Multiple sequence alignment - TraesCS6A01G200100

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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 TraesCS6A01G200100 chr6A 100.000 4574 0 0 1 4574 321277292 321272719 0.000000e+00 8447
1 TraesCS6A01G200100 chr6A 86.471 1020 87 22 3580 4574 270744255 270745248 0.000000e+00 1072
2 TraesCS6A01G200100 chr6A 100.000 108 0 0 1828 1935 540825242 540825135 2.790000e-47 200
3 TraesCS6A01G200100 chr6A 100.000 108 0 0 1828 1935 594981235 594981128 2.790000e-47 200
4 TraesCS6A01G200100 chr2D 94.406 1859 59 19 1 1829 127776339 127774496 0.000000e+00 2815
5 TraesCS6A01G200100 chr2D 95.924 1570 33 7 1934 3500 127774497 127772956 0.000000e+00 2516
6 TraesCS6A01G200100 chr2D 94.327 758 29 6 3499 4252 127772990 127772243 0.000000e+00 1149
7 TraesCS6A01G200100 chr2D 88.842 475 42 6 4103 4574 215280200 215279734 1.430000e-159 573
8 TraesCS6A01G200100 chr4A 95.214 1755 57 9 89 1829 217349602 217351343 0.000000e+00 2750
9 TraesCS6A01G200100 chr4A 93.848 1089 33 13 3499 4574 217353546 217354613 0.000000e+00 1609
10 TraesCS6A01G200100 chr4A 94.720 947 28 5 2555 3500 217352654 217353579 0.000000e+00 1452
11 TraesCS6A01G200100 chr4A 90.558 985 75 8 3499 4479 419964280 419963310 0.000000e+00 1288
12 TraesCS6A01G200100 chr4A 98.284 641 10 1 1934 2574 217351342 217351981 0.000000e+00 1122
13 TraesCS6A01G200100 chr7D 93.706 1859 70 21 1 1829 636678101 636679942 0.000000e+00 2741
14 TraesCS6A01G200100 chr7D 95.018 1124 31 6 2382 3500 636680418 636681521 0.000000e+00 1742
15 TraesCS6A01G200100 chr7D 92.864 1079 39 7 3499 4574 636681487 636682530 0.000000e+00 1531
16 TraesCS6A01G200100 chr7D 96.238 505 6 2 1934 2436 636679941 636680434 0.000000e+00 815
17 TraesCS6A01G200100 chr3B 94.650 1570 56 8 1934 3500 462590802 462589258 0.000000e+00 2409
18 TraesCS6A01G200100 chr3B 93.986 1430 64 9 59 1475 462592946 462591526 0.000000e+00 2145
19 TraesCS6A01G200100 chr3B 93.392 681 33 5 3499 4176 462589292 462588621 0.000000e+00 998
20 TraesCS6A01G200100 chr3B 96.061 457 16 1 4120 4574 462588625 462588169 0.000000e+00 743
21 TraesCS6A01G200100 chr3B 97.015 335 8 1 1497 1829 462591135 462590801 3.090000e-156 562
22 TraesCS6A01G200100 chr4B 93.121 1570 81 7 1934 3500 158107621 158109166 0.000000e+00 2276
23 TraesCS6A01G200100 chr4B 92.000 1350 92 7 10 1344 158102207 158103555 0.000000e+00 1881
24 TraesCS6A01G200100 chr4B 94.270 1082 46 8 3499 4574 158109132 158110203 0.000000e+00 1640
25 TraesCS6A01G200100 chr4B 95.415 349 14 1 1483 1829 158107274 158107622 5.170000e-154 555
26 TraesCS6A01G200100 chr4B 96.154 130 5 0 1820 1949 801331 801202 3.580000e-51 213
27 TraesCS6A01G200100 chr4B 98.291 117 0 2 1828 1942 139519612 139519496 2.160000e-48 204
28 TraesCS6A01G200100 chr4B 90.278 144 7 2 1332 1475 158106675 158106811 1.010000e-41 182
29 TraesCS6A01G200100 chrUn 96.214 1400 29 5 2104 3500 29343193 29344571 0.000000e+00 2270
30 TraesCS6A01G200100 chrUn 94.424 1381 43 14 469 1829 29336180 29337546 0.000000e+00 2093
31 TraesCS6A01G200100 chrUn 94.040 755 30 7 3499 4249 29344537 29345280 0.000000e+00 1131
32 TraesCS6A01G200100 chrUn 89.663 832 53 9 2672 3500 417553107 417552306 0.000000e+00 1029
33 TraesCS6A01G200100 chrUn 90.947 243 11 5 240 471 29319885 29320127 2.660000e-82 316
34 TraesCS6A01G200100 chrUn 94.413 179 9 1 1 179 29319702 29319879 1.620000e-69 274
35 TraesCS6A01G200100 chr7B 94.385 1318 50 5 1934 3248 434769746 434768450 0.000000e+00 2002
36 TraesCS6A01G200100 chr7B 94.413 537 29 1 827 1362 434770606 434770070 0.000000e+00 824
37 TraesCS6A01G200100 chr7B 93.713 509 29 3 3499 4005 434715183 434714676 0.000000e+00 760
38 TraesCS6A01G200100 chr7B 93.651 189 12 0 3312 3500 434715337 434715149 2.690000e-72 283
39 TraesCS6A01G200100 chr7A 94.021 1338 50 8 511 1829 493602293 493603619 0.000000e+00 2001
40 TraesCS6A01G200100 chr7A 92.943 1077 39 6 3499 4574 493605095 493606135 0.000000e+00 1533
41 TraesCS6A01G200100 chr7A 96.902 807 23 1 1934 2738 493603618 493604424 0.000000e+00 1351
42 TraesCS6A01G200100 chr7A 89.655 986 80 11 3499 4479 378966545 378965577 0.000000e+00 1236
