Multiple sequence alignment - TraesCS2B01G274000

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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 TraesCS2B01G274000 chr2B 100.000 2777 0 0 1 2777 376016422 376013646 0.000000e+00 5129.0
1 TraesCS2B01G274000 chr2B 100.000 390 0 0 3177 3566 376013246 376012857 0.000000e+00 721.0
2 TraesCS2B01G274000 chr2B 75.635 197 41 6 389 582 355383532 355383340 1.360000e-14 91.6
3 TraesCS2B01G274000 chr2D 96.966 2637 72 5 1 2631 199763962 199761328 0.000000e+00 4420.0
4 TraesCS2B01G274000 chr2D 91.883 308 24 1 3260 3566 181247664 181247357 2.540000e-116 429.0
5 TraesCS2B01G274000 chr2D 77.907 258 39 13 3313 3566 629575789 629575546 1.030000e-30 145.0
6 TraesCS2B01G274000 chr2A 94.511 2569 106 15 1 2560 220016824 220014282 0.000000e+00 3930.0
7 TraesCS2B01G274000 chr2A 90.840 131 6 3 2560 2686 220013872 220013744 1.700000e-38 171.0
8 TraesCS2B01G274000 chr4A 91.925 1647 112 6 938 2581 681113684 681112056 0.000000e+00 2285.0
9 TraesCS2B01G274000 chr4A 76.836 177 40 1 403 579 688985180 688985355 8.150000e-17 99.0
10 TraesCS2B01G274000 chr4A 81.915 94 11 5 1846 1936 681176984 681176894 1.370000e-09 75.0
11 TraesCS2B01G274000 chr4D 91.192 1703 114 13 938 2621 474948056 474949741 0.000000e+00 2281.0
12 TraesCS2B01G274000 chr4D 89.130 322 22 8 3257 3566 69476703 69477023 4.320000e-104 388.0
13 TraesCS2B01G274000 chr4D 72.953 1209 260 51 1292 2459 474942369 474943551 3.380000e-95 359.0
14 TraesCS2B01G274000 chr4D 86.765 68 7 2 1846 1912 474921513 474921579 1.370000e-09 75.0
15 TraesCS2B01G274000 chr4B 90.995 1699 119 11 938 2621 599236509 599234830 0.000000e+00 2259.0
16 TraesCS2B01G274000 chr4B 78.767 146 22 6 346 486 546298575 546298434 4.900000e-14 89.8
17 TraesCS2B01G274000 chr4B 80.851 94 12 5 1846 1936 599350670 599350580 6.390000e-08 69.4
18 TraesCS2B01G274000 chr3D 87.966 349 25 7 3229 3566 351132082 351131740 2.580000e-106 396.0
19 TraesCS2B01G274000 chr3D 82.270 423 38 17 3177 3566 12551258 12550840 7.380000e-87 331.0
20 TraesCS2B01G274000 chr3D 72.091 971 212 48 1463 2402 47755389 47756331 1.650000e-58 237.0
21 TraesCS2B01G274000 chr3D 74.330 261 49 16 1469 1720 8927648 8927899 1.050000e-15 95.3
22 TraesCS2B01G274000 chr3D 89.394 66 6 1 347 412 537064230 537064294 8.210000e-12 82.4
23 TraesCS2B01G274000 chr5A 85.960 349 32 8 3229 3566 99535024 99534682 1.220000e-94 357.0
24 TraesCS2B01G274000 chr5A 88.055 293 27 6 3252 3538 264582637 264582347 1.230000e-89 340.0
25 TraesCS2B01G274000 chr5A 82.447 188 30 2 347 532 693651115 693651301 1.020000e-35 161.0
26 TraesCS2B01G274000 chr5A 81.407 199 27 4 3378 3566 52876899 52876701 1.710000e-33 154.0
27 TraesCS2B01G274000 chr5A 79.798 198 39 1 434 630 14460567 14460764 3.710000e-30 143.0
28 TraesCS2B01G274000 chr7B 84.831 356 39 9 3224 3566 595794623 595794270 9.480000e-91 344.0
29 TraesCS2B01G274000 chr7D 85.345 348 32 7 3229 3566 326744215 326743877 3.410000e-90 342.0
30 TraesCS2B01G274000 chr7D 100.000 28 0 0 3179 3206 233067351 233067324 6.000000e-03 52.8
31 TraesCS2B01G274000 chr7A 84.444 360 35 7 3177 3526 21208528 21208180 5.700000e-88 335.0
32 TraesCS2B01G274000 chr1B 87.055 309 25 7 3268 3566 212436776 212437079 5.700000e-88 335.0
33 TraesCS2B01G274000 chr1B 72.460 886 197 40 1460 2324 279573024 279572165 1.280000e-59 241.0
34 TraesCS2B01G274000 chr1B 90.196 51 4 1 352 401 472637189 472637139 8.260000e-07 65.8
35 TraesCS2B01G274000 chr5D 86.364 308 28 5 3229 3523 70387000 70386694 1.230000e-84 324.0
36 TraesCS2B01G274000 chr5D 74.699 415 81 22 2064 2466 101422508 101422106 2.850000e-36 163.0
37 TraesCS2B01G274000 chr5D 100.000 28 0 0 3179 3206 514144470 514144443 6.000000e-03 52.8
38 TraesCS2B01G274000 chr6B 82.333 300 39 6 3229 3518 3806057 3805762 7.640000e-62 248.0
39 TraesCS2B01G274000 chr1D 80.352 341 53 12 3229 3562 472516326 472515993 2.750000e-61 246.0
40 TraesCS2B01G274000 chr1D 72.367 883 197 38 1462 2324 199335472 199334617 5.950000e-58 235.0
41 TraesCS2B01G274000 chr1D 76.098 205 41 6 390 593 107546006 107546203 2.270000e-17 100.0
42 TraesCS2B01G274000 chr1D 96.875 32 0 1 3179 3209 36560664 36560633 6.000000e-03 52.8
43 TraesCS2B01G274000 chr3A 70.926 994 234 46 1463 2427 60193655 60194622 2.190000e-42 183.0
44 TraesCS2B01G274000 chr3A 92.647 68 4 1 1131 1198 611206169 611206235 2.930000e-16 97.1
45 TraesCS2B01G274000 chr5B 75.061 413 83 19 2064 2466 109679693 109679291 1.320000e-39 174.0
46 TraesCS2B01G274000 chr3B 76.667 240 45 11 348 582 457676902 457676669 4.830000e-24 122.0
47 TraesCS2B01G274000 chr6D 76.796 181 37 5 390 568 107384378 107384201 2.930000e-16 97.1


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 TraesCS2B01G274000 chr2B 376012857 376016422 3565 True 2925.0 5129 100.0000 1 3566 2 chr2B.!!$R2 3565
