.552 47.826 0.00 0.00 0.00 3.85
3206 12975 4.515028 TCTTCCGTTCCATCTACTCCTA 57.485 45.455 0.00 0.00 0.00 2.94
3207 12976 4.863548 TCTTCCGTTCCATCTACTCCTAA 58.136 43.478 0.00 0.00 0.00 2.69
3212 12981 4.868734 CCGTTCCATCTACTCCTAAAACAC 59.131 45.833 0.00 0.00 0.00 3.32
3213 12982 5.337330 CCGTTCCATCTACTCCTAAAACACT 60.337 44.000 0.00 0.00 0.00 3.55
3214 12983 6.164176 CGTTCCATCTACTCCTAAAACACTT 58.836 40.000 0.00 0.00 0.00 3.16
3239 13008 8.026396 TCTTTTACAGGTACTCCTAAAACACT 57.974 34.615 0.00 0.00 43.07 3.55
3241 13010 8.441312 TTTTACAGGTACTCCTAAAACACTTG 57.559 34.615 0.00 0.00 43.07 3.16
3243 13012 5.608449 ACAGGTACTCCTAAAACACTTGAC 58.392 41.667 0.00 0.00 43.07 3.18
3251 13020 4.023536 TCCTAAAACACTTGACGCAATTCC 60.024 41.667 0.00 0.00 0.00 3.01
3252 13021 3.791973 AAAACACTTGACGCAATTCCA 57.208 38.095 0.00 0.00 0.00 3.53
3253 13022 3.791973 AAACACTTGACGCAATTCCAA 57.208 38.095 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.939784 AAAGAATAATGGGTTACACTCCTTC 57.060 36.000 0.00 0.00 0.00 3.46
4 5 9.974980 TTTCAAAAAGAATAATGGGTTACACTC 57.025 29.630 0.00 0.00 35.83 3.51
10 11 8.929487 TGGTAGTTTCAAAAAGAATAATGGGTT 58.071 29.630 0.00 0.00 35.83 4.11
21 2073 6.534793 ACATGCAACTTGGTAGTTTCAAAAAG 59.465 34.615 0.00 0.00 41.85 2.27
32 2084 9.290988 TCTATTTAAGAAACATGCAACTTGGTA 57.709 29.630 0.00 0.00 0.00 3.25
33 2085 8.177119 TCTATTTAAGAAACATGCAACTTGGT 57.823 30.769 0.00 0.00 0.00 3.67
122 2850 9.768662 GACGGTCTATGGAAAAATATTTAGGTA 57.231 33.333 0.01 0.00 0.00 3.08
124 2852 8.671384 TGACGGTCTATGGAAAAATATTTAGG 57.329 34.615 9.88 0.00 0.00 2.69
126 2854 7.771361 TGCTGACGGTCTATGGAAAAATATTTA 59.229 33.333 9.88 0.00 0.00 1.40
128 2856 6.119536 TGCTGACGGTCTATGGAAAAATATT 58.880 36.000 9.88 0.00 0.00 1.28
129 2857 5.680619 TGCTGACGGTCTATGGAAAAATAT 58.319 37.500 9.88 0.00 0.00 1.28
138 2869 7.115520 CAGTTTCTAATATGCTGACGGTCTATG 59.884 40.741 9.88 1.29 0.00 2.23
141 2872 5.105310 ACAGTTTCTAATATGCTGACGGTCT 60.105 40.000 9.88 0.00 0.00 3.85
146 2877 9.162764 TCCTAAAACAGTTTCTAATATGCTGAC 57.837 33.333 0.00 0.00 0.00 3.51
185 2918 3.815856 TGCTTGGCATGTGAAAGAAAA 57.184 38.095 2.12 0.00 31.71 2.29
226 2959 7.047271 GGAGGCCAATTCAAAAAGCATATTTA 58.953 34.615 5.01 0.00 0.00 1.40
230 2963 3.837146 TGGAGGCCAATTCAAAAAGCATA 59.163 39.130 5.01 0.00 0.00 3.14
231 2964 2.638855 TGGAGGCCAATTCAAAAAGCAT 59.361 40.909 5.01 0.00 0.00 3.79
232 2965 2.045524 TGGAGGCCAATTCAAAAAGCA 58.954 42.857 5.01 0.00 0.00 3.91
235 2968 5.688807 TCAAAATGGAGGCCAATTCAAAAA 58.311 33.333 5.01 0.00 36.95 1.94