43 TraesCS6A01G200100 chr7A 94.558 735 19 3 2767 3500 493604415 493605129 0.000000e+00 1116
44 TraesCS6A01G200100 chr7A 87.091 519 42 13 1 516 493506146 493506642 8.590000e-157 564
45 TraesCS6A01G200100 chr3D 90.505 832 48 13 2672 3501 346959499 346958697 0.000000e+00 1070
46 TraesCS6A01G200100 chr3D 90.482 830 48 10 2672 3499 363808003 363808803 0.000000e+00 1066
47 TraesCS6A01G200100 chr3D 85.522 297 37 2 423 714 141521049 141521344 5.750000e-79 305
48 TraesCS6A01G200100 chr1B 89.663 832 53 9 2672 3500 633764297 633763496 0.000000e+00 1029
49 TraesCS6A01G200100 chr1B 87.359 443 39 11 1935 2370 527849740 527849308 4.110000e-135 492
50 TraesCS6A01G200100 chr1B 88.068 352 30 3 1490 1829 527850089 527849738 1.530000e-109 407
51 TraesCS6A01G200100 chr1B 89.231 195 18 2 2370 2562 84417232 84417039 1.640000e-59 241
52 TraesCS6A01G200100 chr5B 92.802 653 46 1 824 1475 239307508 239306856 0.000000e+00 944
53 TraesCS6A01G200100 chr2A 90.119 587 46 5 3895 4479 433427259 433427835 0.000000e+00 752
54 TraesCS6A01G200100 chr3A 88.397 474 46 5 4103 4574 338736896 338736430 3.090000e-156 562
55 TraesCS6A01G200100 chr3A 99.083 109 1 0 1827 1935 191251864 191251972 3.610000e-46 196
56 TraesCS6A01G200100 chr3A 93.182 132 6 3 1805 1935 599867181 599867052 1.680000e-44 191
57 TraesCS6A01G200100 chr1D 88.288 444 35 8 1935 2370 394255630 394256064 2.440000e-142 516
58 TraesCS6A01G200100 chr1D 90.598 351 22 5 1490 1829 394255282 394255632 5.390000e-124 455
59 TraesCS6A01G200100 chr1A 87.387 444 33 10 1935 2370 491151217 491150789 5.320000e-134 488
60 TraesCS6A01G200100 chr6D 89.262 298 12 11 1 298 291652700 291652977 5.630000e-94 355
61 TraesCS6A01G200100 chr2B 87.129 303 36 2 313 615 127162815 127162516 1.580000e-89 340
62 TraesCS6A01G200100 chr2B 94.086 186 8 3 645 829 127162522 127162339 3.480000e-71 279
63 TraesCS6A01G200100 chr5A 99.074 108 1 0 1828 1935 575329549 575329656 1.300000e-45 195
64 TraesCS6A01G200100 chr5A 98.165 109 2 0 1828 1936 2407001 2407109 1.680000e-44 191
65 TraesCS6A01G200100 chr5A 94.958 119 4 2 1828 1944 615300392 615300274 7.810000e-43 185


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 TraesCS6A01G200100 chr6A 321272719 321277292 4573 True 8447.00 8447 100.000000 1 4574 1 chr6A.!!$R1 4573
1 TraesCS6A01G200100 chr6A 270744255 270745248 993 False 1072.00 1072 86.471000 3580 4574 1 chr6A.!!$F1 994
2 TraesCS6A01G200100 chr2D 127772243 127776339 4096 True 2160.00 2815 94.885667 1 4252 3 chr2D.!!$R2 4251
3 TraesCS6A01G200100 chr4A 217349602 217354613 5011 False 1733.25 2750 95.516500 89 4574 4 chr4A.!!$F1 4485
4 TraesCS6A01G200100 chr4A 419963310 419964280 970 True 1288.00 1288 90.558000 3499 4479 1 chr4A.!!$R1 980
5 TraesCS6A01G200100 chr7D 636678101 636682530 4429 False 1707.25 2741 94.456500 1 4574 4 chr7D.!!$F1 4573
6 TraesCS6A01G200100 chr3B 462588169 462592946 4777 True 1371.40 2409 95.020800 59 4574 5 chr3B.!!$R1 4515
7 TraesCS6A01G200100 chr4B 158102207 158110203 7996 False 1306.80 2276 93.016800 10 4574 5 chr4B.!!$F1 4564
8 TraesCS6A01G200100 chrUn 29336180 29337546 1366 False 2093.00 2093 94.424000 469 1829 1 chrUn.!!$F1 1360
9 TraesCS6A01G200100 chrUn 29343193 29345280 2087 False 1700.50 2270 95.127000 2104 4249 2 chrUn.!!$F3 2145
10 TraesCS6A01G200100 chrUn 417552306 417553107 801 True 1029.00 1029 89.663000 2672 3500 1 chrUn.!!$R1 828
11 TraesCS6A01G200100 chr7B 434768450 434770606 2156 True 1413.00 2002 94.399000 827 3248 2 chr7B.!!$R2 2421
12 TraesCS6A01G200100 chr7B 434714676 434715337 661 True 521.50 760 93.682000 3312 4005 2 chr7B.!!$R1 693
13 TraesCS6A01G200100 chr7A 493602293 493606135 3842 False 1500.25 2001 94.606000 511 4574 4 chr7A.!!$F2 4063
14 TraesCS6A01G200100 chr7A 378965577 378966545 968 True 1236.00 1236 89.655000 3499 4479 1 chr7A.!!$R1 980
15 TraesCS6A01G200100 chr3D 346958697 346959499 802 True 1070.00 1070 90.505000 2672 3501 1 chr3D.!!$R1 829
16 TraesCS6A01G200100 chr3D 363808003 363808803 800 False 1066.00 1066 90.482000 2672 3499 1 chr3D.!!$F2 827
17 TraesCS6A01G200100 chr1B 633763496 633764297 801 True 1029.00 1029 89.663000 2672 3500 1 chr1B.!!$R2 828
18 TraesCS6A01G200100 chr1B 527849308 527850089 781 True 449.50 492 87.713500 1490 2370 2 chr1B.!!$R3 880