1 TraesCS2B01G274000 chr2D 199761328 199763962 2634 True 4420.0 4420 96.9660 1 2631 1 chr2D.!!$R2 2630
2 TraesCS2B01G274000 chr2A 220013744 220016824 3080 True 2050.5 3930 92.6755 1 2686 2 chr2A.!!$R1 2685
3 TraesCS2B01G274000 chr4A 681112056 681113684 1628 True 2285.0 2285 91.9250 938 2581 1 chr4A.!!$R1 1643
4 TraesCS2B01G274000 chr4D 474948056 474949741 1685 False 2281.0 2281 91.1920 938 2621 1 chr4D.!!$F4 1683
5 TraesCS2B01G274000 chr4D 474942369 474943551 1182 False 359.0 359 72.9530 1292 2459 1 chr4D.!!$F3 1167
6 TraesCS2B01G274000 chr4B 599234830 599236509 1679 True 2259.0 2259 90.9950 938 2621 1 chr4B.!!$R2 1683
7 TraesCS2B01G274000 chr3D 47755389 47756331 942 False 237.0 237 72.0910 1463 2402 1 chr3D.!!$F2 939
8 TraesCS2B01G274000 chr1B 279572165 279573024 859 True 241.0 241 72.4600 1460 2324 1 chr1B.!!$R1 864
9 TraesCS2B01G274000 chr1D 199334617 199335472 855 True 235.0 235 72.3670 1462 2324 1 chr1D.!!$R2 862

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
536 537 0.459899 TCTCCGCGCACTGAATACAT 59.54 50.000 8.75 0.0 0.00 2.29 F
854 863 4.600111 AGGGGTTTGTCTATTGACTTGGTA 59.40 41.667 8.74 0.0 43.29 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1813 1852 0.884704 GGCAGCTTCTCGACCAACAA 60.885 55.0 0.0 0.0 0.0 2.83 R
2697 3169 0.404040 CTAGGCTTTTGGGGGTGTGA 59.596 55.0 0.0 0.0 0.0 3.58 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
126 127 1.585006 GAAGAGTGGAAGGCGACGA 59.415 57.895 0.00 0.00 0.00 4.20
174 175 2.673258 GGTGAGGGTGGAAAGGAAAAA 58.327 47.619 0.00 0.00 0.00 1.94
219 220 2.169769 TGCTAGGATTCTAAACCCACGG 59.830 50.000 0.00 0.00 0.00 4.94
281 282 3.628989 TCGGCTTGGTCATCCGAT 58.371 55.556 9.63 0.00 46.12 4.18
322 323 6.907212 CGTTGTGAAATGCTTAATATCTCACC 59.093 38.462 0.00 0.00 32.59 4.02
329 330 4.188462 TGCTTAATATCTCACCAACACCG 58.812 43.478 0.00 0.00 0.00 4.94
445 446 3.134623 CCCTACATACATGAGCACCTTCA 59.865 47.826 0.00 0.00 0.00 3.02
469 470 0.897621 ACTGAGCCGACACATCATCA 59.102 50.000 0.00 0.00 0.00 3.07
496 497 1.079819 ACGAAGTCGCCACAGATGG 60.080 57.895 0.00 0.00 44.77 3.51
536 537 0.459899 TCTCCGCGCACTGAATACAT 59.540 50.000 8.75 0.00 0.00 2.29
690 694 7.971722 GCCTATTTCGATATAAAGAGGAGAGAC 59.028 40.741 13.52 0.00 46.30 3.36
854 863 4.600111 AGGGGTTTGTCTATTGACTTGGTA 59.400 41.667 8.74 0.00 43.29 3.25
2324 2375 4.500116 GGAGACGCTCCGGCAGAC 62.500 72.222 9.63 0.00 41.08 3.51
2554 2605 7.530426 AAGGTTTCTAGCAAAATCAAGACAT 57.470 32.000 0.00 0.00 0.00 3.06
2653 3125 5.416947 TCGAGAGGGAGCAAAGTTAATTAC 58.583 41.667 0.00 0.00 0.00 1.89
2654 3126 5.046878 TCGAGAGGGAGCAAAGTTAATTACA 60.047 40.000 0.00 0.00 0.00 2.41
2655 3127 5.642063 CGAGAGGGAGCAAAGTTAATTACAA 59.358 40.000 0.00 0.00 0.00 2.41
2656 3128 6.183360 CGAGAGGGAGCAAAGTTAATTACAAG 60.183 42.308 0.00 0.00 0.00 3.16
2681 3153 3.942539 TTACATCGGATGCGAACATTG 57.057 42.857 14.89 10.00 36.35 2.82
2686 3158 0.447406 CGGATGCGAACATTGAAGCA 59.553 50.000 0.00 7.59 44.13 3.91
2687 3159 1.135717 CGGATGCGAACATTGAAGCAA 60.136 47.619 0.00 0.00 43.19 3.91
2688 3160 2.668001 CGGATGCGAACATTGAAGCAAA 60.668 45.455 0.00 0.00 43.19 3.68
2689 3161 3.316283 GGATGCGAACATTGAAGCAAAA 58.684 40.909 8.80 0.00 43.19 2.44
2690 3162 3.740321 GGATGCGAACATTGAAGCAAAAA 59.260 39.130 8.80 0.00 43.19 1.94
2706 3178 2.857186 AAAAATTGCATCACACCCCC 57.143 45.000 0.00 0.00 0.00 5.40
2707 3179 1.727062 AAAATTGCATCACACCCCCA 58.273 45.000 0.00 0.00 0.00 4.96
2708 3180 1.727062 AAATTGCATCACACCCCCAA 58.273 45.000 0.00 0.00 0.00 4.12
2709 3181 1.727062 AATTGCATCACACCCCCAAA 58.273 45.000 0.00 0.00 0.00 3.28
2710 3182 1.727062 ATTGCATCACACCCCCAAAA 58.273 45.000 0.00 0.00 0.00 2.44
2711 3183 1.047002 TTGCATCACACCCCCAAAAG 58.953 50.000 0.00 0.00 0.00 2.27
2712 3184 1.293179 GCATCACACCCCCAAAAGC 59.707 57.895 0.00 0.00 0.00 3.51
2713 3185 1.974543 CATCACACCCCCAAAAGCC 59.025 57.895 0.00 0.00 0.00 4.35
2714 3186 0.542702 CATCACACCCCCAAAAGCCT 60.543 55.000 0.00 0.00 0.00 4.58
2715 3187 1.080638 ATCACACCCCCAAAAGCCTA 58.919 50.000 0.00 0.00 0.00 3.93
2716 3188 0.404040 TCACACCCCCAAAAGCCTAG 59.596 55.000 0.00 0.00 0.00 3.02
2717 3189 0.404040 CACACCCCCAAAAGCCTAGA 59.596 55.000 0.00 0.00 0.00 2.43
2718 3190 0.404426 ACACCCCCAAAAGCCTAGAC 59.596 55.000 0.00 0.00 0.00 2.59
2719 3191 0.698818 CACCCCCAAAAGCCTAGACT 59.301 55.000 0.00 0.00 0.00 3.24
2720 3192 1.913419 CACCCCCAAAAGCCTAGACTA 59.087 52.381 0.00 0.00 0.00 2.59
2721 3193 1.914108 ACCCCCAAAAGCCTAGACTAC 59.086 52.381 0.00 0.00 0.00 2.73
2722 3194 2.197465 CCCCCAAAAGCCTAGACTACT 58.803 52.381 0.00 0.00 0.00 2.57
2723 3195 2.170817 CCCCCAAAAGCCTAGACTACTC 59.829 54.545 0.00 0.00 0.00 2.59
2724 3196 3.108376 CCCCAAAAGCCTAGACTACTCT 58.892 50.000 0.00 0.00 0.00 3.24
2725 3197 3.133183 CCCCAAAAGCCTAGACTACTCTC 59.867 52.174 0.00 0.00 0.00 3.20
2726 3198 3.769844 CCCAAAAGCCTAGACTACTCTCA 59.230 47.826 0.00 0.00 0.00 3.27