236 2969 5.301835 TCAAAATGGAGGCCAATTCAAAA 57.698 34.783 5.01 0.00 36.95 2.44
237 2970 4.970860 TCAAAATGGAGGCCAATTCAAA 57.029 36.364 5.01 0.00 36.95 2.69
240 2973 3.055602 AGCTTCAAAATGGAGGCCAATTC 60.056 43.478 5.01 0.00 40.44 2.17
243 2976 2.014010 AGCTTCAAAATGGAGGCCAA 57.986 45.000 5.01 0.00 40.44 4.52
247 2980 4.427312 GCAATGTAGCTTCAAAATGGAGG 58.573 43.478 0.00 0.00 0.00 4.30
248 2981 4.427312 GGCAATGTAGCTTCAAAATGGAG 58.573 43.478 0.00 0.00 34.17 3.86
249 2982 3.119531 CGGCAATGTAGCTTCAAAATGGA 60.120 43.478 0.00 0.00 34.17 3.41
250 2983 3.119531 TCGGCAATGTAGCTTCAAAATGG 60.120 43.478 0.00 0.00 34.17 3.16
251 2984 3.853671 GTCGGCAATGTAGCTTCAAAATG 59.146 43.478 0.00 0.00 34.17 2.32
255 2988 2.076100 CAGTCGGCAATGTAGCTTCAA 58.924 47.619 0.00 0.00 34.17 2.69
257 2990 2.010145 TCAGTCGGCAATGTAGCTTC 57.990 50.000 0.00 0.00 34.17 3.86
258 2991 2.472695 TTCAGTCGGCAATGTAGCTT 57.527 45.000 0.00 0.00 34.17 3.74
261 2994 2.734606 TCGTTTTCAGTCGGCAATGTAG 59.265 45.455 0.00 0.00 0.00 2.74
262 2995 2.756829 TCGTTTTCAGTCGGCAATGTA 58.243 42.857 0.00 0.00 0.00 2.29
265 2998 2.218603 ACTTCGTTTTCAGTCGGCAAT 58.781 42.857 0.00 0.00 0.00 3.56
266 2999 1.658994 ACTTCGTTTTCAGTCGGCAA 58.341 45.000 0.00 0.00 0.00 4.52
271 3021 7.096147 ACGAGAGAAATAACTTCGTTTTCAGTC 60.096 37.037 0.00 0.00 39.22 3.51
296 3046 1.799544 TCCCGCCTTCTCGTTTTTAC 58.200 50.000 0.00 0.00 0.00 2.01
297 3047 2.145536 GTTCCCGCCTTCTCGTTTTTA 58.854 47.619 0.00 0.00 0.00 1.52
298 3048 0.949397 GTTCCCGCCTTCTCGTTTTT 59.051 50.000 0.00 0.00 0.00 1.94
303 3053 1.889530 AAGAGGTTCCCGCCTTCTCG 61.890 60.000 0.00 0.00 39.34 4.04
318 3068 8.542953 GCTCACTGGAAAACAAAATAAAAAGAG 58.457 33.333 0.00 0.00 0.00 2.85
319 3069 7.221838 CGCTCACTGGAAAACAAAATAAAAAGA 59.778 33.333 0.00 0.00 0.00 2.52
320 3070 7.336975 CGCTCACTGGAAAACAAAATAAAAAG 58.663 34.615 0.00 0.00 0.00 2.27
325 3075 3.254657 CCCGCTCACTGGAAAACAAAATA 59.745 43.478 0.00 0.00 0.00 1.40
326 3076 2.035832 CCCGCTCACTGGAAAACAAAAT 59.964 45.455 0.00 0.00 0.00 1.82
328 3078 1.028905 CCCGCTCACTGGAAAACAAA 58.971 50.000 0.00 0.00 0.00 2.83
331 3081 1.244019 ATGCCCGCTCACTGGAAAAC 61.244 55.000 0.00 0.00 0.00 2.43
332 3082 1.074775 ATGCCCGCTCACTGGAAAA 59.925 52.632 0.00 0.00 0.00 2.29
334 3084 2.046023 CATGCCCGCTCACTGGAA 60.046 61.111 0.00 0.00 0.00 3.53
335 3085 3.321648 ACATGCCCGCTCACTGGA 61.322 61.111 0.00 0.00 0.00 3.86
336 3086 3.129502 CACATGCCCGCTCACTGG 61.130 66.667 0.00 0.00 0.00 4.00
661 3423 1.480954 CCAAGTGGATACGTACAGCCT 59.519 52.381 0.00 0.00 42.51 4.58