19 TraesCS6A01G200100 chr5B 239306856 239307508 652 True 944.00 944 92.802000 824 1475 1 chr5B.!!$R1 651
20 TraesCS6A01G200100 chr2A 433427259 433427835 576 False 752.00 752 90.119000 3895 4479 1 chr2A.!!$F1 584
21 TraesCS6A01G200100 chr1D 394255282 394256064 782 False 485.50 516 89.443000 1490 2370 2 chr1D.!!$F1 880

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
686 699 0.966920 TGAAGGAGAAGACGGTGGAC 59.033 55.000 0.0 0.0 0.0 4.02 F
1832 5451 1.060698 GCGTGCGAACTTTGATACTCC 59.939 52.381 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
1849 5468 0.106708 TCAGCTGTCTGAAACGCCTT 59.893 50.0 14.67 0.0 45.69 4.35 R
3755 8131 0.174845 TATCCGACCAACAAGGAGCG 59.825 55.0 0.00 0.0 41.22 5.03 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
21 22 4.508461 TCATGTTGGTTGCTGAATTCAG 57.492 40.909 27.82 27.82 46.40 3.02
46 47 5.406477 TGTTGATTGTTGATTGTCGAGAGAG 59.594 40.000 0.00 0.00 43.49 3.20
57 58 1.407258 GTCGAGAGAGAATCCAGGTGG 59.593 57.143 0.00 0.00 43.49 4.61
179 180 1.126079 CGTTCGATGCGTATGGGTAC 58.874 55.000 0.00 0.00 0.00 3.34
334 347 2.764128 GGAGGAGGCGATGGGTGA 60.764 66.667 0.00 0.00 0.00 4.02
372 385 2.572104 GGTTGTCCTTGTAGGAGGATGT 59.428 50.000 0.00 0.00 46.90 3.06
488 501 3.799755 GCGGGTTCGTGTCCATGC 61.800 66.667 0.00 0.00 38.89 4.06
491 504 2.033448 GGTTCGTGTCCATGCCCA 59.967 61.111 0.00 0.00 0.00 5.36
498 511 1.847506 TGTCCATGCCCAGACCACT 60.848 57.895 0.00 0.00 31.76 4.00
541 554 6.486657 CCCGGATTGTTGATGAATATACTTGT 59.513 38.462 0.73 0.00 0.00 3.16
576 589 2.359850 GTCCCTTGATGCGGTGCA 60.360 61.111 0.00 0.00 44.86 4.57
604 617 1.230212 GGGATTTGGGGCGAGGAAT 59.770 57.895 0.00 0.00 0.00 3.01
686 699 0.966920 TGAAGGAGAAGACGGTGGAC 59.033 55.000 0.00 0.00 0.00 4.02
743 757 5.010012 GGATTTCAAAAAGAGACTTGGCTCA 59.990 40.000 6.24 0.00 37.37 4.26
790 804 6.417930 GGTGCTGATTTTGAGTTGTTAAGAAC 59.582 38.462 7.38 7.38 0.00 3.01
803 817 7.466804 AGTTGTTAAGAACCCCTTGATTGATA 58.533 34.615 11.59 0.00 36.34 2.15
945 959 8.743099 GTTTGCTCTGTTTACATTGTTTTCTAC 58.257 33.333 0.00 0.00 0.00 2.59
1020 1035 6.857777 TTGATGTTTTTGCCTAATTTGTGG 57.142 33.333 0.00 0.00 0.00 4.17
1081 1096 4.410228 TGAAGGGAATGTTATCTCCTGAGG 59.590 45.833 0.00 0.00 31.88 3.86
1110 1125 9.273016 GGACAGCTTACTAATATGCATTTTCTA 57.727 33.333 3.54 0.00 34.61 2.10
1144 1163 2.240493 AGTTCCTCTGGTGACGTTTG 57.760 50.000 0.00 0.00 0.00 2.93
1471 4623 8.167605 ACAATTTTGCATGGATCAAATTCAAA 57.832 26.923 6.63 0.00 33.94 2.69
1635 5252 4.038522 TGAAATGATGTTCGCCCTTCAAAA 59.961 37.500 0.00 0.00 0.00 2.44
1766 5385 5.258051 TGGGGTACAATAACTTCAATGGAC 58.742 41.667 0.00 0.00 0.00 4.02
1829 5448 1.193650 TGTGCGTGCGAACTTTGATAC 59.806 47.619 4.25 0.00 0.00 2.24
1830 5449 1.459592 GTGCGTGCGAACTTTGATACT 59.540 47.619 0.00 0.00 0.00 2.12
1831 5450 1.724623 TGCGTGCGAACTTTGATACTC 59.275 47.619 0.00 0.00 0.00 2.59
1832 5451 1.060698 GCGTGCGAACTTTGATACTCC 59.939 52.381 0.00 0.00 0.00 3.85
1833 5452 1.659098 CGTGCGAACTTTGATACTCCC 59.341 52.381 0.00 0.00 0.00 4.30
1834 5453 2.674177 CGTGCGAACTTTGATACTCCCT 60.674 50.000 0.00 0.00 0.00 4.20
1835 5454 2.930682 GTGCGAACTTTGATACTCCCTC 59.069 50.000 0.00 0.00 0.00 4.30
1836 5455 2.093658 TGCGAACTTTGATACTCCCTCC 60.094 50.000 0.00 0.00 0.00 4.30
1837 5456 2.810650 CGAACTTTGATACTCCCTCCG 58.189 52.381 0.00 0.00 0.00 4.63
1838 5457 2.165845 CGAACTTTGATACTCCCTCCGT 59.834 50.000 0.00 0.00 0.00 4.69
1839 5458 3.368116 CGAACTTTGATACTCCCTCCGTT 60.368 47.826 0.00 0.00 0.00 4.44
1840 5459 3.889520 ACTTTGATACTCCCTCCGTTC 57.110 47.619 0.00 0.00 0.00 3.95
1841 5460 2.165845 ACTTTGATACTCCCTCCGTTCG 59.834 50.000 0.00 0.00 0.00 3.95
1842 5461 1.843368 TTGATACTCCCTCCGTTCGT 58.157 50.000 0.00 0.00 0.00 3.85
1843 5462 1.843368 TGATACTCCCTCCGTTCGTT 58.157 50.000 0.00 0.00 0.00 3.85
1844 5463 2.173519 TGATACTCCCTCCGTTCGTTT 58.826 47.619 0.00 0.00 0.00 3.60
1845 5464 2.564062 TGATACTCCCTCCGTTCGTTTT 59.436 45.455 0.00 0.00 0.00 2.43
1846 5465 3.007182 TGATACTCCCTCCGTTCGTTTTT 59.993 43.478 0.00 0.00 0.00 1.94
1847 5466 4.220382 TGATACTCCCTCCGTTCGTTTTTA 59.780 41.667 0.00 0.00 0.00 1.52
1848 5467 3.690475 ACTCCCTCCGTTCGTTTTTAT 57.310 42.857 0.00 0.00 0.00 1.40
