Multiple sequence alignment - TraesCS3B01G155500

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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 TraesCS3B01G155500 chr3B 100.000 3411 0 0 1 3411 147935746 147932336 0.000000e+00 6300.0
1 TraesCS3B01G155500 chr3B 89.535 86 8 1 586 671 737924733 737924817 1.290000e-19 108.0
2 TraesCS3B01G155500 chr3D 93.594 1842 93 13 675 2500 97116818 97114986 0.000000e+00 2724.0
3 TraesCS3B01G155500 chr3D 88.517 627 64 5 2787 3411 97114835 97114215 0.000000e+00 752.0
4 TraesCS3B01G155500 chr3D 74.844 640 105 38 14 612 571910832 571910208 4.400000e-59 239.0
5 TraesCS3B01G155500 chr3D 76.591 440 74 26 15 435 571909267 571908838 7.410000e-52 215.0
6 TraesCS3B01G155500 chr3A 89.945 1641 125 20 788 2397 114714201 114712570 0.000000e+00 2080.0
7 TraesCS3B01G155500 chr3A 91.695 590 46 2 2825 3411 114710230 114709641 0.000000e+00 815.0
8 TraesCS3B01G155500 chr2B 97.778 675 12 2 1 674 472908202 472907530 0.000000e+00 1160.0
9 TraesCS3B01G155500 chr2B 78.528 652 100 34 15 646 765386774 765386143 3.190000e-105 392.0
10 TraesCS3B01G155500 chr2B 94.667 75 4 0 597 671 247948691 247948765 2.150000e-22 117.0
11 TraesCS3B01G155500 chr2B 94.521 73 4 0 599 671 247948858 247948930 2.780000e-21 113.0
12 TraesCS3B01G155500 chr7A 84.946 651 72 17 15 652 569929149 569928512 1.340000e-178 636.0
13 TraesCS3B01G155500 chr7A 91.860 86 5 2 567 652 569928479 569928396 5.980000e-23 119.0
14 TraesCS3B01G155500 chr4B 82.398 659 74 23 36 670 31865486 31864846 1.390000e-148 536.0
15 TraesCS3B01G155500 chr6A 86.486 259 21 14 30 281 416543689 416543438 4.340000e-69 272.0
16 TraesCS3B01G155500 chr7D 87.295 244 22 8 32 272 70113304 70113541 1.560000e-68 270.0
17 TraesCS3B01G155500 chr1B 76.199 563 90 30 15 552 280985917 280985374 1.210000e-64 257.0
18 TraesCS3B01G155500 chr1B 83.883 273 34 9 11 278 84971395 84971662 5.650000e-63 252.0
19 TraesCS3B01G155500 chr5A 83.273 275 33 10 14 281 302711431 302711699 1.220000e-59 241.0
20 TraesCS3B01G155500 chrUn 82.847 274 36 10 10 278 225713352 225713085 5.690000e-58 235.0
21 TraesCS3B01G155500 chr2D 77.961 363 56 19 11 359 605880926 605881278 4.460000e-49 206.0
22 TraesCS3B01G155500 chr5B 76.305 249 46 9 118 358 599328237 599328480 1.660000e-23 121.0
23 TraesCS3B01G155500 chr5B 74.641 209 37 13 159 358 599306131 599306332 1.010000e-10 78.7
24 TraesCS3B01G155500 chr6B 81.560 141 20 6 539 674 500599791 500599652 1.000000e-20 111.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G155500 chr3B 147932336 147935746 3410 True 6300.0 6300 100.0000 1 3411 1 chr3B.!!$R1 3410
1 TraesCS3B01G155500 chr3D 97114215 97116818 2603 True 1738.0 2724 91.0555 675 3411 2 chr3D.!!$R1 2736
2 TraesCS3B01G155500 chr3D 571908838 571910832 1994 True 227.0 239 75.7175 14 612 2 chr3D.!!$R2 598
3 TraesCS3B01G155500 chr3A 114709641 114714201 4560 True 1447.5 2080 90.8200 788 3411 2 chr3A.!!$R1 2623
4 TraesCS3B01G155500 chr2B 472907530 472908202 672 True 1160.0 1160 97.7780 1 674 1 chr2B.!!$R1 673
5 TraesCS3B01G155500 chr2B 765386143 765386774 631 True 392.0 392 78.5280 15 646 1 chr2B.!!$R2 631
6 TraesCS3B01G155500 chr7A 569928396 569929149 753 True 377.5 636 88.4030 15 652 2 chr7A.!!$R1 637
7 TraesCS3B01G155500 chr4B 31864846 31865486 640 True 536.0 536 82.3980 36 670 1 chr4B.!!$R1 634
8 TraesCS3B01G155500 chr1B 280985374 280985917 543 True 257.0 257 76.1990 15 552 1 chr1B.!!$R1 537

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
526 734 1.153939 CTCTGCGGTCTCCACGAAG 60.154 63.158 0.0 0.0 38.36 3.79 F
1023 1618 0.179034 CCTACCCATCCTTGCAGCTC 60.179 60.000 0.0 0.0 0.00 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1472 2070 0.109086 CGTCGCTCATGAACCACTCT 60.109 55.0 0.0 0.0 0.0 3.24 R
2793 5496 0.391661 CCGGTGCTGATGTAAGCTGT 60.392 55.0 0.0 0.0 43.9 4.40 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
27 53 2.422479 GGGCTTGGAAAATAGTTCGTCC 59.578 50.000 0.00 0.00 0.00 4.79
148 174 9.612620 AGTTCATCGAATTTGAAAATAGTTCAC 57.387 29.630 0.00 0.00 35.03 3.18
462 670 6.214177 ACCAGGGAAAGAATAAAAGAAGGA 57.786 37.500 0.00 0.00 0.00 3.36
509 717 2.605257 TGTGTCCTAGTGGTTAGTGCT 58.395 47.619 0.00 0.00 34.23 4.40
525 733 2.962569 CTCTGCGGTCTCCACGAA 59.037 61.111 0.00 0.00 0.00 3.85
526 734 1.153939 CTCTGCGGTCTCCACGAAG 60.154 63.158 0.00 0.00 38.36 3.79
786 1368 1.600636 ACACACAATGGCCGGTCAG 60.601 57.895 16.89 3.87 0.00 3.51
828 1410 4.397417 ACAGTGCTCTATTTCTCCAAATGC 59.603 41.667 0.00 0.00 33.95 3.56
845 1427 5.220989 CCAAATGCTGTCATTATCTGTCCAG 60.221 44.000 0.00 0.00 41.77 3.86
1023 1618 0.179034 CCTACCCATCCTTGCAGCTC 60.179 60.000 0.00 0.00 0.00 4.09
1041 1636 2.486548 GCTCAAAACCACCACCAGTAGA 60.487 50.000 0.00 0.00 0.00 2.59
1297 1892 3.546670 GCGTTCGGTATCTTTACTGTCAG 59.453 47.826 0.00 0.00 36.31 3.51
1298 1893 4.730657 CGTTCGGTATCTTTACTGTCAGT 58.269 43.478 10.99 10.99 36.31 3.41
1436 2034 1.079750 GTTCGTGCTCTCCCAGACC 60.080 63.158 0.00 0.00 0.00 3.85
1568 2166 2.509336 GTCATGGAGCGTGACCCG 60.509 66.667 0.00 0.00 42.56 5.28
