Multiple sequence alignment - TraesCS2A01G147600

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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 TraesCS2A01G147600 chr2A 100.000 3505 0 0 1 3505 94106852 94110356 0.000000e+00 6473.0
1 TraesCS2A01G147600 chr2A 73.248 785 175 23 1407 2178 94204753 94203991 1.610000e-63 254.0
2 TraesCS2A01G147600 chr2A 77.215 395 82 7 1404 1794 94275988 94276378 1.270000e-54 224.0
3 TraesCS2A01G147600 chr2B 89.043 2674 136 60 1 2566 146962818 146965442 0.000000e+00 3169.0
4 TraesCS2A01G147600 chr2B 93.519 216 14 0 3241 3456 146971199 146971414 4.360000e-84 322.0
5 TraesCS2A01G147600 chr2B 73.563 783 176 23 1407 2178 147285844 147285082 1.600000e-68 270.0
6 TraesCS2A01G147600 chr2B 77.354 393 80 8 1407 1794 147408391 147408003 1.270000e-54 224.0
7 TraesCS2A01G147600 chr2B 82.328 232 25 6 3015 3246 146968198 146968413 1.660000e-43 187.0
8 TraesCS2A01G147600 chr2D 88.976 2540 140 53 1 2452 95514748 95517235 0.000000e+00 3011.0
9 TraesCS2A01G147600 chr2D 85.903 454 53 7 2833 3278 95517725 95518175 1.140000e-129 473.0
10 TraesCS2A01G147600 chr2D 74.271 789 160 34 1407 2178 95654888 95654126 3.420000e-75 292.0
11 TraesCS2A01G147600 chr2D 73.518 793 165 37 1404 2178 95667596 95668361 3.470000e-65 259.0
12 TraesCS2A01G147600 chr2D 78.228 395 72 8 1407 1794 95684402 95684789 1.260000e-59 241.0
13 TraesCS2A01G147600 chr7D 74.051 790 167 24 1409 2182 54353773 54354540 4.430000e-74 289.0
14 TraesCS2A01G147600 chr7D 73.758 785 178 24 1409 2182 54319681 54320448 2.060000e-72 283.0
15 TraesCS2A01G147600 chr7D 72.554 787 184 21 1409 2182 54336592 54337359 9.790000e-56 228.0
16 TraesCS2A01G147600 chr7D 89.286 56 4 2 1246 1301 577594982 577595035 6.280000e-08 69.4
17 TraesCS2A01G147600 chr3A 73.848 738 161 23 1458 2182 628219857 628219139 7.460000e-67 265.0
18 TraesCS2A01G147600 chr3D 73.022 771 176 23 1409 2166 485232117 485231366 3.500000e-60 243.0
19 TraesCS2A01G147600 chr3D 81.061 132 10 8 2679 2806 506698295 506698175 1.340000e-14 91.6
20 TraesCS2A01G147600 chr3B 73.057 772 174 25 1409 2166 647943605 647942854 3.500000e-60 243.0
21 TraesCS2A01G147600 chr1B 72.508 662 153 25 1534 2182 584798547 584799192 1.660000e-43 187.0
22 TraesCS2A01G147600 chr1B 82.353 153 24 2 2678 2830 159388600 159388749 2.840000e-26 130.0
23 TraesCS2A01G147600 chr4D 83.784 148 16 3 2679 2826 307227989 307228128 2.190000e-27 134.0
24 TraesCS2A01G147600 chr1A 90.476 84 8 0 2724 2807 556182868 556182785 1.030000e-20 111.0
25 TraesCS2A01G147600 chr7A 91.071 56 3 2 1246 1301 669727976 669728029 1.350000e-09 75.0
26 TraesCS2A01G147600 chr7B 89.286 56 4 2 1246 1301 640915040 640915093 6.280000e-08 69.4


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 TraesCS2A01G147600 chr2A 94106852 94110356 3504 False 6473 6473 100.000000 1 3505 1 chr2A.!!$F1 3504
1 TraesCS2A01G147600 chr2A 94203991 94204753 762 True 254 254 73.248000 1407 2178 1 chr2A.!!$R1 771
2 TraesCS2A01G147600 chr2B 146962818 146971414 8596 False 1226 3169 88.296667 1 3456 3 chr2B.!!$F1 3455
3 TraesCS2A01G147600 chr2B 147285082 147285844 762 True 270 270 73.563000 1407 2178 1 chr2B.!!$R1 771
4 TraesCS2A01G147600 chr2D 95514748 95518175 3427 False 1742 3011 87.439500 1 3278 2 chr2D.!!$F3 3277
5 TraesCS2A01G147600 chr2D 95654126 95654888 762 True 292 292 74.271000 1407 2178 1 chr2D.!!$R1 771
6 TraesCS2A01G147600 chr2D 95667596 95668361 765 False 259 259 73.518000 1404 2178 1 chr2D.!!$F1 774
7 TraesCS2A01G147600 chr7D 54353773 54354540 767 False 289 289 74.051000 1409 2182 1 chr7D.!!$F3 773
8 TraesCS2A01G147600 chr7D 54319681 54320448 767 False 283 283 73.758000 1409 2182 1 chr7D.!!$F1 773
9 TraesCS2A01G147600 chr7D 54336592 54337359 767 False 228 228 72.554000 1409 2182 1 chr7D.!!$F2 773
10 TraesCS2A01G147600 chr3A 628219139 628219857 718 True 265 265 73.848000 1458 2182 1 chr3A.!!$R1 724
11 TraesCS2A01G147600 chr3D 485231366 485232117 751 True 243 243 73.022000 1409 2166 1 chr3D.!!$R1 757
12 TraesCS2A01G147600 chr3B 647942854 647943605 751 True 243 243 73.057000 1409 2166 1 chr3B.!!$R1 757

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
803 841 0.034767 TTGGAGGCATCTGCTTGGAG 60.035 55.0 0.0 0.0 41.7 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2750 5480 0.100503 CGGCCCATCGTTTCATTTCC 59.899 55.0 0.0 0.0 0.0 3.13 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
23 24 3.948473 GGAAAAGTTAGGGCTCAAGGATC 59.052 47.826 0.00 0.00 0.00 3.36
31 32 1.692762 GGGCTCAAGGATCTGGGAGTA 60.693 57.143 0.00 0.00 0.00 2.59
106 107 0.179045 GGTGCCGGCATCAAGTAGAT 60.179 55.000 34.60 0.00 37.48 1.98
108 109 0.106708 TGCCGGCATCAAGTAGATCC 59.893 55.000 29.03 0.00 33.72 3.36
