Multiple sequence alignment - TraesCS5A01G434800

Loading Multiple Alignment...

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 TraesCS5A01G434800 chr5A 100.000 3442 0 0 1 3442 618124882 618128323 0.000000e+00 6357.0
1 TraesCS5A01G434800 chr5A 80.747 1205 183 26 984 2159 618270565 618271749 0.000000e+00 894.0
2 TraesCS5A01G434800 chr5A 78.282 1455 242 42 974 2392 618158763 618160179 0.000000e+00 869.0
3 TraesCS5A01G434800 chr5A 80.553 1121 182 15 974 2072 618602716 618603822 0.000000e+00 830.0
4 TraesCS5A01G434800 chr5A 77.848 1422 255 46 1012 2394 618463738 618465138 0.000000e+00 826.0
5 TraesCS5A01G434800 chr5A 80.769 312 42 11 282 592 562889829 562889535 9.610000e-56 228.0
6 TraesCS5A01G434800 chr5D 91.019 2405 142 22 585 2974 494645524 494647869 0.000000e+00 3177.0
7 TraesCS5A01G434800 chr5D 80.870 1218 185 23 984 2157 494773752 494774965 0.000000e+00 915.0
8 TraesCS5A01G434800 chr5D 77.401 1624 268 57 612 2159 494684358 494685958 0.000000e+00 874.0
9 TraesCS5A01G434800 chr5D 76.434 1778 307 58 695 2392 494651152 494652897 0.000000e+00 859.0
10 TraesCS5A01G434800 chr5D 80.255 1175 185 21 974 2118 494761765 494762922 0.000000e+00 841.0
11 TraesCS5A01G434800 chr5D 79.762 1092 193 18 1064 2134 494783309 494784393 0.000000e+00 767.0
12 TraesCS5A01G434800 chr5D 78.059 1226 206 29 984 2156 494657316 494658531 0.000000e+00 715.0
13 TraesCS5A01G434800 chr5D 90.833 480 25 11 2972 3442 494647981 494648450 2.920000e-175 625.0
14 TraesCS5A01G434800 chr5B 90.055 2001 162 17 607 2591 610867012 610868991 0.000000e+00 2558.0
15 TraesCS5A01G434800 chr5B 78.700 1446 242 40 974 2392 610874070 610875476 0.000000e+00 904.0
16 TraesCS5A01G434800 chr5B 80.961 1166 181 21 984 2127 611077259 611078405 0.000000e+00 885.0
17 TraesCS5A01G434800 chr5B 78.527 1439 233 42 771 2159 610922720 610924132 0.000000e+00 876.0
18 TraesCS5A01G434800 chr5B 79.540 1173 197 17 974 2118 611323093 611324250 0.000000e+00 797.0
19 TraesCS5A01G434800 chr5B 88.518 479 19 17 2972 3442 610869588 610870038 6.490000e-152 547.0
20 TraesCS5A01G434800 chr5B 86.771 446 54 5 3 447 659589906 659589465 3.090000e-135 492.0
21 TraesCS5A01G434800 chr5B 78.701 770 132 16 973 1727 610880414 610881166 5.160000e-133 484.0
22 TraesCS5A01G434800 chr5B 91.519 283 19 3 2696 2974 610869196 610869477 5.390000e-103 385.0
23 TraesCS5A01G434800 chr7A 93.814 582 34 2 1 582 17691109 17691688 0.000000e+00 874.0
24 TraesCS5A01G434800 chr7A 85.959 584 53 12 1 582 506298895 506299451 6.360000e-167 597.0
25 TraesCS5A01G434800 chr1D 79.561 1140 192 23 1053 2157 491604201 491603068 0.000000e+00 776.0
26 TraesCS5A01G434800 chr1D 84.564 596 76 14 1 590 489970238 489969653 8.280000e-161 577.0
27 TraesCS5A01G434800 chr1D 81.742 597 82 14 12 587 452431405 452430815 1.120000e-129 473.0
28 TraesCS5A01G434800 chr1D 93.182 44 1 2 2151 2194 475815107 475815066 2.870000e-06 63.9
29 TraesCS5A01G434800 chr1A 83.333 762 117 6 1373 2125 589394163 589393403 0.000000e+00 695.0
30 TraesCS5A01G434800 chr1A 92.857 42 3 0 2148 2189 578522492 578522451 1.030000e-05 62.1
31 TraesCS5A01G434800 chr1A 89.362 47 3 2 2144 2189 549879773 549879818 1.330000e-04 58.4
32 TraesCS5A01G434800 chr3B 88.985 463 47 4 126 587 671434364 671434823 1.390000e-158 569.0
33 TraesCS5A01G434800 chr3B 86.609 463 56 6 127 587 671367373 671367831 1.100000e-139 507.0
34 TraesCS5A01G434800 chr3B 94.144 222 13 0 365 586 737468150 737468371 4.250000e-89 339.0
35 TraesCS5A01G434800 chr3B 94.118 221 13 0 365 585 737503690 737503910 1.530000e-88 337.0
36 TraesCS5A01G434800 chr2D 83.710 620 62 26 1 587 601036435 601037048 1.810000e-152 549.0
37 TraesCS5A01G434800 chr2D 95.455 44 2 0 2655 2698 1658029 1658072 1.710000e-08 71.3
38 TraesCS5A01G434800 chr2D 89.362 47 3 2 2144 2189 606263014 606263059 1.330000e-04 58.4
39 TraesCS5A01G434800 chr2D 89.362 47 3 2 2144 2189 606294605 606294650 1.330000e-04 58.4
40 TraesCS5A01G434800 chr7B 86.996 446 53 5 3 447 71341640 71342081 6.630000e-137 497.0
41 TraesCS5A01G434800 chr6B 91.111 45 2 2 2151 2194 469780405 469780448 3.710000e-05 60.2
42 TraesCS5A01G434800 chr3A 89.583 48 3 2 2144 2190 644342040 644341994 3.710000e-05 60.2