1849 5468 4.806640 ACTCCCTCCGTTCGTTTTTATA 57.193 40.909 0.00 0.00 0.00 0.98
1850 5469 5.151297 ACTCCCTCCGTTCGTTTTTATAA 57.849 39.130 0.00 0.00 0.00 0.98
1851 5470 5.173664 ACTCCCTCCGTTCGTTTTTATAAG 58.826 41.667 0.00 0.00 0.00 1.73
1852 5471 4.506758 TCCCTCCGTTCGTTTTTATAAGG 58.493 43.478 0.00 0.00 0.00 2.69
1853 5472 3.064408 CCCTCCGTTCGTTTTTATAAGGC 59.936 47.826 0.00 0.00 0.00 4.35
1854 5473 3.242188 CCTCCGTTCGTTTTTATAAGGCG 60.242 47.826 0.00 0.00 0.00 5.52
1855 5474 3.324993 TCCGTTCGTTTTTATAAGGCGT 58.675 40.909 5.68 0.00 0.00 5.68
1856 5475 3.745458 TCCGTTCGTTTTTATAAGGCGTT 59.255 39.130 0.00 0.00 0.00 4.84
1857 5476 4.213059 TCCGTTCGTTTTTATAAGGCGTTT 59.787 37.500 0.00 0.00 0.00 3.60
1858 5477 4.550744 CCGTTCGTTTTTATAAGGCGTTTC 59.449 41.667 0.00 0.00 0.00 2.78
1859 5478 5.138788 CGTTCGTTTTTATAAGGCGTTTCA 58.861 37.500 0.00 0.00 0.00 2.69
1860 5479 5.279751 CGTTCGTTTTTATAAGGCGTTTCAG 59.720 40.000 0.00 0.00 0.00 3.02
1861 5480 6.365050 GTTCGTTTTTATAAGGCGTTTCAGA 58.635 36.000 0.00 0.00 0.00 3.27
1862 5481 5.919196 TCGTTTTTATAAGGCGTTTCAGAC 58.081 37.500 0.00 0.00 0.00 3.51
1863 5482 5.466058 TCGTTTTTATAAGGCGTTTCAGACA 59.534 36.000 0.00 0.00 0.00 3.41
1864 5483 5.788531 CGTTTTTATAAGGCGTTTCAGACAG 59.211 40.000 0.00 0.00 0.00 3.51
1865 5484 4.939509 TTTATAAGGCGTTTCAGACAGC 57.060 40.909 0.00 0.00 0.00 4.40
1866 5485 2.770164 ATAAGGCGTTTCAGACAGCT 57.230 45.000 0.00 0.00 0.00 4.24
1867 5486 1.795768 TAAGGCGTTTCAGACAGCTG 58.204 50.000 13.48 13.48 43.67 4.24
1877 5496 3.827008 TCAGACAGCTGAGTTTGAACT 57.173 42.857 23.35 0.00 45.88 3.01
1878 5497 3.461061 TCAGACAGCTGAGTTTGAACTG 58.539 45.455 23.35 14.46 45.88 3.16
1879 5498 3.118629 TCAGACAGCTGAGTTTGAACTGT 60.119 43.478 23.35 0.00 45.88 3.55
1880 5499 3.624861 CAGACAGCTGAGTTTGAACTGTT 59.375 43.478 23.35 0.00 45.17 3.16
1881 5500 4.095483 CAGACAGCTGAGTTTGAACTGTTT 59.905 41.667 23.35 0.00 45.17 2.83
1882 5501 5.294306 CAGACAGCTGAGTTTGAACTGTTTA 59.706 40.000 23.35 0.00 45.17 2.01
1883 5502 5.525378 AGACAGCTGAGTTTGAACTGTTTAG 59.475 40.000 23.35 0.00 41.45 1.85
1884 5503 5.186198 ACAGCTGAGTTTGAACTGTTTAGT 58.814 37.500 23.35 0.00 38.38 2.24
1885 5504 6.346096 ACAGCTGAGTTTGAACTGTTTAGTA 58.654 36.000 23.35 0.00 38.38 1.82
1886 5505 6.258068 ACAGCTGAGTTTGAACTGTTTAGTAC 59.742 38.462 23.35 0.00 38.38 2.73
1887 5506 6.257849 CAGCTGAGTTTGAACTGTTTAGTACA 59.742 38.462 8.42 0.00 39.88 2.90
1888 5507 6.258068 AGCTGAGTTTGAACTGTTTAGTACAC 59.742 38.462 0.30 0.00 39.88 2.90
1889 5508 6.258068 GCTGAGTTTGAACTGTTTAGTACACT 59.742 38.462 0.30 0.00 39.88 3.55
1890 5509 7.534085 TGAGTTTGAACTGTTTAGTACACTG 57.466 36.000 0.30 0.00 39.88 3.66
1891 5510 7.101054 TGAGTTTGAACTGTTTAGTACACTGT 58.899 34.615 0.30 0.00 39.88 3.55
1892 5511 7.277098 TGAGTTTGAACTGTTTAGTACACTGTC 59.723 37.037 0.30 0.00 39.88 3.51
1893 5512 7.328737 AGTTTGAACTGTTTAGTACACTGTCT 58.671 34.615 0.00 0.00 37.98 3.41
1894 5513 7.277981 AGTTTGAACTGTTTAGTACACTGTCTG 59.722 37.037 0.00 0.00 37.98 3.51
1895 5514 6.459670 TGAACTGTTTAGTACACTGTCTGA 57.540 37.500 0.00 0.00 35.69 3.27
1896 5515 6.869695 TGAACTGTTTAGTACACTGTCTGAA 58.130 36.000 0.00 0.00 35.69 3.02
1897 5516 7.497595 TGAACTGTTTAGTACACTGTCTGAAT 58.502 34.615 0.00 0.00 35.69 2.57
1898 5517 7.985184 TGAACTGTTTAGTACACTGTCTGAATT 59.015 33.333 0.00 0.00 35.69 2.17
1899 5518 8.732746 AACTGTTTAGTACACTGTCTGAATTT 57.267 30.769 0.00 0.00 35.69 1.82
1900 5519 9.826574 AACTGTTTAGTACACTGTCTGAATTTA 57.173 29.630 0.00 0.00 35.69 1.40
1901 5520 9.257651 ACTGTTTAGTACACTGTCTGAATTTAC 57.742 33.333 0.00 0.00 34.74 2.01
1902 5521 9.477484 CTGTTTAGTACACTGTCTGAATTTACT 57.523 33.333 0.00 0.00 32.10 2.24
1908 5527 8.975439 AGTACACTGTCTGAATTTACTAAAACG 58.025 33.333 0.00 0.00 0.00 3.60
1909 5528 7.781548 ACACTGTCTGAATTTACTAAAACGT 57.218 32.000 0.00 0.00 0.00 3.99
1910 5529 7.848491 ACACTGTCTGAATTTACTAAAACGTC 58.152 34.615 0.00 0.00 0.00 4.34
1911 5530 7.709613 ACACTGTCTGAATTTACTAAAACGTCT 59.290 33.333 0.00 0.00 0.00 4.18
1912 5531 8.548721 CACTGTCTGAATTTACTAAAACGTCTT 58.451 33.333 0.00 0.00 0.00 3.01
1913 5532 9.754382 ACTGTCTGAATTTACTAAAACGTCTTA 57.246 29.630 0.00 0.00 0.00 2.10
1929 5548 8.928270 AAACGTCTTATATAAGTGAACAGAGG 57.072 34.615 19.58 8.80 34.93 3.69