148 149 5.948162 GCTTGTATCATGGACCATATGGAAT 59.052 40.000 28.77 14.89 38.94 3.01
209 210 8.301730 ACAATTTTGCTAAACAACATCATGAG 57.698 30.769 0.09 0.00 38.23 2.90
230 231 2.094675 CGAGGCAAATCTTTGGGTCAT 58.905 47.619 4.93 0.00 38.57 3.06
232 233 3.091545 GAGGCAAATCTTTGGGTCATCA 58.908 45.455 4.93 0.00 38.57 3.07
234 235 2.827921 GGCAAATCTTTGGGTCATCACT 59.172 45.455 4.93 0.00 38.57 3.41
247 254 0.745845 CATCACTGGAGCGAAAGGGG 60.746 60.000 0.00 0.00 0.00 4.79
250 257 2.294078 ACTGGAGCGAAAGGGGGAG 61.294 63.158 0.00 0.00 0.00 4.30
274 281 3.419275 CGTGTCGCGAGAATAATGATTCG 60.419 47.826 10.24 0.02 45.34 3.34
290 297 1.707239 TTCGTGTCGTGTTTGGGTGC 61.707 55.000 0.00 0.00 0.00 5.01
311 318 4.573201 TGCTTTGTAACAAACTCTACGCTT 59.427 37.500 0.00 0.00 0.00 4.68
313 320 6.258287 TGCTTTGTAACAAACTCTACGCTTTA 59.742 34.615 0.00 0.00 0.00 1.85
326 350 9.983804 AACTCTACGCTTTACTTAATTATTTGC 57.016 29.630 0.00 0.00 0.00 3.68
417 445 6.351711 TCATACATGGAGTTCAGAATTCAGG 58.648 40.000 8.44 0.00 0.00 3.86
477 509 5.462398 GTGTCAGTCACGTCTGTTTTATTCT 59.538 40.000 4.38 0.00 37.31 2.40
479 511 4.447724 TCAGTCACGTCTGTTTTATTCTGC 59.552 41.667 4.38 0.00 36.85 4.26
642 677 3.414549 TTTTGTTCTCCGTTCACAAGC 57.585 42.857 0.00 0.00 32.16 4.01
695 733 1.005340 CTCTGCTCGATTCAGTTGCC 58.995 55.000 12.65 0.00 33.48 4.52
803 841 0.034767 TTGGAGGCATCTGCTTGGAG 60.035 55.000 0.00 0.00 41.70 3.86
938 976 1.463444 GTCGTTGTAGCCATTGTCACC 59.537 52.381 0.00 0.00 0.00 4.02
1020 1058 0.171231 TCGATCTCACTCACGCTTGG 59.829 55.000 0.00 0.00 0.00 3.61
1041 1079 1.134367 TCCGTCGATCTTTAGCTGGTG 59.866 52.381 0.00 0.00 0.00 4.17
1060 1109 3.211288 GCTCAGCTTAGCTCGGGA 58.789 61.111 12.75 0.00 36.40 5.14
1061 1110 1.067250 GCTCAGCTTAGCTCGGGAG 59.933 63.158 12.75 9.68 36.40 4.30
1068 1149 1.270041 GCTTAGCTCGGGAGATCAAGG 60.270 57.143 0.00 0.00 38.80 3.61
1098 1179 3.119096 GGTTCGGAGCTTGCGGTC 61.119 66.667 0.00 0.00 36.93 4.79
1219 1312 2.039624 AGTCCATCGTGAGGGCCT 59.960 61.111 5.25 5.25 31.15 5.19
1303 1396 0.242825 CGACTGCTTCGTCCAGGTAA 59.757 55.000 0.63 0.00 43.24 2.85
1365 1462 1.416813 CTCGCATTGCTCGGTGAGTC 61.417 60.000 7.12 0.00 37.00 3.36
1366 1463 2.792290 CGCATTGCTCGGTGAGTCG 61.792 63.158 7.12 0.00 31.39 4.18
1367 1464 2.456119 GCATTGCTCGGTGAGTCGG 61.456 63.158 0.16 0.00 31.39 4.79
1368 1465 1.079819 CATTGCTCGGTGAGTCGGT 60.080 57.895 0.00 0.00 31.39 4.69
1369 1466 1.079819 ATTGCTCGGTGAGTCGGTG 60.080 57.895 0.00 0.00 31.39 4.94
1370 1467 1.532604 ATTGCTCGGTGAGTCGGTGA 61.533 55.000 0.00 0.00 31.39 4.02
1371 1468 2.142357 TTGCTCGGTGAGTCGGTGAG 62.142 60.000 0.00 2.01 31.39 3.51
1372 1469 2.627737 GCTCGGTGAGTCGGTGAGT 61.628 63.158 7.04 0.00 31.39 3.41
1373 1470 1.502640 CTCGGTGAGTCGGTGAGTC 59.497 63.158 0.00 0.00 33.05 3.36
1387 1484 0.170339 TGAGTCGCTGACACGTATGG 59.830 55.000 10.52 0.00 34.60 2.74
1565 1662 4.070552 GGAACCGTCTCCTGCGCT 62.071 66.667 9.73 0.00 32.21 5.92
2224 2359 0.733566 GTTGTGCATGCGTCCATTGG 60.734 55.000 14.09 0.00 0.00 3.16
2233 2372 0.664761 GCGTCCATTGGTCCATGATG 59.335 55.000 1.86 0.00 0.00 3.07
2266 2405 2.741553 CGTCACCCTGTGCAGCATTATA 60.742 50.000 0.00 0.00 32.98 0.98
2268 2407 3.499918 GTCACCCTGTGCAGCATTATATC 59.500 47.826 0.00 0.00 32.98 1.63
2269 2408 3.136260 TCACCCTGTGCAGCATTATATCA 59.864 43.478 0.00 0.00 32.98 2.15
2270 2409 3.501062 CACCCTGTGCAGCATTATATCAG 59.499 47.826 0.00 0.00 0.00 2.90
2274 2417 5.068198 CCCTGTGCAGCATTATATCAGTTTT 59.932 40.000 0.00 0.00 0.00 2.43
2311 2454 2.430921 CGAGCTTGCCGTCTCGTT 60.431 61.111 9.52 0.00 44.95 3.85
2314 2457 2.127232 GCTTGCCGTCTCGTTTGC 60.127 61.111 0.00 0.00 0.00 3.68
2348 2491 6.585702 TGATTTGTCCACGCAAAAATGAATAG 59.414 34.615 0.00 0.00 41.03 1.73
2353 2496 7.247728 TGTCCACGCAAAAATGAATAGAATAC 58.752 34.615 0.00 0.00 0.00 1.89
2397 2540 4.755123 TGATTGTTTTCTCCGAAGACTTCC 59.245 41.667 9.63 0.00 0.00 3.46
2406 2549 2.094182 TCCGAAGACTTCCGAATTCTGG 60.094 50.000 9.63 6.92 0.00 3.86
2407 2550 2.353803 CCGAAGACTTCCGAATTCTGGT 60.354 50.000 9.63 3.57 0.00 4.00
2444 2598 2.350498 ACGGACAACAAAGAACACTTCG 59.650 45.455 0.00 0.00 34.02 3.79
2476 2647 2.886081 CTCCAGATGTCGTGAAAGGAG 58.114 52.381 0.00 0.00 35.70 3.69
2488 2659 1.347707 TGAAAGGAGACCTCATGCGTT 59.652 47.619 0.00 0.00 30.89 4.84
2492 2663 4.592485 AAGGAGACCTCATGCGTTATAG 57.408 45.455 0.00 0.00 30.89 1.31
2551 2927 9.878667 TCCGTATTATTATTCTGTTTCAGTTCA 57.121 29.630 0.00 0.00 32.61 3.18
2567 2943 6.384258 TCAGTTCATGCTAGATACTCTCAC 57.616 41.667 0.00 0.00 0.00 3.51
2569 2945 6.039159 TCAGTTCATGCTAGATACTCTCACTG 59.961 42.308 0.00 0.00 0.00 3.66
2573 2949 3.826524 TGCTAGATACTCTCACTGGAGG 58.173 50.000 0.00 0.00 41.69 4.30
2582 4812 0.976641 CTCACTGGAGGGCTTGTGTA 59.023 55.000 0.00 0.00 37.51 2.90