43 TraesCS5A01G434800 chr2A 89.583 48 3 2 2144 2190 740726336 740726290 3.710000e-05 60.2
44 TraesCS5A01G434800 chrUn 89.362 47 3 2 2144 2189 373803021 373803066 1.330000e-04 58.4
45 TraesCS5A01G434800 chr1B 94.595 37 2 0 2656 2692 138857988 138857952 1.330000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G434800 chr5A 618124882 618128323 3441 False 6357.000000 6357 100.000000 1 3442 1 chr5A.!!$F1 3441
1 TraesCS5A01G434800 chr5A 618270565 618271749 1184 False 894.000000 894 80.747000 984 2159 1 chr5A.!!$F3 1175
2 TraesCS5A01G434800 chr5A 618158763 618160179 1416 False 869.000000 869 78.282000 974 2392 1 chr5A.!!$F2 1418
3 TraesCS5A01G434800 chr5A 618602716 618603822 1106 False 830.000000 830 80.553000 974 2072 1 chr5A.!!$F5 1098
4 TraesCS5A01G434800 chr5A 618463738 618465138 1400 False 826.000000 826 77.848000 1012 2394 1 chr5A.!!$F4 1382
5 TraesCS5A01G434800 chr5D 494645524 494652897 7373 False 1553.666667 3177 86.095333 585 3442 3 chr5D.!!$F6 2857
6 TraesCS5A01G434800 chr5D 494773752 494774965 1213 False 915.000000 915 80.870000 984 2157 1 chr5D.!!$F4 1173
7 TraesCS5A01G434800 chr5D 494684358 494685958 1600 False 874.000000 874 77.401000 612 2159 1 chr5D.!!$F2 1547
8 TraesCS5A01G434800 chr5D 494761765 494762922 1157 False 841.000000 841 80.255000 974 2118 1 chr5D.!!$F3 1144
9 TraesCS5A01G434800 chr5D 494783309 494784393 1084 False 767.000000 767 79.762000 1064 2134 1 chr5D.!!$F5 1070
10 TraesCS5A01G434800 chr5D 494657316 494658531 1215 False 715.000000 715 78.059000 984 2156 1 chr5D.!!$F1 1172
11 TraesCS5A01G434800 chr5B 610867012 610870038 3026 False 1163.333333 2558 90.030667 607 3442 3 chr5B.!!$F6 2835
12 TraesCS5A01G434800 chr5B 610874070 610875476 1406 False 904.000000 904 78.700000 974 2392 1 chr5B.!!$F1 1418
13 TraesCS5A01G434800 chr5B 611077259 611078405 1146 False 885.000000 885 80.961000 984 2127 1 chr5B.!!$F4 1143
14 TraesCS5A01G434800 chr5B 610922720 610924132 1412 False 876.000000 876 78.527000 771 2159 1 chr5B.!!$F3 1388
15 TraesCS5A01G434800 chr5B 611323093 611324250 1157 False 797.000000 797 79.540000 974 2118 1 chr5B.!!$F5 1144
16 TraesCS5A01G434800 chr5B 610880414 610881166 752 False 484.000000 484 78.701000 973 1727 1 chr5B.!!$F2 754
17 TraesCS5A01G434800 chr7A 17691109 17691688 579 False 874.000000 874 93.814000 1 582 1 chr7A.!!$F1 581
18 TraesCS5A01G434800 chr7A 506298895 506299451 556 False 597.000000 597 85.959000 1 582 1 chr7A.!!$F2 581
19 TraesCS5A01G434800 chr1D 491603068 491604201 1133 True 776.000000 776 79.561000 1053 2157 1 chr1D.!!$R4 1104
20 TraesCS5A01G434800 chr1D 489969653 489970238 585 True 577.000000 577 84.564000 1 590 1 chr1D.!!$R3 589
21 TraesCS5A01G434800 chr1D 452430815 452431405 590 True 473.000000 473 81.742000 12 587 1 chr1D.!!$R1 575
22 TraesCS5A01G434800 chr1A 589393403 589394163 760 True 695.000000 695 83.333000 1373 2125 1 chr1A.!!$R2 752
23 TraesCS5A01G434800 chr2D 601036435 601037048 613 False 549.000000 549 83.710000 1 587 1 chr2D.!!$F2 586

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
244 287 0.395311 AGATCTTCCCGGCGTGTCTA 60.395 55.0 6.01 0.00 0.00 2.59 F
1056 1209 0.246635 CCGGATGTGACGAAAGGTCT 59.753 55.0 0.00 0.00 46.24 3.85 F
1786 2017 0.108186 TACAACATCGGCAGGCTGAG 60.108 55.0 20.86 11.47 34.49 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1447 1645 0.251341 AACCCTTGCTTCTTCGCCAT 60.251 50.0 0.00 0.0 0.00 4.40 R
2251 8130 0.179045 ATGGGCGGCTGTCTCAATAC 60.179 55.0 9.56 0.0 0.00 1.89 R
3407 9553 0.109039 GCAGAGAGGACGAACCAGTC 60.109 60.0 0.00 0.0 42.04 3.51 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
37 39 0.734253 CGCCTCACGTCTTCTTCCTG 60.734 60.000 0.00 0.00 36.87 3.86
132 175 1.133253 CATCTTCGCTGCGTGGTTG 59.867 57.895 22.48 15.44 0.00 3.77
164 207 0.970427 ATTTCGGGGGCGCTGATTTT 60.970 50.000 14.33 0.00 0.00 1.82
225 268 2.707849 GCTCGGGCTTCGGTAGTCA 61.708 63.158 0.00 0.00 39.77 3.41
244 287 0.395311 AGATCTTCCCGGCGTGTCTA 60.395 55.000 6.01 0.00 0.00 2.59
248 291 1.885163 CTTCCCGGCGTGTCTAAGGT 61.885 60.000 6.01 0.00 0.00 3.50
420 463 0.460722 TCGGAGTTGTCGGTTGTTCA 59.539 50.000 0.00 0.00 0.00 3.18
474 548 1.747745 GCCGGTGGTACCCATGTTC 60.748 63.158 10.07 0.00 35.28 3.18