1930 5549 7.040473 ACGTCTTATATAAGTGAACAGAGGG 57.960 40.000 19.58 3.74 34.93 4.30
1931 5550 6.832384 ACGTCTTATATAAGTGAACAGAGGGA 59.168 38.462 19.58 0.00 34.93 4.20
1932 5551 7.013464 ACGTCTTATATAAGTGAACAGAGGGAG 59.987 40.741 19.58 2.63 34.93 4.30
1933 5552 7.013464 CGTCTTATATAAGTGAACAGAGGGAGT 59.987 40.741 19.58 0.00 34.93 3.85
1934 5553 9.352191 GTCTTATATAAGTGAACAGAGGGAGTA 57.648 37.037 19.58 0.00 34.93 2.59
1939 5558 9.830186 ATATAAGTGAACAGAGGGAGTATATGT 57.170 33.333 0.00 0.00 0.00 2.29
1942 5561 6.879400 AGTGAACAGAGGGAGTATATGTTTC 58.121 40.000 0.00 0.00 34.41 2.78
2417 6092 3.578716 CCACATATAACCTCACTCCGGAT 59.421 47.826 3.57 0.00 0.00 4.18
2439 6114 4.175962 TGAACCCTAGACCCAAATCTCTT 58.824 43.478 0.00 0.00 0.00 2.85
2469 6144 3.698040 CCATGTTGAAAGATAGGCTTGCT 59.302 43.478 0.00 0.00 36.80 3.91
2582 6949 2.202797 CGACCCGCAGTCCTCATG 60.203 66.667 0.00 0.00 43.08 3.07
2626 6993 5.273944 ACATGCGAGAGAAAAGAAAAACAC 58.726 37.500 0.00 0.00 0.00 3.32
2983 7351 8.777413 CGTGTTCATGATTTATGTAGATTGGAT 58.223 33.333 0.00 0.00 38.01 3.41
3088 7456 6.350361 CCATGAATTGACTGATTAGTTTGGCA 60.350 38.462 0.00 0.00 37.25 4.92
3292 7661 1.901591 ACAAGTTGTCATGAGCTGGG 58.098 50.000 1.64 0.00 0.00 4.45
3293 7662 1.421268 ACAAGTTGTCATGAGCTGGGA 59.579 47.619 1.64 0.00 0.00 4.37
3294 7663 1.808945 CAAGTTGTCATGAGCTGGGAC 59.191 52.381 0.00 0.00 0.00 4.46
3295 7664 1.059098 AGTTGTCATGAGCTGGGACA 58.941 50.000 0.00 7.42 39.60 4.02
3296 7665 1.632409 AGTTGTCATGAGCTGGGACAT 59.368 47.619 11.24 0.00 40.84 3.06
3297 7666 2.840038 AGTTGTCATGAGCTGGGACATA 59.160 45.455 11.24 2.72 40.84 2.29
3298 7667 3.118482 AGTTGTCATGAGCTGGGACATAG 60.118 47.826 11.24 0.00 40.84 2.23
3299 7668 2.750814 TGTCATGAGCTGGGACATAGA 58.249 47.619 0.00 0.00 38.20 1.98
3300 7669 3.106827 TGTCATGAGCTGGGACATAGAA 58.893 45.455 0.00 0.00 38.20 2.10
3301 7670 3.133542 TGTCATGAGCTGGGACATAGAAG 59.866 47.826 0.00 0.00 38.20 2.85
3302 7671 3.386078 GTCATGAGCTGGGACATAGAAGA 59.614 47.826 0.00 0.00 38.20 2.87
3303 7672 4.033009 TCATGAGCTGGGACATAGAAGAA 58.967 43.478 0.00 0.00 38.20 2.52
3304 7673 4.100653 TCATGAGCTGGGACATAGAAGAAG 59.899 45.833 0.00 0.00 38.20 2.85
3305 7674 3.713003 TGAGCTGGGACATAGAAGAAGA 58.287 45.455 0.00 0.00 38.20 2.87
3306 7675 3.703556 TGAGCTGGGACATAGAAGAAGAG 59.296 47.826 0.00 0.00 38.20 2.85
3307 7676 3.957497 GAGCTGGGACATAGAAGAAGAGA 59.043 47.826 0.00 0.00 38.20 3.10
3308 7677 3.960102 AGCTGGGACATAGAAGAAGAGAG 59.040 47.826 0.00 0.00 38.20 3.20
3309 7678 3.492482 GCTGGGACATAGAAGAAGAGAGC 60.492 52.174 0.00 0.00 38.20 4.09
3310 7679 3.034635 TGGGACATAGAAGAAGAGAGCC 58.965 50.000 0.00 0.00 0.00 4.70
3437 7806 2.104792 CCATCCCTACGTCCATGATGTT 59.895 50.000 0.00 0.00 33.52 2.71
3465 7834 9.638176 AAGCATAGGAAATCAAGTCAATTAGAT 57.362 29.630 0.00 0.00 0.00 1.98
3491 7860 8.140112 AGTATATCTGGTTCTGAAAGTTGTCT 57.860 34.615 0.00 0.00 33.76 3.41
3492 7861 8.598041 AGTATATCTGGTTCTGAAAGTTGTCTT 58.402 33.333 0.00 0.00 35.14 3.01
3493 7862 9.220767 GTATATCTGGTTCTGAAAGTTGTCTTT 57.779 33.333 0.00 0.00 45.24 2.52
3494 7863 8.697507 ATATCTGGTTCTGAAAGTTGTCTTTT 57.302 30.769 0.00 0.00 42.99 2.27
3495 7864 6.194796 TCTGGTTCTGAAAGTTGTCTTTTG 57.805 37.500 0.00 0.00 42.99 2.44
3496 7865 5.710099 TCTGGTTCTGAAAGTTGTCTTTTGT 59.290 36.000 0.00 0.00 42.99 2.83
3497 7866 5.708948 TGGTTCTGAAAGTTGTCTTTTGTG 58.291 37.500 0.00 0.00 42.99 3.33
3871 8248 4.006989 TCCACCCTGATTTGTAATTCGTG 58.993 43.478 0.00 0.00 0.00 4.35
3951 8333 3.074538 AGCATTCCCCACTGTTTCTTACT 59.925 43.478 0.00 0.00 0.00 2.24
3952 8334 3.191371 GCATTCCCCACTGTTTCTTACTG 59.809 47.826 0.00 0.00 0.00 2.74
3958 8340 4.263068 CCCCACTGTTTCTTACTGTCAGAT 60.263 45.833 6.91 0.00 36.87 2.90
4005 8401 2.686915 CAATGGATGTCTTTCTCCCAGC 59.313 50.000 0.00 0.00 0.00 4.85
4006 8402 0.620556 TGGATGTCTTTCTCCCAGCC 59.379 55.000 0.00 0.00 35.26 4.85
4007 8403 0.915364 GGATGTCTTTCTCCCAGCCT 59.085 55.000 0.00 0.00 32.03 4.58
4008 8404 1.134250 GGATGTCTTTCTCCCAGCCTC 60.134 57.143 0.00 0.00 32.03 4.70
4009 8405 0.915364 ATGTCTTTCTCCCAGCCTCC 59.085 55.000 0.00 0.00 0.00 4.30
4010 8406 1.201429 TGTCTTTCTCCCAGCCTCCC 61.201 60.000 0.00 0.00 0.00 4.30
