Multiple sequence alignment - TraesCS7A01G521800

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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 TraesCS7A01G521800 chr7A 100.000 3598 0 0 1 3598 705419674 705416077 0.000000e+00 6645.0
1 TraesCS7A01G521800 chr7A 78.182 385 70 12 2113 2487 706035851 706035471 2.160000e-57 233.0
2 TraesCS7A01G521800 chr7A 89.189 111 12 0 2644 2754 18091923 18092033 4.840000e-29 139.0
3 TraesCS7A01G521800 chr7D 94.894 1880 70 12 773 2632 613694573 613692700 0.000000e+00 2916.0
4 TraesCS7A01G521800 chr7D 91.018 334 27 2 306 639 613695792 613695462 7.090000e-122 448.0
5 TraesCS7A01G521800 chr7D 88.750 240 25 2 2 241 613696333 613696096 3.510000e-75 292.0
6 TraesCS7A01G521800 chr7D 79.007 443 72 13 2145 2571 613765865 613765428 2.110000e-72 283.0
7 TraesCS7A01G521800 chr7D 76.471 561 102 20 1989 2525 627450629 627451183 9.840000e-71 278.0
8 TraesCS7A01G521800 chr7D 86.957 115 15 0 2643 2757 217967842 217967728 2.920000e-26 130.0
9 TraesCS7A01G521800 chr7D 97.500 40 1 0 706 745 613694933 613694894 6.450000e-08 69.4
10 TraesCS7A01G521800 chr7B 93.188 1967 84 21 703 2632 704664621 704662668 0.000000e+00 2844.0
11 TraesCS7A01G521800 chr7B 85.202 642 51 19 2 632 704666290 704665682 1.420000e-173 619.0
12 TraesCS7A01G521800 chr7B 79.112 608 114 11 1124 1726 682283723 682283124 1.200000e-109 407.0
13 TraesCS7A01G521800 chr7B 91.986 287 22 1 2348 2633 704661579 704661293 5.600000e-108 401.0
14 TraesCS7A01G521800 chr7B 75.503 547 97 23 2006 2523 704317372 704316834 2.160000e-57 233.0
15 TraesCS7A01G521800 chr7B 75.318 551 100 25 2001 2525 729217484 729218024 7.770000e-57 231.0
16 TraesCS7A01G521800 chr6D 96.686 845 24 3 2756 3598 4103734 4104576 0.000000e+00 1402.0
17 TraesCS7A01G521800 chr1D 96.643 834 25 2 2766 3598 62355234 62354403 0.000000e+00 1382.0
18 TraesCS7A01G521800 chr1D 93.765 834 49 3 2766 3598 482980235 482981066 0.000000e+00 1249.0
19 TraesCS7A01G521800 chr1D 83.554 906 128 16 1032 1925 337217214 337218110 0.000000e+00 828.0
20 TraesCS7A01G521800 chr1D 83.146 623 79 15 1982 2585 337218211 337218826 2.440000e-151 545.0
21 TraesCS7A01G521800 chr6A 96.090 844 28 5 2758 3598 73080048 73080889 0.000000e+00 1371.0
22 TraesCS7A01G521800 chr6A 77.842 695 133 16 1038 1726 205114676 205115355 9.300000e-111 411.0
23 TraesCS7A01G521800 chr6A 76.262 535 95 22 1987 2496 205115660 205116187 4.610000e-64 255.0
24 TraesCS7A01G521800 chr4D 96.043 834 30 2 2766 3598 30300574 30301405 0.000000e+00 1354.0
25 TraesCS7A01G521800 chrUn 95.078 833 35 4 2766 3596 65811754 65810926 0.000000e+00 1306.0
26 TraesCS7A01G521800 chrUn 76.402 517 100 15 1988 2487 293161531 293161020 3.560000e-65 259.0
27 TraesCS7A01G521800 chrUn 78.756 386 66 11 2113 2487 409868732 409869112 9.980000e-61 244.0
28 TraesCS7A01G521800 chr1A 81.756 1606 229 41 1032 2585 436421225 436422818 0.000000e+00 1284.0
29 TraesCS7A01G521800 chr4A 94.125 834 45 3 2766 3598 334942565 334943395 0.000000e+00 1266.0
30 TraesCS7A01G521800 chr3A 93.437 838 47 6 2762 3598 691327081 691326251 0.000000e+00 1236.0
31 TraesCS7A01G521800 chr3A 92.933 849 50 8 2754 3598 408190960 408191802 0.000000e+00 1227.0
32 TraesCS7A01G521800 chr3A 78.151 119 23 3 46 163 700913549 700913665 4.980000e-09 73.1
33 TraesCS7A01G521800 chr1B 82.873 905 122 20 1045 1925 452571777 452572672 0.000000e+00 782.0
34 TraesCS7A01G521800 chr1B 83.526 607 77 16 1982 2571 452572764 452573364 2.440000e-151 545.0
35 TraesCS7A01G521800 chr6B 76.198 605 115 23 1124 1726 255211355 255210778 3.510000e-75 292.0
36 TraesCS7A01G521800 chr6B 84.252 127 20 0 2631 2757 661555928 661555802 1.360000e-24 124.0
37 TraesCS7A01G521800 chr5B 73.824 489 101 23 1142 1618 491084097 491083624 6.180000e-38 169.0
38 TraesCS7A01G521800 chr3B 88.596 114 13 0 2644 2757 525614256 525614369 4.840000e-29 139.0
39 TraesCS7A01G521800 chr3D 87.719 114 14 0 2644 2757 491237398 491237285 2.250000e-27 134.0
40 TraesCS7A01G521800 chr2B 87.719 114 14 0 2644 2757 793992217 793992330 2.250000e-27 134.0
41 TraesCS7A01G521800 chr2B 86.842 114 15 0 2644 2757 36494021 36493908 1.050000e-25 128.0