516 591 1.900245 TTAGCCCGGTTTTCCTCAAC 58.100 50.000 0.00 0.00 37.95 3.18
859 959 1.972660 CTCCTCCAATCACCGTCCCC 61.973 65.000 0.00 0.00 0.00 4.81
948 1062 2.354773 CGGCGGCGAGGAGTAATC 60.355 66.667 29.19 0.00 0.00 1.75
1043 1184 1.789078 GCTGCCATTGTAGCCGGATG 61.789 60.000 5.05 0.00 43.62 3.51
1056 1209 0.246635 CCGGATGTGACGAAAGGTCT 59.753 55.000 0.00 0.00 46.24 3.85
1131 1287 4.358494 CGAATTCGTGACCTCTACTTCT 57.642 45.455 19.67 0.00 34.11 2.85
1132 1288 4.734917 CGAATTCGTGACCTCTACTTCTT 58.265 43.478 19.67 0.00 34.11 2.52
1216 1372 2.063266 TGCCGATTACGTCTGTGTTTC 58.937 47.619 0.00 0.00 37.88 2.78
1354 1528 1.237285 GGCGATTCACACTGGTGCTT 61.237 55.000 0.17 0.00 44.87 3.91
1368 1548 1.200948 GGTGCTTTGACATCAGGAAGC 59.799 52.381 10.18 10.18 43.54 3.86
1446 1644 1.757118 TCACCGTCATGAAGGAGATCC 59.243 52.381 31.07 0.02 33.97 3.36
1447 1645 1.482182 CACCGTCATGAAGGAGATCCA 59.518 52.381 31.07 0.00 38.89 3.41
1448 1646 2.103771 CACCGTCATGAAGGAGATCCAT 59.896 50.000 31.07 6.77 38.89 3.41
1449 1647 2.103771 ACCGTCATGAAGGAGATCCATG 59.896 50.000 31.07 4.65 39.08 3.66
1450 1648 2.549563 CCGTCATGAAGGAGATCCATGG 60.550 54.545 21.80 4.97 38.47 3.66
1451 1649 2.502295 GTCATGAAGGAGATCCATGGC 58.498 52.381 6.96 4.01 38.47 4.40
1584 1785 0.820891 CAGGTGTGTCCTTGCTGCTT 60.821 55.000 0.00 0.00 45.67 3.91
1588 1789 0.472044 TGTGTCCTTGCTGCTTGGTA 59.528 50.000 0.00 0.00 0.00 3.25
1646 1853 4.599047 GGAGAGTTCCTCTGGTCATATG 57.401 50.000 0.00 0.00 41.35 1.78
1786 2017 0.108186 TACAACATCGGCAGGCTGAG 60.108 55.000 20.86 11.47 34.49 3.35
1822 2053 6.901265 AGGAAAAATTGTGCAATAACATTGC 58.099 32.000 15.28 15.28 45.11 3.56
1943 7746 2.472059 GGCGATGATGGCAAGCGAA 61.472 57.895 0.41 0.00 34.07 4.70
2084 7897 8.642432 TGCCTATAGACCAGTTATCATATATGC 58.358 37.037 7.92 0.00 0.00 3.14
2089 7902 6.577103 AGACCAGTTATCATATATGCCATCG 58.423 40.000 7.92 0.00 0.00 3.84
2134 8013 3.307059 GCTACTTCTCCATGTGAGGTTGT 60.307 47.826 10.23 9.16 41.76 3.32
2164 8043 7.985634 TGTTTCAGAACAAAAATTGCTACTC 57.014 32.000 0.00 0.00 42.54 2.59
2165 8044 6.978080 TGTTTCAGAACAAAAATTGCTACTCC 59.022 34.615 0.00 0.00 42.54 3.85
2166 8045 5.705609 TCAGAACAAAAATTGCTACTCCC 57.294 39.130 0.00 0.00 0.00 4.30
2167 8046 5.385198 TCAGAACAAAAATTGCTACTCCCT 58.615 37.500 0.00 0.00 0.00 4.20
2168 8047 5.473504 TCAGAACAAAAATTGCTACTCCCTC 59.526 40.000 0.00 0.00 0.00 4.30
2169 8048 5.474876 CAGAACAAAAATTGCTACTCCCTCT 59.525 40.000 0.00 0.00 0.00 3.69
2170 8049 5.474876 AGAACAAAAATTGCTACTCCCTCTG 59.525 40.000 0.00 0.00 0.00 3.35
2172 8051 5.140454 ACAAAAATTGCTACTCCCTCTGTT 58.860 37.500 0.00 0.00 0.00 3.16
2179 8058 3.391296 TGCTACTCCCTCTGTTCACTTTT 59.609 43.478 0.00 0.00 0.00 2.27
2182 8061 6.439375 TGCTACTCCCTCTGTTCACTTTTATA 59.561 38.462 0.00 0.00 0.00 0.98
2183 8062 7.038587 TGCTACTCCCTCTGTTCACTTTTATAA 60.039 37.037 0.00 0.00 0.00 0.98
2184 8063 7.492994 GCTACTCCCTCTGTTCACTTTTATAAG 59.507 40.741 0.00 0.00 37.40 1.73
2185 8064 7.554959 ACTCCCTCTGTTCACTTTTATAAGA 57.445 36.000 0.00 0.00 35.30 2.10
2186 8065 7.387643 ACTCCCTCTGTTCACTTTTATAAGAC 58.612 38.462 0.00 0.00 35.30 3.01
2187 8066 6.395629 TCCCTCTGTTCACTTTTATAAGACG 58.604 40.000 0.00 0.00 35.30 4.18
2188 8067 6.014840 TCCCTCTGTTCACTTTTATAAGACGT 60.015 38.462 0.00 0.00 35.30 4.34
2189 8068 6.310711 CCCTCTGTTCACTTTTATAAGACGTC 59.689 42.308 7.70 7.70 35.30 4.34
2192 8071 8.882415 TCTGTTCACTTTTATAAGACGTCTTT 57.118 30.769 33.82 22.67 37.40 2.52
2205 8084 3.129638 AGACGTCTTTATCTGCTCAGGTC 59.870 47.826 13.58 0.00 0.00 3.85
2251 8130 8.390854 TCTCGCGAAATAAAAGAAAGTAGTAG 57.609 34.615 11.33 0.00 0.00 2.57
2382 8278 4.946157 AGAATTAGTGCATCCTTGTTCCAG 59.054 41.667 0.00 0.00 0.00 3.86
2394 8290 1.438651 TGTTCCAGTGCTCGCATAAC 58.561 50.000 0.00 0.00 0.00 1.89
2397 8293 0.894835 TCCAGTGCTCGCATAACTCA 59.105 50.000 0.00 0.00 0.00 3.41
2398 8294 1.002366 CCAGTGCTCGCATAACTCAC 58.998 55.000 0.00 0.00 0.00 3.51
2405 8301 3.871006 TGCTCGCATAACTCACCTAAATG 59.129 43.478 0.00 0.00 0.00 2.32
2421 8317 5.301805 ACCTAAATGTGGACTTGTTTTGGAG 59.698 40.000 0.00 0.00 32.97 3.86
2423 8319 5.930837 AAATGTGGACTTGTTTTGGAGAA 57.069 34.783 0.00 0.00 0.00 2.87