1635 2233 0.525455 CGCGATGGACTTCGTCATCA 60.525 55.000 0.00 0.00 41.16 3.07
1782 2380 0.392461 CGTGGTCAATTCCATCCCGT 60.392 55.000 0.00 0.00 39.81 5.28
1811 2409 2.093106 GTGGTCGAGTACATCTCAGGT 58.907 52.381 0.00 0.00 42.88 4.00
1844 2442 1.226974 CATTCCGACGACCGATGCT 60.227 57.895 0.00 0.00 41.76 3.79
1860 2458 3.679917 CGATGCTGTGTTCCTCAAGGTAT 60.680 47.826 0.00 0.00 36.34 2.73
1983 2589 2.499289 AGGACTGCGTGAAGATCTTGAT 59.501 45.455 14.00 0.00 0.00 2.57
2116 2722 1.264045 TGATGGTGATCACGGCAGGA 61.264 55.000 19.33 1.49 33.40 3.86
2164 2770 0.251916 AGATTTTCATGGACGCGGGA 59.748 50.000 12.47 0.00 0.00 5.14
2212 2818 1.006813 TGGGGTTTATGGCCATCACT 58.993 50.000 24.80 0.27 0.00 3.41
2234 2840 1.602311 GCTGTATGCTTAGCCATGCT 58.398 50.000 0.29 0.00 39.72 3.79
2287 2893 1.083015 CGTGTGTGTAAGCGTTGGC 60.083 57.895 0.00 0.00 40.37 4.52
2303 2909 1.678970 GGCCCTGTGATGTTCACCC 60.679 63.158 5.27 0.00 46.40 4.61
2304 2910 1.678970 GCCCTGTGATGTTCACCCC 60.679 63.158 5.27 0.00 46.40 4.95
2305 2911 1.767036 CCCTGTGATGTTCACCCCA 59.233 57.895 5.27 0.00 46.40 4.96
2310 2930 3.497763 CCTGTGATGTTCACCCCAAAGTA 60.498 47.826 5.27 0.00 46.40 2.24
2312 2932 4.735369 TGTGATGTTCACCCCAAAGTATT 58.265 39.130 5.27 0.00 46.40 1.89
2338 2958 3.081061 TGCAGCAACGATTTGTTCCTAT 58.919 40.909 0.00 0.00 39.29 2.57
2365 2985 1.555967 AAGGCGCCCACATTTGTATT 58.444 45.000 26.15 3.11 0.00 1.89
2368 2988 3.295973 AGGCGCCCACATTTGTATTATT 58.704 40.909 26.15 0.00 0.00 1.40
2466 5158 1.064654 GGGTTTTGCTCGATGCTGATC 59.935 52.381 8.07 0.00 43.37 2.92
2483 5175 2.095919 TGATCGTCTCGTGTACACACTG 60.096 50.000 24.98 13.85 44.34 3.66
2496 5188 0.601046 CACACTGCACAGACGTGGAT 60.601 55.000 4.31 0.00 43.15 3.41
2500 5192 3.116300 CACTGCACAGACGTGGATATAC 58.884 50.000 4.31 0.00 43.15 1.47
2502 5194 3.194755 ACTGCACAGACGTGGATATACAA 59.805 43.478 4.31 0.00 43.15 2.41
2503 5195 4.141937 ACTGCACAGACGTGGATATACAAT 60.142 41.667 4.31 0.00 43.15 2.71
2504 5196 4.368315 TGCACAGACGTGGATATACAATC 58.632 43.478 0.00 0.00 43.81 2.67
2505 5197 3.741344 GCACAGACGTGGATATACAATCC 59.259 47.826 0.00 0.00 43.81 3.01
2506 5198 4.501571 GCACAGACGTGGATATACAATCCT 60.502 45.833 0.00 0.00 43.81 3.24
2507 5199 4.984785 CACAGACGTGGATATACAATCCTG 59.015 45.833 0.00 9.10 39.64 3.86
2524 5216 6.675026 CAATCCTGTATATGATTGTGCTTGG 58.325 40.000 8.64 0.00 41.74 3.61
2525 5217 4.136796 TCCTGTATATGATTGTGCTTGGC 58.863 43.478 0.00 0.00 0.00 4.52
2526 5218 3.058708 CCTGTATATGATTGTGCTTGGCG 60.059 47.826 0.00 0.00 0.00 5.69
2527 5219 3.540617 TGTATATGATTGTGCTTGGCGT 58.459 40.909 0.00 0.00 0.00 5.68
2528 5220 3.312146 TGTATATGATTGTGCTTGGCGTG 59.688 43.478 0.00 0.00 0.00 5.34
2530 5222 0.895100 ATGATTGTGCTTGGCGTGGT 60.895 50.000 0.00 0.00 0.00 4.16
2531 5223 1.081242 GATTGTGCTTGGCGTGGTG 60.081 57.895 0.00 0.00 0.00 4.17
2532 5224 2.476534 GATTGTGCTTGGCGTGGTGG 62.477 60.000 0.00 0.00 0.00 4.61
2533 5225 4.497984 TGTGCTTGGCGTGGTGGT 62.498 61.111 0.00 0.00 0.00 4.16
2534 5226 2.281208 GTGCTTGGCGTGGTGGTA 60.281 61.111 0.00 0.00 0.00 3.25
2535 5227 1.894756 GTGCTTGGCGTGGTGGTAA 60.895 57.895 0.00 0.00 0.00 2.85
2537 5229 1.599797 GCTTGGCGTGGTGGTAACT 60.600 57.895 0.00 0.00 37.61 2.24
2538 5230 1.170290 GCTTGGCGTGGTGGTAACTT 61.170 55.000 0.00 0.00 37.61 2.66
2539 5231 0.872388 CTTGGCGTGGTGGTAACTTC 59.128 55.000 0.00 0.00 37.61 3.01
2542 5234 1.134037 TGGCGTGGTGGTAACTTCTTT 60.134 47.619 0.00 0.00 37.61 2.52
2543 5235 1.265905 GGCGTGGTGGTAACTTCTTTG 59.734 52.381 0.00 0.00 37.61 2.77
2544 5236 1.334689 GCGTGGTGGTAACTTCTTTGC 60.335 52.381 0.00 0.00 37.61 3.68
2546 5238 1.265905 GTGGTGGTAACTTCTTTGCGG 59.734 52.381 0.00 0.00 37.61 5.69
2557 5260 5.108385 ACTTCTTTGCGGTGATAGTTTTG 57.892 39.130 0.00 0.00 0.00 2.44
2561 5264 5.000591 TCTTTGCGGTGATAGTTTTGATGA 58.999 37.500 0.00 0.00 0.00 2.92
2564 5267 4.512484 TGCGGTGATAGTTTTGATGATCA 58.488 39.130 0.00 0.00 0.00 2.92
2565 5268 5.125356 TGCGGTGATAGTTTTGATGATCAT 58.875 37.500 8.25 8.25 31.35 2.45
2568 5271 6.458751 GCGGTGATAGTTTTGATGATCATGTT 60.459 38.462 14.30 0.00 31.35 2.71
2570 5273 7.430211 CGGTGATAGTTTTGATGATCATGTTTG 59.570 37.037 14.30 0.00 31.35 2.93
2571 5274 8.461222 GGTGATAGTTTTGATGATCATGTTTGA 58.539 33.333 14.30 0.00 36.00 2.69
2579 5282 7.821595 TTGATGATCATGTTTGATTCTTTGC 57.178 32.000 14.30 0.00 42.73 3.68
2580 5283 7.165460 TGATGATCATGTTTGATTCTTTGCT 57.835 32.000 14.30 0.00 42.73 3.91
2581 5284 7.033185 TGATGATCATGTTTGATTCTTTGCTG 58.967 34.615 14.30 0.00 42.73 4.41
2582 5285 5.716094 TGATCATGTTTGATTCTTTGCTGG 58.284 37.500 0.00 0.00 42.73 4.85
2583 5286 3.916761 TCATGTTTGATTCTTTGCTGGC 58.083 40.909 0.00 0.00 0.00 4.85
2584 5287 3.575256 TCATGTTTGATTCTTTGCTGGCT 59.425 39.130 0.00 0.00 0.00 4.75
2585 5288 4.766373 TCATGTTTGATTCTTTGCTGGCTA 59.234 37.500 0.00 0.00 0.00 3.93
2587 5290 5.726980 TGTTTGATTCTTTGCTGGCTAAT 57.273 34.783 0.00 0.00 0.00 1.73
2588 5291 6.100404 TGTTTGATTCTTTGCTGGCTAATT 57.900 33.333 0.00 0.00 0.00 1.40
2590 5293 6.646240 TGTTTGATTCTTTGCTGGCTAATTTC 59.354 34.615 0.00 0.00 0.00 2.17
2591 5294 5.981088 TGATTCTTTGCTGGCTAATTTCA 57.019 34.783 0.00 0.00 0.00 2.69