662 3424 1.935933 CCAAGTGGATACGTACAGCC 58.064 55.000 0.00 0.29 42.51 4.85
663 3425 1.287425 GCCAAGTGGATACGTACAGC 58.713 55.000 0.00 0.00 42.51 4.40
664 3426 2.268298 GTGCCAAGTGGATACGTACAG 58.732 52.381 0.00 0.00 42.51 2.74
665 3427 1.403116 CGTGCCAAGTGGATACGTACA 60.403 52.381 15.34 0.00 40.21 2.90
666 3428 1.274596 CGTGCCAAGTGGATACGTAC 58.725 55.000 15.34 0.00 40.21 3.67
667 3429 0.173935 CCGTGCCAAGTGGATACGTA 59.826 55.000 19.46 0.00 42.07 3.57
669 3431 2.461110 GCCGTGCCAAGTGGATACG 61.461 63.158 16.18 16.18 42.74 3.06
670 3432 3.497879 GCCGTGCCAAGTGGATAC 58.502 61.111 0.18 0.00 37.39 2.24
686 3448 3.070576 GTGGAATGTGGCTGGGGC 61.071 66.667 0.00 0.00 37.82 5.80
687 3449 1.379044 GAGTGGAATGTGGCTGGGG 60.379 63.158 0.00 0.00 0.00 4.96
688 3450 0.962356 GTGAGTGGAATGTGGCTGGG 60.962 60.000 0.00 0.00 0.00 4.45
689 3451 0.037303 AGTGAGTGGAATGTGGCTGG 59.963 55.000 0.00 0.00 0.00 4.85
690 3452 1.446907 GAGTGAGTGGAATGTGGCTG 58.553 55.000 0.00 0.00 0.00 4.85
691 3453 0.326264 GGAGTGAGTGGAATGTGGCT 59.674 55.000 0.00 0.00 0.00 4.75
692 3454 0.036732 TGGAGTGAGTGGAATGTGGC 59.963 55.000 0.00 0.00 0.00 5.01
693 3455 2.795231 ATGGAGTGAGTGGAATGTGG 57.205 50.000 0.00 0.00 0.00 4.17
694 3456 3.688185 CAGAATGGAGTGAGTGGAATGTG 59.312 47.826 0.00 0.00 0.00 3.21
696 3458 2.681848 GCAGAATGGAGTGAGTGGAATG 59.318 50.000 0.00 0.00 35.86 2.67
698 3460 1.699083 TGCAGAATGGAGTGAGTGGAA 59.301 47.619 0.00 0.00 35.86 3.53
699 3461 1.002430 GTGCAGAATGGAGTGAGTGGA 59.998 52.381 0.00 0.00 36.81 4.02
704 3466 1.375908 GGCGTGCAGAATGGAGTGA 60.376 57.895 0.00 0.00 36.81 3.41
760 3558 4.176752 GGTGCCGGAGATGGGGTC 62.177 72.222 5.05 0.00 0.00 4.46
821 10430 1.517475 GGAGAGAAGGAACGCTCGC 60.517 63.158 0.00 0.00 39.08 5.03
833 10442 1.006813 AGAGAGAGCAAGGGGAGAGA 58.993 55.000 0.00 0.00 0.00 3.10
839 10448 2.430610 CCCCGAGAGAGAGCAAGGG 61.431 68.421 0.00 0.00 38.59 3.95
840 10449 2.430610 CCCCCGAGAGAGAGCAAGG 61.431 68.421 0.00 0.00 0.00 3.61
841 10450 3.215245 CCCCCGAGAGAGAGCAAG 58.785 66.667 0.00 0.00 0.00 4.01
856 10469 0.748367 GGAGCGAGATCCAAAACCCC 60.748 60.000 2.07 0.00 39.34 4.95
930 10547 1.370810 CAACATTTTTGCCCGGGCT 59.629 52.632 43.34 23.22 42.51 5.19
938 10555 1.522258 GACGGCACAGCAACATTTTTG 59.478 47.619 0.00 0.00 0.00 2.44
982 10600 1.732259 CATCGGTCCTACAGTGCAAAC 59.268 52.381 0.00 0.00 0.00 2.93
1027 10649 4.657824 CCACGACGACGGTGGCTT 62.658 66.667 12.58 0.00 44.46 4.35
1393 11025 2.902608 TCCCACATCTGACCACTTAGT 58.097 47.619 0.00 0.00 0.00 2.24