4011 8407 1.160870 TCTTTCTCCCAGCCTCCCA 59.839 57.895 0.00 0.00 0.00 4.37
4012 8408 0.911525 TCTTTCTCCCAGCCTCCCAG 60.912 60.000 0.00 0.00 0.00 4.45
4040 8438 4.910195 TGTAATTCCACTGCTCTGATTGT 58.090 39.130 0.00 0.00 0.00 2.71
4048 8456 4.750598 CCACTGCTCTGATTGTCATCTATG 59.249 45.833 0.00 0.00 0.00 2.23
4054 8462 6.314648 TGCTCTGATTGTCATCTATGTTTGAC 59.685 38.462 0.00 0.00 42.05 3.18
4140 8560 1.959985 CACCCAAGGTAAATGTGTGCA 59.040 47.619 0.00 0.00 32.11 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 5.177511 TCTCTCGACAATCAACAATCAACAC 59.822 40.000 0.00 0.00 0.00 3.32
46 47 2.046285 CAACCGCCCACCTGGATTC 61.046 63.158 0.00 0.00 37.39 2.52
57 58 3.876198 CGCCAGCATACAACCGCC 61.876 66.667 0.00 0.00 0.00 6.13
85 86 7.499321 TTAGACATTTTAAAAAGGACTGCGA 57.501 32.000 4.44 0.00 0.00 5.10
251 252 1.153208 GGCACATGAGCAGGAGGAG 60.153 63.158 17.11 0.00 35.83 3.69
328 329 0.547471 TCTTCAGGCCTCATCACCCA 60.547 55.000 0.00 0.00 0.00 4.51
334 347 1.890552 ACCTCATCTTCAGGCCTCAT 58.109 50.000 0.00 0.00 33.84 2.90
498 511 2.785389 AAGAAACCCCCAGCCCCA 60.785 61.111 0.00 0.00 0.00 4.96
541 554 3.334691 GGACACAAGAATCACGAATCCA 58.665 45.455 0.00 0.00 0.00 3.41
576 589 2.961039 GCCCCAAATCCCCATGAATCTT 60.961 50.000 0.00 0.00 0.00 2.40
604 617 0.396417 CCCCGAATTGCACCCCAATA 60.396 55.000 0.00 0.00 43.22 1.90
686 699 1.150536 CTCCTCCCTCCTCTCTCCG 59.849 68.421 0.00 0.00 0.00 4.63
743 757 5.505173 CAAAGGAATTGGCAGTATCGAAT 57.495 39.130 0.00 0.00 35.27 3.34
1020 1035 6.037500 ACAAGTTCCTACGAAACAAAGGTAAC 59.962 38.462 0.00 0.00 0.00 2.50
1081 1096 6.867662 ATGCATATTAGTAAGCTGTCCAAC 57.132 37.500 0.00 0.00 0.00 3.77
1110 1125 9.554053 ACCAGAGGAACTATAGAATATGCTTAT 57.446 33.333 6.78 0.00 41.55 1.73
1144 1163 5.923684 TGTCAAAACCAAAGTGTTCAGAAAC 59.076 36.000 0.00 0.00 35.85 2.78
1471 4623 4.473559 ACTACATAAAGCACTGGGTGGTAT 59.526 41.667 2.83 0.00 43.73 2.73
1635 5252 9.140874 GGATGGAAGGAAAATAGATCAGAAAAT 57.859 33.333 0.00 0.00 0.00 1.82
1766 5385 7.572523 TGTTTATTAGCTCTGATGGAATTGG 57.427 36.000 0.00 0.00 0.00 3.16
1829 5448 4.569564 CCTTATAAAAACGAACGGAGGGAG 59.430 45.833 0.00 0.00 0.00 4.30
1830 5449 4.506758 CCTTATAAAAACGAACGGAGGGA 58.493 43.478 0.00 0.00 0.00 4.20
1831 5450 3.064408 GCCTTATAAAAACGAACGGAGGG 59.936 47.826 0.00 0.00 0.00 4.30
1832 5451 3.242188 CGCCTTATAAAAACGAACGGAGG 60.242 47.826 0.00 0.00 0.00 4.30
1833 5452 3.368843 ACGCCTTATAAAAACGAACGGAG 59.631 43.478 8.05 0.00 0.00 4.63
1834 5453 3.324993 ACGCCTTATAAAAACGAACGGA 58.675 40.909 8.05 0.00 0.00 4.69
1835 5454 3.727780 ACGCCTTATAAAAACGAACGG 57.272 42.857 8.05 0.00 0.00 4.44
1836 5455 5.138788 TGAAACGCCTTATAAAAACGAACG 58.861 37.500 8.05 0.00 0.00 3.95
1837 5456 6.301607 GTCTGAAACGCCTTATAAAAACGAAC 59.698 38.462 8.05 1.79 0.00 3.95
1838 5457 6.018098 TGTCTGAAACGCCTTATAAAAACGAA 60.018 34.615 8.05 0.00 0.00 3.85
1839 5458 5.466058 TGTCTGAAACGCCTTATAAAAACGA 59.534 36.000 8.05 0.00 0.00 3.85
1840 5459 5.681880 TGTCTGAAACGCCTTATAAAAACG 58.318 37.500 1.22 1.22 0.00 3.60
1841 5460 5.567915 GCTGTCTGAAACGCCTTATAAAAAC 59.432 40.000 0.00 0.00 0.00 2.43
1842 5461 5.472137 AGCTGTCTGAAACGCCTTATAAAAA 59.528 36.000 0.00 0.00 0.00 1.94
1843 5462 5.001232 AGCTGTCTGAAACGCCTTATAAAA 58.999 37.500 0.00 0.00 0.00 1.52
1844 5463 4.391830 CAGCTGTCTGAAACGCCTTATAAA 59.608 41.667 5.25 0.00 42.95 1.40
1845 5464 3.932710 CAGCTGTCTGAAACGCCTTATAA 59.067 43.478 5.25 0.00 42.95 0.98
1846 5465 3.194755 TCAGCTGTCTGAAACGCCTTATA 59.805 43.478 14.67 0.00 45.69 0.98
1847 5466 2.028112 TCAGCTGTCTGAAACGCCTTAT 60.028 45.455 14.67 0.00 45.69 1.73
1848 5467 1.343142 TCAGCTGTCTGAAACGCCTTA 59.657 47.619 14.67 0.00 45.69 2.69
1849 5468 0.106708 TCAGCTGTCTGAAACGCCTT 59.893 50.000 14.67 0.00 45.69 4.35
1850 5469 1.748403 TCAGCTGTCTGAAACGCCT 59.252 52.632 14.67 0.00 45.69 5.52
1851 5470 4.361253 TCAGCTGTCTGAAACGCC 57.639 55.556 14.67 0.00 45.69 5.68
1857 5476 3.118629 ACAGTTCAAACTCAGCTGTCTGA 60.119 43.478 14.67 9.35 46.43 3.27
1858 5477 3.201290 ACAGTTCAAACTCAGCTGTCTG 58.799 45.455 14.67 8.01 41.67 3.51
1859 5478 3.550437 ACAGTTCAAACTCAGCTGTCT 57.450 42.857 14.67 0.00 37.08 3.41
1860 5479 4.622701 AAACAGTTCAAACTCAGCTGTC 57.377 40.909 14.67 0.00 39.19 3.51