2592 5295 5.957798 TGATTCTTTGCTGGCTAATTTCAG 58.042 37.500 0.00 0.00 0.00 3.02
2593 5296 5.711506 TGATTCTTTGCTGGCTAATTTCAGA 59.288 36.000 7.15 0.00 33.11 3.27
2594 5297 5.633830 TTCTTTGCTGGCTAATTTCAGAG 57.366 39.130 7.15 0.00 33.11 3.35
2595 5298 3.441572 TCTTTGCTGGCTAATTTCAGAGC 59.558 43.478 7.15 0.00 38.00 4.09
2596 5299 2.495155 TGCTGGCTAATTTCAGAGCA 57.505 45.000 0.00 0.00 40.64 4.26
2597 5300 2.086869 TGCTGGCTAATTTCAGAGCAC 58.913 47.619 0.00 0.00 40.64 4.40
2598 5301 2.086869 GCTGGCTAATTTCAGAGCACA 58.913 47.619 0.66 0.00 40.64 4.57
2599 5302 2.489329 GCTGGCTAATTTCAGAGCACAA 59.511 45.455 0.66 0.00 40.64 3.33
2600 5303 3.057315 GCTGGCTAATTTCAGAGCACAAA 60.057 43.478 0.66 0.00 40.64 2.83
2601 5304 4.479619 CTGGCTAATTTCAGAGCACAAAC 58.520 43.478 0.66 0.00 40.64 2.93
2602 5305 3.888323 TGGCTAATTTCAGAGCACAAACA 59.112 39.130 0.66 0.00 40.64 2.83
2603 5306 4.340666 TGGCTAATTTCAGAGCACAAACAA 59.659 37.500 0.66 0.00 40.64 2.83
2604 5307 4.919754 GGCTAATTTCAGAGCACAAACAAG 59.080 41.667 0.66 0.00 40.64 3.16
2605 5308 5.507985 GGCTAATTTCAGAGCACAAACAAGT 60.508 40.000 0.66 0.00 40.64 3.16
2606 5309 6.293955 GGCTAATTTCAGAGCACAAACAAGTA 60.294 38.462 0.66 0.00 40.64 2.24
2607 5310 6.798959 GCTAATTTCAGAGCACAAACAAGTAG 59.201 38.462 0.00 0.00 38.62 2.57
2608 5311 5.695851 ATTTCAGAGCACAAACAAGTAGG 57.304 39.130 0.00 0.00 0.00 3.18
2610 5313 2.703536 TCAGAGCACAAACAAGTAGGGA 59.296 45.455 0.00 0.00 0.00 4.20
2611 5314 3.327757 TCAGAGCACAAACAAGTAGGGAT 59.672 43.478 0.00 0.00 0.00 3.85
2612 5315 3.438087 CAGAGCACAAACAAGTAGGGATG 59.562 47.826 0.00 0.00 0.00 3.51
2613 5316 2.162408 GAGCACAAACAAGTAGGGATGC 59.838 50.000 0.00 0.00 0.00 3.91
2614 5317 1.885887 GCACAAACAAGTAGGGATGCA 59.114 47.619 0.00 0.00 0.00 3.96
2616 5319 3.428045 GCACAAACAAGTAGGGATGCATC 60.428 47.826 18.81 18.81 0.00 3.91
2619 5322 4.012374 CAAACAAGTAGGGATGCATCAGT 58.988 43.478 27.25 15.96 0.00 3.41
2620 5323 3.272574 ACAAGTAGGGATGCATCAGTG 57.727 47.619 27.25 16.24 0.00 3.66
2642 5345 6.651225 AGTGCATCCTAGTACTGAAAAAGAAC 59.349 38.462 5.39 0.00 33.05 3.01
2644 5347 6.995686 TGCATCCTAGTACTGAAAAAGAACAA 59.004 34.615 5.39 0.00 0.00 2.83
2645 5348 7.173218 TGCATCCTAGTACTGAAAAAGAACAAG 59.827 37.037 5.39 0.00 0.00 3.16
2647 5350 9.706691 CATCCTAGTACTGAAAAAGAACAAGTA 57.293 33.333 5.39 0.00 0.00 2.24
2648 5351 9.930693 ATCCTAGTACTGAAAAAGAACAAGTAG 57.069 33.333 5.39 0.00 0.00 2.57
2649 5352 9.139734 TCCTAGTACTGAAAAAGAACAAGTAGA 57.860 33.333 5.39 0.00 0.00 2.59
2650 5353 9.760077 CCTAGTACTGAAAAAGAACAAGTAGAA 57.240 33.333 5.39 0.00 0.00 2.10
2652 5355 8.664211 AGTACTGAAAAAGAACAAGTAGAAGG 57.336 34.615 0.00 0.00 0.00 3.46
2653 5356 8.483758 AGTACTGAAAAAGAACAAGTAGAAGGA 58.516 33.333 0.00 0.00 0.00 3.36
2654 5357 7.793927 ACTGAAAAAGAACAAGTAGAAGGAG 57.206 36.000 0.00 0.00 0.00 3.69
2655 5358 7.565680 ACTGAAAAAGAACAAGTAGAAGGAGA 58.434 34.615 0.00 0.00 0.00 3.71
2659 5362 7.971183 AAAAGAACAAGTAGAAGGAGATGAC 57.029 36.000 0.00 0.00 0.00 3.06
2661 5364 6.031751 AGAACAAGTAGAAGGAGATGACAC 57.968 41.667 0.00 0.00 0.00 3.67
2664 5367 6.365970 ACAAGTAGAAGGAGATGACACAAT 57.634 37.500 0.00 0.00 0.00 2.71
2665 5368 6.773638 ACAAGTAGAAGGAGATGACACAATT 58.226 36.000 0.00 0.00 0.00 2.32
2666 5369 7.907389 ACAAGTAGAAGGAGATGACACAATTA 58.093 34.615 0.00 0.00 0.00 1.40
2667 5370 8.375506 ACAAGTAGAAGGAGATGACACAATTAA 58.624 33.333 0.00 0.00 0.00 1.40
2668 5371 9.219603 CAAGTAGAAGGAGATGACACAATTAAA 57.780 33.333 0.00 0.00 0.00 1.52
2669 5372 9.965902 AAGTAGAAGGAGATGACACAATTAAAT 57.034 29.630 0.00 0.00 0.00 1.40
2670 5373 9.388506 AGTAGAAGGAGATGACACAATTAAATG 57.611 33.333 0.00 0.00 0.00 2.32
2671 5374 9.383519 GTAGAAGGAGATGACACAATTAAATGA 57.616 33.333 0.00 0.00 0.00 2.57
2673 5376 9.471702 AGAAGGAGATGACACAATTAAATGATT 57.528 29.630 0.00 0.00 0.00 2.57
2676 5379 9.471702 AGGAGATGACACAATTAAATGATTTCT 57.528 29.630 0.00 0.00 0.00 2.52
2679 5382 9.865321 AGATGACACAATTAAATGATTTCTTGG 57.135 29.630 13.99 8.11 0.00 3.61
2680 5383 9.859427 GATGACACAATTAAATGATTTCTTGGA 57.141 29.630 13.99 1.42 0.00 3.53
2681 5384 9.643693 ATGACACAATTAAATGATTTCTTGGAC 57.356 29.630 13.99 7.90 0.00 4.02
2682 5385 8.637099 TGACACAATTAAATGATTTCTTGGACA 58.363 29.630 13.99 9.51 0.00 4.02
2683 5386 8.816640 ACACAATTAAATGATTTCTTGGACAC 57.183 30.769 13.99 0.00 0.00 3.67
2684 5387 8.420222 ACACAATTAAATGATTTCTTGGACACA 58.580 29.630 13.99 0.00 0.00 3.72
2685 5388 8.918658 CACAATTAAATGATTTCTTGGACACAG 58.081 33.333 13.99 0.00 0.00 3.66
2686 5389 8.090214 ACAATTAAATGATTTCTTGGACACAGG 58.910 33.333 13.99 0.00 0.00 4.00
2687 5390 6.588719 TTAAATGATTTCTTGGACACAGGG 57.411 37.500 0.00 0.00 0.00 4.45
2688 5391 4.387026 AATGATTTCTTGGACACAGGGA 57.613 40.909 0.00 0.00 0.00 4.20
2689 5392 3.874383 TGATTTCTTGGACACAGGGAA 57.126 42.857 0.00 0.00 0.00 3.97
2690 5393 4.387026 TGATTTCTTGGACACAGGGAAT 57.613 40.909 0.00 0.00 34.83 3.01
2691 5394 4.081406 TGATTTCTTGGACACAGGGAATG 58.919 43.478 0.00 0.00 32.50 2.67
2692 5395 3.593442 TTTCTTGGACACAGGGAATGT 57.407 42.857 0.00 0.00 45.43 2.71