2593 5323 5.758784 GGAGGGCTTGTGTATAATCTTGTAC 59.241 44.000 0.00 0.00 0.00 2.90
2634 5364 5.827797 TGATAAAGGCAATTCAGATACCACC 59.172 40.000 0.00 0.00 0.00 4.61
2692 5422 9.221775 TCGTATATGATGAATCGATGTAATTCG 57.778 33.333 0.00 0.00 40.46 3.34
2704 5434 3.389925 TGTAATTCGAAACGGAGGTGT 57.610 42.857 0.00 0.00 0.00 4.16
2706 5436 4.128643 TGTAATTCGAAACGGAGGTGTTT 58.871 39.130 0.00 0.00 44.36 2.83
2713 5443 1.021968 AACGGAGGTGTTTCACTTGC 58.978 50.000 0.06 0.00 34.40 4.01
2714 5444 0.107410 ACGGAGGTGTTTCACTTGCA 60.107 50.000 4.75 0.00 31.92 4.08
2715 5445 1.238439 CGGAGGTGTTTCACTTGCAT 58.762 50.000 0.00 0.00 31.92 3.96
2716 5446 1.069022 CGGAGGTGTTTCACTTGCATG 60.069 52.381 0.00 0.00 31.92 4.06
2717 5447 1.956477 GGAGGTGTTTCACTTGCATGT 59.044 47.619 0.00 0.00 32.62 3.21
2718 5448 2.287788 GGAGGTGTTTCACTTGCATGTG 60.288 50.000 23.12 23.12 39.15 3.21
2719 5449 2.358898 GAGGTGTTTCACTTGCATGTGT 59.641 45.455 26.47 10.27 38.90 3.72
2720 5450 3.550820 AGGTGTTTCACTTGCATGTGTA 58.449 40.909 26.47 17.79 38.90 2.90
2721 5451 4.144297 AGGTGTTTCACTTGCATGTGTAT 58.856 39.130 26.47 4.95 38.90 2.29
2722 5452 4.216257 AGGTGTTTCACTTGCATGTGTATC 59.784 41.667 26.47 18.39 38.90 2.24
2723 5453 4.216257 GGTGTTTCACTTGCATGTGTATCT 59.784 41.667 26.47 0.00 38.90 1.98
2724 5454 5.278463 GGTGTTTCACTTGCATGTGTATCTT 60.278 40.000 26.47 0.00 38.90 2.40
2725 5455 6.072728 GGTGTTTCACTTGCATGTGTATCTTA 60.073 38.462 26.47 8.63 38.90 2.10
2726 5456 6.797033 GTGTTTCACTTGCATGTGTATCTTAC 59.203 38.462 26.47 15.33 38.90 2.34
2727 5457 6.710295 TGTTTCACTTGCATGTGTATCTTACT 59.290 34.615 26.47 0.00 38.90 2.24
2728 5458 6.726258 TTCACTTGCATGTGTATCTTACTG 57.274 37.500 26.47 3.49 38.90 2.74
2729 5459 5.178061 TCACTTGCATGTGTATCTTACTGG 58.822 41.667 26.47 2.97 38.90 4.00
2730 5460 3.941483 ACTTGCATGTGTATCTTACTGGC 59.059 43.478 4.14 0.00 0.00 4.85
2731 5461 2.917933 TGCATGTGTATCTTACTGGCC 58.082 47.619 0.00 0.00 0.00 5.36
2732 5462 1.867233 GCATGTGTATCTTACTGGCCG 59.133 52.381 0.00 0.00 0.00 6.13
2733 5463 1.867233 CATGTGTATCTTACTGGCCGC 59.133 52.381 0.00 0.00 0.00 6.53
2734 5464 1.191535 TGTGTATCTTACTGGCCGCT 58.808 50.000 0.00 0.00 0.00 5.52
2735 5465 1.134818 TGTGTATCTTACTGGCCGCTG 60.135 52.381 0.00 0.00 0.00 5.18
2736 5466 0.464036 TGTATCTTACTGGCCGCTGG 59.536 55.000 0.00 0.00 0.00 4.85
2737 5467 0.249911 GTATCTTACTGGCCGCTGGG 60.250 60.000 0.00 0.00 0.00 4.45
2748 5478 3.944871 CCGCTGGGCAATTTATGTC 57.055 52.632 0.00 0.00 0.00 3.06
2749 5479 1.392589 CCGCTGGGCAATTTATGTCT 58.607 50.000 0.00 0.00 32.85 3.41
2750 5480 1.066002 CCGCTGGGCAATTTATGTCTG 59.934 52.381 0.00 0.00 32.85 3.51
2751 5481 1.066002 CGCTGGGCAATTTATGTCTGG 59.934 52.381 0.00 0.00 32.85 3.86
2752 5482 2.378038 GCTGGGCAATTTATGTCTGGA 58.622 47.619 0.00 0.00 32.85 3.86
2753 5483 2.760092 GCTGGGCAATTTATGTCTGGAA 59.240 45.455 0.00 0.00 32.85 3.53
2754 5484 3.195396 GCTGGGCAATTTATGTCTGGAAA 59.805 43.478 0.00 0.00 32.85 3.13
2755 5485 4.141869 GCTGGGCAATTTATGTCTGGAAAT 60.142 41.667 0.00 0.00 32.85 2.17
2756 5486 5.341872 TGGGCAATTTATGTCTGGAAATG 57.658 39.130 0.00 0.00 32.85 2.32
2757 5487 5.022122 TGGGCAATTTATGTCTGGAAATGA 58.978 37.500 0.00 0.00 32.85 2.57
2758 5488 5.483231 TGGGCAATTTATGTCTGGAAATGAA 59.517 36.000 0.00 0.00 32.85 2.57
2759 5489 6.013898 TGGGCAATTTATGTCTGGAAATGAAA 60.014 34.615 0.00 0.00 32.85 2.69
2760 5490 6.313658 GGGCAATTTATGTCTGGAAATGAAAC 59.686 38.462 0.00 0.00 32.85 2.78
2761 5491 6.034898 GGCAATTTATGTCTGGAAATGAAACG 59.965 38.462 0.00 0.00 0.00 3.60
2762 5492 6.806249 GCAATTTATGTCTGGAAATGAAACGA 59.194 34.615 0.00 0.00 0.00 3.85
2763 5493 7.489113 GCAATTTATGTCTGGAAATGAAACGAT 59.511 33.333 0.00 0.00 0.00 3.73
2764 5494 8.800972 CAATTTATGTCTGGAAATGAAACGATG 58.199 33.333 0.00 0.00 0.00 3.84
2765 5495 4.970662 ATGTCTGGAAATGAAACGATGG 57.029 40.909 0.00 0.00 0.00 3.51
2766 5496 3.081061 TGTCTGGAAATGAAACGATGGG 58.919 45.455 0.00 0.00 0.00 4.00
2767 5497 2.091541 TCTGGAAATGAAACGATGGGC 58.908 47.619 0.00 0.00 0.00 5.36
2768 5498 1.134946 CTGGAAATGAAACGATGGGCC 59.865 52.381 0.00 0.00 0.00 5.80
2769 5499 0.100503 GGAAATGAAACGATGGGCCG 59.899 55.000 0.00 0.00 0.00 6.13
2770 5500 1.091537 GAAATGAAACGATGGGCCGA 58.908 50.000 0.00 0.00 0.00 5.54
2771 5501 1.064060 GAAATGAAACGATGGGCCGAG 59.936 52.381 0.00 0.00 0.00 4.63
2772 5502 0.251916 AATGAAACGATGGGCCGAGA 59.748 50.000 0.00 0.00 0.00 4.04
2773 5503 0.462047 ATGAAACGATGGGCCGAGAC 60.462 55.000 0.00 0.00 0.00 3.36
2774 5504 1.079405 GAAACGATGGGCCGAGACA 60.079 57.895 0.00 0.00 0.00 3.41
2775 5505 0.462047 GAAACGATGGGCCGAGACAT 60.462 55.000 0.00 0.00 0.00 3.06
2776 5506 0.744414 AAACGATGGGCCGAGACATG 60.744 55.000 0.00 0.00 0.00 3.21