2727 3199 4.382147 CCCAAAAGCCTAGACTACTCTCAC 60.382 50.000 0.00 0.00 0.00 3.51
2728 3200 4.220821 CCAAAAGCCTAGACTACTCTCACA 59.779 45.833 0.00 0.00 0.00 3.58
2729 3201 5.279506 CCAAAAGCCTAGACTACTCTCACAA 60.280 44.000 0.00 0.00 0.00 3.33
2730 3202 6.223852 CAAAAGCCTAGACTACTCTCACAAA 58.776 40.000 0.00 0.00 0.00 2.83
2731 3203 6.613153 AAAGCCTAGACTACTCTCACAAAT 57.387 37.500 0.00 0.00 0.00 2.32
2732 3204 5.845391 AGCCTAGACTACTCTCACAAATC 57.155 43.478 0.00 0.00 0.00 2.17
2733 3205 5.515106 AGCCTAGACTACTCTCACAAATCT 58.485 41.667 0.00 0.00 0.00 2.40
2734 3206 6.664714 AGCCTAGACTACTCTCACAAATCTA 58.335 40.000 0.00 0.00 0.00 1.98
2735 3207 6.544564 AGCCTAGACTACTCTCACAAATCTAC 59.455 42.308 0.00 0.00 0.00 2.59
2736 3208 6.512091 GCCTAGACTACTCTCACAAATCTACG 60.512 46.154 0.00 0.00 0.00 3.51
2737 3209 6.762187 CCTAGACTACTCTCACAAATCTACGA 59.238 42.308 0.00 0.00 0.00 3.43
2738 3210 7.280428 CCTAGACTACTCTCACAAATCTACGAA 59.720 40.741 0.00 0.00 0.00 3.85
2739 3211 7.079182 AGACTACTCTCACAAATCTACGAAG 57.921 40.000 0.00 0.00 0.00 3.79
2740 3212 6.094325 AGACTACTCTCACAAATCTACGAAGG 59.906 42.308 0.00 0.00 0.00 3.46
2741 3213 3.851098 ACTCTCACAAATCTACGAAGGC 58.149 45.455 0.00 0.00 0.00 4.35
2742 3214 3.190874 CTCTCACAAATCTACGAAGGCC 58.809 50.000 0.00 0.00 0.00 5.19
2743 3215 2.832129 TCTCACAAATCTACGAAGGCCT 59.168 45.455 0.00 0.00 0.00 5.19
2744 3216 3.119101 TCTCACAAATCTACGAAGGCCTC 60.119 47.826 5.23 0.00 0.00 4.70
2745 3217 2.093658 TCACAAATCTACGAAGGCCTCC 60.094 50.000 5.23 0.00 0.00 4.30
2746 3218 1.906574 ACAAATCTACGAAGGCCTCCA 59.093 47.619 5.23 0.00 0.00 3.86
2747 3219 2.280628 CAAATCTACGAAGGCCTCCAC 58.719 52.381 5.23 0.00 0.00 4.02
2748 3220 1.568504 AATCTACGAAGGCCTCCACA 58.431 50.000 5.23 0.00 0.00 4.17
2749 3221 1.794714 ATCTACGAAGGCCTCCACAT 58.205 50.000 5.23 0.00 0.00 3.21
2750 3222 1.112113 TCTACGAAGGCCTCCACATC 58.888 55.000 5.23 0.00 0.00 3.06
2751 3223 1.115467 CTACGAAGGCCTCCACATCT 58.885 55.000 5.23 0.00 0.00 2.90
2752 3224 1.482593 CTACGAAGGCCTCCACATCTT 59.517 52.381 5.23 0.00 0.00 2.40
2753 3225 0.693049 ACGAAGGCCTCCACATCTTT 59.307 50.000 5.23 0.00 0.00 2.52
2754 3226 1.339151 ACGAAGGCCTCCACATCTTTC 60.339 52.381 5.23 0.00 0.00 2.62
2755 3227 1.065854 CGAAGGCCTCCACATCTTTCT 60.066 52.381 5.23 0.00 0.00 2.52
2756 3228 2.168521 CGAAGGCCTCCACATCTTTCTA 59.831 50.000 5.23 0.00 0.00 2.10
2757 3229 3.369471 CGAAGGCCTCCACATCTTTCTAA 60.369 47.826 5.23 0.00 0.00 2.10
2758 3230 4.684485 CGAAGGCCTCCACATCTTTCTAAT 60.684 45.833 5.23 0.00 0.00 1.73
2759 3231 4.429854 AGGCCTCCACATCTTTCTAATC 57.570 45.455 0.00 0.00 0.00 1.75
2760 3232 3.782523 AGGCCTCCACATCTTTCTAATCA 59.217 43.478 0.00 0.00 0.00 2.57
2761 3233 4.414846 AGGCCTCCACATCTTTCTAATCAT 59.585 41.667 0.00 0.00 0.00 2.45
2762 3234 5.103771 AGGCCTCCACATCTTTCTAATCATT 60.104 40.000 0.00 0.00 0.00 2.57
2763 3235 5.009410 GGCCTCCACATCTTTCTAATCATTG 59.991 44.000 0.00 0.00 0.00 2.82
2764 3236 5.824624 GCCTCCACATCTTTCTAATCATTGA 59.175 40.000 0.00 0.00 0.00 2.57
2765 3237 6.489361 GCCTCCACATCTTTCTAATCATTGAT 59.511 38.462 0.00 0.00 0.00 2.57
2766 3238 7.014038 GCCTCCACATCTTTCTAATCATTGATT 59.986 37.037 15.78 15.78 36.20 2.57
2767 3239 8.566260 CCTCCACATCTTTCTAATCATTGATTC 58.434 37.037 14.99 0.00 33.95 2.52
2768 3240 8.146479 TCCACATCTTTCTAATCATTGATTCG 57.854 34.615 14.99 9.57 33.95 3.34
2769 3241 6.854892 CCACATCTTTCTAATCATTGATTCGC 59.145 38.462 14.99 0.00 33.95 4.70
2770 3242 6.854892 CACATCTTTCTAATCATTGATTCGCC 59.145 38.462 14.99 0.00 33.95 5.54
2771 3243 6.769822 ACATCTTTCTAATCATTGATTCGCCT 59.230 34.615 14.99 0.00 33.95 5.52
2772 3244 6.851222 TCTTTCTAATCATTGATTCGCCTC 57.149 37.500 14.99 0.00 33.95 4.70
2773 3245 5.463392 TCTTTCTAATCATTGATTCGCCTCG 59.537 40.000 14.99 2.56 33.95 4.63
2774 3246 3.059884 TCTAATCATTGATTCGCCTCGC 58.940 45.455 14.99 0.00 33.95 5.03
2775 3247 0.947244 AATCATTGATTCGCCTCGCC 59.053 50.000 6.06 0.00 0.00 5.54
2776 3248 0.886490 ATCATTGATTCGCCTCGCCC 60.886 55.000 0.00 0.00 0.00 6.13
3208 3680 3.727146 GGCGAACCGGCGATATTT 58.273 55.556 9.30 0.00 43.33 1.40
3209 3681 1.278637 GGCGAACCGGCGATATTTG 59.721 57.895 9.30 4.90 43.33 2.32
3210 3682 1.368850 GCGAACCGGCGATATTTGC 60.369 57.895 9.30 11.56 0.00 3.68
3211 3683 1.083657 CGAACCGGCGATATTTGCG 60.084 57.895 9.30 0.00 0.00 4.85
3212 3684 1.278637 GAACCGGCGATATTTGCGG 59.721 57.895 9.30 0.00 33.96 5.69
3216 3688 2.639286 GGCGATATTTGCGGCCTG 59.361 61.111 0.00 0.00 46.91 4.85
3217 3689 2.639286 GCGATATTTGCGGCCTGG 59.361 61.111 0.00 0.00 0.00 4.45
3218 3690 2.908073 GCGATATTTGCGGCCTGGG 61.908 63.158 0.00 0.00 0.00 4.45
3219 3691 2.260869 CGATATTTGCGGCCTGGGG 61.261 63.158 0.00 0.00 0.00 4.96
3243 3715 4.925861 GCTCGGCCCCAGATGCTC 62.926 72.222 0.00 0.00 0.00 4.26
3244 3716 3.160047 CTCGGCCCCAGATGCTCT 61.160 66.667 0.00 0.00 0.00 4.09
3245 3717 2.688666 TCGGCCCCAGATGCTCTT 60.689 61.111 0.00 0.00 0.00 2.85