2700 5403 3.658398 ACAGGGAATGTGAGGCAAG 57.342 52.632 0.00 0.00 41.91 4.01
2701 5404 1.067295 ACAGGGAATGTGAGGCAAGA 58.933 50.000 0.00 0.00 41.91 3.02
2702 5405 1.425066 ACAGGGAATGTGAGGCAAGAA 59.575 47.619 0.00 0.00 41.91 2.52
2703 5406 2.158475 ACAGGGAATGTGAGGCAAGAAA 60.158 45.455 0.00 0.00 41.91 2.52
2704 5407 2.229784 CAGGGAATGTGAGGCAAGAAAC 59.770 50.000 0.00 0.00 0.00 2.78
2705 5408 2.108952 AGGGAATGTGAGGCAAGAAACT 59.891 45.455 0.00 0.00 0.00 2.66
2706 5409 3.330701 AGGGAATGTGAGGCAAGAAACTA 59.669 43.478 0.00 0.00 0.00 2.24
2707 5410 3.440522 GGGAATGTGAGGCAAGAAACTAC 59.559 47.826 0.00 0.00 0.00 2.73
2708 5411 4.327680 GGAATGTGAGGCAAGAAACTACT 58.672 43.478 0.00 0.00 0.00 2.57
2709 5412 4.393371 GGAATGTGAGGCAAGAAACTACTC 59.607 45.833 0.00 0.00 0.00 2.59
2710 5413 4.899352 ATGTGAGGCAAGAAACTACTCT 57.101 40.909 0.00 0.00 0.00 3.24
2711 5414 6.360370 AATGTGAGGCAAGAAACTACTCTA 57.640 37.500 0.00 0.00 0.00 2.43
2712 5415 5.135508 TGTGAGGCAAGAAACTACTCTAC 57.864 43.478 0.00 0.00 0.00 2.59
2713 5416 4.167268 GTGAGGCAAGAAACTACTCTACG 58.833 47.826 0.00 0.00 0.00 3.51
2714 5417 3.180613 GAGGCAAGAAACTACTCTACGC 58.819 50.000 0.00 0.00 0.00 4.42
2715 5418 2.826725 AGGCAAGAAACTACTCTACGCT 59.173 45.455 0.00 0.00 0.00 5.07
2716 5419 3.258622 AGGCAAGAAACTACTCTACGCTT 59.741 43.478 0.00 0.00 0.00 4.68
2717 5420 3.613299 GGCAAGAAACTACTCTACGCTTC 59.387 47.826 0.00 0.00 0.00 3.86
2718 5421 4.235360 GCAAGAAACTACTCTACGCTTCA 58.765 43.478 0.00 0.00 0.00 3.02
2719 5422 4.324936 GCAAGAAACTACTCTACGCTTCAG 59.675 45.833 0.00 0.00 0.00 3.02
2720 5423 5.700846 CAAGAAACTACTCTACGCTTCAGA 58.299 41.667 0.00 0.00 0.00 3.27
2721 5424 5.554822 AGAAACTACTCTACGCTTCAGAG 57.445 43.478 4.96 4.96 44.28 3.35
2729 5432 3.818387 TCTACGCTTCAGAGTAAACACG 58.182 45.455 0.00 0.00 30.25 4.49
2730 5433 1.779569 ACGCTTCAGAGTAAACACGG 58.220 50.000 0.00 0.00 0.00 4.94
2731 5434 0.438830 CGCTTCAGAGTAAACACGGC 59.561 55.000 0.00 0.00 0.00 5.68
2732 5435 1.797025 GCTTCAGAGTAAACACGGCT 58.203 50.000 0.00 0.00 0.00 5.52
2738 5441 3.508402 TCAGAGTAAACACGGCTGTCATA 59.492 43.478 0.00 0.00 0.00 2.15
2739 5442 4.159693 TCAGAGTAAACACGGCTGTCATAT 59.840 41.667 0.00 0.00 0.00 1.78
2746 5449 6.598753 AAACACGGCTGTCATATAATACAC 57.401 37.500 0.00 0.00 0.00 2.90
2747 5450 5.531122 ACACGGCTGTCATATAATACACT 57.469 39.130 0.00 0.00 0.00 3.55
2748 5451 5.289595 ACACGGCTGTCATATAATACACTG 58.710 41.667 0.00 0.00 0.00 3.66
2751 5454 6.144563 CACGGCTGTCATATAATACACTGAAG 59.855 42.308 0.00 0.00 0.00 3.02
2752 5455 6.040504 ACGGCTGTCATATAATACACTGAAGA 59.959 38.462 0.00 0.00 0.00 2.87
2770 5473 5.809001 TGAAGATTCAGAGTAAACCAGCAT 58.191 37.500 0.00 0.00 32.50 3.79
2771 5474 5.877012 TGAAGATTCAGAGTAAACCAGCATC 59.123 40.000 0.00 0.00 32.50 3.91
2772 5475 4.775236 AGATTCAGAGTAAACCAGCATCC 58.225 43.478 0.00 0.00 0.00 3.51
2773 5476 4.225942 AGATTCAGAGTAAACCAGCATCCA 59.774 41.667 0.00 0.00 0.00 3.41
2774 5477 4.574674 TTCAGAGTAAACCAGCATCCAT 57.425 40.909 0.00 0.00 0.00 3.41
2775 5478 3.877559 TCAGAGTAAACCAGCATCCATG 58.122 45.455 0.00 0.00 0.00 3.66
2776 5479 3.519107 TCAGAGTAAACCAGCATCCATGA 59.481 43.478 0.00 0.00 0.00 3.07
2777 5480 3.875727 CAGAGTAAACCAGCATCCATGAG 59.124 47.826 0.00 0.00 0.00 2.90
2778 5481 3.776969 AGAGTAAACCAGCATCCATGAGA 59.223 43.478 0.00 0.00 0.00 3.27
2779 5482 4.225942 AGAGTAAACCAGCATCCATGAGAA 59.774 41.667 0.00 0.00 0.00 2.87
2780 5483 4.265073 AGTAAACCAGCATCCATGAGAAC 58.735 43.478 0.00 0.00 0.00 3.01
2781 5484 1.742761 AACCAGCATCCATGAGAACG 58.257 50.000 0.00 0.00 0.00 3.95
2782 5485 0.745845 ACCAGCATCCATGAGAACGC 60.746 55.000 0.00 0.00 0.00 4.84
2783 5486 0.745486 CCAGCATCCATGAGAACGCA 60.745 55.000 0.00 0.00 31.07 5.24
2784 5487 0.656259 CAGCATCCATGAGAACGCAG 59.344 55.000 0.00 0.00 31.07 5.18
2786 5489 1.482182 AGCATCCATGAGAACGCAGTA 59.518 47.619 0.00 0.00 45.00 2.74
2787 5490 2.093500 AGCATCCATGAGAACGCAGTAA 60.093 45.455 0.00 0.00 45.00 2.24
2788 5491 2.677836 GCATCCATGAGAACGCAGTAAA 59.322 45.455 0.00 0.00 45.00 2.01
2789 5492 3.242543 GCATCCATGAGAACGCAGTAAAG 60.243 47.826 0.00 0.00 45.00 1.85
2790 5493 3.953712 TCCATGAGAACGCAGTAAAGA 57.046 42.857 0.00 0.00 45.00 2.52
2793 5496 5.060506 TCCATGAGAACGCAGTAAAGAAAA 58.939 37.500 0.00 0.00 45.00 2.29
2796 5499 5.403897 TGAGAACGCAGTAAAGAAAACAG 57.596 39.130 0.00 0.00 45.00 3.16
2803 5506 5.238650 ACGCAGTAAAGAAAACAGCTTACAT 59.761 36.000 0.00 0.00 41.94 2.29
2810 5513 3.503748 AGAAAACAGCTTACATCAGCACC 59.496 43.478 0.00 0.00 42.84 5.01
2811 5514 1.442769 AACAGCTTACATCAGCACCG 58.557 50.000 0.00 0.00 42.84 4.94
2812 5515 0.391661 ACAGCTTACATCAGCACCGG 60.392 55.000 0.00 0.00 42.84 5.28
2827 5534 0.322322 ACCGGAAATTCAGGCGTACA 59.678 50.000 9.46 0.00 34.97 2.90
2844 5551 5.074791 GCGTACATAAACAAACACTAACGG 58.925 41.667 0.00 0.00 0.00 4.44
2845 5552 5.074791 CGTACATAAACAAACACTAACGGC 58.925 41.667 0.00 0.00 0.00 5.68
2857 5564 6.811253 AACACTAACGGCAATTTATCTGAA 57.189 33.333 0.00 0.00 0.00 3.02
2865 5572 4.678287 CGGCAATTTATCTGAATCATGCAC 59.322 41.667 5.32 0.00 34.37 4.57
2891 5598 5.368256 AAATTCAGTTCACAGCATCACTC 57.632 39.130 0.00 0.00 0.00 3.51