2777 5507 1.899437 AACGATGGGCCGAGACATGT 61.899 55.000 0.00 0.00 0.00 3.21
2778 5508 1.040893 ACGATGGGCCGAGACATGTA 61.041 55.000 0.00 0.00 0.00 2.29
2779 5509 0.318441 CGATGGGCCGAGACATGTAT 59.682 55.000 0.00 0.00 0.00 2.29
2780 5510 1.270305 CGATGGGCCGAGACATGTATT 60.270 52.381 0.00 0.00 0.00 1.89
2781 5511 2.029380 CGATGGGCCGAGACATGTATTA 60.029 50.000 0.00 0.00 0.00 0.98
2782 5512 3.368427 CGATGGGCCGAGACATGTATTAT 60.368 47.826 0.00 0.00 0.00 1.28
2783 5513 4.579869 GATGGGCCGAGACATGTATTATT 58.420 43.478 0.00 0.00 0.00 1.40
2784 5514 4.431416 TGGGCCGAGACATGTATTATTT 57.569 40.909 0.00 0.00 0.00 1.40
2785 5515 5.554437 TGGGCCGAGACATGTATTATTTA 57.446 39.130 0.00 0.00 0.00 1.40
2786 5516 5.302360 TGGGCCGAGACATGTATTATTTAC 58.698 41.667 0.00 0.00 0.00 2.01
2787 5517 5.163290 TGGGCCGAGACATGTATTATTTACA 60.163 40.000 0.00 0.00 0.00 2.41
2788 5518 5.761234 GGGCCGAGACATGTATTATTTACAA 59.239 40.000 0.00 0.00 0.00 2.41
2789 5519 6.073222 GGGCCGAGACATGTATTATTTACAAG 60.073 42.308 0.00 0.00 0.00 3.16
2790 5520 6.482308 GGCCGAGACATGTATTATTTACAAGT 59.518 38.462 0.00 0.00 32.87 3.16
2791 5521 7.345192 GCCGAGACATGTATTATTTACAAGTG 58.655 38.462 0.00 0.00 30.73 3.16
2792 5522 7.011109 GCCGAGACATGTATTATTTACAAGTGT 59.989 37.037 0.00 0.00 30.73 3.55
2793 5523 9.524106 CCGAGACATGTATTATTTACAAGTGTA 57.476 33.333 0.00 0.00 30.73 2.90
2828 5558 4.551702 AAACAATAATCCAAACAGGGCC 57.448 40.909 0.00 0.00 38.24 5.80
2829 5559 3.473113 ACAATAATCCAAACAGGGCCT 57.527 42.857 0.00 0.00 38.24 5.19
2830 5560 3.365472 ACAATAATCCAAACAGGGCCTC 58.635 45.455 0.95 0.00 38.24 4.70
2831 5561 3.011708 ACAATAATCCAAACAGGGCCTCT 59.988 43.478 0.95 0.00 38.24 3.69
2899 5633 3.898123 TGAGAGTGTGAATATAGGGGAGC 59.102 47.826 0.00 0.00 0.00 4.70
2915 5649 2.897326 GGGAGCTATTTTGTGTTTGGGT 59.103 45.455 0.00 0.00 0.00 4.51
2916 5650 3.323691 GGGAGCTATTTTGTGTTTGGGTT 59.676 43.478 0.00 0.00 0.00 4.11
2994 5731 9.768215 AAATAACTCAATCAAAATCCCTAGGAA 57.232 29.630 11.48 0.00 34.34 3.36
2995 5732 9.942526 AATAACTCAATCAAAATCCCTAGGAAT 57.057 29.630 11.48 0.00 34.34 3.01
2996 5733 7.651027 AACTCAATCAAAATCCCTAGGAATG 57.349 36.000 11.48 1.68 34.34 2.67
2999 5736 7.895429 ACTCAATCAAAATCCCTAGGAATGAAA 59.105 33.333 11.48 0.00 34.34 2.69
3003 5740 5.888161 TCAAAATCCCTAGGAATGAAAGCTC 59.112 40.000 11.48 0.00 34.34 4.09
3004 5741 5.456921 AAATCCCTAGGAATGAAAGCTCA 57.543 39.130 11.48 0.00 34.34 4.26
3105 5919 0.832626 AATTGGCCCAAGCTTATGCC 59.167 50.000 24.54 24.54 44.27 4.40
3110 5924 1.202568 GGCCCAAGCTTATGCCATTTC 60.203 52.381 25.72 5.51 43.46 2.17
3113 5927 2.101917 CCCAAGCTTATGCCATTTCCAG 59.898 50.000 0.00 0.00 40.80 3.86
3190 6004 2.629017 ATGGTTCTTGGGCCAAATCT 57.371 45.000 21.28 0.00 38.38 2.40
3215 6029 6.486657 TGTACCAACTCCTGAGAAGAAATTTG 59.513 38.462 0.00 0.00 0.00 2.32
3216 6030 5.449553 ACCAACTCCTGAGAAGAAATTTGT 58.550 37.500 0.00 0.00 0.00 2.83
3257 8862 0.395312 CAGTTTGGTCCCCACTACGT 59.605 55.000 0.00 0.00 30.78 3.57
3310 8915 5.048083 GTGCACATGGAAGAAAGATTAACCA 60.048 40.000 13.17 0.00 0.00 3.67
3314 8919 5.716703 ACATGGAAGAAAGATTAACCAAGGG 59.283 40.000 0.00 0.00 0.00 3.95
3317 8922 5.773176 TGGAAGAAAGATTAACCAAGGGTTC 59.227 40.000 3.52 0.00 43.05 3.62
3329 8934 5.994416 ACCAAGGGTTCTCACCAATATAT 57.006 39.130 0.00 0.00 46.43 0.86
3402 9007 0.878416 GCAGGCGAAACCATAACACA 59.122 50.000 0.00 0.00 43.14 3.72
3434 9039 6.208599 TCCCACAAACCTTGATAAGTTCAATC 59.791 38.462 0.00 0.00 43.30 2.67
3456 9061 6.981762 TCGACAAAACTAAACCTACAAACA 57.018 33.333 0.00 0.00 0.00 2.83
3457 9062 6.774084 TCGACAAAACTAAACCTACAAACAC 58.226 36.000 0.00 0.00 0.00 3.32
3458 9063 6.370994 TCGACAAAACTAAACCTACAAACACA 59.629 34.615 0.00 0.00 0.00 3.72
3459 9064 7.066043 TCGACAAAACTAAACCTACAAACACAT 59.934 33.333 0.00 0.00 0.00 3.21
3460 9065 7.165154 CGACAAAACTAAACCTACAAACACATG 59.835 37.037 0.00 0.00 0.00 3.21
3461 9066 7.832769 ACAAAACTAAACCTACAAACACATGT 58.167 30.769 0.00 0.00 37.32 3.21
3462 9067 8.308207 ACAAAACTAAACCTACAAACACATGTT 58.692 29.630 0.00 0.00 40.50 2.71
3463 9068 8.803799 CAAAACTAAACCTACAAACACATGTTC 58.196 33.333 0.00 0.00 37.25 3.18
3464 9069 7.633193 AACTAAACCTACAAACACATGTTCA 57.367 32.000 0.00 0.00 37.25 3.18
3465 9070 7.259290 ACTAAACCTACAAACACATGTTCAG 57.741 36.000 0.00 0.00 37.25 3.02
3466 9071 6.826741 ACTAAACCTACAAACACATGTTCAGT 59.173 34.615 0.00 3.30 37.25 3.41
3467 9072 5.751243 AACCTACAAACACATGTTCAGTC 57.249 39.130 0.00 0.00 37.25 3.51
3468 9073 4.134563 ACCTACAAACACATGTTCAGTCC 58.865 43.478 0.00 0.00 37.25 3.85
3469 9074 4.141482 ACCTACAAACACATGTTCAGTCCT 60.141 41.667 0.00 0.00 37.25 3.85
3470 9075 5.071250 ACCTACAAACACATGTTCAGTCCTA 59.929 40.000 0.00 0.00 37.25 2.94
3471 9076 5.995282 CCTACAAACACATGTTCAGTCCTAA 59.005 40.000 0.00 0.00 37.25 2.69