3246 3718 2.262774 CTCGGCCCCAGATGCTCTTT 62.263 60.000 0.00 0.00 0.00 2.52
3247 3719 1.379044 CGGCCCCAGATGCTCTTTT 60.379 57.895 0.00 0.00 0.00 2.27
3248 3720 0.967380 CGGCCCCAGATGCTCTTTTT 60.967 55.000 0.00 0.00 0.00 1.94
3285 3757 6.493449 AAAACATAATTGGGCAAATTTCGG 57.507 33.333 4.94 0.00 39.29 4.30
3286 3758 3.530535 ACATAATTGGGCAAATTTCGGC 58.469 40.909 4.94 0.00 39.29 5.54
3287 3759 3.055530 ACATAATTGGGCAAATTTCGGCA 60.056 39.130 4.94 0.00 39.29 5.69
3288 3760 2.557920 AATTGGGCAAATTTCGGCAA 57.442 40.000 13.36 2.95 34.72 4.52
3289 3761 2.557920 ATTGGGCAAATTTCGGCAAA 57.442 40.000 13.36 10.02 0.00 3.68
3290 3762 1.587547 TTGGGCAAATTTCGGCAAAC 58.412 45.000 13.36 1.36 0.00 2.93
3291 3763 0.465705 TGGGCAAATTTCGGCAAACA 59.534 45.000 13.36 3.38 0.00 2.83
3292 3764 0.865111 GGGCAAATTTCGGCAAACAC 59.135 50.000 13.36 0.00 0.00 3.32
3293 3765 0.506506 GGCAAATTTCGGCAAACACG 59.493 50.000 3.25 0.00 0.00 4.49
3294 3766 0.506506 GCAAATTTCGGCAAACACGG 59.493 50.000 0.00 0.00 0.00 4.94
3295 3767 0.506506 CAAATTTCGGCAAACACGGC 59.493 50.000 0.00 0.00 0.00 5.68
3296 3768 0.103208 AAATTTCGGCAAACACGGCA 59.897 45.000 0.00 0.00 0.00 5.69
3297 3769 0.316841 AATTTCGGCAAACACGGCAT 59.683 45.000 0.00 0.00 0.00 4.40
3298 3770 1.169577 ATTTCGGCAAACACGGCATA 58.830 45.000 0.00 0.00 0.00 3.14
3299 3771 0.238817 TTTCGGCAAACACGGCATAC 59.761 50.000 0.00 0.00 0.00 2.39
3300 3772 0.885150 TTCGGCAAACACGGCATACA 60.885 50.000 0.00 0.00 0.00 2.29
3301 3773 0.675208 TCGGCAAACACGGCATACAT 60.675 50.000 0.00 0.00 0.00 2.29
3302 3774 0.170116 CGGCAAACACGGCATACATT 59.830 50.000 0.00 0.00 0.00 2.71
3303 3775 1.793714 CGGCAAACACGGCATACATTC 60.794 52.381 0.00 0.00 0.00 2.67
3304 3776 1.534028 GCAAACACGGCATACATTCG 58.466 50.000 0.00 0.00 0.00 3.34
3305 3777 1.793714 GCAAACACGGCATACATTCGG 60.794 52.381 0.00 0.00 0.00 4.30
3306 3778 0.450184 AAACACGGCATACATTCGGC 59.550 50.000 0.00 0.00 0.00 5.54
3315 3787 5.143916 GGCATACATTCGGCGATATTTAG 57.856 43.478 11.76 1.18 0.00 1.85
3316 3788 4.034048 GGCATACATTCGGCGATATTTAGG 59.966 45.833 11.76 7.79 0.00 2.69
3317 3789 4.494199 GCATACATTCGGCGATATTTAGGC 60.494 45.833 11.76 13.39 0.00 3.93
3323 3795 1.873698 GGCGATATTTAGGCGGTTCA 58.126 50.000 0.00 0.00 0.00 3.18
3324 3796 1.529865 GGCGATATTTAGGCGGTTCAC 59.470 52.381 0.00 0.00 0.00 3.18
3325 3797 2.206750 GCGATATTTAGGCGGTTCACA 58.793 47.619 0.00 0.00 0.00 3.58
3326 3798 2.221055 GCGATATTTAGGCGGTTCACAG 59.779 50.000 0.00 0.00 0.00 3.66
3327 3799 3.454375 CGATATTTAGGCGGTTCACAGT 58.546 45.455 0.00 0.00 0.00 3.55
3328 3800 3.869246 CGATATTTAGGCGGTTCACAGTT 59.131 43.478 0.00 0.00 0.00 3.16
3329 3801 5.045215 CGATATTTAGGCGGTTCACAGTTA 58.955 41.667 0.00 0.00 0.00 2.24
3330 3802 5.694910 CGATATTTAGGCGGTTCACAGTTAT 59.305 40.000 0.00 0.00 0.00 1.89
3331 3803 6.202188 CGATATTTAGGCGGTTCACAGTTATT 59.798 38.462 0.00 0.00 0.00 1.40
3332 3804 7.254658 CGATATTTAGGCGGTTCACAGTTATTT 60.255 37.037 0.00 0.00 0.00 1.40
3333 3805 6.584185 ATTTAGGCGGTTCACAGTTATTTT 57.416 33.333 0.00 0.00 0.00 1.82
3334 3806 7.690952 ATTTAGGCGGTTCACAGTTATTTTA 57.309 32.000 0.00 0.00 0.00 1.52
3335 3807 6.484818 TTAGGCGGTTCACAGTTATTTTAC 57.515 37.500 0.00 0.00 0.00 2.01
3336 3808 4.391155 AGGCGGTTCACAGTTATTTTACA 58.609 39.130 0.00 0.00 0.00 2.41
3337 3809 5.007682 AGGCGGTTCACAGTTATTTTACAT 58.992 37.500 0.00 0.00 0.00 2.29
3338 3810 6.174760 AGGCGGTTCACAGTTATTTTACATA 58.825 36.000 0.00 0.00 0.00 2.29
3339 3811 6.826741 AGGCGGTTCACAGTTATTTTACATAT 59.173 34.615 0.00 0.00 0.00 1.78
3340 3812 7.988599 AGGCGGTTCACAGTTATTTTACATATA 59.011 33.333 0.00 0.00 0.00 0.86
3341 3813 8.280497 GGCGGTTCACAGTTATTTTACATATAG 58.720 37.037 0.00 0.00 0.00 1.31
3342 3814 9.037737 GCGGTTCACAGTTATTTTACATATAGA 57.962 33.333 0.00 0.00 0.00 1.98
3424 3896 3.491652 GCTGAAGGCGCCGAAGTC 61.492 66.667 23.20 17.32 0.00 3.01
3425 3897 3.181967 CTGAAGGCGCCGAAGTCG 61.182 66.667 23.20 9.75 39.44 4.18
3436 3908 3.173240 GAAGTCGCTGCCGTCGTC 61.173 66.667 0.00 0.00 35.54 4.20
3443 3915 4.477975 CTGCCGTCGTCGTCCTCC 62.478 72.222 0.71 0.00 35.01 4.30
3445 3917 3.745803 GCCGTCGTCGTCCTCCTT 61.746 66.667 0.71 0.00 35.01 3.36
3446 3918 2.484203 CCGTCGTCGTCCTCCTTC 59.516 66.667 0.71 0.00 35.01 3.46
3447 3919 2.330372 CCGTCGTCGTCCTCCTTCA 61.330 63.158 0.71 0.00 35.01 3.02
3448 3920 1.154263 CGTCGTCGTCCTCCTTCAC 60.154 63.158 0.00 0.00 0.00 3.18
3449 3921 1.154263 GTCGTCGTCCTCCTTCACG 60.154 63.158 0.00 0.00 37.36 4.35
3450 3922 1.598962 TCGTCGTCCTCCTTCACGT 60.599 57.895 0.00 0.00 37.30 4.49
3451 3923 1.442184 CGTCGTCCTCCTTCACGTG 60.442 63.158 9.94 9.94 37.30 4.49
3452 3924 1.080705 GTCGTCCTCCTTCACGTGG 60.081 63.158 17.00 0.00 37.30 4.94
3453 3925 2.432628 CGTCCTCCTTCACGTGGC 60.433 66.667 17.00 0.00 0.00 5.01
3454 3926 2.047179 GTCCTCCTTCACGTGGCC 60.047 66.667 17.00 0.00 0.00 5.36