1488 11123 2.669569 TTTGGCGAGCACAGGAGC 60.670 61.111 0.00 0.00 0.00 4.70
1754 11389 0.919710 GAGGTCCCCCTTGTAGCAAT 59.080 55.000 0.00 0.00 42.86 3.56
1755 11390 0.474854 TGAGGTCCCCCTTGTAGCAA 60.475 55.000 0.00 0.00 42.86 3.91
1776 11411 2.362717 TCGACACACAACATGGTAGACA 59.637 45.455 0.00 0.00 0.00 3.41
2017 11658 2.187163 GGAGCACCTTCGCCCTAC 59.813 66.667 0.00 0.00 0.00 3.18
2046 11687 0.101759 GTAAGCCATACCGAGACGCA 59.898 55.000 0.00 0.00 0.00 5.24
2128 11769 1.871080 CTGCAAGACGTGTTCTCCTT 58.129 50.000 0.00 0.00 34.07 3.36
2139 11780 2.680312 TGTCATAGGAGCTGCAAGAC 57.320 50.000 8.35 12.35 34.07 3.01
2286 11931 8.934697 AGATAAACATGGGAGTAGCTTGTATAA 58.065 33.333 0.00 0.00 0.00 0.98
2380 12037 1.240256 TGAACCGCCATGTTTACCAC 58.760 50.000 0.00 0.00 0.00 4.16
2381 12038 2.208132 ATGAACCGCCATGTTTACCA 57.792 45.000 0.00 0.00 0.00 3.25
2413 12070 0.907704 TCACGGCTTGTATGGGACCT 60.908 55.000 0.00 0.00 0.00 3.85
2554 12216 3.244249 GCTTGTAGGAGAACCACTGAACT 60.244 47.826 0.00 0.00 38.94 3.01
2572 12331 2.599973 GTGCTAATCATTTTGCGGCTTG 59.400 45.455 0.00 0.00 36.53 4.01
2573 12332 2.493278 AGTGCTAATCATTTTGCGGCTT 59.507 40.909 0.00 0.00 36.53 4.35
2583 12342 8.902806 GCTCAGATAGATACTAGTGCTAATCAT 58.097 37.037 5.39 0.00 0.00 2.45
2586 12345 8.877864 AAGCTCAGATAGATACTAGTGCTAAT 57.122 34.615 5.39 0.00 0.00 1.73
2587 12346 8.572185 CAAAGCTCAGATAGATACTAGTGCTAA 58.428 37.037 5.39 0.00 0.00 3.09
2589 12348 6.549364 ACAAAGCTCAGATAGATACTAGTGCT 59.451 38.462 5.39 5.49 0.00 4.40
2590 12349 6.744112 ACAAAGCTCAGATAGATACTAGTGC 58.256 40.000 5.39 0.00 0.00 4.40
2591 12350 9.672086 GTAACAAAGCTCAGATAGATACTAGTG 57.328 37.037 5.39 0.00 0.00 2.74
2592 12351 9.635404 AGTAACAAAGCTCAGATAGATACTAGT 57.365 33.333 0.00 0.00 0.00 2.57
2608 12367 2.233186 ACGGAGGGAGTAGTAACAAAGC 59.767 50.000 0.00 0.00 0.00 3.51
2622 12381 3.877508 GACATGAATTTTAGGACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
2623 12382 4.770795 AGACATGAATTTTAGGACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
2624 12383 7.843490 TTAAGACATGAATTTTAGGACGGAG 57.157 36.000 0.00 0.00 0.00 4.63
2625 12384 8.801882 ATTTAAGACATGAATTTTAGGACGGA 57.198 30.769 0.00 0.00 0.00 4.69
2626 12385 9.855021 AAATTTAAGACATGAATTTTAGGACGG 57.145 29.630 0.00 0.00 31.00 4.79
2694 12453 9.095065 GTCTTACATTTGTTTAGATACGGATGT 57.905 33.333 0.00 0.00 33.55 3.06
2695 12454 9.093970 TGTCTTACATTTGTTTAGATACGGATG 57.906 33.333 0.00 0.00 0.00 3.51
2696 12455 9.661563 TTGTCTTACATTTGTTTAGATACGGAT 57.338 29.630 0.00 0.00 0.00 4.18