1861 5480 5.186198 ACTAAACAGTTCAAACTCAGCTGT 58.814 37.500 14.67 0.00 41.51 4.40
1862 5481 5.741388 ACTAAACAGTTCAAACTCAGCTG 57.259 39.130 7.63 7.63 37.08 4.24
1863 5482 6.258068 GTGTACTAAACAGTTCAAACTCAGCT 59.742 38.462 0.00 0.00 39.29 4.24
1864 5483 6.258068 AGTGTACTAAACAGTTCAAACTCAGC 59.742 38.462 0.00 0.00 38.70 4.26
1865 5484 7.277981 ACAGTGTACTAAACAGTTCAAACTCAG 59.722 37.037 0.00 0.00 39.88 3.35
1866 5485 7.101054 ACAGTGTACTAAACAGTTCAAACTCA 58.899 34.615 0.00 0.00 39.88 3.41
1867 5486 7.491696 AGACAGTGTACTAAACAGTTCAAACTC 59.508 37.037 0.00 0.00 39.88 3.01
1868 5487 7.277981 CAGACAGTGTACTAAACAGTTCAAACT 59.722 37.037 0.00 0.00 39.88 2.66
1869 5488 7.277098 TCAGACAGTGTACTAAACAGTTCAAAC 59.723 37.037 0.00 0.00 39.88 2.93
1870 5489 7.324935 TCAGACAGTGTACTAAACAGTTCAAA 58.675 34.615 0.00 0.00 39.88 2.69
1871 5490 6.869695 TCAGACAGTGTACTAAACAGTTCAA 58.130 36.000 0.00 0.00 39.88 2.69
1872 5491 6.459670 TCAGACAGTGTACTAAACAGTTCA 57.540 37.500 0.00 0.00 39.88 3.18
1873 5492 7.948278 ATTCAGACAGTGTACTAAACAGTTC 57.052 36.000 0.00 0.00 39.88 3.01
1874 5493 8.732746 AAATTCAGACAGTGTACTAAACAGTT 57.267 30.769 0.00 0.00 39.88 3.16
1875 5494 9.257651 GTAAATTCAGACAGTGTACTAAACAGT 57.742 33.333 0.00 0.00 42.76 3.55
1876 5495 9.477484 AGTAAATTCAGACAGTGTACTAAACAG 57.523 33.333 0.00 0.00 39.29 3.16
1882 5501 8.975439 CGTTTTAGTAAATTCAGACAGTGTACT 58.025 33.333 0.00 0.00 0.00 2.73
1883 5502 8.758715 ACGTTTTAGTAAATTCAGACAGTGTAC 58.241 33.333 0.00 0.00 0.00 2.90
1884 5503 8.876275 ACGTTTTAGTAAATTCAGACAGTGTA 57.124 30.769 0.00 0.00 0.00 2.90
1885 5504 7.709613 AGACGTTTTAGTAAATTCAGACAGTGT 59.290 33.333 0.00 0.00 0.00 3.55
1886 5505 8.073355 AGACGTTTTAGTAAATTCAGACAGTG 57.927 34.615 0.00 0.00 0.00 3.66
1887 5506 8.658499 AAGACGTTTTAGTAAATTCAGACAGT 57.342 30.769 0.00 0.00 0.00 3.55
1903 5522 9.367444 CCTCTGTTCACTTATATAAGACGTTTT 57.633 33.333 25.83 2.71 37.08 2.43
1904 5523 7.980099 CCCTCTGTTCACTTATATAAGACGTTT 59.020 37.037 25.83 3.40 37.08 3.60
1905 5524 7.341256 TCCCTCTGTTCACTTATATAAGACGTT 59.659 37.037 25.83 3.75 37.08 3.99
1906 5525 6.832384 TCCCTCTGTTCACTTATATAAGACGT 59.168 38.462 25.83 4.92 37.08 4.34
1907 5526 7.013464 ACTCCCTCTGTTCACTTATATAAGACG 59.987 40.741 25.83 16.70 37.08 4.18
1908 5527 8.240267 ACTCCCTCTGTTCACTTATATAAGAC 57.760 38.462 25.83 15.30 37.08 3.01
1913 5532 9.830186 ACATATACTCCCTCTGTTCACTTATAT 57.170 33.333 0.00 0.00 0.00 0.86
1914 5533 9.656323 AACATATACTCCCTCTGTTCACTTATA 57.344 33.333 0.00 0.00 0.00 0.98
1915 5534 8.554490 AACATATACTCCCTCTGTTCACTTAT 57.446 34.615 0.00 0.00 0.00 1.73
1916 5535 7.973048 AACATATACTCCCTCTGTTCACTTA 57.027 36.000 0.00 0.00 0.00 2.24
1917 5536 6.875972 AACATATACTCCCTCTGTTCACTT 57.124 37.500 0.00 0.00 0.00 3.16
1918 5537 6.670027 AGAAACATATACTCCCTCTGTTCACT 59.330 38.462 0.00 0.00 0.00 3.41
1919 5538 6.879400 AGAAACATATACTCCCTCTGTTCAC 58.121 40.000 0.00 0.00 0.00 3.18
1920 5539 7.496346 AAGAAACATATACTCCCTCTGTTCA 57.504 36.000 0.00 0.00 0.00 3.18
1921 5540 8.794335 AAAAGAAACATATACTCCCTCTGTTC 57.206 34.615 0.00 0.00 0.00 3.18
1922 5541 9.232473 GAAAAAGAAACATATACTCCCTCTGTT 57.768 33.333 0.00 0.00 0.00 3.16
1923 5542 8.383175 TGAAAAAGAAACATATACTCCCTCTGT 58.617 33.333 0.00 0.00 0.00 3.41
1924 5543 8.792830 TGAAAAAGAAACATATACTCCCTCTG 57.207 34.615 0.00 0.00 0.00 3.35
1925 5544 9.981460 AATGAAAAAGAAACATATACTCCCTCT 57.019 29.630 0.00 0.00 0.00 3.69
2201 5821 3.719268 TCAAGCTTGCTCAAATCCCTA 57.281 42.857 21.99 0.00 0.00 3.53
2417 6092 3.803340 AGAGATTTGGGTCTAGGGTTCA 58.197 45.455 0.00 0.00 0.00 3.18
2439 6114 5.125900 CCTATCTTTCAACATGGCATTGTCA 59.874 40.000 0.00 0.00 0.00 3.58
2469 6144 5.104941 TCAGGAATTCTTGAGCCGAATCTTA 60.105 40.000 15.69 0.00 31.12 2.10
2582 6949 2.490991 ACCGCTTCTGGTTCACTTAAC 58.509 47.619 0.00 0.00 39.99 2.01
2626 6993 3.286751 CGTGCAGGTGGTTGGGTG 61.287 66.667 0.00 0.00 0.00 4.61
2983 7351 5.488341 GAATACTGCAGTTTGAAGGGACTA 58.512 41.667 27.06 1.76 38.49 2.59
3088 7456 7.406031 TCAAGACCTAGTTTAATCTGATCGT 57.594 36.000 0.00 0.00 0.00 3.73
3292 7661 3.378742 TGTCGGCTCTCTTCTTCTATGTC 59.621 47.826 0.00 0.00 0.00 3.06
3293 7662 3.357203 TGTCGGCTCTCTTCTTCTATGT 58.643 45.455 0.00 0.00 0.00 2.29
3294 7663 4.582701 ATGTCGGCTCTCTTCTTCTATG 57.417 45.455 0.00 0.00 0.00 2.23