42 TraesCS7A01G521800 chr2B 85.366 123 16 1 2635 2757 36491684 36491804 3.770000e-25 126.0
43 TraesCS7A01G521800 chr5A 84.921 126 19 0 2632 2757 631973903 631973778 1.050000e-25 128.0
44 TraesCS7A01G521800 chr2D 96.970 33 1 0 738 770 14116458 14116490 5.020000e-04 56.5
45 TraesCS7A01G521800 chr2D 100.000 29 0 0 1264 1292 619872582 619872610 2.000000e-03 54.7
46 TraesCS7A01G521800 chr5D 100.000 29 0 0 1264 1292 482461867 482461839 2.000000e-03 54.7


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 TraesCS7A01G521800 chr7A 705416077 705419674 3597 True 6645.00 6645 100.000000 1 3598 1 chr7A.!!$R1 3597
1 TraesCS7A01G521800 chr7D 613692700 613696333 3633 True 931.35 2916 93.040500 2 2632 4 chr7D.!!$R3 2630
2 TraesCS7A01G521800 chr7D 627450629 627451183 554 False 278.00 278 76.471000 1989 2525 1 chr7D.!!$F1 536
3 TraesCS7A01G521800 chr7B 704661293 704666290 4997 True 1288.00 2844 90.125333 2 2633 3 chr7B.!!$R3 2631
4 TraesCS7A01G521800 chr7B 682283124 682283723 599 True 407.00 407 79.112000 1124 1726 1 chr7B.!!$R1 602
5 TraesCS7A01G521800 chr7B 704316834 704317372 538 True 233.00 233 75.503000 2006 2523 1 chr7B.!!$R2 517
6 TraesCS7A01G521800 chr7B 729217484 729218024 540 False 231.00 231 75.318000 2001 2525 1 chr7B.!!$F1 524
7 TraesCS7A01G521800 chr6D 4103734 4104576 842 False 1402.00 1402 96.686000 2756 3598 1 chr6D.!!$F1 842
8 TraesCS7A01G521800 chr1D 62354403 62355234 831 True 1382.00 1382 96.643000 2766 3598 1 chr1D.!!$R1 832
9 TraesCS7A01G521800 chr1D 482980235 482981066 831 False 1249.00 1249 93.765000 2766 3598 1 chr1D.!!$F1 832
10 TraesCS7A01G521800 chr1D 337217214 337218826 1612 False 686.50 828 83.350000 1032 2585 2 chr1D.!!$F2 1553
11 TraesCS7A01G521800 chr6A 73080048 73080889 841 False 1371.00 1371 96.090000 2758 3598 1 chr6A.!!$F1 840
12 TraesCS7A01G521800 chr6A 205114676 205116187 1511 False 333.00 411 77.052000 1038 2496 2 chr6A.!!$F2 1458
13 TraesCS7A01G521800 chr4D 30300574 30301405 831 False 1354.00 1354 96.043000 2766 3598 1 chr4D.!!$F1 832
14 TraesCS7A01G521800 chrUn 65810926 65811754 828 True 1306.00 1306 95.078000 2766 3596 1 chrUn.!!$R1 830
15 TraesCS7A01G521800 chrUn 293161020 293161531 511 True 259.00 259 76.402000 1988 2487 1 chrUn.!!$R2 499
16 TraesCS7A01G521800 chr1A 436421225 436422818 1593 False 1284.00 1284 81.756000 1032 2585 1 chr1A.!!$F1 1553
17 TraesCS7A01G521800 chr4A 334942565 334943395 830 False 1266.00 1266 94.125000 2766 3598 1 chr4A.!!$F1 832
18 TraesCS7A01G521800 chr3A 691326251 691327081 830 True 1236.00 1236 93.437000 2762 3598 1 chr3A.!!$R1 836
19 TraesCS7A01G521800 chr3A 408190960 408191802 842 False 1227.00 1227 92.933000 2754 3598 1 chr3A.!!$F1 844
20 TraesCS7A01G521800 chr1B 452571777 452573364 1587 False 663.50 782 83.199500 1045 2571 2 chr1B.!!$F1 1526
21 TraesCS7A01G521800 chr6B 255210778 255211355 577 True 292.00 292 76.198000 1124 1726 1 chr6B.!!$R1 602

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
696 1941 0.179045 ATGATGTGCCGCCTTAGTCC 60.179 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2674 4362 0.040425 ACCAAAGTGATCGTTTGCGC 60.04 50.0 0.0 0.0 38.14 6.09 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 28 6.607198 ACATTTCAAGAGAGGAACCTTCAAAA 59.393 34.615 0.00 0.00 0.00 2.44
86 87 4.097741 TGGAAGGGCAAATCATTATCAACG 59.902 41.667 0.00 0.00 0.00 4.10
112 113 6.488344 GGAGGGAAGGATGTTCTTATCAAATC 59.512 42.308 0.00 0.00 0.00 2.17
122 123 3.897239 TCTTATCAAATCGGTTGCCCAT 58.103 40.909 0.00 0.00 37.13 4.00
139 140 4.900652 TGCCCATGCAATTCCAGTATATTT 59.099 37.500 0.00 0.00 46.66 1.40
153 154 9.679661 TTCCAGTATATTTCATGTCTTGCTTTA 57.320 29.630 0.00 0.00 0.00 1.85
186 187 8.739972 CCTAGGGGTTTATGCAATCATATTAAC 58.260 37.037 0.00 0.00 35.30 2.01
188 189 8.782137 AGGGGTTTATGCAATCATATTAACTT 57.218 30.769 0.00 0.00 35.30 2.66
235 241 2.100584 TGCAACCAAAGACAGCGAAAAT 59.899 40.909 0.00 0.00 0.00 1.82
238 244 4.358851 CAACCAAAGACAGCGAAAATCAA 58.641 39.130 0.00 0.00 0.00 2.57
242 248 4.383649 CCAAAGACAGCGAAAATCAACATG 59.616 41.667 0.00 0.00 0.00 3.21