3472 9077 6.147821 CCTACAAACACATGTTCAGTCCTAAG 59.852 42.308 0.00 0.00 37.25 2.18
3473 9078 4.821805 ACAAACACATGTTCAGTCCTAAGG 59.178 41.667 0.00 0.00 37.25 2.69
3474 9079 4.706842 AACACATGTTCAGTCCTAAGGT 57.293 40.909 0.00 0.00 31.64 3.50
3475 9080 4.706842 ACACATGTTCAGTCCTAAGGTT 57.293 40.909 0.00 0.00 0.00 3.50
3476 9081 4.642429 ACACATGTTCAGTCCTAAGGTTC 58.358 43.478 0.00 0.00 0.00 3.62
3477 9082 4.102524 ACACATGTTCAGTCCTAAGGTTCA 59.897 41.667 0.00 0.00 0.00 3.18
3478 9083 5.221925 ACACATGTTCAGTCCTAAGGTTCAT 60.222 40.000 0.00 0.00 0.00 2.57
3479 9084 5.352569 CACATGTTCAGTCCTAAGGTTCATC 59.647 44.000 0.00 0.00 0.00 2.92
3480 9085 5.013079 ACATGTTCAGTCCTAAGGTTCATCA 59.987 40.000 0.00 0.00 0.00 3.07
3481 9086 5.560722 TGTTCAGTCCTAAGGTTCATCAA 57.439 39.130 0.00 0.00 0.00 2.57
3482 9087 5.551233 TGTTCAGTCCTAAGGTTCATCAAG 58.449 41.667 0.00 0.00 0.00 3.02
3483 9088 5.306937 TGTTCAGTCCTAAGGTTCATCAAGA 59.693 40.000 0.00 0.00 0.00 3.02
3484 9089 6.183361 TGTTCAGTCCTAAGGTTCATCAAGAA 60.183 38.462 0.00 0.00 0.00 2.52
3485 9090 6.433847 TCAGTCCTAAGGTTCATCAAGAAA 57.566 37.500 0.00 0.00 38.13 2.52
3486 9091 6.837312 TCAGTCCTAAGGTTCATCAAGAAAA 58.163 36.000 0.00 0.00 38.13 2.29
3487 9092 7.287061 TCAGTCCTAAGGTTCATCAAGAAAAA 58.713 34.615 0.00 0.00 38.13 1.94
3488 9093 7.944554 TCAGTCCTAAGGTTCATCAAGAAAAAT 59.055 33.333 0.00 0.00 38.13 1.82
3489 9094 8.239998 CAGTCCTAAGGTTCATCAAGAAAAATC 58.760 37.037 0.00 0.00 38.13 2.17
3490 9095 8.166726 AGTCCTAAGGTTCATCAAGAAAAATCT 58.833 33.333 0.00 0.00 38.13 2.40
3491 9096 8.797438 GTCCTAAGGTTCATCAAGAAAAATCTT 58.203 33.333 0.00 0.00 38.13 2.40
3492 9097 9.014297 TCCTAAGGTTCATCAAGAAAAATCTTC 57.986 33.333 0.00 0.00 38.13 2.87
3493 9098 8.246871 CCTAAGGTTCATCAAGAAAAATCTTCC 58.753 37.037 0.00 0.00 38.13 3.46
3494 9099 6.596309 AGGTTCATCAAGAAAAATCTTCCC 57.404 37.500 0.00 0.00 38.13 3.97
3495 9100 6.077322 AGGTTCATCAAGAAAAATCTTCCCA 58.923 36.000 0.00 0.00 38.13 4.37
3496 9101 6.727697 AGGTTCATCAAGAAAAATCTTCCCAT 59.272 34.615 0.00 0.00 38.13 4.00
3497 9102 7.038048 GGTTCATCAAGAAAAATCTTCCCATC 58.962 38.462 0.00 0.00 38.13 3.51
3498 9103 6.441093 TCATCAAGAAAAATCTTCCCATCG 57.559 37.500 0.00 0.00 0.00 3.84
3499 9104 6.179756 TCATCAAGAAAAATCTTCCCATCGA 58.820 36.000 0.00 0.00 0.00 3.59
3500 9105 6.830324 TCATCAAGAAAAATCTTCCCATCGAT 59.170 34.615 0.00 0.00 0.00 3.59
3501 9106 6.441093 TCAAGAAAAATCTTCCCATCGATG 57.559 37.500 18.76 18.76 0.00 3.84
3502 9107 4.907879 AGAAAAATCTTCCCATCGATGC 57.092 40.909 20.25 1.63 0.00 3.91
3503 9108 4.272489 AGAAAAATCTTCCCATCGATGCA 58.728 39.130 20.25 5.52 0.00 3.96
3504 9109 4.096984 AGAAAAATCTTCCCATCGATGCAC 59.903 41.667 20.25 0.36 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.009552 TCCCAGATCCTTGAGCCCTAA 59.990 52.381 0.00 0.00 0.00 2.69
56 57 1.478105 GCTTGCCCACCAATCCTTTAG 59.522 52.381 0.00 0.00 31.91 1.85
148 149 1.135199 GTTACGGATGCGTTCCTCTCA 60.135 52.381 19.82 0.00 42.99 3.27
164 165 2.453638 GGCGGCGCTCTCTTGTTAC 61.454 63.158 32.30 6.78 0.00 2.50
165 166 2.125673 GGCGGCGCTCTCTTGTTA 60.126 61.111 32.30 0.00 0.00 2.41
174 175 1.664333 CAAAATTGTTGGCGGCGCT 60.664 52.632 32.30 7.68 0.00 5.92
209 210 0.171231 GACCCAAAGATTTGCCTCGC 59.829 55.000 0.00 0.00 36.86 5.03
230 231 2.592993 CCCCCTTTCGCTCCAGTGA 61.593 63.158 0.00 0.00 0.00 3.41
232 233 2.203938 TCCCCCTTTCGCTCCAGT 60.204 61.111 0.00 0.00 0.00 4.00
234 235 2.203938 ACTCCCCCTTTCGCTCCA 60.204 61.111 0.00 0.00 0.00 3.86
269 276 1.070175 CACCCAAACACGACACGAATC 60.070 52.381 0.00 0.00 0.00 2.52
274 281 0.454196 AAAGCACCCAAACACGACAC 59.546 50.000 0.00 0.00 0.00 3.67
290 297 7.848491 AGTAAAGCGTAGAGTTTGTTACAAAG 58.152 34.615 11.07 0.00 0.00 2.77
313 320 9.984190 TTTTTAAACGGAGGCAAATAATTAAGT 57.016 25.926 0.00 0.00 0.00 2.24
417 445 6.038492 AGCTAGTACTTCGAAGGTTCTGATAC 59.962 42.308 27.86 18.12 0.00 2.24
432 460 0.818296 CCGTGGAGCAGCTAGTACTT 59.182 55.000 0.00 0.00 0.00 2.24
465 497 4.488126 GCACACAGCAGAATAAAACAGA 57.512 40.909 0.00 0.00 44.79 3.41
502 534 1.671379 GACAAACCCGACAGAGCCC 60.671 63.158 0.00 0.00 0.00 5.19
695 733 1.429148 GCGTGGCTAGAACATTCCGG 61.429 60.000 0.00 0.00 0.00 5.14
746 784 0.038744 CTCCAGGCTTCCACATTGGT 59.961 55.000 0.00 0.00 39.03 3.67
748 786 2.877975 CCTCCAGGCTTCCACATTG 58.122 57.895 0.00 0.00 0.00 2.82
897 935 8.563289 ACGACTCTTCATTTCTATACGATTTC 57.437 34.615 0.00 0.00 0.00 2.17
1020 1058 1.134560 ACCAGCTAAAGATCGACGGAC 59.865 52.381 0.00 0.00 0.00 4.79
1059 1108 0.822532 CAGCCATGGCCCTTGATCTC 60.823 60.000 33.14 1.44 43.17 2.75
1060 1109 1.229359 CAGCCATGGCCCTTGATCT 59.771 57.895 33.14 9.27 43.17 2.75
1061 1110 2.496291 GCAGCCATGGCCCTTGATC 61.496 63.158 33.14 9.48 43.17 2.92