2442 8338 8.319057 TGGAGAATAGAAGCTTCATTACCTTA 57.681 34.615 27.57 10.20 0.00 2.69
2443 8339 8.768397 TGGAGAATAGAAGCTTCATTACCTTAA 58.232 33.333 27.57 12.35 0.00 1.85
2450 8346 4.639135 GCTTCATTACCTTAAGCTTGGG 57.361 45.455 9.86 13.53 41.85 4.12
2451 8347 3.181486 GCTTCATTACCTTAAGCTTGGGC 60.181 47.826 9.86 0.00 41.85 5.36
2452 8348 3.012934 TCATTACCTTAAGCTTGGGCC 57.987 47.619 9.86 0.00 39.73 5.80
2453 8349 2.031870 CATTACCTTAAGCTTGGGCCC 58.968 52.381 17.59 17.59 39.73 5.80
2456 8352 0.251787 ACCTTAAGCTTGGGCCCTTG 60.252 55.000 25.70 16.70 39.73 3.61
2465 8361 3.305516 GGGCCCTTGCACCAACTG 61.306 66.667 17.04 0.00 40.13 3.16
2484 8380 1.372087 GAAGCCGTTGCAGATGAGGG 61.372 60.000 0.00 0.00 41.13 4.30
2485 8381 1.841302 AAGCCGTTGCAGATGAGGGA 61.841 55.000 0.00 0.00 41.13 4.20
2488 8384 1.817099 CGTTGCAGATGAGGGAGGC 60.817 63.158 0.00 0.00 0.00 4.70
2490 8386 0.833287 GTTGCAGATGAGGGAGGCTA 59.167 55.000 0.00 0.00 0.00 3.93
2491 8387 0.833287 TTGCAGATGAGGGAGGCTAC 59.167 55.000 0.00 0.00 0.00 3.58
2492 8388 1.050988 TGCAGATGAGGGAGGCTACC 61.051 60.000 8.05 8.05 0.00 3.18
2493 8389 1.050988 GCAGATGAGGGAGGCTACCA 61.051 60.000 20.33 0.00 0.00 3.25
2515 8415 4.392921 ACCGGTAGAATCAGTCAATCAG 57.607 45.455 4.49 0.00 0.00 2.90
2518 8418 4.038361 CGGTAGAATCAGTCAATCAGTCG 58.962 47.826 0.00 0.00 0.00 4.18
2533 8433 3.067106 TCAGTCGAAAATGACAAGAGCC 58.933 45.455 0.00 0.00 41.41 4.70
2540 8440 1.645034 AATGACAAGAGCCGATGACG 58.355 50.000 0.00 0.00 39.43 4.35
2553 8454 1.137086 CGATGACGGTGGATTTCCTCT 59.863 52.381 0.00 0.00 34.75 3.69
2565 8466 1.048601 TTTCCTCTCGGTTGCTCTGT 58.951 50.000 0.00 0.00 0.00 3.41
2573 8474 1.871039 TCGGTTGCTCTGTTTTGTAGC 59.129 47.619 0.00 0.00 36.77 3.58
2574 8475 1.398451 CGGTTGCTCTGTTTTGTAGCG 60.398 52.381 0.00 0.00 39.14 4.26
2575 8476 1.871039 GGTTGCTCTGTTTTGTAGCGA 59.129 47.619 0.00 0.00 39.14 4.93
2618 8645 1.545136 TGTGCCGTCCTTAATACGTCA 59.455 47.619 0.00 1.07 38.67 4.35
2622 8649 3.065786 TGCCGTCCTTAATACGTCACTAG 59.934 47.826 0.00 0.00 38.67 2.57
2641 8668 7.273815 GTCACTAGTAGATGCTTGTGTTACTTC 59.726 40.741 3.59 0.00 40.97 3.01
2643 8670 3.927142 AGTAGATGCTTGTGTTACTTCGC 59.073 43.478 0.00 0.00 0.00 4.70
2650 8677 2.588027 TGTGTTACTTCGCTGTGTCA 57.412 45.000 0.00 0.00 0.00 3.58
2657 8684 6.364165 GTGTTACTTCGCTGTGTCAGTTATTA 59.636 38.462 2.10 0.00 33.43 0.98
2662 8689 5.632244 TCGCTGTGTCAGTTATTAGTACA 57.368 39.130 0.00 0.00 33.43 2.90
2663 8690 6.016213 TCGCTGTGTCAGTTATTAGTACAA 57.984 37.500 0.00 0.00 33.43 2.41
2665 8692 6.584942 TCGCTGTGTCAGTTATTAGTACAAAG 59.415 38.462 0.00 0.00 33.43 2.77
2666 8693 6.365247 CGCTGTGTCAGTTATTAGTACAAAGT 59.635 38.462 0.00 0.00 33.43 2.66
2668 8695 9.199982 GCTGTGTCAGTTATTAGTACAAAGTTA 57.800 33.333 0.00 0.00 33.43 2.24
2670 8697 9.701098 TGTGTCAGTTATTAGTACAAAGTTAGG 57.299 33.333 0.00 0.00 0.00 2.69
2671 8698 9.702494 GTGTCAGTTATTAGTACAAAGTTAGGT 57.298 33.333 0.00 0.00 0.00 3.08
2672 8699 9.918630 TGTCAGTTATTAGTACAAAGTTAGGTC 57.081 33.333 0.00 0.00 0.00 3.85
2673 8700 9.918630 GTCAGTTATTAGTACAAAGTTAGGTCA 57.081 33.333 0.00 0.00 0.00 4.02
2688 8715 9.471084 AAAGTTAGGTCATTTATTTTGAAACGG 57.529 29.630 0.00 0.00 0.00 4.44
2689 8716 8.398878 AGTTAGGTCATTTATTTTGAAACGGA 57.601 30.769 0.00 0.00 0.00 4.69
2690 8717 8.512138 AGTTAGGTCATTTATTTTGAAACGGAG 58.488 33.333 0.00 0.00 0.00 4.63
2691 8718 6.267496 AGGTCATTTATTTTGAAACGGAGG 57.733 37.500 0.00 0.00 0.00 4.30
2692 8719 5.773176 AGGTCATTTATTTTGAAACGGAGGT 59.227 36.000 0.00 0.00 0.00 3.85
2693 8720 6.943718 AGGTCATTTATTTTGAAACGGAGGTA 59.056 34.615 0.00 0.00 0.00 3.08
2694 8721 7.120726 AGGTCATTTATTTTGAAACGGAGGTAG 59.879 37.037 0.00 0.00 0.00 3.18
2721 8748 2.228925 TGCACTGCAAGCTGAATGTAA 58.771 42.857 0.00 0.00 37.60 2.41
2723 8750 3.067883 TGCACTGCAAGCTGAATGTAAAA 59.932 39.130 0.00 0.00 37.60 1.52
2746 8773 1.205657 GTATGCCGTGTATGTGGACG 58.794 55.000 0.00 0.00 35.31 4.79
2756 8783 3.994392 GTGTATGTGGACGTTGTGATCTT 59.006 43.478 0.00 0.00 0.00 2.40
2758 8785 1.225855 TGTGGACGTTGTGATCTTGC 58.774 50.000 0.00 0.00 0.00 4.01
2772 8802 5.107104 TGTGATCTTGCGTTGTAATTCAGTC 60.107 40.000 0.00 0.00 0.00 3.51
2779 8809 4.752604 TGCGTTGTAATTCAGTCTAAAGCA 59.247 37.500 0.00 0.00 31.97 3.91