243 249 3.837213 AGACAGCGAAAATCAACATGG 57.163 42.857 0.00 0.00 0.00 3.66
244 250 2.489329 AGACAGCGAAAATCAACATGGG 59.511 45.455 0.00 0.00 0.00 4.00
245 251 2.228822 GACAGCGAAAATCAACATGGGT 59.771 45.455 0.00 0.00 0.00 4.51
246 252 2.030007 ACAGCGAAAATCAACATGGGTG 60.030 45.455 0.00 0.00 0.00 4.61
247 253 2.030007 CAGCGAAAATCAACATGGGTGT 60.030 45.455 0.00 0.00 41.28 4.16
248 254 2.228822 AGCGAAAATCAACATGGGTGTC 59.771 45.455 0.00 0.00 37.67 3.67
270 276 2.626785 TGGGAGGTTATGACAAGACCA 58.373 47.619 11.78 0.00 35.89 4.02
297 303 2.859472 GGGGGAGGGGGATTAGGC 60.859 72.222 0.00 0.00 0.00 3.93
298 304 2.294291 GGGGAGGGGGATTAGGCT 59.706 66.667 0.00 0.00 0.00 4.58
299 305 1.387492 GGGGAGGGGGATTAGGCTT 60.387 63.158 0.00 0.00 0.00 4.35
300 306 1.427895 GGGGAGGGGGATTAGGCTTC 61.428 65.000 0.00 0.00 0.00 3.86
301 307 0.697854 GGGAGGGGGATTAGGCTTCA 60.698 60.000 0.00 0.00 0.00 3.02
302 308 0.767998 GGAGGGGGATTAGGCTTCAG 59.232 60.000 0.00 0.00 0.00 3.02
303 309 1.695989 GGAGGGGGATTAGGCTTCAGA 60.696 57.143 0.00 0.00 0.00 3.27
304 310 1.696884 GAGGGGGATTAGGCTTCAGAG 59.303 57.143 0.00 0.00 0.00 3.35
309 554 2.103941 GGGATTAGGCTTCAGAGACCTG 59.896 54.545 0.00 0.00 41.74 4.00
318 563 4.320608 CTTCAGAGACCTGGAGCTATTC 57.679 50.000 0.00 0.00 39.05 1.75
320 565 3.713003 TCAGAGACCTGGAGCTATTCAA 58.287 45.455 0.00 0.00 40.76 2.69
322 567 2.769095 AGAGACCTGGAGCTATTCAACC 59.231 50.000 0.00 0.00 0.00 3.77
323 568 1.840635 AGACCTGGAGCTATTCAACCC 59.159 52.381 0.00 0.00 0.00 4.11
356 601 1.599240 GGCGGGCATGGAGAATCTC 60.599 63.158 0.71 0.71 33.73 2.75
381 632 2.356535 GGAACCATCATCCTTGAGTGCT 60.357 50.000 0.00 0.00 34.73 4.40
428 679 4.104738 CCCCAATGGTAGTATCCTTGATGT 59.895 45.833 0.00 0.00 0.00 3.06
444 695 2.151202 GATGTTGAACTTGGAAGCCGA 58.849 47.619 0.00 0.00 0.00 5.54
447 698 0.882927 TTGAACTTGGAAGCCGACCG 60.883 55.000 0.00 0.00 0.00 4.79
456 707 3.802418 AAGCCGACCGTCGCAAGTT 62.802 57.895 15.64 2.86 38.82 2.66
522 773 9.193806 GGAATTATCCGTATAATAGGTAGTGGA 57.806 37.037 0.00 0.00 37.31 4.02
525 776 8.938801 TTATCCGTATAATAGGTAGTGGACAA 57.061 34.615 0.00 0.00 0.00 3.18
526 777 6.889301 TCCGTATAATAGGTAGTGGACAAG 57.111 41.667 0.00 0.00 0.00 3.16
600 853 6.019748 ACCGATTATATCTCTTGTCCCTGAT 58.980 40.000 0.00 0.00 0.00 2.90
601 854 7.182760 ACCGATTATATCTCTTGTCCCTGATA 58.817 38.462 0.00 0.00 0.00 2.15
610 863 0.249120 TGTCCCTGATACGCCAACAG 59.751 55.000 0.00 0.00 0.00 3.16
636 1208 5.833667 AGTATCTGAATTGTCGGATCTACCA 59.166 40.000 1.35 0.00 45.20 3.25
639 1211 5.989477 TCTGAATTGTCGGATCTACCAATT 58.011 37.500 13.22 13.22 39.51 2.32
641 1213 5.496556 TGAATTGTCGGATCTACCAATTGT 58.503 37.500 16.31 0.00 37.57 2.71
642 1214 5.584649 TGAATTGTCGGATCTACCAATTGTC 59.415 40.000 16.31 0.00 37.57 3.18
643 1215 4.819105 TTGTCGGATCTACCAATTGTCT 57.181 40.909 4.43 0.00 38.90 3.41
644 1216 4.123497 TGTCGGATCTACCAATTGTCTG 57.877 45.455 4.43 0.19 38.90 3.51
645 1217 3.767131 TGTCGGATCTACCAATTGTCTGA 59.233 43.478 4.43 2.71 38.90 3.27
647 1219 5.596772 TGTCGGATCTACCAATTGTCTGATA 59.403 40.000 4.43 1.37 38.90 2.15
648 1220 5.921408 GTCGGATCTACCAATTGTCTGATAC 59.079 44.000 4.43 4.63 38.90 2.24
658 1891 5.872617 CCAATTGTCTGATACCAAAGACGTA 59.127 40.000 4.43 0.00 44.75 3.57
664 1897 4.707934 TCTGATACCAAAGACGTATGTGGA 59.292 41.667 25.96 9.91 35.04 4.02
666 1899 2.762535 ACCAAAGACGTATGTGGAGG 57.237 50.000 25.96 5.80 35.04 4.30
668 1910 2.289444 ACCAAAGACGTATGTGGAGGTG 60.289 50.000 25.96 0.00 35.04 4.00
693 1938 3.508744 AAAAATGATGTGCCGCCTTAG 57.491 42.857 0.00 0.00 0.00 2.18
696 1941 0.179045 ATGATGTGCCGCCTTAGTCC 60.179 55.000 0.00 0.00 0.00 3.85
697 1942 1.264749 TGATGTGCCGCCTTAGTCCT 61.265 55.000 0.00 0.00 0.00 3.85
699 1944 1.138266 GATGTGCCGCCTTAGTCCTTA 59.862 52.381 0.00 0.00 0.00 2.69
701 1946 0.822164 GTGCCGCCTTAGTCCTTAGA 59.178 55.000 0.00 0.00 0.00 2.10
746 1991 1.201910 CGTGCGTGTGTTGGATGTATG 60.202 52.381 0.00 0.00 0.00 2.39
754 1999 4.806775 GTGTGTTGGATGTATGTGCGTATA 59.193 41.667 0.00 0.00 0.00 1.47
764 2009 7.432545 GGATGTATGTGCGTATATATGAGTGTC 59.567 40.741 6.12 0.00 0.00 3.67
770 2015 3.604198 GCGTATATATGAGTGTCTGCGTG 59.396 47.826 6.12 0.00 0.00 5.34