2911 5618 5.982516 CACTCTCTGTCCTATATGCTGAAAC 59.017 44.000 0.00 0.00 0.00 2.78
2935 5645 6.015350 ACTCAGACCAACCAATAGGATATACG 60.015 42.308 0.00 0.00 38.69 3.06
2980 5690 0.468400 AGGTCCTATCCGGAGTCTGC 60.468 60.000 11.34 0.00 44.20 4.26
2986 5696 0.889638 TATCCGGAGTCTGCCTAGCG 60.890 60.000 11.34 0.00 0.00 4.26
3000 5710 2.286418 GCCTAGCGTGCACATGAAATAC 60.286 50.000 18.64 0.00 0.00 1.89
3058 5768 5.939883 AGCACAACAAACATAGAGATAGCAA 59.060 36.000 0.00 0.00 0.00 3.91
3059 5769 6.600822 AGCACAACAAACATAGAGATAGCAAT 59.399 34.615 0.00 0.00 0.00 3.56
3079 5789 2.285083 TGCCTGTTACAGAACACACAC 58.715 47.619 14.66 0.00 40.72 3.82
3113 5823 2.422127 GCCATACCGCATAGTTGTTGTT 59.578 45.455 0.00 0.00 0.00 2.83
3115 5825 4.658071 CCATACCGCATAGTTGTTGTTTC 58.342 43.478 0.00 0.00 0.00 2.78
3154 5872 4.290155 CAGTGTTGCCACATAGTTCAAAC 58.710 43.478 0.00 0.00 44.39 2.93
3161 5879 7.651304 TGTTGCCACATAGTTCAAACATAAAAG 59.349 33.333 0.00 0.00 0.00 2.27
3247 5965 6.241207 TGCTAAGTTTGTTGAATGCTCTAC 57.759 37.500 0.00 0.00 0.00 2.59
3317 6217 3.372458 GCCTCTTCAAATCCAGGGAGATT 60.372 47.826 0.00 0.00 38.11 2.40
3323 6223 5.045012 TCAAATCCAGGGAGATTCATCAG 57.955 43.478 0.00 0.00 35.40 2.90
3339 6239 3.118408 TCATCAGGTTACCCCAAAGATCG 60.118 47.826 0.00 0.00 34.66 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
462 670 8.276252 ACTCACTTTTGTACAAGTACATGTTT 57.724 30.769 9.30 0.00 44.54 2.83
509 717 1.587043 CTCTTCGTGGAGACCGCAGA 61.587 60.000 0.00 0.00 35.52 4.26
525 733 2.230266 GGTTCGAACTCAAGAGCTCTCT 59.770 50.000 26.32 4.58 42.75 3.10
526 734 2.601804 GGTTCGAACTCAAGAGCTCTC 58.398 52.381 26.32 2.17 0.00 3.20
786 1368 1.302033 CACTCTGTGAGCCACCCAC 60.302 63.158 3.33 0.00 35.23 4.61
828 1410 3.801698 CCACCTGGACAGATAATGACAG 58.198 50.000 0.00 0.00 37.26 3.51
845 1427 0.533755 CCAGTAGCTGCTATGCCACC 60.534 60.000 13.20 0.00 0.00 4.61
914 1496 2.760385 CGAGGTCCCCAGGGAGAC 60.760 72.222 7.25 12.71 46.16 3.36
917 1499 4.779733 GCTCGAGGTCCCCAGGGA 62.780 72.222 15.58 3.80 42.90 4.20
987 1577 4.443034 GGGTAGGTACATCCTTGTGTGATC 60.443 50.000 0.00 0.00 45.67 2.92
1023 1618 2.878406 CAGTCTACTGGTGGTGGTTTTG 59.122 50.000 2.01 0.00 40.20 2.44
1089 1684 3.844090 GAGGTCCCAGAGCTCGGC 61.844 72.222 16.29 1.51 45.08 5.54
1163 1758 3.409856 CATCGGTGGATGGCGTTC 58.590 61.111 0.00 0.00 45.15 3.95
1436 2034 1.263217 GCTTTCACGTGGTACTTGGTG 59.737 52.381 17.00 0.00 0.00 4.17
1472 2070 0.109086 CGTCGCTCATGAACCACTCT 60.109 55.000 0.00 0.00 0.00 3.24
1568 2166 3.433615 CGTTGAAGACCTGGTTCATCTTC 59.566 47.826 15.46 15.46 45.67 2.87
1811 2409 2.484241 CGGAATGGAGCTCATCATGTCA 60.484 50.000 17.19 2.25 34.44 3.58
1844 2442 9.209048 ACTATATGTTATACCTTGAGGAACACA 57.791 33.333 3.59 1.91 33.89 3.72
1860 2458 9.984190 TTATGTATTCGTGGCAACTATATGTTA 57.016 29.630 0.00 0.00 37.07 2.41
1983 2589 1.300971 GATCGCCTTCTTGCACTGCA 61.301 55.000 0.00 0.00 36.47 4.41
2116 2722 1.664965 GTGCTCGTCACGCTCCTTT 60.665 57.895 0.00 0.00 35.76 3.11
2164 2770 2.233271 CTTGTCTTGTGGTGGCTGAAT 58.767 47.619 0.00 0.00 0.00 2.57
2234 2840 1.851021 GCTGTAACCACGCATGCACA 61.851 55.000 19.57 12.08 0.00 4.57
2301 2907 3.006752 TGCTGCAGAAAAATACTTTGGGG 59.993 43.478 20.43 0.00 0.00 4.96
2303 2909 4.148696 CGTTGCTGCAGAAAAATACTTTGG 59.851 41.667 20.43 0.00 0.00 3.28
2304 2910 4.975502 TCGTTGCTGCAGAAAAATACTTTG 59.024 37.500 20.43 0.00 0.00 2.77
2305 2911 5.181690 TCGTTGCTGCAGAAAAATACTTT 57.818 34.783 20.43 0.00 0.00 2.66
2310 2930 4.370917 ACAAATCGTTGCTGCAGAAAAAT 58.629 34.783 20.43 7.86 38.39 1.82
2312 2932 3.435105 ACAAATCGTTGCTGCAGAAAA 57.565 38.095 20.43 8.14 38.39 2.29
2351 2971 5.874261 AGCAACAAATAATACAAATGTGGGC 59.126 36.000 0.00 0.00 0.00 5.36
2356 2976 6.329496 ACCCGAGCAACAAATAATACAAATG 58.671 36.000 0.00 0.00 0.00 2.32
2365 2985 5.071250 AGTCCATATACCCGAGCAACAAATA 59.929 40.000 0.00 0.00 0.00 1.40
2368 2988 2.769663 AGTCCATATACCCGAGCAACAA 59.230 45.455 0.00 0.00 0.00 2.83
2417 5107 8.966868 TCCAAAAACCTTTAATATAGAGCCAAG 58.033 33.333 0.00 0.00 0.00 3.61
2432 5122 3.742954 GCAAAACCCGATCCAAAAACCTT 60.743 43.478 0.00 0.00 0.00 3.50
2483 5175 3.741344 GGATTGTATATCCACGTCTGTGC 59.259 47.826 0.00 0.00 45.04 4.57
2502 5194 4.763793 GCCAAGCACAATCATATACAGGAT 59.236 41.667 0.00 0.00 0.00 3.24
2503 5195 4.136796 GCCAAGCACAATCATATACAGGA 58.863 43.478 0.00 0.00 0.00 3.86
2504 5196 3.058708 CGCCAAGCACAATCATATACAGG 60.059 47.826 0.00 0.00 0.00 4.00
2505 5197 3.561310 ACGCCAAGCACAATCATATACAG 59.439 43.478 0.00 0.00 0.00 2.74
2506 5198 3.312146 CACGCCAAGCACAATCATATACA 59.688 43.478 0.00 0.00 0.00 2.29
2507 5199 3.303990 CCACGCCAAGCACAATCATATAC 60.304 47.826 0.00 0.00 0.00 1.47
2512 5204 1.528076 ACCACGCCAAGCACAATCA 60.528 52.632 0.00 0.00 0.00 2.57
2513 5205 1.081242 CACCACGCCAAGCACAATC 60.081 57.895 0.00 0.00 0.00 2.67
2514 5206 2.563798 CCACCACGCCAAGCACAAT 61.564 57.895 0.00 0.00 0.00 2.71
2516 5208 2.610532 TTACCACCACGCCAAGCACA 62.611 55.000 0.00 0.00 0.00 4.57
2518 5210 1.894756 GTTACCACCACGCCAAGCA 60.895 57.895 0.00 0.00 0.00 3.91
2519 5211 1.170290 AAGTTACCACCACGCCAAGC 61.170 55.000 0.00 0.00 0.00 4.01