2813 8843 9.777297 AAAGAAATAAAAAGGTGTGCATGTAAT 57.223 25.926 0.00 0.00 0.00 1.89
2815 8845 8.034804 AGAAATAAAAAGGTGTGCATGTAATCC 58.965 33.333 0.00 0.00 0.00 3.01
2871 8901 0.729116 GTTGTGATGGATGGAGCGTG 59.271 55.000 0.00 0.00 0.00 5.34
2872 8902 0.392863 TTGTGATGGATGGAGCGTGG 60.393 55.000 0.00 0.00 0.00 4.94
2875 8905 1.224592 GATGGATGGAGCGTGGGTT 59.775 57.895 0.00 0.00 0.00 4.11
2886 8916 3.547413 GGAGCGTGGGTTTATTATTTCGC 60.547 47.826 0.00 0.00 42.15 4.70
2887 8917 3.011119 AGCGTGGGTTTATTATTTCGCA 58.989 40.909 8.73 0.00 43.82 5.10
2918 8949 1.970114 GGCAGTGCATCTGTGTGCT 60.970 57.895 18.61 0.00 45.27 4.40
2937 8968 3.441222 TGCTTGTTATGCTGTTGAGGATG 59.559 43.478 0.00 0.00 31.65 3.51
2942 8973 1.742761 ATGCTGTTGAGGATGGTTCG 58.257 50.000 0.00 0.00 0.00 3.95
2970 9001 5.528320 TCAGTTTTCGAAAAGACGGGTTTAT 59.472 36.000 23.08 0.00 0.00 1.40
3031 9175 1.135315 CGCACATTTTCTGGTCCATGG 60.135 52.381 4.97 4.97 0.00 3.66
3051 9195 2.564504 GGAAACCAACCTCGTACTACCT 59.435 50.000 0.00 0.00 0.00 3.08
3054 9198 2.165998 ACCAACCTCGTACTACCTGTC 58.834 52.381 0.00 0.00 0.00 3.51
3058 9202 4.260170 CAACCTCGTACTACCTGTCTAGT 58.740 47.826 0.00 0.00 0.00 2.57
3059 9203 4.566426 ACCTCGTACTACCTGTCTAGTT 57.434 45.455 0.00 0.00 0.00 2.24
3089 9233 4.979943 TTGTTGCAGATCTTGTTCACAA 57.020 36.364 0.00 0.00 0.00 3.33
3098 9242 2.821546 TCTTGTTCACAACAGAGTCGG 58.178 47.619 0.00 0.00 43.27 4.79
3106 9250 1.270305 ACAACAGAGTCGGTGGATGTG 60.270 52.381 4.66 0.00 0.00 3.21
3117 9261 1.072331 GGTGGATGTGTGTTGTCTCCT 59.928 52.381 0.00 0.00 0.00 3.69
3123 9267 2.980568 TGTGTGTTGTCTCCTCGTTTT 58.019 42.857 0.00 0.00 0.00 2.43
3128 9272 4.456222 TGTGTTGTCTCCTCGTTTTGAAAA 59.544 37.500 0.00 0.00 0.00 2.29
3154 9298 1.081442 GCACCAGCGCAAGTAAACC 60.081 57.895 11.47 0.00 41.68 3.27
3164 9308 5.739161 CAGCGCAAGTAAACCTTTTCATATC 59.261 40.000 11.47 0.00 41.68 1.63
3165 9309 5.034797 GCGCAAGTAAACCTTTTCATATCC 58.965 41.667 0.30 0.00 41.68 2.59
3166 9310 5.392595 GCGCAAGTAAACCTTTTCATATCCA 60.393 40.000 0.30 0.00 41.68 3.41
3167 9311 6.680378 GCGCAAGTAAACCTTTTCATATCCAT 60.680 38.462 0.30 0.00 41.68 3.41
3168 9312 7.468084 GCGCAAGTAAACCTTTTCATATCCATA 60.468 37.037 0.30 0.00 41.68 2.74
3169 9313 8.567948 CGCAAGTAAACCTTTTCATATCCATAT 58.432 33.333 0.00 0.00 0.00 1.78
3173 9317 9.420118 AGTAAACCTTTTCATATCCATATGCAA 57.580 29.630 0.00 0.00 39.90 4.08
3230 9374 2.607750 TGCTCCTCCCGCCTTCTT 60.608 61.111 0.00 0.00 0.00 2.52
3245 9389 4.154375 CGCCTTCTTTTTCTTCTTACTCCC 59.846 45.833 0.00 0.00 0.00 4.30
3250 9394 3.412237 TTTTCTTCTTACTCCCACCCG 57.588 47.619 0.00 0.00 0.00 5.28
3274 9420 3.897122 GCAACCCCACCTCCACCA 61.897 66.667 0.00 0.00 0.00 4.17
3323 9469 0.608640 GCTGAACCTCCCTTCTTCGA 59.391 55.000 0.00 0.00 0.00 3.71
3350 9496 1.959899 GATCGCACTTGCACCGTCAG 61.960 60.000 1.48 0.00 42.21 3.51
3356 9502 3.241530 TTGCACCGTCAGCCCTCT 61.242 61.111 0.00 0.00 0.00 3.69
3357 9503 2.738213 CTTGCACCGTCAGCCCTCTT 62.738 60.000 0.00 0.00 0.00 2.85
3358 9504 1.476845 TTGCACCGTCAGCCCTCTTA 61.477 55.000 0.00 0.00 0.00 2.10
3359 9505 1.448013 GCACCGTCAGCCCTCTTAC 60.448 63.158 0.00 0.00 0.00 2.34
3360 9506 1.889530 GCACCGTCAGCCCTCTTACT 61.890 60.000 0.00 0.00 0.00 2.24
3361 9507 0.173708 CACCGTCAGCCCTCTTACTC 59.826 60.000 0.00 0.00 0.00 2.59
3362 9508 1.313812 ACCGTCAGCCCTCTTACTCG 61.314 60.000 0.00 0.00 0.00 4.18
3363 9509 1.226717 CGTCAGCCCTCTTACTCGC 60.227 63.158 0.00 0.00 0.00 5.03
3364 9510 1.226717 GTCAGCCCTCTTACTCGCG 60.227 63.158 0.00 0.00 0.00 5.87
3365 9511 1.677966 TCAGCCCTCTTACTCGCGT 60.678 57.895 5.77 0.00 0.00 6.01
3366 9512 1.226717 CAGCCCTCTTACTCGCGTC 60.227 63.158 5.77 0.00 0.00 5.19
3367 9513 2.104530 GCCCTCTTACTCGCGTCC 59.895 66.667 5.77 0.00 0.00 4.79
3368 9514 2.408022 CCCTCTTACTCGCGTCCG 59.592 66.667 5.77 0.00 0.00 4.79
3369 9515 2.278013 CCTCTTACTCGCGTCCGC 60.278 66.667 5.77 0.68 37.85 5.54
3370 9516 2.278013 CTCTTACTCGCGTCCGCC 60.278 66.667 5.77 0.00 37.98 6.13
3371 9517 4.170062 TCTTACTCGCGTCCGCCG 62.170 66.667 5.77 1.85 37.98 6.46
3380 9526 3.110178 CGTCCGCCGGTCTGTTTC 61.110 66.667 1.63 0.00 0.00 2.78
3405 9551 3.379445 TTCCCGGCTCGTCCTCAC 61.379 66.667 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 39 2.514824 GAGACGATGCCCCCAAGC 60.515 66.667 0.00 0.00 0.00 4.01