944 2489 1.208614 GAAGTGAGGCTTTGCTGCG 59.791 57.895 0.00 0.00 37.59 5.18
1311 2879 2.415010 CGGGAGATGCTGAGGACG 59.585 66.667 0.00 0.00 0.00 4.79
1884 3479 4.335584 GGCGAGCTCGATCCTCCG 62.336 72.222 38.74 11.76 43.02 4.63
1961 3559 3.145286 TCTCTCTGTCAGTGAGTGTCTG 58.855 50.000 24.31 6.16 37.20 3.51
1962 3560 3.145286 CTCTCTGTCAGTGAGTGTCTGA 58.855 50.000 19.49 0.00 39.25 3.27
1968 3566 3.067320 TGTCAGTGAGTGTCTGAGTGAAG 59.933 47.826 0.00 0.00 41.66 3.02
2009 3663 1.077501 CATGTTCATGGCGGGGAGT 60.078 57.895 5.02 0.00 0.00 3.85
2378 4054 0.535102 ACTTCAAGGGCACGGACTTG 60.535 55.000 0.00 0.00 44.09 3.16
2480 4156 0.173708 GCCTCCTGTACCACTTCGAG 59.826 60.000 0.00 0.00 0.00 4.04
2627 4315 2.353208 CGAGGAGACTAAGCAAAGCAGT 60.353 50.000 0.00 0.00 44.43 4.40
2632 4320 7.308649 CGAGGAGACTAAGCAAAGCAGTATATA 60.309 40.741 0.00 0.00 44.43 0.86
2634 4322 7.507616 AGGAGACTAAGCAAAGCAGTATATAGT 59.492 37.037 0.00 0.00 40.61 2.12
2636 4324 9.535878 GAGACTAAGCAAAGCAGTATATAGTTT 57.464 33.333 0.00 0.00 0.00 2.66
2637 4325 9.892130 AGACTAAGCAAAGCAGTATATAGTTTT 57.108 29.630 0.00 0.00 0.00 2.43
2658 4346 6.548441 TTTTTAGTGAGTCAATTACACCGG 57.452 37.500 0.00 0.00 35.47 5.28
2661 4349 2.073816 GTGAGTCAATTACACCGGTGG 58.926 52.381 36.47 19.50 34.19 4.61
2662 4350 1.002659 TGAGTCAATTACACCGGTGGG 59.997 52.381 36.47 20.16 40.11 4.61
2663 4351 1.276989 GAGTCAATTACACCGGTGGGA 59.723 52.381 36.47 24.76 36.97 4.37
2664 4352 1.002773 AGTCAATTACACCGGTGGGAC 59.997 52.381 36.47 29.60 36.97 4.46
2665 4353 1.002773 GTCAATTACACCGGTGGGACT 59.997 52.381 36.47 19.39 36.97 3.85
2666 4354 2.234414 GTCAATTACACCGGTGGGACTA 59.766 50.000 36.47 18.29 36.97 2.59
2667 4355 2.498481 TCAATTACACCGGTGGGACTAG 59.502 50.000 36.47 21.29 36.97 2.57
2669 4357 2.307496 TTACACCGGTGGGACTAGAA 57.693 50.000 36.47 15.98 36.97 2.10
2670 4358 1.549203 TACACCGGTGGGACTAGAAC 58.451 55.000 36.47 0.00 36.97 3.01
2672 4360 0.531200 CACCGGTGGGACTAGAACTC 59.469 60.000 27.57 0.00 36.97 3.01
2673 4361 0.964358 ACCGGTGGGACTAGAACTCG 60.964 60.000 6.12 0.00 36.97 4.18
2674 4362 1.664321 CCGGTGGGACTAGAACTCGG 61.664 65.000 0.00 0.00 34.06 4.63
2675 4363 1.516423 GGTGGGACTAGAACTCGGC 59.484 63.158 0.00 0.00 0.00 5.54
2676 4364 1.139095 GTGGGACTAGAACTCGGCG 59.861 63.158 0.00 0.00 0.00 6.46
2677 4365 2.104530 GGGACTAGAACTCGGCGC 59.895 66.667 0.00 0.00 0.00 6.53
2678 4366 2.707849 GGGACTAGAACTCGGCGCA 61.708 63.158 10.83 0.00 0.00 6.09
2679 4367 1.214589 GGACTAGAACTCGGCGCAA 59.785 57.895 10.83 0.00 0.00 4.85
2680 4368 0.389426 GGACTAGAACTCGGCGCAAA 60.389 55.000 10.83 0.00 0.00 3.68
2681 4369 0.714439 GACTAGAACTCGGCGCAAAC 59.286 55.000 10.83 0.00 0.00 2.93
2682 4370 1.007336 ACTAGAACTCGGCGCAAACG 61.007 55.000 10.83 3.44 44.07 3.60
2683 4371 0.731514 CTAGAACTCGGCGCAAACGA 60.732 55.000 10.83 8.58 43.93 3.85
2684 4372 0.108992 TAGAACTCGGCGCAAACGAT 60.109 50.000 10.83 0.00 43.93 3.73
2685 4373 1.058903 GAACTCGGCGCAAACGATC 59.941 57.895 10.83 0.86 43.93 3.69
2686 4374 1.623081 GAACTCGGCGCAAACGATCA 61.623 55.000 10.83 0.00 43.93 2.92
2687 4375 1.897398 AACTCGGCGCAAACGATCAC 61.897 55.000 10.83 0.00 43.93 3.06
2688 4376 2.048597 TCGGCGCAAACGATCACT 60.049 55.556 10.83 0.00 43.93 3.41
2689 4377 1.626654 CTCGGCGCAAACGATCACTT 61.627 55.000 10.83 0.00 43.93 3.16
2690 4378 1.206578 CGGCGCAAACGATCACTTT 59.793 52.632 10.83 0.00 43.93 2.66
2691 4379 1.059657 CGGCGCAAACGATCACTTTG 61.060 55.000 10.83 8.03 43.93 2.77
2692 4380 0.729140 GGCGCAAACGATCACTTTGG 60.729 55.000 10.83 6.19 43.93 3.28
2693 4381 0.040425 GCGCAAACGATCACTTTGGT 60.040 50.000 0.30 0.00 43.93 3.67
2694 4382 1.673760 CGCAAACGATCACTTTGGTG 58.326 50.000 12.53 0.00 43.93 4.17
2695 4383 1.408422 GCAAACGATCACTTTGGTGC 58.592 50.000 12.53 0.53 42.72 5.01
2696 4384 1.001378 GCAAACGATCACTTTGGTGCT 60.001 47.619 12.53 0.00 42.72 4.40
2697 4385 2.225491 GCAAACGATCACTTTGGTGCTA 59.775 45.455 12.53 0.00 42.72 3.49
2698 4386 3.667960 GCAAACGATCACTTTGGTGCTAG 60.668 47.826 12.53 0.00 42.72 3.42
2699 4387 3.678056 AACGATCACTTTGGTGCTAGA 57.322 42.857 0.00 0.00 42.72 2.43
2700 4388 3.678056 ACGATCACTTTGGTGCTAGAA 57.322 42.857 0.00 0.00 42.72 2.10