1081 1162 3.119096 GACCGCAAGCTCCGAACC 61.119 66.667 8.16 0.00 0.00 3.62
1086 1167 2.032681 ACCAAGACCGCAAGCTCC 59.967 61.111 0.00 0.00 0.00 4.70
1096 1177 4.465512 CGCGCATGCCACCAAGAC 62.466 66.667 13.15 0.00 38.08 3.01
1159 1252 2.615227 TAGTACCCGACCTCGAGCCC 62.615 65.000 6.99 0.00 43.02 5.19
1160 1253 1.153086 TAGTACCCGACCTCGAGCC 60.153 63.158 6.99 0.00 43.02 4.70
1341 1434 1.004610 CACCGAGCAATGCGAGTATTG 60.005 52.381 9.11 9.11 40.25 1.90
1365 1462 2.178892 TACGTGTCAGCGACTCACCG 62.179 60.000 0.00 8.64 33.15 4.94
1366 1463 0.170561 ATACGTGTCAGCGACTCACC 59.829 55.000 0.00 0.00 33.15 4.02
1367 1464 1.260206 CATACGTGTCAGCGACTCAC 58.740 55.000 0.00 3.13 33.15 3.51
1368 1465 0.170339 CCATACGTGTCAGCGACTCA 59.830 55.000 0.00 0.00 33.15 3.41
1369 1466 0.525668 CCCATACGTGTCAGCGACTC 60.526 60.000 0.00 5.73 33.15 3.36
1370 1467 1.511305 CCCATACGTGTCAGCGACT 59.489 57.895 0.00 0.00 33.15 4.18
1371 1468 2.165301 GCCCATACGTGTCAGCGAC 61.165 63.158 0.00 2.32 35.59 5.19
1372 1469 2.183300 GCCCATACGTGTCAGCGA 59.817 61.111 0.00 0.00 35.59 4.93
1373 1470 3.254654 CGCCCATACGTGTCAGCG 61.255 66.667 10.35 10.35 37.39 5.18
1387 1484 1.858399 GCGCACCATTAAATACACGCC 60.858 52.381 0.30 0.00 39.23 5.68
1393 1490 1.028905 GCCCTGCGCACCATTAAATA 58.971 50.000 5.66 0.00 37.47 1.40
1394 1491 0.684153 AGCCCTGCGCACCATTAAAT 60.684 50.000 5.66 0.00 41.38 1.40
1395 1492 1.304052 AGCCCTGCGCACCATTAAA 60.304 52.632 5.66 0.00 41.38 1.52
1396 1493 2.045708 CAGCCCTGCGCACCATTAA 61.046 57.895 5.66 0.00 41.38 1.40
1565 1662 2.506217 GCGAAGGCGACGATGTCA 60.506 61.111 0.00 0.00 40.82 3.58
2082 2207 0.962356 ATGGCCTTGGCGAACTTCTG 60.962 55.000 3.32 0.00 0.00 3.02
2224 2359 1.369625 GAACGGGACACATCATGGAC 58.630 55.000 0.00 0.00 0.00 4.02
2311 2454 3.567585 TGGACAAATCAACGAATCAGCAA 59.432 39.130 0.00 0.00 0.00 3.91
2348 2491 5.352284 ACATCGACACCAGAGAATGTATTC 58.648 41.667 0.00 0.00 37.06 1.75
2353 2496 4.452114 TCAAAACATCGACACCAGAGAATG 59.548 41.667 0.00 0.00 0.00 2.67
2397 2540 0.459237 AGAGCGAGCACCAGAATTCG 60.459 55.000 0.00 0.00 36.23 3.34
2406 2549 1.081840 GTTGCCAAAGAGCGAGCAC 60.082 57.895 0.00 0.00 34.37 4.40
2407 2550 2.606961 CGTTGCCAAAGAGCGAGCA 61.607 57.895 0.00 0.00 34.65 4.26
2462 2633 2.248248 TGAGGTCTCCTTTCACGACAT 58.752 47.619 0.00 0.00 31.76 3.06
2476 2647 1.419374 CGCCTATAACGCATGAGGTC 58.581 55.000 0.00 0.00 0.00 3.85
2525 2696 9.878667 TGAACTGAAACAGAATAATAATACGGA 57.121 29.630 5.76 0.00 35.18 4.69
2539 2865 7.462109 GAGTATCTAGCATGAACTGAAACAG 57.538 40.000 0.00 0.00 37.52 3.16
2567 2943 4.696479 AGATTATACACAAGCCCTCCAG 57.304 45.455 0.00 0.00 0.00 3.86
2569 2945 4.781934 ACAAGATTATACACAAGCCCTCC 58.218 43.478 0.00 0.00 0.00 4.30
2593 5323 9.294030 GCCTTTATCACTTTCACATCATTAAAG 57.706 33.333 0.00 0.00 36.51 1.85
2613 5343 4.947388 GTGGTGGTATCTGAATTGCCTTTA 59.053 41.667 0.00 0.00 0.00 1.85
2615 5345 3.010584 AGTGGTGGTATCTGAATTGCCTT 59.989 43.478 0.00 0.00 0.00 4.35
2681 5411 3.000078 CACCTCCGTTTCGAATTACATCG 60.000 47.826 0.00 0.00 44.04 3.84
2683 5413 3.934068 ACACCTCCGTTTCGAATTACAT 58.066 40.909 0.00 0.00 0.00 2.29
2684 5414 3.389925 ACACCTCCGTTTCGAATTACA 57.610 42.857 0.00 0.00 0.00 2.41
2685 5415 4.705492 GAAACACCTCCGTTTCGAATTAC 58.295 43.478 0.00 0.00 43.73 1.89
2686 5416 4.996062 GAAACACCTCCGTTTCGAATTA 57.004 40.909 0.00 0.00 43.73 1.40
2687 5417 3.891056 GAAACACCTCCGTTTCGAATT 57.109 42.857 0.00 0.00 43.73 2.17
2693 5423 1.404035 GCAAGTGAAACACCTCCGTTT 59.596 47.619 0.00 0.00 41.43 3.60
2695 5425 0.107410 TGCAAGTGAAACACCTCCGT 60.107 50.000 0.00 0.00 41.43 4.69
2696 5426 1.069022 CATGCAAGTGAAACACCTCCG 60.069 52.381 0.00 0.00 41.43 4.63
2697 5427 1.956477 ACATGCAAGTGAAACACCTCC 59.044 47.619 0.00 0.00 41.43 4.30
2699 5429 2.378038 ACACATGCAAGTGAAACACCT 58.622 42.857 27.42 1.09 42.05 4.00
2700 5430 2.869233 ACACATGCAAGTGAAACACC 57.131 45.000 27.42 0.00 42.05 4.16
2704 5434 6.149308 CCAGTAAGATACACATGCAAGTGAAA 59.851 38.462 27.42 15.27 42.05 2.69
2706 5436 5.178061 CCAGTAAGATACACATGCAAGTGA 58.822 41.667 27.42 12.08 42.05 3.41
2707 5437 4.201851 GCCAGTAAGATACACATGCAAGTG 60.202 45.833 19.90 19.90 44.93 3.16
2711 5441 2.741553 CGGCCAGTAAGATACACATGCA 60.742 50.000 2.24 0.00 0.00 3.96
2712 5442 1.867233 CGGCCAGTAAGATACACATGC 59.133 52.381 2.24 0.00 0.00 4.06
2713 5443 1.867233 GCGGCCAGTAAGATACACATG 59.133 52.381 2.24 0.00 0.00 3.21
2714 5444 1.762957 AGCGGCCAGTAAGATACACAT 59.237 47.619 2.24 0.00 0.00 3.21
2715 5445 1.134818 CAGCGGCCAGTAAGATACACA 60.135 52.381 2.24 0.00 0.00 3.72
2716 5446 1.571919 CAGCGGCCAGTAAGATACAC 58.428 55.000 2.24 0.00 0.00 2.90
2717 5447 0.464036 CCAGCGGCCAGTAAGATACA 59.536 55.000 2.24 0.00 0.00 2.29
2718 5448 0.249911 CCCAGCGGCCAGTAAGATAC 60.250 60.000 2.24 0.00 0.00 2.24