2697 12456 9.146984 CTTGTCTTACATTTGTTTAGATACGGA 57.853 33.333 0.00 0.00 0.00 4.69
2698 12457 9.146984 TCTTGTCTTACATTTGTTTAGATACGG 57.853 33.333 0.00 0.00 0.00 4.02
2706 12465 9.108284 CCCAAAATTCTTGTCTTACATTTGTTT 57.892 29.630 0.00 0.00 27.14 2.83
2707 12466 8.482128 TCCCAAAATTCTTGTCTTACATTTGTT 58.518 29.630 0.00 0.00 27.14 2.83
2708 12467 7.926018 GTCCCAAAATTCTTGTCTTACATTTGT 59.074 33.333 0.00 0.00 27.14 2.83
2709 12468 7.114811 CGTCCCAAAATTCTTGTCTTACATTTG 59.885 37.037 0.00 0.00 0.00 2.32
2710 12469 7.145323 CGTCCCAAAATTCTTGTCTTACATTT 58.855 34.615 0.00 0.00 0.00 2.32
2711 12470 6.294508 CCGTCCCAAAATTCTTGTCTTACATT 60.295 38.462 0.00 0.00 0.00 2.71
2712 12471 5.183140 CCGTCCCAAAATTCTTGTCTTACAT 59.817 40.000 0.00 0.00 0.00 2.29
2713 12472 4.517453 CCGTCCCAAAATTCTTGTCTTACA 59.483 41.667 0.00 0.00 0.00 2.41
2714 12473 4.758165 TCCGTCCCAAAATTCTTGTCTTAC 59.242 41.667 0.00 0.00 0.00 2.34
2715 12474 4.975631 TCCGTCCCAAAATTCTTGTCTTA 58.024 39.130 0.00 0.00 0.00 2.10
2716 12475 3.821033 CTCCGTCCCAAAATTCTTGTCTT 59.179 43.478 0.00 0.00 0.00 3.01
2717 12476 3.412386 CTCCGTCCCAAAATTCTTGTCT 58.588 45.455 0.00 0.00 0.00 3.41
2718 12477 2.488153 CCTCCGTCCCAAAATTCTTGTC 59.512 50.000 0.00 0.00 0.00 3.18
2719 12478 2.514803 CCTCCGTCCCAAAATTCTTGT 58.485 47.619 0.00 0.00 0.00 3.16
2720 12479 1.818674 CCCTCCGTCCCAAAATTCTTG 59.181 52.381 0.00 0.00 0.00 3.02
2721 12480 1.708551 TCCCTCCGTCCCAAAATTCTT 59.291 47.619 0.00 0.00 0.00 2.52
2722 12481 1.282157 CTCCCTCCGTCCCAAAATTCT 59.718 52.381 0.00 0.00 0.00 2.40
2723 12482 1.004394 ACTCCCTCCGTCCCAAAATTC 59.996 52.381 0.00 0.00 0.00 2.17
2724 12483 1.073098 ACTCCCTCCGTCCCAAAATT 58.927 50.000 0.00 0.00 0.00 1.82
2725 12484 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
2726 12485 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
2727 12486 0.115745 AGTACTCCCTCCGTCCCAAA 59.884 55.000 0.00 0.00 0.00 3.28
2728 12487 0.115745 AAGTACTCCCTCCGTCCCAA 59.884 55.000 0.00 0.00 0.00 4.12
2729 12488 0.613853 CAAGTACTCCCTCCGTCCCA 60.614 60.000 0.00 0.00 0.00 4.37
2730 12489 0.614134 ACAAGTACTCCCTCCGTCCC 60.614 60.000 0.00 0.00 0.00 4.46
2731 12490 1.264295 AACAAGTACTCCCTCCGTCC 58.736 55.000 0.00 0.00 0.00 4.79
2732 12491 3.509184 ACTTAACAAGTACTCCCTCCGTC 59.491 47.826 0.00 0.00 40.69 4.79
2733 12492 3.257624 CACTTAACAAGTACTCCCTCCGT 59.742 47.826 0.00 0.00 40.46 4.69
2734 12493 3.846360 CACTTAACAAGTACTCCCTCCG 58.154 50.000 0.00 0.00 40.46 4.63
2735 12494 3.597255 GCACTTAACAAGTACTCCCTCC 58.403 50.000 0.00 0.00 40.46 4.30