2701 4389 3.589988 ACGATCACTTTGGTGCTAGAAG 58.410 45.455 0.00 0.00 42.72 2.85
2702 4390 3.006967 ACGATCACTTTGGTGCTAGAAGT 59.993 43.478 0.00 0.00 42.72 3.01
2703 4391 3.997021 CGATCACTTTGGTGCTAGAAGTT 59.003 43.478 0.00 0.00 42.72 2.66
2704 4392 4.143030 CGATCACTTTGGTGCTAGAAGTTG 60.143 45.833 0.00 0.00 42.72 3.16
2705 4393 4.150897 TCACTTTGGTGCTAGAAGTTGT 57.849 40.909 0.00 0.00 42.72 3.32
2706 4394 3.876914 TCACTTTGGTGCTAGAAGTTGTG 59.123 43.478 0.00 0.00 42.72 3.33
2707 4395 3.003689 CACTTTGGTGCTAGAAGTTGTGG 59.996 47.826 0.00 0.00 36.61 4.17
2708 4396 3.214328 CTTTGGTGCTAGAAGTTGTGGT 58.786 45.455 0.00 0.00 0.00 4.16
2709 4397 2.254546 TGGTGCTAGAAGTTGTGGTG 57.745 50.000 0.00 0.00 0.00 4.17
2710 4398 1.488812 TGGTGCTAGAAGTTGTGGTGT 59.511 47.619 0.00 0.00 0.00 4.16
2711 4399 2.701423 TGGTGCTAGAAGTTGTGGTGTA 59.299 45.455 0.00 0.00 0.00 2.90
2712 4400 3.064931 GGTGCTAGAAGTTGTGGTGTAC 58.935 50.000 0.00 0.00 0.00 2.90
2713 4401 3.493699 GGTGCTAGAAGTTGTGGTGTACA 60.494 47.826 0.00 0.00 37.56 2.90
2714 4402 4.315803 GTGCTAGAAGTTGTGGTGTACAT 58.684 43.478 0.00 0.00 39.48 2.29
2715 4403 4.755123 GTGCTAGAAGTTGTGGTGTACATT 59.245 41.667 0.00 0.00 39.48 2.71
2716 4404 4.754618 TGCTAGAAGTTGTGGTGTACATTG 59.245 41.667 0.00 0.00 39.48 2.82
2717 4405 4.994852 GCTAGAAGTTGTGGTGTACATTGA 59.005 41.667 0.00 0.00 39.48 2.57
2718 4406 5.468746 GCTAGAAGTTGTGGTGTACATTGAA 59.531 40.000 0.00 0.00 39.48 2.69
2719 4407 6.017440 GCTAGAAGTTGTGGTGTACATTGAAA 60.017 38.462 0.00 0.00 39.48 2.69
2720 4408 6.959639 AGAAGTTGTGGTGTACATTGAAAT 57.040 33.333 0.00 0.00 39.48 2.17
2721 4409 6.738114 AGAAGTTGTGGTGTACATTGAAATG 58.262 36.000 0.00 1.45 39.48 2.32
2722 4410 6.545666 AGAAGTTGTGGTGTACATTGAAATGA 59.454 34.615 9.94 0.00 39.48 2.57
2723 4411 6.899393 AGTTGTGGTGTACATTGAAATGAT 57.101 33.333 9.94 0.00 39.48 2.45
2724 4412 7.994425 AGTTGTGGTGTACATTGAAATGATA 57.006 32.000 9.94 0.00 39.48 2.15
2725 4413 7.816640 AGTTGTGGTGTACATTGAAATGATAC 58.183 34.615 9.94 8.72 39.48 2.24
2726 4414 7.446931 AGTTGTGGTGTACATTGAAATGATACA 59.553 33.333 9.94 10.75 39.48 2.29
2727 4415 7.751768 TGTGGTGTACATTGAAATGATACAA 57.248 32.000 9.94 0.00 39.67 2.41
2728 4416 8.171164 TGTGGTGTACATTGAAATGATACAAA 57.829 30.769 9.94 4.92 39.67 2.83
2729 4417 8.633561 TGTGGTGTACATTGAAATGATACAAAA 58.366 29.630 9.94 4.66 39.67 2.44
2730 4418 9.469807 GTGGTGTACATTGAAATGATACAAAAA 57.530 29.630 9.94 2.83 39.67 1.94
2731 4419 9.469807 TGGTGTACATTGAAATGATACAAAAAC 57.530 29.630 9.94 6.89 39.67 2.43
2732 4420 9.691362 GGTGTACATTGAAATGATACAAAAACT 57.309 29.630 9.94 0.00 39.67 2.66
2743 4431 9.868277 AAATGATACAAAAACTTGTCTTTGACA 57.132 25.926 6.57 0.00 41.09 3.58
2745 4433 8.854979 TGATACAAAAACTTGTCTTTGACATG 57.145 30.769 6.57 10.65 42.40 3.21
2746 4434 7.434897 TGATACAAAAACTTGTCTTTGACATGC 59.565 33.333 6.57 0.00 42.40 4.06
2747 4435 5.477510 ACAAAAACTTGTCTTTGACATGCA 58.522 33.333 6.57 0.00 42.40 3.96
2748 4436 5.931146 ACAAAAACTTGTCTTTGACATGCAA 59.069 32.000 6.57 0.00 42.40 4.08
2749 4437 6.426328 ACAAAAACTTGTCTTTGACATGCAAA 59.574 30.769 6.57 12.59 42.40 3.68
2750 4438 7.119553 ACAAAAACTTGTCTTTGACATGCAAAT 59.880 29.630 13.30 0.00 44.90 2.32
2751 4439 8.602328 CAAAAACTTGTCTTTGACATGCAAATA 58.398 29.630 13.30 6.29 44.90 1.40
2752 4440 7.698836 AAACTTGTCTTTGACATGCAAATAC 57.301 32.000 16.73 16.73 44.90 1.89
2753 4441 6.389830 ACTTGTCTTTGACATGCAAATACA 57.610 33.333 19.75 19.75 45.84 2.29
2756 4444 5.761003 TGTCTTTGACATGCAAATACAGTG 58.239 37.500 19.75 8.89 43.99 3.66
2757 4445 5.299028 TGTCTTTGACATGCAAATACAGTGT 59.701 36.000 19.75 0.00 43.99 3.55
2758 4446 5.626543 GTCTTTGACATGCAAATACAGTGTG 59.373 40.000 5.88 0.00 44.90 3.82
2759 4447 5.299028 TCTTTGACATGCAAATACAGTGTGT 59.701 36.000 5.88 0.00 44.90 3.72
2760 4448 6.484977 TCTTTGACATGCAAATACAGTGTGTA 59.515 34.615 5.88 0.00 44.90 2.90
2761 4449 6.625873 TTGACATGCAAATACAGTGTGTAA 57.374 33.333 5.88 0.00 36.31 2.41
2762 4450 6.239908 TGACATGCAAATACAGTGTGTAAG 57.760 37.500 5.88 0.00 36.31 2.34
2763 4451 5.762711 TGACATGCAAATACAGTGTGTAAGT 59.237 36.000 5.88 0.00 36.31 2.24
2764 4452 6.931840 TGACATGCAAATACAGTGTGTAAGTA 59.068 34.615 5.88 0.00 36.31 2.24