2520 5212 0.872388 GAAGTTACCACCACGCCAAG 59.128 55.000 0.00 0.00 0.00 3.61
2521 5213 0.470766 AGAAGTTACCACCACGCCAA 59.529 50.000 0.00 0.00 0.00 4.52
2523 5215 1.265905 CAAAGAAGTTACCACCACGCC 59.734 52.381 0.00 0.00 0.00 5.68
2524 5216 1.334689 GCAAAGAAGTTACCACCACGC 60.335 52.381 0.00 0.00 0.00 5.34
2525 5217 1.070175 CGCAAAGAAGTTACCACCACG 60.070 52.381 0.00 0.00 0.00 4.94
2526 5218 1.265905 CCGCAAAGAAGTTACCACCAC 59.734 52.381 0.00 0.00 0.00 4.16
2527 5219 1.134037 ACCGCAAAGAAGTTACCACCA 60.134 47.619 0.00 0.00 0.00 4.17
2528 5220 1.265905 CACCGCAAAGAAGTTACCACC 59.734 52.381 0.00 0.00 0.00 4.61
2530 5222 2.623878 TCACCGCAAAGAAGTTACCA 57.376 45.000 0.00 0.00 0.00 3.25
2531 5223 4.251268 ACTATCACCGCAAAGAAGTTACC 58.749 43.478 0.00 0.00 0.00 2.85
2532 5224 5.857822 AACTATCACCGCAAAGAAGTTAC 57.142 39.130 0.00 0.00 0.00 2.50
2533 5225 6.483974 TCAAAACTATCACCGCAAAGAAGTTA 59.516 34.615 0.00 0.00 0.00 2.24
2534 5226 5.298276 TCAAAACTATCACCGCAAAGAAGTT 59.702 36.000 0.00 0.00 0.00 2.66
2535 5227 4.819630 TCAAAACTATCACCGCAAAGAAGT 59.180 37.500 0.00 0.00 0.00 3.01
2537 5229 5.471797 TCATCAAAACTATCACCGCAAAGAA 59.528 36.000 0.00 0.00 0.00 2.52
2538 5230 5.000591 TCATCAAAACTATCACCGCAAAGA 58.999 37.500 0.00 0.00 0.00 2.52
2539 5231 5.295431 TCATCAAAACTATCACCGCAAAG 57.705 39.130 0.00 0.00 0.00 2.77
2542 5234 4.512484 TGATCATCAAAACTATCACCGCA 58.488 39.130 0.00 0.00 0.00 5.69
2543 5235 5.008019 ACATGATCATCAAAACTATCACCGC 59.992 40.000 4.86 0.00 31.56 5.68
2544 5236 6.609237 ACATGATCATCAAAACTATCACCG 57.391 37.500 4.86 0.00 31.56 4.94
2557 5260 6.475727 CCAGCAAAGAATCAAACATGATCATC 59.524 38.462 4.86 0.00 0.00 2.92
2561 5264 4.222145 AGCCAGCAAAGAATCAAACATGAT 59.778 37.500 0.00 0.00 0.00 2.45
2564 5267 5.726980 TTAGCCAGCAAAGAATCAAACAT 57.273 34.783 0.00 0.00 0.00 2.71
2565 5268 5.726980 ATTAGCCAGCAAAGAATCAAACA 57.273 34.783 0.00 0.00 0.00 2.83
2568 5271 6.209192 TCTGAAATTAGCCAGCAAAGAATCAA 59.791 34.615 0.00 0.00 0.00 2.57
2570 5273 6.199937 TCTGAAATTAGCCAGCAAAGAATC 57.800 37.500 0.00 0.00 0.00 2.52
2571 5274 5.393896 GCTCTGAAATTAGCCAGCAAAGAAT 60.394 40.000 0.00 0.00 32.40 2.40
2573 5276 3.441572 GCTCTGAAATTAGCCAGCAAAGA 59.558 43.478 0.00 0.00 32.40 2.52
2575 5278 3.057315 GTGCTCTGAAATTAGCCAGCAAA 60.057 43.478 4.20 0.00 38.55 3.68
2576 5279 2.489329 GTGCTCTGAAATTAGCCAGCAA 59.511 45.455 4.20 0.00 38.55 3.91
2578 5281 2.086869 TGTGCTCTGAAATTAGCCAGC 58.913 47.619 0.00 0.00 37.97 4.85
2579 5282 4.022935 TGTTTGTGCTCTGAAATTAGCCAG 60.023 41.667 0.00 0.00 37.97 4.85
2580 5283 3.888323 TGTTTGTGCTCTGAAATTAGCCA 59.112 39.130 0.00 0.00 37.97 4.75
2581 5284 4.503741 TGTTTGTGCTCTGAAATTAGCC 57.496 40.909 0.00 0.00 37.97 3.93
2582 5285 5.523369 ACTTGTTTGTGCTCTGAAATTAGC 58.477 37.500 0.00 0.00 39.25 3.09
2583 5286 7.301054 CCTACTTGTTTGTGCTCTGAAATTAG 58.699 38.462 0.00 0.00 0.00 1.73
2584 5287 6.206634 CCCTACTTGTTTGTGCTCTGAAATTA 59.793 38.462 0.00 0.00 0.00 1.40
2585 5288 5.010012 CCCTACTTGTTTGTGCTCTGAAATT 59.990 40.000 0.00 0.00 0.00 1.82
2587 5290 3.882888 CCCTACTTGTTTGTGCTCTGAAA 59.117 43.478 0.00 0.00 0.00 2.69
2588 5291 3.135712 TCCCTACTTGTTTGTGCTCTGAA 59.864 43.478 0.00 0.00 0.00 3.02
2590 5293 3.126001 TCCCTACTTGTTTGTGCTCTG 57.874 47.619 0.00 0.00 0.00 3.35
2591 5294 3.679389 CATCCCTACTTGTTTGTGCTCT 58.321 45.455 0.00 0.00 0.00 4.09
2592 5295 2.162408 GCATCCCTACTTGTTTGTGCTC 59.838 50.000 0.00 0.00 0.00 4.26
2593 5296 2.162681 GCATCCCTACTTGTTTGTGCT 58.837 47.619 0.00 0.00 0.00 4.40
2594 5297 1.885887 TGCATCCCTACTTGTTTGTGC 59.114 47.619 0.00 0.00 0.00 4.57
2595 5298 3.758023 TGATGCATCCCTACTTGTTTGTG 59.242 43.478 23.67 0.00 0.00 3.33
2596 5299 4.012374 CTGATGCATCCCTACTTGTTTGT 58.988 43.478 23.67 0.00 0.00 2.83
2597 5300 4.012374 ACTGATGCATCCCTACTTGTTTG 58.988 43.478 23.67 2.70 0.00 2.93
2598 5301 4.012374 CACTGATGCATCCCTACTTGTTT 58.988 43.478 23.67 0.00 0.00 2.83
2599 5302 3.614092 CACTGATGCATCCCTACTTGTT 58.386 45.455 23.67 0.00 0.00 2.83
2600 5303 3.272574 CACTGATGCATCCCTACTTGT 57.727 47.619 23.67 8.24 0.00 3.16
2613 5316 4.926140 TCAGTACTAGGATGCACTGATG 57.074 45.455 0.00 0.00 41.76 3.07
2614 5317 5.939764 TTTCAGTACTAGGATGCACTGAT 57.060 39.130 6.05 0.00 44.93 2.90
2616 5319 6.166279 TCTTTTTCAGTACTAGGATGCACTG 58.834 40.000 0.00 0.00 39.79 3.66
2619 5322 6.530120 TGTTCTTTTTCAGTACTAGGATGCA 58.470 36.000 0.00 0.00 0.00 3.96
2620 5323 7.173390 ACTTGTTCTTTTTCAGTACTAGGATGC 59.827 37.037 0.00 0.00 32.35 3.91
2621 5324 8.608844 ACTTGTTCTTTTTCAGTACTAGGATG 57.391 34.615 0.00 0.00 32.35 3.51
2623 5326 9.139734 TCTACTTGTTCTTTTTCAGTACTAGGA 57.860 33.333 0.00 0.00 32.35 2.94
2624 5327 9.760077 TTCTACTTGTTCTTTTTCAGTACTAGG 57.240 33.333 0.00 0.00 32.35 3.02
2626 5329 9.760077 CCTTCTACTTGTTCTTTTTCAGTACTA 57.240 33.333 0.00 0.00 0.00 1.82
2627 5330 8.483758 TCCTTCTACTTGTTCTTTTTCAGTACT 58.516 33.333 0.00 0.00 0.00 2.73
2628 5331 8.658499 TCCTTCTACTTGTTCTTTTTCAGTAC 57.342 34.615 0.00 0.00 0.00 2.73
2631 5334 8.502387 CATCTCCTTCTACTTGTTCTTTTTCAG 58.498 37.037 0.00 0.00 0.00 3.02