2736 12495 3.261137 AGGCACTTAACAAGTACTCCCTC 59.739 47.826 0.00 0.00 40.46 4.30
2737 12496 3.248888 AGGCACTTAACAAGTACTCCCT 58.751 45.455 0.00 0.00 40.46 4.20
2738 12497 3.697619 AGGCACTTAACAAGTACTCCC 57.302 47.619 0.00 0.00 40.46 4.30
2762 12521 7.246674 TCATAAGTTCAGACAAAACACTGAC 57.753 36.000 0.00 0.00 41.82 3.51
2769 12528 6.303054 TCCACCATCATAAGTTCAGACAAAA 58.697 36.000 0.00 0.00 0.00 2.44
2790 12549 6.214208 TCTGACTGGTAGTAGTAAGTACTCCA 59.786 42.308 0.00 0.00 41.42 3.86
2808 12567 9.046296 ACAGTACTATTGAAAAACTTCTGACTG 57.954 33.333 0.00 0.00 35.37 3.51
2810 12569 8.283291 CCACAGTACTATTGAAAAACTTCTGAC 58.717 37.037 0.00 0.00 0.00 3.51
2812 12571 8.154649 ACCACAGTACTATTGAAAAACTTCTG 57.845 34.615 0.00 0.00 0.00 3.02
2813 12572 8.621286 CAACCACAGTACTATTGAAAAACTTCT 58.379 33.333 0.00 0.00 0.00 2.85
2814 12573 8.403236 ACAACCACAGTACTATTGAAAAACTTC 58.597 33.333 12.68 0.00 0.00 3.01
2816 12575 7.875327 ACAACCACAGTACTATTGAAAAACT 57.125 32.000 12.68 0.00 0.00 2.66
2817 12576 7.043656 GCAACAACCACAGTACTATTGAAAAAC 60.044 37.037 12.68 0.00 0.00 2.43
2818 12577 6.975772 GCAACAACCACAGTACTATTGAAAAA 59.024 34.615 12.68 0.00 0.00 1.94
2819 12578 6.320164 AGCAACAACCACAGTACTATTGAAAA 59.680 34.615 12.68 0.00 0.00 2.29
2820 12579 5.825679 AGCAACAACCACAGTACTATTGAAA 59.174 36.000 12.68 0.00 0.00 2.69
2821 12580 5.373222 AGCAACAACCACAGTACTATTGAA 58.627 37.500 12.68 0.00 0.00 2.69
2823 12582 6.675486 GCATAGCAACAACCACAGTACTATTG 60.675 42.308 0.00 1.07 0.00 1.90
2824 12583 5.354234 GCATAGCAACAACCACAGTACTATT 59.646 40.000 0.00 0.00 0.00 1.73
2825 12584 4.876107 GCATAGCAACAACCACAGTACTAT 59.124 41.667 0.00 0.00 0.00 2.12
2870 12639 5.316167 TCAACAAGCCAAAGATACAGTGAT 58.684 37.500 0.00 0.00 0.00 3.06
3085 12854 3.466836 CTTATCCCGCATAGCAACTTCA 58.533 45.455 0.00 0.00 0.00 3.02
3158 12927 3.733443 ACACCTTGTTCATTCCTTTGC 57.267 42.857 0.00 0.00 0.00 3.68
3167 12936 4.398044 GGAAGAACTGAAACACCTTGTTCA 59.602 41.667 0.00 0.00 40.14 3.18
3176 12945 3.269538 TGGAACGGAAGAACTGAAACA 57.730 42.857 0.00 0.00 0.00 2.83
3180 12949 4.087182 AGTAGATGGAACGGAAGAACTGA 58.913 43.478 0.00 0.00 0.00 3.41
3191 12960 7.387643 AGAAGTGTTTTAGGAGTAGATGGAAC 58.612 38.462 0.00 0.00 0.00 3.62
3204 12973 8.771766 GGAGTACCTGTAAAAGAAGTGTTTTAG 58.228 37.037 0.00 0.00 33.54 1.85
3206 12975 7.344134 AGGAGTACCTGTAAAAGAAGTGTTTT 58.656 34.615 0.00 0.00 45.92 2.43
3207 12976 6.896883 AGGAGTACCTGTAAAAGAAGTGTTT 58.103 36.000 0.00 0.00 45.92 2.83


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

AutoCloner maintained by Alex Coulton.