2719 5449 2.133195 CCCAGCGGCCAGTAAGATA 58.867 57.895 2.24 0.00 0.00 1.98
2720 5450 2.911143 CCCAGCGGCCAGTAAGAT 59.089 61.111 2.24 0.00 0.00 2.40
2730 5460 1.066002 CAGACATAAATTGCCCAGCGG 59.934 52.381 0.00 0.00 0.00 5.52
2731 5461 1.066002 CCAGACATAAATTGCCCAGCG 59.934 52.381 0.00 0.00 0.00 5.18
2732 5462 2.378038 TCCAGACATAAATTGCCCAGC 58.622 47.619 0.00 0.00 0.00 4.85
2733 5463 5.127519 TCATTTCCAGACATAAATTGCCCAG 59.872 40.000 0.00 0.00 0.00 4.45
2734 5464 5.022122 TCATTTCCAGACATAAATTGCCCA 58.978 37.500 0.00 0.00 0.00 5.36
2735 5465 5.596836 TCATTTCCAGACATAAATTGCCC 57.403 39.130 0.00 0.00 0.00 5.36
2736 5466 6.034898 CGTTTCATTTCCAGACATAAATTGCC 59.965 38.462 0.00 0.00 0.00 4.52
2737 5467 6.806249 TCGTTTCATTTCCAGACATAAATTGC 59.194 34.615 0.00 0.00 0.00 3.56
2738 5468 8.800972 CATCGTTTCATTTCCAGACATAAATTG 58.199 33.333 0.00 0.00 0.00 2.32
2739 5469 7.975616 CCATCGTTTCATTTCCAGACATAAATT 59.024 33.333 0.00 0.00 0.00 1.82
2740 5470 7.416664 CCCATCGTTTCATTTCCAGACATAAAT 60.417 37.037 0.00 0.00 0.00 1.40
2741 5471 6.127758 CCCATCGTTTCATTTCCAGACATAAA 60.128 38.462 0.00 0.00 0.00 1.40
2742 5472 5.356751 CCCATCGTTTCATTTCCAGACATAA 59.643 40.000 0.00 0.00 0.00 1.90
2743 5473 4.881273 CCCATCGTTTCATTTCCAGACATA 59.119 41.667 0.00 0.00 0.00 2.29
2744 5474 3.696051 CCCATCGTTTCATTTCCAGACAT 59.304 43.478 0.00 0.00 0.00 3.06
2745 5475 3.081061 CCCATCGTTTCATTTCCAGACA 58.919 45.455 0.00 0.00 0.00 3.41
2746 5476 2.159379 GCCCATCGTTTCATTTCCAGAC 60.159 50.000 0.00 0.00 0.00 3.51
2747 5477 2.091541 GCCCATCGTTTCATTTCCAGA 58.908 47.619 0.00 0.00 0.00 3.86
2748 5478 1.134946 GGCCCATCGTTTCATTTCCAG 59.865 52.381 0.00 0.00 0.00 3.86
2749 5479 1.181786 GGCCCATCGTTTCATTTCCA 58.818 50.000 0.00 0.00 0.00 3.53
2750 5480 0.100503 CGGCCCATCGTTTCATTTCC 59.899 55.000 0.00 0.00 0.00 3.13
2751 5481 1.064060 CTCGGCCCATCGTTTCATTTC 59.936 52.381 0.00 0.00 0.00 2.17
2752 5482 1.094785 CTCGGCCCATCGTTTCATTT 58.905 50.000 0.00 0.00 0.00 2.32
2753 5483 0.251916 TCTCGGCCCATCGTTTCATT 59.748 50.000 0.00 0.00 0.00 2.57
2754 5484 0.462047 GTCTCGGCCCATCGTTTCAT 60.462 55.000 0.00 0.00 0.00 2.57
2755 5485 1.079405 GTCTCGGCCCATCGTTTCA 60.079 57.895 0.00 0.00 0.00 2.69
2756 5486 0.462047 ATGTCTCGGCCCATCGTTTC 60.462 55.000 0.00 0.00 0.00 2.78
2757 5487 0.744414 CATGTCTCGGCCCATCGTTT 60.744 55.000 0.00 0.00 0.00 3.60
2758 5488 1.153369 CATGTCTCGGCCCATCGTT 60.153 57.895 0.00 0.00 0.00 3.85
2759 5489 1.040893 TACATGTCTCGGCCCATCGT 61.041 55.000 0.00 0.00 0.00 3.73
2760 5490 0.318441 ATACATGTCTCGGCCCATCG 59.682 55.000 0.00 0.00 0.00 3.84
2761 5491 2.550830 AATACATGTCTCGGCCCATC 57.449 50.000 0.00 0.00 0.00 3.51
2762 5492 4.640771 AATAATACATGTCTCGGCCCAT 57.359 40.909 0.00 0.00 0.00 4.00
2763 5493 4.431416 AAATAATACATGTCTCGGCCCA 57.569 40.909 0.00 0.00 0.00 5.36
2764 5494 5.302360 TGTAAATAATACATGTCTCGGCCC 58.698 41.667 0.00 0.00 0.00 5.80
2765 5495 6.482308 ACTTGTAAATAATACATGTCTCGGCC 59.518 38.462 0.00 0.00 32.59 6.13
2766 5496 7.011109 ACACTTGTAAATAATACATGTCTCGGC 59.989 37.037 0.00 0.00 34.80 5.54
2767 5497 8.420374 ACACTTGTAAATAATACATGTCTCGG 57.580 34.615 0.00 0.00 34.80 4.63
2805 5535 5.073008 AGGCCCTGTTTGGATTATTGTTTTT 59.927 36.000 0.00 0.00 38.35 1.94
2806 5536 4.597075 AGGCCCTGTTTGGATTATTGTTTT 59.403 37.500 0.00 0.00 38.35 2.43
2807 5537 4.167319 AGGCCCTGTTTGGATTATTGTTT 58.833 39.130 0.00 0.00 38.35 2.83
2808 5538 3.769300 GAGGCCCTGTTTGGATTATTGTT 59.231 43.478 0.00 0.00 38.35 2.83
2809 5539 3.011708 AGAGGCCCTGTTTGGATTATTGT 59.988 43.478 0.00 0.00 38.35 2.71
2810 5540 3.382546 CAGAGGCCCTGTTTGGATTATTG 59.617 47.826 11.85 0.00 38.10 1.90
2811 5541 3.628257 CCAGAGGCCCTGTTTGGATTATT 60.628 47.826 16.96 0.00 41.33 1.40
2812 5542 2.091665 CCAGAGGCCCTGTTTGGATTAT 60.092 50.000 16.96 0.00 41.33 1.28
2813 5543 1.284785 CCAGAGGCCCTGTTTGGATTA 59.715 52.381 16.96 0.00 41.33 1.75
2814 5544 0.040204 CCAGAGGCCCTGTTTGGATT 59.960 55.000 16.96 0.00 41.33 3.01
2815 5545 1.693640 CCAGAGGCCCTGTTTGGAT 59.306 57.895 16.96 0.00 41.33 3.41
2816 5546 2.538141 CCCAGAGGCCCTGTTTGGA 61.538 63.158 16.96 0.00 41.33 3.53
2817 5547 2.036256 CCCAGAGGCCCTGTTTGG 59.964 66.667 16.96 10.08 41.33 3.28
2818 5548 2.036256 CCCCAGAGGCCCTGTTTG 59.964 66.667 16.96 7.65 41.33 2.93
2819 5549 3.268032 CCCCCAGAGGCCCTGTTT 61.268 66.667 16.96 0.00 41.33 2.83
2820 5550 3.603330 ATCCCCCAGAGGCCCTGTT 62.603 63.158 16.96 0.00 41.33 3.16
2821 5551 4.044390 ATCCCCCAGAGGCCCTGT 62.044 66.667 16.96 0.00 41.33 4.00
2822 5552 3.174265 GATCCCCCAGAGGCCCTG 61.174 72.222 12.83 12.83 42.55 4.45
2823 5553 3.381049 AGATCCCCCAGAGGCCCT 61.381 66.667 0.00 0.00 0.00 5.19
2824 5554 3.174265 CAGATCCCCCAGAGGCCC 61.174 72.222 0.00 0.00 0.00 5.80