3051 4740 5.233957 TCCTAAACGATACGACGATCAAA 57.766 39.130 0.00 0.00 37.03 2.69
3442 5593 3.618507 GCATGCATCCATACTCCCTACTC 60.619 52.174 14.21 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.931578 AGGTTCCTCTCTTGAAATGTCG 58.068 45.455 0.00 0.00 0.00 4.35
8 9 7.491682 TCAAATTTTTGAAGGTTCCTCTCTTG 58.508 34.615 3.31 0.00 43.62 3.02
27 28 1.148310 CAGACACGGTCGCTCAAATT 58.852 50.000 0.00 0.00 37.67 1.82
86 87 3.716872 TGATAAGAACATCCTTCCCTCCC 59.283 47.826 0.00 0.00 0.00 4.30
122 123 8.407832 CAAGACATGAAATATACTGGAATTGCA 58.592 33.333 0.00 0.00 0.00 4.08
139 140 6.959639 AGGAAGTTTTAAAGCAAGACATGA 57.040 33.333 0.00 0.00 0.00 3.07
153 154 5.005628 TGCATAAACCCCTAGGAAGTTTT 57.994 39.130 25.63 14.91 35.45 2.43
186 187 5.345741 CCACCAAAACTTGCGATTGATAAAG 59.654 40.000 0.00 0.00 0.00 1.85
188 189 4.321601 CCCACCAAAACTTGCGATTGATAA 60.322 41.667 0.00 0.00 0.00 1.75
194 195 0.469144 ACCCCACCAAAACTTGCGAT 60.469 50.000 0.00 0.00 0.00 4.58
223 229 2.489329 CCCATGTTGATTTTCGCTGTCT 59.511 45.455 0.00 0.00 0.00 3.41
242 248 1.843851 TCATAACCTCCCATGACACCC 59.156 52.381 0.00 0.00 0.00 4.61
243 249 2.919228 GTCATAACCTCCCATGACACC 58.081 52.381 9.27 0.00 46.70 4.16
247 253 3.199946 GGTCTTGTCATAACCTCCCATGA 59.800 47.826 0.00 0.00 0.00 3.07
248 254 3.054434 TGGTCTTGTCATAACCTCCCATG 60.054 47.826 5.90 0.00 34.05 3.66
282 288 0.697854 TGAAGCCTAATCCCCCTCCC 60.698 60.000 0.00 0.00 0.00 4.30
285 291 1.295292 TCTCTGAAGCCTAATCCCCCT 59.705 52.381 0.00 0.00 0.00 4.79
289 295 2.103941 CCAGGTCTCTGAAGCCTAATCC 59.896 54.545 0.20 0.00 43.49 3.01
290 296 3.034635 TCCAGGTCTCTGAAGCCTAATC 58.965 50.000 0.20 0.00 43.49 1.75
291 297 3.037549 CTCCAGGTCTCTGAAGCCTAAT 58.962 50.000 0.20 0.00 43.49 1.73
292 298 2.461695 CTCCAGGTCTCTGAAGCCTAA 58.538 52.381 0.20 0.00 43.49 2.69
293 299 1.962402 GCTCCAGGTCTCTGAAGCCTA 60.962 57.143 0.00 0.00 44.32 3.93
295 301 1.220477 GCTCCAGGTCTCTGAAGCC 59.780 63.158 0.00 0.00 44.32 4.35
296 302 4.930592 GCTCCAGGTCTCTGAAGC 57.069 61.111 0.00 0.00 43.85 3.86
297 303 3.703556 TGAATAGCTCCAGGTCTCTGAAG 59.296 47.826 0.00 0.00 43.49 3.02
298 304 3.713003 TGAATAGCTCCAGGTCTCTGAA 58.287 45.455 0.00 0.00 43.49 3.02
299 305 3.388552 TGAATAGCTCCAGGTCTCTGA 57.611 47.619 0.00 0.00 43.49 3.27
300 306 3.431486 GGTTGAATAGCTCCAGGTCTCTG 60.431 52.174 0.00 0.00 40.59 3.35
301 307 2.769095 GGTTGAATAGCTCCAGGTCTCT 59.231 50.000 0.00 0.00 0.00 3.10
302 308 2.158885 GGGTTGAATAGCTCCAGGTCTC 60.159 54.545 0.00 0.00 0.00 3.36
303 309 1.840635 GGGTTGAATAGCTCCAGGTCT 59.159 52.381 0.00 0.00 0.00 3.85
304 310 1.473434 CGGGTTGAATAGCTCCAGGTC 60.473 57.143 0.00 0.00 0.00 3.85
309 554 1.526225 GGCCGGGTTGAATAGCTCC 60.526 63.158 2.18 0.00 0.00 4.70
317 562 2.668632 CTAGCAAGGCCGGGTTGA 59.331 61.111 2.18 0.00 0.00 3.18
318 563 3.134127 GCTAGCAAGGCCGGGTTG 61.134 66.667 10.63 3.19 0.00 3.77
320 565 3.628646 CTTGCTAGCAAGGCCGGGT 62.629 63.158 38.75 1.58 46.88 5.28
356 601 3.276857 CTCAAGGATGATGGTTCCTGTG 58.723 50.000 0.00 0.00 42.90 3.66
381 632 7.227156 GGAAATATGAGGCCTTGAGAATTCTA 58.773 38.462 6.77 0.00 0.00 2.10
428 679 0.882927 CGGTCGGCTTCCAAGTTCAA 60.883 55.000 0.00 0.00 0.00 2.69
456 707 4.339872 TCCTTCTAAAACTACACGCCAA 57.660 40.909 0.00 0.00 0.00 4.52
522 773 5.995897 GTCCGCCCAAATATTAGTATCTTGT 59.004 40.000 0.00 0.00 0.00 3.16
525 776 5.818678 TGTCCGCCCAAATATTAGTATCT 57.181 39.130 0.00 0.00 0.00 1.98
526 777 7.305474 CAATTGTCCGCCCAAATATTAGTATC 58.695 38.462 0.00 0.00 0.00 2.24
532 785 3.370104 TCCAATTGTCCGCCCAAATATT 58.630 40.909 4.43 0.00 0.00 1.28
568 821 5.630661 AGAGATATAATCGGTCGAAGTGG 57.369 43.478 0.00 0.00 0.00 4.00
610 863 6.864165 GGTAGATCCGACAATTCAGATACTTC 59.136 42.308 0.00 0.00 0.00 3.01
625 878 5.010719 GGTATCAGACAATTGGTAGATCCGA 59.989 44.000 10.83 0.00 39.52 4.55
626 879 5.221441 TGGTATCAGACAATTGGTAGATCCG 60.221 44.000 10.83 0.00 39.52 4.18
636 1208 7.064609 CACATACGTCTTTGGTATCAGACAATT 59.935 37.037 0.00 0.00 39.64 2.32
639 1211 5.407502 CACATACGTCTTTGGTATCAGACA 58.592 41.667 0.00 0.00 39.64 3.41
641 1213 4.707934 TCCACATACGTCTTTGGTATCAGA 59.292 41.667 6.08 0.00 0.00 3.27