145 188 0.970427 AAAATCAGCGCCCCCGAAAT 60.970 50.000 2.29 0.00 36.29 2.17
164 207 2.350293 CGTCATCATCGTTGCCAAACAA 60.350 45.455 0.00 0.00 35.94 2.83
225 268 0.395311 TAGACACGCCGGGAAGATCT 60.395 55.000 2.18 0.00 0.00 2.75
244 287 2.092429 TGACCAACAGAAGAGCAACCTT 60.092 45.455 0.00 0.00 0.00 3.50
248 291 2.170397 TCAGTGACCAACAGAAGAGCAA 59.830 45.455 0.00 0.00 0.00 3.91
279 322 0.541063 TCCACCACAGCTCCGACTTA 60.541 55.000 0.00 0.00 0.00 2.24
292 335 2.997315 CCTGGACTCGCTCCACCA 60.997 66.667 0.00 0.00 44.99 4.17
363 406 1.334869 GCAAGGGAAATATGCAGGACG 59.665 52.381 0.00 0.00 39.81 4.79
420 463 3.825160 AACAGATGGCCACACGCGT 62.825 57.895 8.16 5.58 38.94 6.01
474 548 5.467035 AACCAATACAATTCAACCCACAG 57.533 39.130 0.00 0.00 0.00 3.66
485 559 3.703921 ACCGGGCTAAAACCAATACAAT 58.296 40.909 6.32 0.00 0.00 2.71
516 591 0.608640 AGTGAGAGTTGCCCGGTTAG 59.391 55.000 0.00 0.00 0.00 2.34
590 666 3.973973 TGGGAAGGGATCATCGTATCTTT 59.026 43.478 0.00 0.00 0.00 2.52
664 740 1.073923 AGCCACGGTGAGAAAAAGGAT 59.926 47.619 10.28 0.00 0.00 3.24
699 776 1.206115 GGCACGTTTGGTTTTCTGCG 61.206 55.000 0.00 0.00 0.00 5.18
839 939 1.153349 GGACGGTGATTGGAGGAGC 60.153 63.158 0.00 0.00 0.00 4.70
859 959 1.090052 GTGCGGGGAAGAAGAATCCG 61.090 60.000 0.00 0.00 43.13 4.18
862 962 1.303282 GGGTGCGGGGAAGAAGAAT 59.697 57.895 0.00 0.00 0.00 2.40
908 1022 2.719739 CAGTGGTCTCATTGGAAGCAT 58.280 47.619 0.00 0.00 0.00 3.79
916 1030 2.671070 CCGCCCAGTGGTCTCATT 59.329 61.111 8.74 0.00 0.00 2.57
941 1055 8.133754 ACTGCGTCTATCTATATCGATTACTC 57.866 38.462 1.71 0.00 0.00 2.59
979 1093 4.660938 GGAGGTGGGCTTGGCGTT 62.661 66.667 0.00 0.00 0.00 4.84
1043 1184 1.003866 GCACACAAGACCTTTCGTCAC 60.004 52.381 0.00 0.00 44.66 3.67
1056 1209 2.637382 TCCATCTACCTTGAGCACACAA 59.363 45.455 0.00 0.00 0.00 3.33
1132 1288 2.359169 TGGCCGCCAACACCAAAAA 61.359 52.632 10.50 0.00 0.00 1.94
1216 1372 3.632604 TCCGGCAGATTCTAGAAGTACAG 59.367 47.826 11.53 3.74 0.00 2.74
1354 1528 4.384537 CCAGATAAGGCTTCCTGATGTCAA 60.385 45.833 23.13 0.00 32.13 3.18
1368 1548 2.175202 CTCCGATCCCTCCAGATAAGG 58.825 57.143 0.00 0.00 0.00 2.69
1446 1644 0.962356 ACCCTTGCTTCTTCGCCATG 60.962 55.000 0.00 0.00 0.00 3.66
1447 1645 0.251341 AACCCTTGCTTCTTCGCCAT 60.251 50.000 0.00 0.00 0.00 4.40
1448 1646 0.889186 GAACCCTTGCTTCTTCGCCA 60.889 55.000 0.00 0.00 0.00 5.69
1449 1647 1.587043 GGAACCCTTGCTTCTTCGCC 61.587 60.000 0.00 0.00 0.00 5.54
1450 1648 0.606673 AGGAACCCTTGCTTCTTCGC 60.607 55.000 0.00 0.00 0.00 4.70
1451 1649 1.443802 GAGGAACCCTTGCTTCTTCG 58.556 55.000 0.00 0.00 31.76 3.79
1484 1685 1.153369 TAGGTCGCCAAGATGCTGC 60.153 57.895 0.00 0.00 0.00 5.25
1584 1785 1.623811 GGCCTTGAAGACTGACTACCA 59.376 52.381 0.00 0.00 0.00 3.25
1588 1789 0.605589 CTCGGCCTTGAAGACTGACT 59.394 55.000 0.00 0.00 0.00 3.41
1646 1853 3.128242 CAGCTTCCATGTCACAGATTTCC 59.872 47.826 0.00 0.00 0.00 3.13
1786 2017 4.219288 ACAATTTTTCCTCACAGATCTGCC 59.781 41.667 22.83 0.00 0.00 4.85
1867 2098 6.684686 CAAGCTTCTTTGAGATCATGGAAAA 58.315 36.000 0.00 0.00 0.00 2.29
1943 7746 3.776969 TGGACTTGAGATGCTCATAACCT 59.223 43.478 0.00 0.00 40.39 3.50
2084 7897 8.888579 AACCATTACTACTAAAATCTCGATGG 57.111 34.615 0.00 0.00 37.07 3.51
2134 8013 6.675002 GCAATTTTTGTTCTGAAACATGCACA 60.675 34.615 0.00 0.00 44.59 4.57
2164 8043 6.164176 ACGTCTTATAAAAGTGAACAGAGGG 58.836 40.000 0.00 0.00 34.13 4.30
2165 8044 7.091443 AGACGTCTTATAAAAGTGAACAGAGG 58.909 38.462 13.58 0.00 34.13 3.69
2166 8045 8.522178 AAGACGTCTTATAAAAGTGAACAGAG 57.478 34.615 28.80 0.00 33.79 3.35
2167 8046 8.882415 AAAGACGTCTTATAAAAGTGAACAGA 57.118 30.769 29.91 0.00 34.61 3.41
2172 8051 9.084164 GCAGATAAAGACGTCTTATAAAAGTGA 57.916 33.333 29.91 8.37 34.61 3.41
2179 8058 6.546403 ACCTGAGCAGATAAAGACGTCTTATA 59.454 38.462 29.91 22.17 34.61 0.98
2182 8061 3.511934 ACCTGAGCAGATAAAGACGTCTT 59.488 43.478 24.93 24.93 37.91 3.01
2183 8062 3.093057 ACCTGAGCAGATAAAGACGTCT 58.907 45.455 13.58 13.58 0.00 4.18
2184 8063 3.119459 TGACCTGAGCAGATAAAGACGTC 60.119 47.826 7.70 7.70 0.00 4.34
2185 8064 2.826128 TGACCTGAGCAGATAAAGACGT 59.174 45.455 0.00 0.00 0.00 4.34