2825 5555 1.064824 ATTCAGATCCCCCAGAGGCC 61.065 60.000 0.00 0.00 0.00 5.19
2826 5556 0.399833 GATTCAGATCCCCCAGAGGC 59.600 60.000 0.00 0.00 0.00 4.70
2827 5557 1.063183 GGATTCAGATCCCCCAGAGG 58.937 60.000 0.00 0.00 45.21 3.69
2854 5584 9.107177 CTCAGCACTTTCAGTTTAGAATATCAT 57.893 33.333 0.00 0.00 0.00 2.45
2859 5593 6.426328 CACTCTCAGCACTTTCAGTTTAGAAT 59.574 38.462 0.00 0.00 0.00 2.40
2874 5608 3.643320 CCCCTATATTCACACTCTCAGCA 59.357 47.826 0.00 0.00 0.00 4.41
2875 5609 3.898123 TCCCCTATATTCACACTCTCAGC 59.102 47.826 0.00 0.00 0.00 4.26
2899 5633 5.470777 TCGGACTAACCCAAACACAAAATAG 59.529 40.000 0.00 0.00 34.64 1.73
2963 5697 9.104713 AGGGATTTTGATTGAGTTATTTTTCCT 57.895 29.630 0.00 0.00 0.00 3.36
2992 5729 8.370493 TGCTACTACATAATGAGCTTTCATTC 57.630 34.615 4.58 0.00 40.42 2.67
2994 5731 8.915057 ATTGCTACTACATAATGAGCTTTCAT 57.085 30.769 0.00 0.00 34.19 2.57
3059 5873 7.615365 TGGCAAAGAAATGACTAGTTGGATAAT 59.385 33.333 0.00 0.00 0.00 1.28
3094 5908 3.181483 GGACTGGAAATGGCATAAGCTTG 60.181 47.826 9.86 0.00 41.70 4.01
3170 5984 3.245586 ACAGATTTGGCCCAAGAACCATA 60.246 43.478 0.00 0.00 35.42 2.74
3190 6004 5.825593 ATTTCTTCTCAGGAGTTGGTACA 57.174 39.130 0.00 0.00 0.00 2.90
3215 6029 2.359900 CCATGGCTTGTCCTTGTCTAC 58.640 52.381 0.00 0.00 38.09 2.59
3216 6030 1.340017 GCCATGGCTTGTCCTTGTCTA 60.340 52.381 29.98 0.00 38.09 2.59
3257 8862 2.192664 TCTTATTTGCAGTGGCGGAA 57.807 45.000 0.00 0.00 45.35 4.30
3294 8899 6.010850 AGAACCCTTGGTTAATCTTTCTTCC 58.989 40.000 0.00 0.00 46.95 3.46
3296 8901 6.490381 GTGAGAACCCTTGGTTAATCTTTCTT 59.510 38.462 0.00 0.00 46.95 2.52
3310 8915 6.098266 GGCAAAATATATTGGTGAGAACCCTT 59.902 38.462 11.73 0.00 0.00 3.95
3314 8919 6.260050 TCGAGGCAAAATATATTGGTGAGAAC 59.740 38.462 11.73 1.95 0.00 3.01
3316 8921 5.924356 TCGAGGCAAAATATATTGGTGAGA 58.076 37.500 11.73 4.52 0.00 3.27
3317 8922 6.618287 TTCGAGGCAAAATATATTGGTGAG 57.382 37.500 11.73 2.86 0.00 3.51
3329 8934 2.293122 CACCTGACATTTCGAGGCAAAA 59.707 45.455 0.00 0.00 0.00 2.44
3362 8967 6.345723 CCTGCGATTTTGTATGTTTTGTGTTC 60.346 38.462 0.00 0.00 0.00 3.18
3390 8995 4.651503 TGGGATTGTTGTGTGTTATGGTTT 59.348 37.500 0.00 0.00 0.00 3.27
3402 9007 3.370104 TCAAGGTTTGTGGGATTGTTGT 58.630 40.909 0.00 0.00 0.00 3.32
3434 9039 6.544622 TGTGTTTGTAGGTTTAGTTTTGTCG 58.455 36.000 0.00 0.00 0.00 4.35
3456 9061 4.974645 TGAACCTTAGGACTGAACATGT 57.025 40.909 4.77 0.00 0.00 3.21
3457 9062 5.491070 TGATGAACCTTAGGACTGAACATG 58.509 41.667 4.77 0.00 0.00 3.21
3458 9063 5.762179 TGATGAACCTTAGGACTGAACAT 57.238 39.130 4.77 1.22 0.00 2.71
3459 9064 5.306937 TCTTGATGAACCTTAGGACTGAACA 59.693 40.000 4.77 0.00 0.00 3.18
3460 9065 5.794894 TCTTGATGAACCTTAGGACTGAAC 58.205 41.667 4.77 0.00 0.00 3.18
3461 9066 6.433847 TTCTTGATGAACCTTAGGACTGAA 57.566 37.500 4.77 0.00 0.00 3.02
3462 9067 6.433847 TTTCTTGATGAACCTTAGGACTGA 57.566 37.500 4.77 0.00 33.88 3.41
3463 9068 7.510549 TTTTTCTTGATGAACCTTAGGACTG 57.489 36.000 4.77 0.00 33.88 3.51
3464 9069 8.166726 AGATTTTTCTTGATGAACCTTAGGACT 58.833 33.333 4.77 0.00 33.88 3.85
3465 9070 8.341892 AGATTTTTCTTGATGAACCTTAGGAC 57.658 34.615 4.77 0.00 33.88 3.85
3466 9071 8.940397 AAGATTTTTCTTGATGAACCTTAGGA 57.060 30.769 4.77 0.00 33.88 2.94
3467 9072 8.246871 GGAAGATTTTTCTTGATGAACCTTAGG 58.753 37.037 0.00 0.00 33.88 2.69
3468 9073 8.246871 GGGAAGATTTTTCTTGATGAACCTTAG 58.753 37.037 0.00 0.00 33.88 2.18
3469 9074 7.728083 TGGGAAGATTTTTCTTGATGAACCTTA 59.272 33.333 0.00 0.00 33.88 2.69
3470 9075 6.554605 TGGGAAGATTTTTCTTGATGAACCTT 59.445 34.615 0.00 0.00 33.88 3.50
3471 9076 6.077322 TGGGAAGATTTTTCTTGATGAACCT 58.923 36.000 0.00 0.00 33.88 3.50
3472 9077 6.345096 TGGGAAGATTTTTCTTGATGAACC 57.655 37.500 0.00 0.00 33.88 3.62
3473 9078 6.749118 CGATGGGAAGATTTTTCTTGATGAAC 59.251 38.462 0.00 0.00 33.88 3.18
3474 9079 6.658816 TCGATGGGAAGATTTTTCTTGATGAA 59.341 34.615 0.00 0.00 0.00 2.57
3475 9080 6.179756 TCGATGGGAAGATTTTTCTTGATGA 58.820 36.000 0.00 0.00 0.00 2.92
3476 9081 6.441093 TCGATGGGAAGATTTTTCTTGATG 57.559 37.500 0.00 0.00 0.00 3.07
3477 9082 6.460676 GCATCGATGGGAAGATTTTTCTTGAT 60.461 38.462 26.00 0.00 0.00 2.57
3478 9083 5.163622 GCATCGATGGGAAGATTTTTCTTGA 60.164 40.000 26.00 0.00 0.00 3.02
3479 9084 5.039333 GCATCGATGGGAAGATTTTTCTTG 58.961 41.667 26.00 0.00 0.00 3.02
3480 9085 4.706476 TGCATCGATGGGAAGATTTTTCTT 59.294 37.500 26.00 0.00 0.00 2.52
3481 9086 4.096984 GTGCATCGATGGGAAGATTTTTCT 59.903 41.667 26.00 0.00 0.00 2.52
3482 9087 4.354587 GTGCATCGATGGGAAGATTTTTC 58.645 43.478 26.00 5.97 0.00 2.29
3483 9088 4.376340 GTGCATCGATGGGAAGATTTTT 57.624 40.909 26.00 0.00 0.00 1.94


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

AutoCloner maintained by Alex Coulton.