3455 3927 3.691342 TCCTCCTTCACGTGGCCG 61.691 66.667 17.00 4.22 40.83 6.13
3457 3929 2.432628 CTCCTTCACGTGGCCGTC 60.433 66.667 17.00 0.00 46.28 4.79
3458 3930 3.934391 CTCCTTCACGTGGCCGTCC 62.934 68.421 17.00 0.00 46.28 4.79
3460 3932 4.003788 CTTCACGTGGCCGTCCCT 62.004 66.667 17.00 0.00 46.28 4.20
3461 3933 4.308458 TTCACGTGGCCGTCCCTG 62.308 66.667 17.00 0.00 46.28 4.45
3495 3967 3.782443 GGTCCCCCTGGCGTACTG 61.782 72.222 0.00 0.00 0.00 2.74
3496 3968 3.782443 GTCCCCCTGGCGTACTGG 61.782 72.222 0.00 0.00 37.89 4.00
3497 3969 4.326227 TCCCCCTGGCGTACTGGT 62.326 66.667 0.00 0.00 36.51 4.00
3498 3970 3.327404 CCCCCTGGCGTACTGGTT 61.327 66.667 0.00 0.00 36.51 3.67
3499 3971 2.754375 CCCCTGGCGTACTGGTTT 59.246 61.111 0.00 0.00 36.51 3.27
3500 3972 1.674322 CCCCTGGCGTACTGGTTTG 60.674 63.158 0.00 0.00 36.51 2.93
3501 3973 1.674322 CCCTGGCGTACTGGTTTGG 60.674 63.158 0.00 0.00 36.51 3.28
3502 3974 2.332654 CCTGGCGTACTGGTTTGGC 61.333 63.158 0.00 0.00 33.77 4.52
3503 3975 2.281900 TGGCGTACTGGTTTGGCC 60.282 61.111 0.00 0.00 44.00 5.36
3504 3976 3.428282 GGCGTACTGGTTTGGCCG 61.428 66.667 0.00 0.00 41.21 6.13
3505 3977 4.097863 GCGTACTGGTTTGGCCGC 62.098 66.667 0.00 0.00 41.21 6.53
3506 3978 3.428282 CGTACTGGTTTGGCCGCC 61.428 66.667 1.04 1.04 41.21 6.13
3507 3979 3.428282 GTACTGGTTTGGCCGCCG 61.428 66.667 4.58 0.07 41.21 6.46
3508 3980 4.708386 TACTGGTTTGGCCGCCGG 62.708 66.667 15.56 15.56 41.21 6.13
3528 4000 4.702081 GCACCTCGTCGTCGCTGT 62.702 66.667 0.00 0.00 36.96 4.40
3529 4001 2.502080 CACCTCGTCGTCGCTGTC 60.502 66.667 0.00 0.00 36.96 3.51
3530 4002 4.086178 ACCTCGTCGTCGCTGTCG 62.086 66.667 0.00 0.00 36.96 4.35
3531 4003 4.086178 CCTCGTCGTCGCTGTCGT 62.086 66.667 0.00 0.00 36.96 4.34
3532 4004 2.127345 CTCGTCGTCGCTGTCGTT 60.127 61.111 0.00 0.00 36.96 3.85
3533 4005 2.418333 CTCGTCGTCGCTGTCGTTG 61.418 63.158 0.00 0.00 36.96 4.10
3534 4006 2.426261 CGTCGTCGCTGTCGTTGA 60.426 61.111 0.00 0.00 36.96 3.18
3535 4007 2.418333 CGTCGTCGCTGTCGTTGAG 61.418 63.158 0.00 0.00 36.96 3.02
3536 4008 1.082300 GTCGTCGCTGTCGTTGAGA 60.082 57.895 0.00 0.00 36.96 3.27
3537 4009 0.659417 GTCGTCGCTGTCGTTGAGAA 60.659 55.000 0.00 0.00 36.96 2.87
3538 4010 0.240145 TCGTCGCTGTCGTTGAGAAT 59.760 50.000 0.00 0.00 36.96 2.40
3539 4011 1.465777 TCGTCGCTGTCGTTGAGAATA 59.534 47.619 0.00 0.00 36.96 1.75
3540 4012 2.095617 TCGTCGCTGTCGTTGAGAATAA 60.096 45.455 0.00 0.00 36.96 1.40
3541 4013 2.026507 CGTCGCTGTCGTTGAGAATAAC 59.973 50.000 0.00 0.00 36.96 1.89
3550 4022 1.925185 GTTGAGAATAACGACGCCTCC 59.075 52.381 0.00 0.00 0.00 4.30
3551 4023 0.458669 TGAGAATAACGACGCCTCCC 59.541 55.000 0.00 0.00 0.00 4.30
3552 4024 0.745468 GAGAATAACGACGCCTCCCT 59.255 55.000 0.00 0.00 0.00 4.20
3553 4025 0.745468 AGAATAACGACGCCTCCCTC 59.255 55.000 0.00 0.00 0.00 4.30
3554 4026 0.594284 GAATAACGACGCCTCCCTCG 60.594 60.000 0.00 0.00 35.96 4.63
3555 4027 1.318158 AATAACGACGCCTCCCTCGT 61.318 55.000 0.00 0.00 44.89 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
102 103 1.867363 GCCTTCCACTCTTCCTCCTA 58.133 55.000 0.00 0.00 0.00 2.94
126 127 2.575279 AGCCACTCATCTCCACTTCATT 59.425 45.455 0.00 0.00 0.00 2.57
219 220 3.063997 CACATCAACCCGAAGCAATAGTC 59.936 47.826 0.00 0.00 0.00 2.59
445 446 1.203523 GATGTGTCGGCTCAGTCTCTT 59.796 52.381 0.00 0.00 0.00 2.85
516 517 0.245266 TGTATTCAGTGCGCGGAGAA 59.755 50.000 8.83 6.49 0.00 2.87
536 537 7.548075 GGATTTATTTTAGATCTTCCGGCGATA 59.452 37.037 9.30 0.00 0.00 2.92
569 570 9.991906 TTCTAAACTTAACACTAGTGCTTACAT 57.008 29.630 22.90 6.77 0.00 2.29
690 694 2.845486 CACGTTGTCTCTCTCTTCTCG 58.155 52.381 0.00 0.00 0.00 4.04
854 863 4.157656 GCTCAGACTAGAGAGTTGACATGT 59.842 45.833 0.00 0.00 37.87 3.21
1602 1641 1.891919 GGCGTTGTTGCTCCACAGA 60.892 57.895 0.00 0.00 34.52 3.41
1647 1686 2.955402 GTCAGCCAGTCGACGAGT 59.045 61.111 10.46 0.00 0.00 4.18
1813 1852 0.884704 GGCAGCTTCTCGACCAACAA 60.885 55.000 0.00 0.00 0.00 2.83
2352 2403 1.811266 CAGCCCAATCACCGTCTCG 60.811 63.158 0.00 0.00 0.00 4.04
2364 2415 2.041922 AGCCTCGGTATCAGCCCA 60.042 61.111 0.00 0.00 0.00 5.36
2653 3125 2.285220 CGCATCCGATGTAAACCTCTTG 59.715 50.000 10.10 0.00 36.29 3.02
2654 3126 2.167693 TCGCATCCGATGTAAACCTCTT 59.832 45.455 10.10 0.00 38.82 2.85
2655 3127 1.754803 TCGCATCCGATGTAAACCTCT 59.245 47.619 10.10 0.00 38.82 3.69
2656 3128 2.218953 TCGCATCCGATGTAAACCTC 57.781 50.000 10.10 0.00 38.82 3.85
2687 3159 2.053244 TGGGGGTGTGATGCAATTTTT 58.947 42.857 0.00 0.00 0.00 1.94
2688 3160 1.727062 TGGGGGTGTGATGCAATTTT 58.273 45.000 0.00 0.00 0.00 1.82
2689 3161 1.727062 TTGGGGGTGTGATGCAATTT 58.273 45.000 0.00 0.00 0.00 1.82
2690 3162 1.727062 TTTGGGGGTGTGATGCAATT 58.273 45.000 0.00 0.00 0.00 2.32
2691 3163 1.624813 CTTTTGGGGGTGTGATGCAAT 59.375 47.619 0.00 0.00 0.00 3.56
2692 3164 1.047002 CTTTTGGGGGTGTGATGCAA 58.953 50.000 0.00 0.00 0.00 4.08