2186 8065 3.119316 ACTGACCTGAGCAGATAAAGACG 60.119 47.826 0.00 0.00 36.86 4.18
2187 8066 4.464069 ACTGACCTGAGCAGATAAAGAC 57.536 45.455 0.00 0.00 36.86 3.01
2188 8067 6.605471 TTTACTGACCTGAGCAGATAAAGA 57.395 37.500 0.00 0.00 36.86 2.52
2189 8068 6.259608 CCATTTACTGACCTGAGCAGATAAAG 59.740 42.308 0.00 0.00 36.86 1.85
2192 8071 4.716784 ACCATTTACTGACCTGAGCAGATA 59.283 41.667 0.00 0.00 36.86 1.98
2197 8076 6.759497 AAATAACCATTTACTGACCTGAGC 57.241 37.500 0.00 0.00 32.46 4.26
2205 8084 7.484959 GCGAGAAAGGAAAATAACCATTTACTG 59.515 37.037 0.00 0.00 33.09 2.74
2251 8130 0.179045 ATGGGCGGCTGTCTCAATAC 60.179 55.000 9.56 0.00 0.00 1.89
2382 8278 2.579207 TAGGTGAGTTATGCGAGCAC 57.421 50.000 0.00 0.00 0.00 4.40
2394 8290 6.208644 CAAAACAAGTCCACATTTAGGTGAG 58.791 40.000 0.00 0.00 41.32 3.51
2397 8293 5.205056 TCCAAAACAAGTCCACATTTAGGT 58.795 37.500 0.00 0.00 0.00 3.08
2398 8294 5.534654 TCTCCAAAACAAGTCCACATTTAGG 59.465 40.000 0.00 0.00 0.00 2.69
2405 8301 6.568653 GCTTCTATTCTCCAAAACAAGTCCAC 60.569 42.308 0.00 0.00 0.00 4.02
2442 8338 2.919328 GTGCAAGGGCCCAAGCTT 60.919 61.111 30.93 13.50 40.13 3.74
2446 8342 2.841988 GTTGGTGCAAGGGCCCAA 60.842 61.111 27.56 4.03 43.51 4.12
2448 8344 3.305516 CAGTTGGTGCAAGGGCCC 61.306 66.667 16.46 16.46 40.13 5.80
2449 8345 1.809567 CTTCAGTTGGTGCAAGGGCC 61.810 60.000 0.00 0.00 40.13 5.80
2450 8346 1.662044 CTTCAGTTGGTGCAAGGGC 59.338 57.895 0.00 0.00 41.68 5.19
2451 8347 1.662044 GCTTCAGTTGGTGCAAGGG 59.338 57.895 0.00 0.00 0.00 3.95
2452 8348 1.662044 GGCTTCAGTTGGTGCAAGG 59.338 57.895 0.00 0.00 0.00 3.61
2453 8349 1.283793 CGGCTTCAGTTGGTGCAAG 59.716 57.895 0.00 0.00 0.00 4.01
2456 8352 1.008538 CAACGGCTTCAGTTGGTGC 60.009 57.895 1.53 0.00 43.64 5.01
2465 8361 1.372087 CCCTCATCTGCAACGGCTTC 61.372 60.000 0.00 0.00 41.91 3.86
2491 8387 3.328382 TTGACTGATTCTACCGGTTGG 57.672 47.619 15.04 6.67 42.84 3.77
2492 8388 4.503910 TGATTGACTGATTCTACCGGTTG 58.496 43.478 15.04 12.18 0.00 3.77
2493 8389 4.223032 ACTGATTGACTGATTCTACCGGTT 59.777 41.667 15.04 0.00 0.00 4.44
2515 8415 2.066262 TCGGCTCTTGTCATTTTCGAC 58.934 47.619 0.00 0.00 36.40 4.20
2518 8418 3.484229 CGTCATCGGCTCTTGTCATTTTC 60.484 47.826 0.00 0.00 0.00 2.29
2533 8433 1.137086 AGAGGAAATCCACCGTCATCG 59.863 52.381 1.67 0.00 38.89 3.84
2553 8454 1.871039 GCTACAAAACAGAGCAACCGA 59.129 47.619 0.00 0.00 36.20 4.69
2573 8474 6.202188 ACAAAACCTACAATTGTAGTCAGTCG 59.798 38.462 33.15 22.89 44.88 4.18
2574 8475 7.012044 ACACAAAACCTACAATTGTAGTCAGTC 59.988 37.037 33.15 0.00 44.88 3.51
2575 8476 6.826741 ACACAAAACCTACAATTGTAGTCAGT 59.173 34.615 33.15 24.53 44.88 3.41
2595 8622 2.288948 ACGTATTAAGGACGGCACACAA 60.289 45.455 14.93 0.00 44.58 3.33
2597 8624 2.000429 ACGTATTAAGGACGGCACAC 58.000 50.000 14.93 0.00 44.58 3.82
2602 8629 4.889832 ACTAGTGACGTATTAAGGACGG 57.110 45.455 14.93 1.82 44.58 4.79
2618 8645 6.323266 CGAAGTAACACAAGCATCTACTAGT 58.677 40.000 0.00 0.00 0.00 2.57
2622 8649 3.927142 AGCGAAGTAACACAAGCATCTAC 59.073 43.478 0.00 0.00 0.00 2.59
2641 8668 6.365247 ACTTTGTACTAATAACTGACACAGCG 59.635 38.462 0.00 0.00 34.37 5.18
2662 8689 9.471084 CCGTTTCAAAATAAATGACCTAACTTT 57.529 29.630 0.00 0.00 0.00 2.66
2663 8690 8.852135 TCCGTTTCAAAATAAATGACCTAACTT 58.148 29.630 0.00 0.00 0.00 2.66
2665 8692 7.753580 CCTCCGTTTCAAAATAAATGACCTAAC 59.246 37.037 0.00 0.00 0.00 2.34
2666 8693 7.449086 ACCTCCGTTTCAAAATAAATGACCTAA 59.551 33.333 0.00 0.00 0.00 2.69
2668 8695 5.773176 ACCTCCGTTTCAAAATAAATGACCT 59.227 36.000 0.00 0.00 0.00 3.85
2669 8696 6.020971 ACCTCCGTTTCAAAATAAATGACC 57.979 37.500 0.00 0.00 0.00 4.02
2670 8697 7.813645 ACTACCTCCGTTTCAAAATAAATGAC 58.186 34.615 0.00 0.00 0.00 3.06
2671 8698 7.989416 ACTACCTCCGTTTCAAAATAAATGA 57.011 32.000 0.00 0.00 0.00 2.57
2672 8699 8.943002 AGTACTACCTCCGTTTCAAAATAAATG 58.057 33.333 0.00 0.00 0.00 2.32
2673 8700 9.511272 AAGTACTACCTCCGTTTCAAAATAAAT 57.489 29.630 0.00 0.00 0.00 1.40
2674 8701 8.907222 AAGTACTACCTCCGTTTCAAAATAAA 57.093 30.769 0.00 0.00 0.00 1.40
2675 8702 8.907222 AAAGTACTACCTCCGTTTCAAAATAA 57.093 30.769 0.00 0.00 0.00 1.40
2676 8703 8.776470 CAAAAGTACTACCTCCGTTTCAAAATA 58.224 33.333 0.00 0.00 0.00 1.40
2677 8704 7.645402 CAAAAGTACTACCTCCGTTTCAAAAT 58.355 34.615 0.00 0.00 0.00 1.82