2632 5335 8.210946 TCATCTCCTTCTACTTGTTCTTTTTCA 58.789 33.333 0.00 0.00 0.00 2.69
2633 5336 8.499967 GTCATCTCCTTCTACTTGTTCTTTTTC 58.500 37.037 0.00 0.00 0.00 2.29
2635 5338 7.442666 GTGTCATCTCCTTCTACTTGTTCTTTT 59.557 37.037 0.00 0.00 0.00 2.27
2642 5345 8.777865 TTAATTGTGTCATCTCCTTCTACTTG 57.222 34.615 0.00 0.00 0.00 3.16
2644 5347 9.388506 CATTTAATTGTGTCATCTCCTTCTACT 57.611 33.333 0.00 0.00 0.00 2.57
2645 5348 9.383519 TCATTTAATTGTGTCATCTCCTTCTAC 57.616 33.333 0.00 0.00 0.00 2.59
2647 5350 9.471702 AATCATTTAATTGTGTCATCTCCTTCT 57.528 29.630 0.00 0.00 0.00 2.85
2650 5353 9.471702 AGAAATCATTTAATTGTGTCATCTCCT 57.528 29.630 0.00 0.00 0.00 3.69
2653 5356 9.865321 CCAAGAAATCATTTAATTGTGTCATCT 57.135 29.630 6.74 0.00 0.00 2.90
2654 5357 9.859427 TCCAAGAAATCATTTAATTGTGTCATC 57.141 29.630 6.74 0.00 0.00 2.92
2655 5358 9.643693 GTCCAAGAAATCATTTAATTGTGTCAT 57.356 29.630 6.74 0.00 0.00 3.06
2659 5362 8.815141 TGTGTCCAAGAAATCATTTAATTGTG 57.185 30.769 6.74 0.98 0.00 3.33
2661 5364 7.546667 CCCTGTGTCCAAGAAATCATTTAATTG 59.453 37.037 0.00 1.95 0.00 2.32
2664 5367 6.310941 TCCCTGTGTCCAAGAAATCATTTAA 58.689 36.000 0.00 0.00 0.00 1.52
2665 5368 5.886609 TCCCTGTGTCCAAGAAATCATTTA 58.113 37.500 0.00 0.00 0.00 1.40
2666 5369 4.739793 TCCCTGTGTCCAAGAAATCATTT 58.260 39.130 0.00 0.00 0.00 2.32
2667 5370 4.387026 TCCCTGTGTCCAAGAAATCATT 57.613 40.909 0.00 0.00 0.00 2.57
2668 5371 4.387026 TTCCCTGTGTCCAAGAAATCAT 57.613 40.909 0.00 0.00 0.00 2.45
2669 5372 3.874383 TTCCCTGTGTCCAAGAAATCA 57.126 42.857 0.00 0.00 0.00 2.57
2670 5373 4.082125 ACATTCCCTGTGTCCAAGAAATC 58.918 43.478 0.00 0.00 36.48 2.17
2671 5374 4.118168 ACATTCCCTGTGTCCAAGAAAT 57.882 40.909 0.00 0.00 36.48 2.17
2672 5375 3.593442 ACATTCCCTGTGTCCAAGAAA 57.407 42.857 0.00 0.00 36.48 2.52
2682 5385 1.067295 TCTTGCCTCACATTCCCTGT 58.933 50.000 0.00 0.00 39.20 4.00
2683 5386 2.205022 TTCTTGCCTCACATTCCCTG 57.795 50.000 0.00 0.00 0.00 4.45
2684 5387 2.108952 AGTTTCTTGCCTCACATTCCCT 59.891 45.455 0.00 0.00 0.00 4.20
2685 5388 2.519013 AGTTTCTTGCCTCACATTCCC 58.481 47.619 0.00 0.00 0.00 3.97
2686 5389 4.327680 AGTAGTTTCTTGCCTCACATTCC 58.672 43.478 0.00 0.00 0.00 3.01
2687 5390 5.241662 AGAGTAGTTTCTTGCCTCACATTC 58.758 41.667 0.00 0.00 0.00 2.67
2688 5391 5.234466 AGAGTAGTTTCTTGCCTCACATT 57.766 39.130 0.00 0.00 0.00 2.71
2689 5392 4.899352 AGAGTAGTTTCTTGCCTCACAT 57.101 40.909 0.00 0.00 0.00 3.21
2690 5393 4.321008 CGTAGAGTAGTTTCTTGCCTCACA 60.321 45.833 0.00 0.00 0.00 3.58
2691 5394 4.167268 CGTAGAGTAGTTTCTTGCCTCAC 58.833 47.826 0.00 0.00 0.00 3.51
2692 5395 3.367087 GCGTAGAGTAGTTTCTTGCCTCA 60.367 47.826 0.00 0.00 0.00 3.86
2693 5396 3.119424 AGCGTAGAGTAGTTTCTTGCCTC 60.119 47.826 0.00 0.00 31.50 4.70
2694 5397 2.826725 AGCGTAGAGTAGTTTCTTGCCT 59.173 45.455 0.00 0.00 31.50 4.75
2695 5398 3.233684 AGCGTAGAGTAGTTTCTTGCC 57.766 47.619 0.00 0.00 31.50 4.52
2696 5399 4.235360 TGAAGCGTAGAGTAGTTTCTTGC 58.765 43.478 0.00 0.00 0.00 4.01
2697 5400 5.700846 TCTGAAGCGTAGAGTAGTTTCTTG 58.299 41.667 0.00 0.00 0.00 3.02
2698 5401 5.945155 CTCTGAAGCGTAGAGTAGTTTCTT 58.055 41.667 6.72 0.00 37.48 2.52
2699 5402 5.554822 CTCTGAAGCGTAGAGTAGTTTCT 57.445 43.478 6.72 0.00 37.48 2.52
2707 5410 3.846896 CGTGTTTACTCTGAAGCGTAGAG 59.153 47.826 11.69 11.69 45.59 2.43
2708 5411 3.365666 CCGTGTTTACTCTGAAGCGTAGA 60.366 47.826 0.00 0.00 0.00 2.59
2709 5412 2.915463 CCGTGTTTACTCTGAAGCGTAG 59.085 50.000 0.00 0.00 0.00 3.51
2710 5413 2.923605 GCCGTGTTTACTCTGAAGCGTA 60.924 50.000 0.00 0.00 0.00 4.42
2711 5414 1.779569 CCGTGTTTACTCTGAAGCGT 58.220 50.000 0.00 0.00 0.00 5.07
2712 5415 0.438830 GCCGTGTTTACTCTGAAGCG 59.561 55.000 0.00 0.00 0.00 4.68
2713 5416 1.461127 CAGCCGTGTTTACTCTGAAGC 59.539 52.381 0.00 0.00 31.12 3.86
2714 5417 2.731976 GACAGCCGTGTTTACTCTGAAG 59.268 50.000 0.00 0.00 36.88 3.02
2715 5418 2.101750 TGACAGCCGTGTTTACTCTGAA 59.898 45.455 0.00 0.00 36.88 3.02
2716 5419 1.684450 TGACAGCCGTGTTTACTCTGA 59.316 47.619 0.00 0.00 36.88 3.27
2717 5420 2.148916 TGACAGCCGTGTTTACTCTG 57.851 50.000 0.00 0.00 36.88 3.35
2718 5421 4.737855 ATATGACAGCCGTGTTTACTCT 57.262 40.909 0.00 0.00 36.88 3.24
2719 5422 7.650504 TGTATTATATGACAGCCGTGTTTACTC 59.349 37.037 0.00 0.00 36.88 2.59
2720 5423 7.437267 GTGTATTATATGACAGCCGTGTTTACT 59.563 37.037 0.00 0.00 36.88 2.24
2721 5424 7.437267 AGTGTATTATATGACAGCCGTGTTTAC 59.563 37.037 0.00 0.00 36.88 2.01
2722 5425 7.436970 CAGTGTATTATATGACAGCCGTGTTTA 59.563 37.037 0.00 0.00 36.88 2.01
2723 5426 6.257849 CAGTGTATTATATGACAGCCGTGTTT 59.742 38.462 0.00 0.00 36.88 2.83
2724 5427 5.753438 CAGTGTATTATATGACAGCCGTGTT 59.247 40.000 0.00 0.00 36.88 3.32
2725 5428 5.068591 TCAGTGTATTATATGACAGCCGTGT 59.931 40.000 0.00 0.00 40.71 4.49
2726 5429 5.528870 TCAGTGTATTATATGACAGCCGTG 58.471 41.667 0.00 0.00 0.00 4.94
2727 5430 5.784578 TCAGTGTATTATATGACAGCCGT 57.215 39.130 0.00 0.00 0.00 5.68
2728 5431 6.447162 TCTTCAGTGTATTATATGACAGCCG 58.553 40.000 0.00 0.00 0.00 5.52
2729 5432 8.839310 AATCTTCAGTGTATTATATGACAGCC 57.161 34.615 0.00 0.00 0.00 4.85
2730 5433 9.481340 TGAATCTTCAGTGTATTATATGACAGC 57.519 33.333 0.00 0.00 32.50 4.40