642 1214 5.006153 TCCACATACGTCTTTGGTATCAG 57.994 43.478 6.08 0.00 0.00 2.90
643 1215 4.142026 CCTCCACATACGTCTTTGGTATCA 60.142 45.833 6.08 0.00 0.00 2.15
644 1216 4.142004 ACCTCCACATACGTCTTTGGTATC 60.142 45.833 6.08 0.00 0.00 2.24
645 1217 3.773119 ACCTCCACATACGTCTTTGGTAT 59.227 43.478 6.08 0.00 0.00 2.73
647 1219 1.975680 ACCTCCACATACGTCTTTGGT 59.024 47.619 6.08 0.00 0.00 3.67
648 1220 2.346803 CACCTCCACATACGTCTTTGG 58.653 52.381 0.00 0.00 0.00 3.28
673 1918 2.825532 ACTAAGGCGGCACATCATTTTT 59.174 40.909 13.08 0.00 0.00 1.94
676 1921 1.668419 GACTAAGGCGGCACATCATT 58.332 50.000 13.08 0.00 0.00 2.57
685 1930 3.800604 GCATCTTCTAAGGACTAAGGCGG 60.801 52.174 0.00 0.00 0.00 6.13
691 1936 8.394822 ACCTATATGAGCATCTTCTAAGGACTA 58.605 37.037 0.00 0.00 34.92 2.59
693 1938 7.475137 ACCTATATGAGCATCTTCTAAGGAC 57.525 40.000 0.00 0.00 34.92 3.85
696 1941 7.978975 GCCTTACCTATATGAGCATCTTCTAAG 59.021 40.741 0.00 0.00 34.92 2.18
697 1942 7.454694 TGCCTTACCTATATGAGCATCTTCTAA 59.545 37.037 0.00 0.00 34.92 2.10
699 1944 5.782331 TGCCTTACCTATATGAGCATCTTCT 59.218 40.000 0.00 0.00 34.92 2.85
701 1946 6.413052 CATGCCTTACCTATATGAGCATCTT 58.587 40.000 0.00 0.00 37.37 2.40
734 1979 7.607250 TCATATATACGCACATACATCCAACA 58.393 34.615 0.00 0.00 0.00 3.33
746 1991 3.604198 CGCAGACACTCATATATACGCAC 59.396 47.826 0.00 0.00 0.00 5.34
831 2369 2.865119 ACATCCATGACTCTGCACAA 57.135 45.000 0.00 0.00 0.00 3.33
944 2489 0.726452 CGATCGAGCTAGCTAACGCC 60.726 60.000 19.38 11.65 36.60 5.68
1542 3122 4.717629 TCGCTCAGGTTCACCGCG 62.718 66.667 0.00 0.00 42.21 6.46
1827 3422 1.439644 GACATCGAGCAGGTCCTCC 59.560 63.158 0.00 0.00 0.00 4.30
1884 3479 4.796231 ATGTCGTCGCCGGTGAGC 62.796 66.667 20.25 12.31 33.95 4.26
1892 3487 1.007336 AACGGTCTTGATGTCGTCGC 61.007 55.000 0.00 0.00 34.60 5.19
1961 3559 3.672867 CGAAAACAGAGAGAGCTTCACTC 59.327 47.826 0.00 0.00 46.66 3.51
1962 3560 3.553922 CCGAAAACAGAGAGAGCTTCACT 60.554 47.826 0.00 0.00 0.00 3.41
1968 3566 2.440539 TGTCCGAAAACAGAGAGAGC 57.559 50.000 0.00 0.00 0.00 4.09
2057 3711 3.197790 CGCATCGCTCCTGGGTTG 61.198 66.667 0.00 0.00 0.00 3.77
2148 3808 1.379044 CCTTGATGACCAGGCCCAC 60.379 63.158 0.00 0.00 0.00 4.61
2378 4054 1.227176 GCCGAACGGGATGTACTCC 60.227 63.158 15.01 0.00 44.11 3.85
2636 4324 5.467399 CACCGGTGTAATTGACTCACTAAAA 59.533 40.000 26.95 0.00 33.30 1.52
2637 4325 4.992319 CACCGGTGTAATTGACTCACTAAA 59.008 41.667 26.95 0.00 33.30 1.85
2638 4326 4.561938 CCACCGGTGTAATTGACTCACTAA 60.562 45.833 31.80 0.00 33.30 2.24
2639 4327 3.056393 CCACCGGTGTAATTGACTCACTA 60.056 47.826 31.80 0.00 33.30 2.74
2641 4329 2.073816 CCACCGGTGTAATTGACTCAC 58.926 52.381 31.80 0.00 0.00 3.51
2642 4330 1.002659 CCCACCGGTGTAATTGACTCA 59.997 52.381 31.80 0.00 0.00 3.41
2645 4333 1.002773 AGTCCCACCGGTGTAATTGAC 59.997 52.381 31.80 25.41 0.00 3.18
2647 4335 2.498481 TCTAGTCCCACCGGTGTAATTG 59.502 50.000 31.80 18.98 0.00 2.32
2648 4336 2.823959 TCTAGTCCCACCGGTGTAATT 58.176 47.619 31.80 18.22 0.00 1.40
2650 4338 1.895131 GTTCTAGTCCCACCGGTGTAA 59.105 52.381 31.80 17.33 0.00 2.41
2655 4343 1.664321 CCGAGTTCTAGTCCCACCGG 61.664 65.000 0.00 0.00 0.00 5.28
2656 4344 1.807886 CCGAGTTCTAGTCCCACCG 59.192 63.158 0.00 0.00 0.00 4.94
2657 4345 1.516423 GCCGAGTTCTAGTCCCACC 59.484 63.158 0.00 0.00 0.00 4.61
2658 4346 1.139095 CGCCGAGTTCTAGTCCCAC 59.861 63.158 0.00 0.00 0.00 4.61
2661 4349 0.389426 TTTGCGCCGAGTTCTAGTCC 60.389 55.000 4.18 0.00 0.00 3.85
2662 4350 0.714439 GTTTGCGCCGAGTTCTAGTC 59.286 55.000 4.18 0.00 0.00 2.59
2663 4351 1.007336 CGTTTGCGCCGAGTTCTAGT 61.007 55.000 4.18 0.00 0.00 2.57
2664 4352 0.731514 TCGTTTGCGCCGAGTTCTAG 60.732 55.000 4.18 0.00 38.14 2.43
2665 4353 0.108992 ATCGTTTGCGCCGAGTTCTA 60.109 50.000 4.18 0.00 37.81 2.10
2666 4354 1.352156 GATCGTTTGCGCCGAGTTCT 61.352 55.000 4.18 0.00 37.81 3.01
2667 4355 1.058903 GATCGTTTGCGCCGAGTTC 59.941 57.895 4.18 0.00 37.81 3.01
2669 4357 2.048597 TGATCGTTTGCGCCGAGT 60.049 55.556 4.18 0.00 37.81 4.18
2670 4358 1.626654 AAGTGATCGTTTGCGCCGAG 61.627 55.000 4.18 0.00 37.81 4.63
2672 4360 1.059657 CAAAGTGATCGTTTGCGCCG 61.060 55.000 4.18 0.37 38.14 6.46
2673 4361 0.729140 CCAAAGTGATCGTTTGCGCC 60.729 55.000 4.18 0.00 38.14 6.53