3295 7664 5.626142 TCTATGTCGGCTCTCTTCTTCTAT 58.374 41.667 0.00 0.00 0.00 1.98
3296 7665 5.037383 TCTATGTCGGCTCTCTTCTTCTA 57.963 43.478 0.00 0.00 0.00 2.10
3297 7666 3.892284 TCTATGTCGGCTCTCTTCTTCT 58.108 45.455 0.00 0.00 0.00 2.85
3298 7667 4.336993 TCTTCTATGTCGGCTCTCTTCTTC 59.663 45.833 0.00 0.00 0.00 2.87
3299 7668 4.274147 TCTTCTATGTCGGCTCTCTTCTT 58.726 43.478 0.00 0.00 0.00 2.52
3300 7669 3.892284 TCTTCTATGTCGGCTCTCTTCT 58.108 45.455 0.00 0.00 0.00 2.85
3301 7670 4.336993 TCTTCTTCTATGTCGGCTCTCTTC 59.663 45.833 0.00 0.00 0.00 2.87
3302 7671 4.274147 TCTTCTTCTATGTCGGCTCTCTT 58.726 43.478 0.00 0.00 0.00 2.85
3303 7672 3.882888 CTCTTCTTCTATGTCGGCTCTCT 59.117 47.826 0.00 0.00 0.00 3.10
3304 7673 3.880490 TCTCTTCTTCTATGTCGGCTCTC 59.120 47.826 0.00 0.00 0.00 3.20
3305 7674 3.882888 CTCTCTTCTTCTATGTCGGCTCT 59.117 47.826 0.00 0.00 0.00 4.09
3306 7675 3.550030 GCTCTCTTCTTCTATGTCGGCTC 60.550 52.174 0.00 0.00 0.00 4.70
3307 7676 2.360801 GCTCTCTTCTTCTATGTCGGCT 59.639 50.000 0.00 0.00 0.00 5.52
3308 7677 2.544903 GGCTCTCTTCTTCTATGTCGGC 60.545 54.545 0.00 0.00 0.00 5.54
3309 7678 2.287308 CGGCTCTCTTCTTCTATGTCGG 60.287 54.545 0.00 0.00 0.00 4.79
3310 7679 2.614520 TCGGCTCTCTTCTTCTATGTCG 59.385 50.000 0.00 0.00 0.00 4.35
3437 7806 7.707624 AATTGACTTGATTTCCTATGCTTCA 57.292 32.000 0.00 0.00 0.00 3.02
3465 7834 9.256228 AGACAACTTTCAGAACCAGATATACTA 57.744 33.333 0.00 0.00 0.00 1.82
3466 7835 8.140112 AGACAACTTTCAGAACCAGATATACT 57.860 34.615 0.00 0.00 0.00 2.12
3467 7836 8.779354 AAGACAACTTTCAGAACCAGATATAC 57.221 34.615 0.00 0.00 31.71 1.47
3468 7837 9.793259 AAAAGACAACTTTCAGAACCAGATATA 57.207 29.630 0.00 0.00 44.32 0.86
3469 7838 8.571336 CAAAAGACAACTTTCAGAACCAGATAT 58.429 33.333 0.00 0.00 44.32 1.63
3470 7839 7.556275 ACAAAAGACAACTTTCAGAACCAGATA 59.444 33.333 0.00 0.00 44.32 1.98
3471 7840 6.378280 ACAAAAGACAACTTTCAGAACCAGAT 59.622 34.615 0.00 0.00 44.32 2.90
3472 7841 5.710099 ACAAAAGACAACTTTCAGAACCAGA 59.290 36.000 0.00 0.00 44.32 3.86
3473 7842 5.801947 CACAAAAGACAACTTTCAGAACCAG 59.198 40.000 0.00 0.00 44.32 4.00
3474 7843 5.242838 ACACAAAAGACAACTTTCAGAACCA 59.757 36.000 0.00 0.00 44.32 3.67
3475 7844 5.709966 ACACAAAAGACAACTTTCAGAACC 58.290 37.500 0.00 0.00 44.32 3.62
3476 7845 7.527457 ACTACACAAAAGACAACTTTCAGAAC 58.473 34.615 0.00 0.00 44.32 3.01
3477 7846 7.681939 ACTACACAAAAGACAACTTTCAGAA 57.318 32.000 0.00 0.00 44.32 3.02
3478 7847 8.958119 ATACTACACAAAAGACAACTTTCAGA 57.042 30.769 0.00 0.00 44.32 3.27
3483 7852 9.436957 CCAGATATACTACACAAAAGACAACTT 57.563 33.333 0.00 0.00 38.05 2.66
3484 7853 8.594550 ACCAGATATACTACACAAAAGACAACT 58.405 33.333 0.00 0.00 0.00 3.16
3485 7854 8.773404 ACCAGATATACTACACAAAAGACAAC 57.227 34.615 0.00 0.00 0.00 3.32
3755 8131 0.174845 TATCCGACCAACAAGGAGCG 59.825 55.000 0.00 0.00 41.22 5.03
3871 8248 1.066573 CCTGAGTGTCTGGATGTGACC 60.067 57.143 0.00 0.00 37.65 4.02
3951 8333 9.965824 GAAATCTCCTTTTGTTTTTATCTGACA 57.034 29.630 0.00 0.00 0.00 3.58
3952 8334 9.965824 TGAAATCTCCTTTTGTTTTTATCTGAC 57.034 29.630 0.00 0.00 0.00 3.51
4005 8401 3.074390 TGGAATTACATATGCCTGGGAGG 59.926 47.826 1.58 0.00 38.80 4.30
4006 8402 4.074970 GTGGAATTACATATGCCTGGGAG 58.925 47.826 1.58 0.00 0.00 4.30
4007 8403 3.721575 AGTGGAATTACATATGCCTGGGA 59.278 43.478 1.58 0.00 0.00 4.37
4008 8404 3.822735 CAGTGGAATTACATATGCCTGGG 59.177 47.826 1.58 0.00 0.00 4.45
4009 8405 3.254166 GCAGTGGAATTACATATGCCTGG 59.746 47.826 16.31 0.00 32.82 4.45
4010 8406 4.139786 AGCAGTGGAATTACATATGCCTG 58.860 43.478 21.12 12.35 36.91 4.85
4011 8407 4.103785 AGAGCAGTGGAATTACATATGCCT 59.896 41.667 21.12 16.28 36.91 4.75
4012 8408 4.214971 CAGAGCAGTGGAATTACATATGCC 59.785 45.833 21.12 14.84 36.91 4.40
4040 8438 2.536365 GTCGCCGTCAAACATAGATGA 58.464 47.619 0.00 0.00 0.00 2.92
4048 8456 2.095843 GCATCGTCGCCGTCAAAC 59.904 61.111 0.00 0.00 35.01 2.93
4054 8462 2.353607 GGTAGAGCATCGTCGCCG 60.354 66.667 0.00 0.00 42.67 6.46
4140 8560 8.037382 TCTGTAGTTAATCTATATTAGCGCGT 57.963 34.615 8.43 0.00 34.84 6.01
4179 8653 0.976641 ACACGGTGATCACTCATGGT 59.023 50.000 24.50 13.10 32.98 3.55


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

AutoCloner maintained by Alex Coulton.