2693 3165 1.470996 GCTTTTGGGGGTGTGATGCA 61.471 55.000 0.00 0.00 0.00 3.96
2694 3166 1.293179 GCTTTTGGGGGTGTGATGC 59.707 57.895 0.00 0.00 0.00 3.91
2695 3167 0.542702 AGGCTTTTGGGGGTGTGATG 60.543 55.000 0.00 0.00 0.00 3.07
2696 3168 1.005924 CTAGGCTTTTGGGGGTGTGAT 59.994 52.381 0.00 0.00 0.00 3.06
2697 3169 0.404040 CTAGGCTTTTGGGGGTGTGA 59.596 55.000 0.00 0.00 0.00 3.58
2698 3170 0.404040 TCTAGGCTTTTGGGGGTGTG 59.596 55.000 0.00 0.00 0.00 3.82
2699 3171 0.404426 GTCTAGGCTTTTGGGGGTGT 59.596 55.000 0.00 0.00 0.00 4.16
2700 3172 0.698818 AGTCTAGGCTTTTGGGGGTG 59.301 55.000 0.00 0.00 0.00 4.61
2701 3173 1.914108 GTAGTCTAGGCTTTTGGGGGT 59.086 52.381 0.11 0.00 0.00 4.95
2702 3174 2.170817 GAGTAGTCTAGGCTTTTGGGGG 59.829 54.545 0.11 0.00 0.00 5.40
2703 3175 3.108376 AGAGTAGTCTAGGCTTTTGGGG 58.892 50.000 0.11 0.00 0.00 4.96
2704 3176 3.769844 TGAGAGTAGTCTAGGCTTTTGGG 59.230 47.826 0.11 0.00 30.97 4.12
2705 3177 4.220821 TGTGAGAGTAGTCTAGGCTTTTGG 59.779 45.833 0.11 0.00 30.97 3.28
2706 3178 5.392767 TGTGAGAGTAGTCTAGGCTTTTG 57.607 43.478 0.11 0.00 30.97 2.44
2707 3179 6.420913 TTTGTGAGAGTAGTCTAGGCTTTT 57.579 37.500 0.11 0.00 30.97 2.27
2708 3180 6.439058 AGATTTGTGAGAGTAGTCTAGGCTTT 59.561 38.462 0.11 0.00 30.97 3.51
2709 3181 5.955355 AGATTTGTGAGAGTAGTCTAGGCTT 59.045 40.000 0.11 0.00 30.97 4.35
2710 3182 5.515106 AGATTTGTGAGAGTAGTCTAGGCT 58.485 41.667 0.74 0.74 30.97 4.58
2711 3183 5.845391 AGATTTGTGAGAGTAGTCTAGGC 57.155 43.478 0.00 0.00 30.97 3.93
2712 3184 6.762187 TCGTAGATTTGTGAGAGTAGTCTAGG 59.238 42.308 0.00 0.00 30.97 3.02
2713 3185 7.773864 TCGTAGATTTGTGAGAGTAGTCTAG 57.226 40.000 0.00 0.00 30.97 2.43
2714 3186 7.280428 CCTTCGTAGATTTGTGAGAGTAGTCTA 59.720 40.741 0.00 0.00 35.04 2.59
2715 3187 6.094325 CCTTCGTAGATTTGTGAGAGTAGTCT 59.906 42.308 0.00 0.00 35.04 3.24
2716 3188 6.259638 CCTTCGTAGATTTGTGAGAGTAGTC 58.740 44.000 0.00 0.00 35.04 2.59
2717 3189 5.393243 GCCTTCGTAGATTTGTGAGAGTAGT 60.393 44.000 0.00 0.00 35.04 2.73
2718 3190 5.038033 GCCTTCGTAGATTTGTGAGAGTAG 58.962 45.833 0.00 0.00 35.04 2.57
2719 3191 4.142227 GGCCTTCGTAGATTTGTGAGAGTA 60.142 45.833 0.00 0.00 35.04 2.59
2720 3192 3.368531 GGCCTTCGTAGATTTGTGAGAGT 60.369 47.826 0.00 0.00 35.04 3.24
2721 3193 3.118956 AGGCCTTCGTAGATTTGTGAGAG 60.119 47.826 0.00 0.00 35.04 3.20
2722 3194 2.832129 AGGCCTTCGTAGATTTGTGAGA 59.168 45.455 0.00 0.00 35.04 3.27
2723 3195 3.190874 GAGGCCTTCGTAGATTTGTGAG 58.809 50.000 6.77 0.00 35.04 3.51
2724 3196 2.093658 GGAGGCCTTCGTAGATTTGTGA 60.094 50.000 6.77 0.00 35.04 3.58
2725 3197 2.280628 GGAGGCCTTCGTAGATTTGTG 58.719 52.381 6.77 0.00 35.04 3.33
2726 3198 1.906574 TGGAGGCCTTCGTAGATTTGT 59.093 47.619 6.77 0.00 35.04 2.83
2727 3199 2.280628 GTGGAGGCCTTCGTAGATTTG 58.719 52.381 6.77 0.00 35.04 2.32
2728 3200 1.906574 TGTGGAGGCCTTCGTAGATTT 59.093 47.619 6.77 0.00 35.04 2.17
2729 3201 1.568504 TGTGGAGGCCTTCGTAGATT 58.431 50.000 6.77 0.00 35.04 2.40
2730 3202 1.689273 GATGTGGAGGCCTTCGTAGAT 59.311 52.381 6.77 0.00 35.04 1.98
2731 3203 1.112113 GATGTGGAGGCCTTCGTAGA 58.888 55.000 6.77 0.00 0.00 2.59
2732 3204 1.115467 AGATGTGGAGGCCTTCGTAG 58.885 55.000 6.77 0.00 0.00 3.51
2733 3205 1.568504 AAGATGTGGAGGCCTTCGTA 58.431 50.000 6.77 0.00 0.00 3.43
2734 3206 0.693049 AAAGATGTGGAGGCCTTCGT 59.307 50.000 6.77 1.92 0.00 3.85
2735 3207 1.065854 AGAAAGATGTGGAGGCCTTCG 60.066 52.381 6.77 0.00 0.00 3.79
2736 3208 2.797177 AGAAAGATGTGGAGGCCTTC 57.203 50.000 6.77 4.87 0.00 3.46
2737 3209 4.228210 TGATTAGAAAGATGTGGAGGCCTT 59.772 41.667 6.77 0.00 0.00 4.35
2738 3210 3.782523 TGATTAGAAAGATGTGGAGGCCT 59.217 43.478 3.86 3.86 0.00 5.19
2739 3211 4.156455 TGATTAGAAAGATGTGGAGGCC 57.844 45.455 0.00 0.00 0.00 5.19
2740 3212 5.824624 TCAATGATTAGAAAGATGTGGAGGC 59.175 40.000 0.00 0.00 0.00 4.70
2741 3213 8.461249 AATCAATGATTAGAAAGATGTGGAGG 57.539 34.615 6.70 0.00 29.72 4.30
2742 3214 8.281194 CGAATCAATGATTAGAAAGATGTGGAG 58.719 37.037 8.64 0.00 31.89 3.86
2743 3215 7.254898 GCGAATCAATGATTAGAAAGATGTGGA 60.255 37.037 18.06 0.00 31.89 4.02
2744 3216 6.854892 GCGAATCAATGATTAGAAAGATGTGG 59.145 38.462 18.06 0.00 31.89 4.17
2745 3217 6.854892 GGCGAATCAATGATTAGAAAGATGTG 59.145 38.462 18.06 0.00 31.89 3.21
2746 3218 6.769822 AGGCGAATCAATGATTAGAAAGATGT 59.230 34.615 18.06 0.00 31.89 3.06
2747 3219 7.199541 AGGCGAATCAATGATTAGAAAGATG 57.800 36.000 18.06 0.20 31.89 2.90
2748 3220 6.146837 CGAGGCGAATCAATGATTAGAAAGAT 59.853 38.462 18.06 0.86 31.89 2.40
2749 3221 5.463392 CGAGGCGAATCAATGATTAGAAAGA 59.537 40.000 18.06 0.00 31.89 2.52
2750 3222 5.674008 CGAGGCGAATCAATGATTAGAAAG 58.326 41.667 18.06 5.66 31.89 2.62
2751 3223 4.024893 GCGAGGCGAATCAATGATTAGAAA 60.025 41.667 18.06 0.00 31.89 2.52
2752 3224 3.494626 GCGAGGCGAATCAATGATTAGAA 59.505 43.478 18.06 0.00 31.89 2.10
2753 3225 3.059884 GCGAGGCGAATCAATGATTAGA 58.940 45.455 18.06 0.00 31.89 2.10