2747 5450 5.227569 TGCTGGTTTACTCTGAATCTTCA 57.772 39.130 0.00 0.00 35.57 3.02
2748 5451 5.295540 GGATGCTGGTTTACTCTGAATCTTC 59.704 44.000 0.00 0.00 0.00 2.87
2751 5454 4.517285 TGGATGCTGGTTTACTCTGAATC 58.483 43.478 0.00 0.00 0.00 2.52
2752 5455 4.574674 TGGATGCTGGTTTACTCTGAAT 57.425 40.909 0.00 0.00 0.00 2.57
2757 5460 4.142609 TCTCATGGATGCTGGTTTACTC 57.857 45.455 0.00 0.00 0.00 2.59
2758 5461 4.265073 GTTCTCATGGATGCTGGTTTACT 58.735 43.478 0.00 0.00 0.00 2.24
2760 5463 3.270027 CGTTCTCATGGATGCTGGTTTA 58.730 45.455 0.00 0.00 0.00 2.01
2762 5465 1.742761 CGTTCTCATGGATGCTGGTT 58.257 50.000 0.00 0.00 0.00 3.67
2763 5466 0.745845 GCGTTCTCATGGATGCTGGT 60.746 55.000 0.00 0.00 0.00 4.00
2764 5467 0.745486 TGCGTTCTCATGGATGCTGG 60.745 55.000 0.00 0.00 0.00 4.85
2765 5468 0.656259 CTGCGTTCTCATGGATGCTG 59.344 55.000 0.00 0.00 0.00 4.41
2767 5470 1.939974 TACTGCGTTCTCATGGATGC 58.060 50.000 0.00 0.00 0.00 3.91
2768 5471 4.183865 TCTTTACTGCGTTCTCATGGATG 58.816 43.478 0.00 0.00 0.00 3.51
2770 5473 3.953712 TCTTTACTGCGTTCTCATGGA 57.046 42.857 0.00 0.00 0.00 3.41
2771 5474 5.147162 GTTTTCTTTACTGCGTTCTCATGG 58.853 41.667 0.00 0.00 0.00 3.66
2772 5475 5.747565 TGTTTTCTTTACTGCGTTCTCATG 58.252 37.500 0.00 0.00 0.00 3.07
2773 5476 5.560953 GCTGTTTTCTTTACTGCGTTCTCAT 60.561 40.000 0.00 0.00 32.19 2.90
2774 5477 4.260620 GCTGTTTTCTTTACTGCGTTCTCA 60.261 41.667 0.00 0.00 32.19 3.27
2775 5478 4.024809 AGCTGTTTTCTTTACTGCGTTCTC 60.025 41.667 0.00 0.00 42.90 2.87
2776 5479 3.877508 AGCTGTTTTCTTTACTGCGTTCT 59.122 39.130 0.00 0.00 42.90 3.01
2777 5480 4.210832 AGCTGTTTTCTTTACTGCGTTC 57.789 40.909 0.00 0.00 42.90 3.95
2778 5481 4.632538 AAGCTGTTTTCTTTACTGCGTT 57.367 36.364 0.00 0.00 42.90 4.84
2779 5482 4.573201 TGTAAGCTGTTTTCTTTACTGCGT 59.427 37.500 0.00 0.00 42.90 5.24
2780 5483 5.090652 TGTAAGCTGTTTTCTTTACTGCG 57.909 39.130 0.00 0.00 42.90 5.18
2781 5484 6.668323 TGATGTAAGCTGTTTTCTTTACTGC 58.332 36.000 0.00 0.00 39.76 4.40
2782 5485 6.798959 GCTGATGTAAGCTGTTTTCTTTACTG 59.201 38.462 0.00 0.00 40.20 2.74
2783 5486 6.486657 TGCTGATGTAAGCTGTTTTCTTTACT 59.513 34.615 0.00 0.00 43.90 2.24
2784 5487 6.578919 GTGCTGATGTAAGCTGTTTTCTTTAC 59.421 38.462 0.00 0.00 43.90 2.01
2785 5488 6.293955 GGTGCTGATGTAAGCTGTTTTCTTTA 60.294 38.462 0.00 0.00 43.90 1.85
2786 5489 5.507985 GGTGCTGATGTAAGCTGTTTTCTTT 60.508 40.000 0.00 0.00 43.90 2.52
2787 5490 4.022849 GGTGCTGATGTAAGCTGTTTTCTT 60.023 41.667 0.00 0.00 43.90 2.52
2788 5491 3.503748 GGTGCTGATGTAAGCTGTTTTCT 59.496 43.478 0.00 0.00 43.90 2.52
2789 5492 3.667960 CGGTGCTGATGTAAGCTGTTTTC 60.668 47.826 0.00 0.00 43.90 2.29
2790 5493 2.226437 CGGTGCTGATGTAAGCTGTTTT 59.774 45.455 0.00 0.00 43.90 2.43
2793 5496 0.391661 CCGGTGCTGATGTAAGCTGT 60.392 55.000 0.00 0.00 43.90 4.40
2796 5499 1.448985 TTTCCGGTGCTGATGTAAGC 58.551 50.000 0.00 0.00 43.82 3.09
2803 5506 0.960364 GCCTGAATTTCCGGTGCTGA 60.960 55.000 0.00 0.00 0.00 4.26
2810 5513 4.093703 TGTTTATGTACGCCTGAATTTCCG 59.906 41.667 0.00 0.00 0.00 4.30
2811 5514 5.554822 TGTTTATGTACGCCTGAATTTCC 57.445 39.130 0.00 0.00 0.00 3.13
2812 5515 6.858993 TGTTTGTTTATGTACGCCTGAATTTC 59.141 34.615 0.00 0.00 0.00 2.17
2827 5534 9.349145 GATAAATTGCCGTTAGTGTTTGTTTAT 57.651 29.630 0.00 0.00 0.00 1.40
2844 5551 6.500910 TCAGTGCATGATTCAGATAAATTGC 58.499 36.000 0.00 0.00 31.12 3.56
2845 5552 8.920509 TTTCAGTGCATGATTCAGATAAATTG 57.079 30.769 0.00 0.00 37.89 2.32
2891 5598 6.040278 TCTGAGTTTCAGCATATAGGACAGAG 59.960 42.308 1.23 0.00 43.95 3.35
2911 5618 6.015350 ACGTATATCCTATTGGTTGGTCTGAG 60.015 42.308 0.00 0.00 34.23 3.35
2917 5625 5.932303 CCTTGACGTATATCCTATTGGTTGG 59.068 44.000 0.00 0.00 34.23 3.77
2949 5659 1.489481 TAGGACCTGATGCTCACTGG 58.511 55.000 3.53 0.00 0.00 4.00
2952 5662 1.000283 CGGATAGGACCTGATGCTCAC 60.000 57.143 3.53 0.00 0.00 3.51
2953 5663 1.332195 CGGATAGGACCTGATGCTCA 58.668 55.000 3.53 0.00 0.00 4.26
2980 5690 3.198068 AGTATTTCATGTGCACGCTAGG 58.802 45.455 13.13 0.00 0.00 3.02
2986 5696 6.072728 TGACCTTGTAAGTATTTCATGTGCAC 60.073 38.462 10.75 10.75 0.00 4.57
3000 5710 2.417719 GGCTGACACTGACCTTGTAAG 58.582 52.381 0.00 0.00 0.00 2.34
3058 5768 2.878406 GTGTGTGTTCTGTAACAGGCAT 59.122 45.455 0.00 0.00 46.06 4.40
3059 5769 2.285083 GTGTGTGTTCTGTAACAGGCA 58.715 47.619 0.00 0.00 46.06 4.75
3079 5789 3.657448 TATGGCCGTGCTGTGTCCG 62.657 63.158 8.05 0.00 0.00 4.79
3113 5823 3.640967 ACTGCCTTTTGTTGCCAATAGAA 59.359 39.130 0.00 0.00 33.08 2.10
3115 5825 3.243839 ACACTGCCTTTTGTTGCCAATAG 60.244 43.478 0.00 0.00 31.65 1.73
3139 5857 7.968405 CCTACTTTTATGTTTGAACTATGTGGC 59.032 37.037 0.00 0.00 0.00 5.01
3154 5872 9.372369 CCTTTCTGAGTAGAACCTACTTTTATG 57.628 37.037 7.92 0.00 42.41 1.90
3161 5879 4.527427 ACCACCTTTCTGAGTAGAACCTAC 59.473 45.833 0.00 0.00 42.41 3.18
3247 5965 3.587797 AGTTGAGAATGCTGCAATTGG 57.412 42.857 6.36 0.00 0.00 3.16
3339 6239 3.304794 GCGTAGATACAGATGTCCCTGAC 60.305 52.174 0.00 0.00 37.59 3.51


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

AutoCloner maintained by Alex Coulton.