2678 8705 6.458615 GCAAAAGTACTACCTCCGTTTCAAAA 60.459 38.462 0.00 0.00 0.00 2.44
2679 8706 5.007921 GCAAAAGTACTACCTCCGTTTCAAA 59.992 40.000 0.00 0.00 0.00 2.69
2680 8707 4.512571 GCAAAAGTACTACCTCCGTTTCAA 59.487 41.667 0.00 0.00 0.00 2.69
2681 8708 4.060205 GCAAAAGTACTACCTCCGTTTCA 58.940 43.478 0.00 0.00 0.00 2.69
2682 8709 4.060205 TGCAAAAGTACTACCTCCGTTTC 58.940 43.478 0.00 0.00 0.00 2.78
2683 8710 3.811497 GTGCAAAAGTACTACCTCCGTTT 59.189 43.478 0.00 0.00 0.00 3.60
2684 8711 3.070590 AGTGCAAAAGTACTACCTCCGTT 59.929 43.478 0.00 0.00 0.00 4.44
2685 8712 2.631545 AGTGCAAAAGTACTACCTCCGT 59.368 45.455 0.00 0.00 0.00 4.69
2686 8713 2.993899 CAGTGCAAAAGTACTACCTCCG 59.006 50.000 0.00 0.00 0.00 4.63
2687 8714 2.742589 GCAGTGCAAAAGTACTACCTCC 59.257 50.000 11.09 0.00 0.00 4.30
2688 8715 3.399330 TGCAGTGCAAAAGTACTACCTC 58.601 45.455 17.26 0.00 34.76 3.85
2689 8716 3.485463 TGCAGTGCAAAAGTACTACCT 57.515 42.857 17.26 0.00 34.76 3.08
2711 8738 6.578545 CACGGCATACATATTTTACATTCAGC 59.421 38.462 0.00 0.00 0.00 4.26
2721 8748 5.468746 GTCCACATACACGGCATACATATTT 59.531 40.000 0.00 0.00 0.00 1.40
2723 8750 4.566004 GTCCACATACACGGCATACATAT 58.434 43.478 0.00 0.00 0.00 1.78
2746 8773 5.448438 TGAATTACAACGCAAGATCACAAC 58.552 37.500 0.00 0.00 43.62 3.32
2756 8783 4.752604 TGCTTTAGACTGAATTACAACGCA 59.247 37.500 0.00 0.00 0.00 5.24
2758 8785 6.467723 AGTGCTTTAGACTGAATTACAACG 57.532 37.500 0.00 0.00 0.00 4.10
2779 8809 9.313118 CACACCTTTTTATTTCTTTTGCTTAGT 57.687 29.630 0.00 0.00 0.00 2.24
2813 8843 7.114754 AGATATTTTCAGTCAATGCTTGAGGA 58.885 34.615 0.00 0.00 41.01 3.71
2815 8845 8.675504 AGAAGATATTTTCAGTCAATGCTTGAG 58.324 33.333 8.56 0.00 41.01 3.02
2837 8867 7.492524 TCCATCACAACTATAGCTAACAGAAG 58.507 38.462 11.57 6.66 0.00 2.85
2871 8901 8.760569 CAATAACCATTGCGAAATAATAAACCC 58.239 33.333 0.00 0.00 35.44 4.11
2886 8916 2.883574 CACTGCCAGCAATAACCATTG 58.116 47.619 0.00 0.00 43.79 2.82
2887 8917 1.205417 GCACTGCCAGCAATAACCATT 59.795 47.619 0.00 0.00 0.00 3.16
2918 8949 4.032960 ACCATCCTCAACAGCATAACAA 57.967 40.909 0.00 0.00 0.00 2.83
2937 8968 2.144482 TCGAAAACTGAGTCCGAACC 57.856 50.000 2.98 0.00 0.00 3.62
2942 8973 3.059800 CCGTCTTTTCGAAAACTGAGTCC 60.060 47.826 19.08 4.52 0.00 3.85
3031 9175 3.006217 ACAGGTAGTACGAGGTTGGTTTC 59.994 47.826 0.00 0.00 0.00 2.78
3051 9195 7.066887 TCTGCAACAAAGAATCAAAACTAGACA 59.933 33.333 0.00 0.00 0.00 3.41
3054 9198 8.295288 AGATCTGCAACAAAGAATCAAAACTAG 58.705 33.333 0.00 0.00 0.00 2.57
3058 9202 7.267128 ACAAGATCTGCAACAAAGAATCAAAA 58.733 30.769 0.00 0.00 0.00 2.44
3059 9203 6.808829 ACAAGATCTGCAACAAAGAATCAAA 58.191 32.000 0.00 0.00 0.00 2.69
3089 9233 0.318441 CACACATCCACCGACTCTGT 59.682 55.000 0.00 0.00 0.00 3.41
3098 9242 2.417719 GAGGAGACAACACACATCCAC 58.582 52.381 0.00 0.00 32.21 4.02
3106 9250 4.609691 TTTCAAAACGAGGAGACAACAC 57.390 40.909 0.00 0.00 0.00 3.32
3184 9328 6.862209 ACTGAATGAAACTGTAAAAAGTGCA 58.138 32.000 0.00 0.00 0.00 4.57
3230 9374 2.551504 GCGGGTGGGAGTAAGAAGAAAA 60.552 50.000 0.00 0.00 0.00 2.29
3245 9389 3.499737 GGTTGCTGATCGCGGGTG 61.500 66.667 6.13 0.00 43.27 4.61
3250 9394 3.134127 GGTGGGGTTGCTGATCGC 61.134 66.667 3.07 3.07 39.77 4.58
3299 9445 2.523453 GAAGGGAGGTTCAGCGGGAC 62.523 65.000 0.00 0.00 0.00 4.46
3304 9450 0.608640 TCGAAGAAGGGAGGTTCAGC 59.391 55.000 0.00 0.00 0.00 4.26
3323 9469 4.838152 AAGTGCGATCGCCGGCAT 62.838 61.111 35.12 18.88 41.09 4.40
3363 9509 3.110178 GAAACAGACCGGCGGACG 61.110 66.667 35.78 23.39 43.80 4.79
3364 9510 2.741211 GGAAACAGACCGGCGGAC 60.741 66.667 35.78 27.85 0.00 4.79
3365 9511 4.367023 CGGAAACAGACCGGCGGA 62.367 66.667 35.78 0.00 45.65 5.54
3371 9517 1.871676 GGAACAAGACGGAAACAGACC 59.128 52.381 0.00 0.00 0.00 3.85
3372 9518 1.871676 GGGAACAAGACGGAAACAGAC 59.128 52.381 0.00 0.00 0.00 3.51
3373 9519 1.539496 CGGGAACAAGACGGAAACAGA 60.539 52.381 0.00 0.00 0.00 3.41
3374 9520 0.865769 CGGGAACAAGACGGAAACAG 59.134 55.000 0.00 0.00 0.00 3.16
3375 9521 2.994990 CGGGAACAAGACGGAAACA 58.005 52.632 0.00 0.00 0.00 2.83
3407 9553 0.109039 GCAGAGAGGACGAACCAGTC 60.109 60.000 0.00 0.00 42.04 3.51


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

AutoCloner maintained by Alex Coulton.