2754 3226 2.158449 GGCGAGGCGAATCAATGATTAG 59.842 50.000 8.64 9.97 31.89 1.73
2755 3227 2.143122 GGCGAGGCGAATCAATGATTA 58.857 47.619 8.64 0.00 31.89 1.75
2756 3228 0.947244 GGCGAGGCGAATCAATGATT 59.053 50.000 8.39 8.39 34.71 2.57
2757 3229 0.886490 GGGCGAGGCGAATCAATGAT 60.886 55.000 0.00 0.00 0.00 2.45
2758 3230 1.523711 GGGCGAGGCGAATCAATGA 60.524 57.895 0.00 0.00 0.00 2.57
2759 3231 3.025619 GGGCGAGGCGAATCAATG 58.974 61.111 0.00 0.00 0.00 2.82
3189 3661 3.819877 AATATCGCCGGTTCGCCCC 62.820 63.158 1.90 0.00 0.00 5.80
3190 3662 1.890510 AAATATCGCCGGTTCGCCC 60.891 57.895 1.90 0.00 0.00 6.13
3191 3663 1.278637 CAAATATCGCCGGTTCGCC 59.721 57.895 1.90 0.00 0.00 5.54
3192 3664 1.368850 GCAAATATCGCCGGTTCGC 60.369 57.895 1.90 0.00 0.00 4.70
3193 3665 1.083657 CGCAAATATCGCCGGTTCG 60.084 57.895 1.90 0.00 0.00 3.95
3194 3666 1.278637 CCGCAAATATCGCCGGTTC 59.721 57.895 1.90 0.00 36.18 3.62
3195 3667 2.830285 GCCGCAAATATCGCCGGTT 61.830 57.895 1.90 0.00 42.54 4.44
3196 3668 3.276846 GCCGCAAATATCGCCGGT 61.277 61.111 1.90 0.00 42.54 5.28
3197 3669 4.025401 GGCCGCAAATATCGCCGG 62.025 66.667 0.00 0.00 43.38 6.13
3198 3670 2.972505 AGGCCGCAAATATCGCCG 60.973 61.111 0.00 0.00 0.00 6.46
3199 3671 2.639286 CAGGCCGCAAATATCGCC 59.361 61.111 0.00 0.00 0.00 5.54
3200 3672 2.639286 CCAGGCCGCAAATATCGC 59.361 61.111 0.00 0.00 0.00 4.58
3201 3673 2.260869 CCCCAGGCCGCAAATATCG 61.261 63.158 0.00 0.00 0.00 2.92
3202 3674 2.564721 GCCCCAGGCCGCAAATATC 61.565 63.158 0.00 0.00 44.06 1.63
3203 3675 2.521708 GCCCCAGGCCGCAAATAT 60.522 61.111 0.00 0.00 44.06 1.28
3226 3698 4.925861 GAGCATCTGGGGCCGAGC 62.926 72.222 11.18 0.00 0.00 5.03
3259 3731 8.672815 CCGAAATTTGCCCAATTATGTTTTTAT 58.327 29.630 0.00 0.00 33.60 1.40
3260 3732 7.361286 GCCGAAATTTGCCCAATTATGTTTTTA 60.361 33.333 0.00 0.00 33.60 1.52
3261 3733 6.569418 GCCGAAATTTGCCCAATTATGTTTTT 60.569 34.615 0.00 0.00 33.60 1.94
3262 3734 5.106357 GCCGAAATTTGCCCAATTATGTTTT 60.106 36.000 0.00 0.00 33.60 2.43
3263 3735 4.394610 GCCGAAATTTGCCCAATTATGTTT 59.605 37.500 0.00 0.00 33.60 2.83
3264 3736 3.938334 GCCGAAATTTGCCCAATTATGTT 59.062 39.130 0.00 0.00 33.60 2.71
3265 3737 3.055530 TGCCGAAATTTGCCCAATTATGT 60.056 39.130 0.00 0.00 33.60 2.29
3266 3738 3.529533 TGCCGAAATTTGCCCAATTATG 58.470 40.909 0.00 0.00 33.60 1.90
3267 3739 3.902881 TGCCGAAATTTGCCCAATTAT 57.097 38.095 0.00 0.00 33.60 1.28
3268 3740 3.685139 TTGCCGAAATTTGCCCAATTA 57.315 38.095 0.00 0.00 33.60 1.40
3269 3741 2.551887 GTTTGCCGAAATTTGCCCAATT 59.448 40.909 0.00 0.00 36.57 2.32
3270 3742 2.150390 GTTTGCCGAAATTTGCCCAAT 58.850 42.857 0.00 0.00 0.00 3.16
3271 3743 1.134401 TGTTTGCCGAAATTTGCCCAA 60.134 42.857 0.00 0.00 0.00 4.12
3272 3744 0.465705 TGTTTGCCGAAATTTGCCCA 59.534 45.000 0.00 0.00 0.00 5.36
3273 3745 0.865111 GTGTTTGCCGAAATTTGCCC 59.135 50.000 0.00 0.00 0.00 5.36
3274 3746 0.506506 CGTGTTTGCCGAAATTTGCC 59.493 50.000 0.00 0.00 0.00 4.52
3275 3747 0.506506 CCGTGTTTGCCGAAATTTGC 59.493 50.000 0.00 0.00 0.00 3.68
3276 3748 0.506506 GCCGTGTTTGCCGAAATTTG 59.493 50.000 0.00 0.00 0.00 2.32
3277 3749 0.103208 TGCCGTGTTTGCCGAAATTT 59.897 45.000 0.00 0.00 0.00 1.82
3278 3750 0.316841 ATGCCGTGTTTGCCGAAATT 59.683 45.000 0.00 0.00 0.00 1.82
3279 3751 1.135517 GTATGCCGTGTTTGCCGAAAT 60.136 47.619 0.00 0.00 0.00 2.17
3280 3752 0.238817 GTATGCCGTGTTTGCCGAAA 59.761 50.000 0.00 0.00 0.00 3.46
3281 3753 0.885150 TGTATGCCGTGTTTGCCGAA 60.885 50.000 0.00 0.00 0.00 4.30
3282 3754 0.675208 ATGTATGCCGTGTTTGCCGA 60.675 50.000 0.00 0.00 0.00 5.54
3283 3755 0.170116 AATGTATGCCGTGTTTGCCG 59.830 50.000 0.00 0.00 0.00 5.69
3284 3756 1.793714 CGAATGTATGCCGTGTTTGCC 60.794 52.381 0.00 0.00 0.00 4.52
3285 3757 1.534028 CGAATGTATGCCGTGTTTGC 58.466 50.000 0.00 0.00 0.00 3.68
3286 3758 1.793714 GCCGAATGTATGCCGTGTTTG 60.794 52.381 0.00 0.00 0.00 2.93
3287 3759 0.450184 GCCGAATGTATGCCGTGTTT 59.550 50.000 0.00 0.00 0.00 2.83
3288 3760 1.701545 CGCCGAATGTATGCCGTGTT 61.702 55.000 0.00 0.00 0.00 3.32
3289 3761 2.171079 CGCCGAATGTATGCCGTGT 61.171 57.895 0.00 0.00 0.00 4.49
3290 3762 1.221466 ATCGCCGAATGTATGCCGTG 61.221 55.000 0.00 0.00 0.00 4.94
3291 3763 0.315886 TATCGCCGAATGTATGCCGT 59.684 50.000 0.00 0.00 0.00 5.68
3292 3764 1.640428 ATATCGCCGAATGTATGCCG 58.360 50.000 0.00 0.00 0.00 5.69
3293 3765 4.034048 CCTAAATATCGCCGAATGTATGCC 59.966 45.833 0.00 0.00 0.00 4.40
3294 3766 4.494199 GCCTAAATATCGCCGAATGTATGC 60.494 45.833 0.00 0.00 0.00 3.14
3295 3767 4.259810 CGCCTAAATATCGCCGAATGTATG 60.260 45.833 0.00 0.00 0.00 2.39
3296 3768 3.863424 CGCCTAAATATCGCCGAATGTAT 59.137 43.478 0.00 0.00 0.00 2.29
3297 3769 3.247442 CGCCTAAATATCGCCGAATGTA 58.753 45.455 0.00 0.00 0.00 2.29
3298 3770 2.066262 CGCCTAAATATCGCCGAATGT 58.934 47.619 0.00 0.00 0.00 2.71
3299 3771 1.393539 CCGCCTAAATATCGCCGAATG 59.606 52.381 0.00 0.00 0.00 2.67