2674 4362 0.040425 ACCAAAGTGATCGTTTGCGC 60.040 50.000 0.00 0.00 38.14 6.09
2686 4374 3.214328 CCACAACTTCTAGCACCAAAGT 58.786 45.455 0.00 0.00 34.81 2.66
2687 4375 3.003689 CACCACAACTTCTAGCACCAAAG 59.996 47.826 0.00 0.00 0.00 2.77
2688 4376 2.948979 CACCACAACTTCTAGCACCAAA 59.051 45.455 0.00 0.00 0.00 3.28
2689 4377 2.092646 ACACCACAACTTCTAGCACCAA 60.093 45.455 0.00 0.00 0.00 3.67
2690 4378 1.488812 ACACCACAACTTCTAGCACCA 59.511 47.619 0.00 0.00 0.00 4.17
2691 4379 2.256117 ACACCACAACTTCTAGCACC 57.744 50.000 0.00 0.00 0.00 5.01
2692 4380 3.724374 TGTACACCACAACTTCTAGCAC 58.276 45.455 0.00 0.00 32.95 4.40
2693 4381 4.617253 ATGTACACCACAACTTCTAGCA 57.383 40.909 0.00 0.00 41.55 3.49
2694 4382 4.994852 TCAATGTACACCACAACTTCTAGC 59.005 41.667 0.00 0.00 41.55 3.42
2695 4383 7.490962 TTTCAATGTACACCACAACTTCTAG 57.509 36.000 0.00 0.00 41.55 2.43
2696 4384 7.717436 TCATTTCAATGTACACCACAACTTCTA 59.283 33.333 0.00 0.00 41.55 2.10
2697 4385 6.545666 TCATTTCAATGTACACCACAACTTCT 59.454 34.615 0.00 0.00 41.55 2.85
2698 4386 6.734137 TCATTTCAATGTACACCACAACTTC 58.266 36.000 0.00 0.00 41.55 3.01
2699 4387 6.707440 TCATTTCAATGTACACCACAACTT 57.293 33.333 0.00 0.00 41.55 2.66
2700 4388 6.899393 ATCATTTCAATGTACACCACAACT 57.101 33.333 0.00 0.00 41.55 3.16
2701 4389 7.589395 TGTATCATTTCAATGTACACCACAAC 58.411 34.615 0.00 0.00 41.55 3.32
2702 4390 7.751768 TGTATCATTTCAATGTACACCACAA 57.248 32.000 0.00 0.00 41.55 3.33
2703 4391 7.751768 TTGTATCATTTCAATGTACACCACA 57.248 32.000 0.00 0.00 42.69 4.17
2704 4392 9.469807 TTTTTGTATCATTTCAATGTACACCAC 57.530 29.630 0.00 0.00 35.11 4.16
2705 4393 9.469807 GTTTTTGTATCATTTCAATGTACACCA 57.530 29.630 0.00 0.00 35.11 4.17
2706 4394 9.691362 AGTTTTTGTATCATTTCAATGTACACC 57.309 29.630 0.00 4.84 35.11 4.16
2723 4411 7.600375 TTTGCATGTCAAAGACAAGTTTTTGTA 59.400 29.630 13.66 7.05 45.96 2.41
2724 4412 6.426328 TTTGCATGTCAAAGACAAGTTTTTGT 59.574 30.769 13.66 0.00 45.96 2.83
2725 4413 6.406093 TTGCATGTCAAAGACAAGTTTTTG 57.594 33.333 9.25 9.25 45.96 2.44
2726 4414 7.614124 ATTTGCATGTCAAAGACAAGTTTTT 57.386 28.000 16.58 0.00 45.96 1.94
2735 4423 5.299028 ACACACTGTATTTGCATGTCAAAGA 59.701 36.000 16.58 11.59 46.68 2.52
2736 4424 5.522456 ACACACTGTATTTGCATGTCAAAG 58.478 37.500 16.58 8.62 46.68 2.77
2738 4426 6.262049 ACTTACACACTGTATTTGCATGTCAA 59.738 34.615 0.00 0.00 32.20 3.18
2739 4427 5.762711 ACTTACACACTGTATTTGCATGTCA 59.237 36.000 0.00 0.00 32.20 3.58
2740 4428 6.241207 ACTTACACACTGTATTTGCATGTC 57.759 37.500 0.00 0.00 32.20 3.06
2741 4429 7.737972 TTACTTACACACTGTATTTGCATGT 57.262 32.000 0.00 0.00 32.20 3.21
2749 4437 9.832445 CCCAGAAATATTACTTACACACTGTAT 57.168 33.333 0.00 0.00 32.20 2.29
2750 4438 9.038072 TCCCAGAAATATTACTTACACACTGTA 57.962 33.333 0.00 0.00 0.00 2.74
2751 4439 7.913789 TCCCAGAAATATTACTTACACACTGT 58.086 34.615 0.00 0.00 0.00 3.55
2752 4440 8.964476 ATCCCAGAAATATTACTTACACACTG 57.036 34.615 0.00 0.00 0.00 3.66
2755 4443 9.537192 CGTAATCCCAGAAATATTACTTACACA 57.463 33.333 0.00 0.00 0.00 3.72
2756 4444 8.493547 GCGTAATCCCAGAAATATTACTTACAC 58.506 37.037 0.00 0.00 0.00 2.90
2757 4445 8.205512 TGCGTAATCCCAGAAATATTACTTACA 58.794 33.333 0.00 0.00 0.00 2.41
2758 4446 8.597662 TGCGTAATCCCAGAAATATTACTTAC 57.402 34.615 0.00 0.00 0.00 2.34
2759 4447 9.787435 ATTGCGTAATCCCAGAAATATTACTTA 57.213 29.630 0.00 0.00 0.00 2.24
2760 4448 8.691661 ATTGCGTAATCCCAGAAATATTACTT 57.308 30.769 0.00 0.00 0.00 2.24
2761 4449 8.567948 CAATTGCGTAATCCCAGAAATATTACT 58.432 33.333 0.00 0.00 0.00 2.24
2762 4450 7.326063 GCAATTGCGTAATCCCAGAAATATTAC 59.674 37.037 15.87 0.00 0.00 1.89
2763 4451 7.367285 GCAATTGCGTAATCCCAGAAATATTA 58.633 34.615 15.87 0.00 0.00 0.98
2764 4452 6.215845 GCAATTGCGTAATCCCAGAAATATT 58.784 36.000 15.87 0.00 0.00 1.28
3244 4933 5.384336 TCAATCAAGTGGGAGAATGTTGAA 58.616 37.500 0.00 0.00 31.24 2.69
3245 4934 4.984295 TCAATCAAGTGGGAGAATGTTGA 58.016 39.130 0.00 0.00 0.00 3.18
3382 5259 9.099071 CCCAACCATAAATAATTATCCATTCCA 57.901 33.333 0.00 0.00 29.08 3.53


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

AutoCloner maintained by Alex Coulton.