3300 3772 1.001633 ACCGCCTAAATATCGCCGAAT 59.998 47.619 0.00 0.00 0.00 3.34
3301 3773 0.390124 ACCGCCTAAATATCGCCGAA 59.610 50.000 0.00 0.00 0.00 4.30
3302 3774 0.390124 AACCGCCTAAATATCGCCGA 59.610 50.000 0.00 0.00 0.00 5.54
3303 3775 0.788391 GAACCGCCTAAATATCGCCG 59.212 55.000 0.00 0.00 0.00 6.46
3304 3776 1.529865 GTGAACCGCCTAAATATCGCC 59.470 52.381 0.00 0.00 0.00 5.54
3305 3777 2.206750 TGTGAACCGCCTAAATATCGC 58.793 47.619 0.00 0.00 0.00 4.58
3306 3778 3.454375 ACTGTGAACCGCCTAAATATCG 58.546 45.455 0.00 0.00 0.00 2.92
3307 3779 7.492352 AATAACTGTGAACCGCCTAAATATC 57.508 36.000 0.00 0.00 0.00 1.63
3308 3780 7.875327 AAATAACTGTGAACCGCCTAAATAT 57.125 32.000 0.00 0.00 0.00 1.28
3309 3781 7.690952 AAAATAACTGTGAACCGCCTAAATA 57.309 32.000 0.00 0.00 0.00 1.40
3310 3782 6.584185 AAAATAACTGTGAACCGCCTAAAT 57.416 33.333 0.00 0.00 0.00 1.40
3311 3783 6.485984 TGTAAAATAACTGTGAACCGCCTAAA 59.514 34.615 0.00 0.00 0.00 1.85
3312 3784 5.996513 TGTAAAATAACTGTGAACCGCCTAA 59.003 36.000 0.00 0.00 0.00 2.69
3313 3785 5.549347 TGTAAAATAACTGTGAACCGCCTA 58.451 37.500 0.00 0.00 0.00 3.93
3314 3786 4.391155 TGTAAAATAACTGTGAACCGCCT 58.609 39.130 0.00 0.00 0.00 5.52
3315 3787 4.752661 TGTAAAATAACTGTGAACCGCC 57.247 40.909 0.00 0.00 0.00 6.13
3316 3788 9.037737 TCTATATGTAAAATAACTGTGAACCGC 57.962 33.333 0.00 0.00 0.00 5.68
3389 3861 3.274393 CGATTCTTCGCCCTGTAGG 57.726 57.895 0.00 0.00 38.75 3.18
3407 3879 3.491652 GACTTCGGCGCCTTCAGC 61.492 66.667 26.68 7.32 38.52 4.26
3408 3880 3.181967 CGACTTCGGCGCCTTCAG 61.182 66.667 26.68 18.97 35.37 3.02
3419 3891 3.173240 GACGACGGCAGCGACTTC 61.173 66.667 0.00 0.00 0.00 3.01
3429 3901 2.330372 TGAAGGAGGACGACGACGG 61.330 63.158 12.58 0.00 44.46 4.79
3430 3902 1.154263 GTGAAGGAGGACGACGACG 60.154 63.158 5.58 5.58 45.75 5.12
3431 3903 1.154263 CGTGAAGGAGGACGACGAC 60.154 63.158 0.00 0.00 37.81 4.34
3432 3904 1.598962 ACGTGAAGGAGGACGACGA 60.599 57.895 0.00 0.00 38.94 4.20
3433 3905 1.442184 CACGTGAAGGAGGACGACG 60.442 63.158 10.90 0.00 38.94 5.12
3434 3906 1.080705 CCACGTGAAGGAGGACGAC 60.081 63.158 19.30 0.00 38.94 4.34
3435 3907 2.927580 GCCACGTGAAGGAGGACGA 61.928 63.158 19.30 0.00 38.94 4.20
3436 3908 2.432628 GCCACGTGAAGGAGGACG 60.433 66.667 19.30 0.00 41.41 4.79
3437 3909 2.047179 GGCCACGTGAAGGAGGAC 60.047 66.667 19.30 0.00 0.00 3.85
3438 3910 3.691342 CGGCCACGTGAAGGAGGA 61.691 66.667 19.30 0.00 34.81 3.71
3479 3951 3.782443 CCAGTACGCCAGGGGGAC 61.782 72.222 11.17 11.17 35.59 4.46
3480 3952 3.857521 AACCAGTACGCCAGGGGGA 62.858 63.158 8.67 0.00 35.59 4.81
3481 3953 2.902457 AAACCAGTACGCCAGGGGG 61.902 63.158 8.67 4.77 37.18 5.40
3482 3954 1.674322 CAAACCAGTACGCCAGGGG 60.674 63.158 0.84 0.84 0.00 4.79
3483 3955 1.674322 CCAAACCAGTACGCCAGGG 60.674 63.158 0.00 0.00 0.00 4.45
3484 3956 2.332654 GCCAAACCAGTACGCCAGG 61.333 63.158 0.00 0.00 0.00 4.45
3485 3957 2.332654 GGCCAAACCAGTACGCCAG 61.333 63.158 0.00 0.00 39.50 4.85
3486 3958 2.281900 GGCCAAACCAGTACGCCA 60.282 61.111 0.00 0.00 39.50 5.69
3487 3959 3.428282 CGGCCAAACCAGTACGCC 61.428 66.667 2.24 0.00 39.03 5.68
3488 3960 4.097863 GCGGCCAAACCAGTACGC 62.098 66.667 2.24 0.00 39.03 4.42
3489 3961 3.428282 GGCGGCCAAACCAGTACG 61.428 66.667 15.62 0.00 39.03 3.67
3490 3962 3.428282 CGGCGGCCAAACCAGTAC 61.428 66.667 20.71 0.00 39.03 2.73
3491 3963 4.708386 CCGGCGGCCAAACCAGTA 62.708 66.667 20.71 0.00 39.03 2.74
3511 3983 4.702081 ACAGCGACGACGAGGTGC 62.702 66.667 20.46 10.78 42.66 5.01
3512 3984 2.502080 GACAGCGACGACGAGGTG 60.502 66.667 12.29 19.48 42.66 4.00
3513 3985 4.086178 CGACAGCGACGACGAGGT 62.086 66.667 12.29 7.73 42.66 3.85
3514 3986 3.590443 AACGACAGCGACGACGAGG 62.590 63.158 12.29 4.25 42.66 4.63
3515 3987 2.127345 AACGACAGCGACGACGAG 60.127 61.111 12.29 5.04 42.66 4.18
3516 3988 2.426261 CAACGACAGCGACGACGA 60.426 61.111 12.29 0.00 42.66 4.20
3517 3989 2.418333 CTCAACGACAGCGACGACG 61.418 63.158 2.12 2.12 41.64 5.12
3518 3990 0.659417 TTCTCAACGACAGCGACGAC 60.659 55.000 0.00 0.00 41.64 4.34
3519 3991 0.240145 ATTCTCAACGACAGCGACGA 59.760 50.000 0.00 0.00 41.64 4.20
3520 3992 1.891178 TATTCTCAACGACAGCGACG 58.109 50.000 0.00 0.00 41.64 5.12
3521 3993 3.619751 GTTATTCTCAACGACAGCGAC 57.380 47.619 0.00 0.00 41.64 5.19
3530 4002 1.925185 GGAGGCGTCGTTATTCTCAAC 59.075 52.381 0.00 0.00 0.00 3.18
3531 4003 1.134907 GGGAGGCGTCGTTATTCTCAA 60.135 52.381 0.00 0.00 0.00 3.02
3532 4004 0.458669 GGGAGGCGTCGTTATTCTCA 59.541 55.000 0.00 0.00 0.00 3.27
3533 4005 0.745468 AGGGAGGCGTCGTTATTCTC 59.255 55.000 0.00 0.00 0.00 2.87
3534 4006 0.745468 GAGGGAGGCGTCGTTATTCT 59.255 55.000 0.00 0.00 0.00 2.40
3535 4007 0.594284 CGAGGGAGGCGTCGTTATTC 60.594 60.000 0.00 0.00 0.00 1.75
3536 4008 1.436336 CGAGGGAGGCGTCGTTATT 59.564 57.895 0.00 0.00 0.00 1.40
3537 4009 3.117372 CGAGGGAGGCGTCGTTAT 58.883 61.111 0.00 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.