Multiple sequence alignment - TraesCS4A01G424900

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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 TraesCS4A01G424900 chr4A 100.000 5848 0 0 1 5848 695999979 696005826 0.000000e+00 10800.0
1 TraesCS4A01G424900 chr4A 83.784 74 7 5 288 357 200090365 200090437 1.360000e-06 65.8
2 TraesCS4A01G424900 chr7A 93.327 2248 132 14 3612 5848 32027541 32025301 0.000000e+00 3304.0
3 TraesCS4A01G424900 chr7A 96.050 1367 48 5 1638 3000 32029425 32028061 0.000000e+00 2220.0
4 TraesCS4A01G424900 chr7A 97.137 524 15 0 3064 3587 32028060 32027537 0.000000e+00 885.0
5 TraesCS4A01G424900 chr7A 91.133 609 42 6 830 1432 32030318 32029716 0.000000e+00 815.0
6 TraesCS4A01G424900 chr7A 92.336 535 24 8 3840 4369 32303224 32302702 0.000000e+00 745.0
7 TraesCS4A01G424900 chr7A 77.495 942 145 36 4012 4936 32035778 32034887 2.430000e-138 503.0
8 TraesCS4A01G424900 chr7A 94.755 286 13 1 1353 1636 32029741 32029456 1.500000e-120 444.0
9 TraesCS4A01G424900 chr7A 90.265 226 20 2 4014 4239 32294094 32293871 1.590000e-75 294.0
10 TraesCS4A01G424900 chr7A 84.564 298 38 6 1857 2149 32037196 32036902 7.410000e-74 289.0
11 TraesCS4A01G424900 chr7A 88.655 238 22 3 19 255 32030970 32030737 9.590000e-73 285.0
12 TraesCS4A01G424900 chr7A 83.893 298 39 7 1857 2149 32295512 32295219 5.770000e-70 276.0
13 TraesCS4A01G424900 chr7A 84.211 95 14 1 2057 2151 32129255 32129162 2.240000e-14 91.6
14 TraesCS4A01G424900 chr7D 93.299 1940 78 12 363 2256 31953953 31952020 0.000000e+00 2815.0
15 TraesCS4A01G424900 chr7D 97.271 1319 35 1 2270 3587 31951936 31950618 0.000000e+00 2235.0
16 TraesCS4A01G424900 chr7D 91.536 1406 95 13 4445 5848 31949678 31948295 0.000000e+00 1916.0
17 TraesCS4A01G424900 chr7D 94.055 841 37 10 3612 4448 31950622 31949791 0.000000e+00 1264.0
18 TraesCS4A01G424900 chr7D 92.347 392 19 6 1 384 31954375 31953987 1.110000e-151 547.0
19 TraesCS4A01G424900 chr7D 78.182 880 123 37 4014 4871 31959357 31958525 1.130000e-136 497.0
20 TraesCS4A01G424900 chr7D 84.512 297 41 4 1857 2149 31960774 31960479 7.410000e-74 289.0
21 TraesCS4A01G424900 chr7D 82.534 292 46 5 1862 2149 32004475 32004185 9.730000e-63 252.0
22 TraesCS4A01G424900 chr7D 93.750 64 4 0 4068 4131 32003086 32003023 4.820000e-16 97.1
23 TraesCS4A01G424900 chrUn 77.790 878 134 32 4013 4871 298010447 298009612 8.810000e-133 484.0
24 TraesCS4A01G424900 chrUn 84.211 361 54 2 3155 3512 176720599 176720959 1.210000e-91 348.0
25 TraesCS4A01G424900 chrUn 84.211 361 54 2 3155 3512 176754928 176755288 1.210000e-91 348.0
26 TraesCS4A01G424900 chrUn 84.211 361 54 2 3155 3512 238522529 238522169 1.210000e-91 348.0
27 TraesCS4A01G424900 chrUn 84.211 361 54 2 3155 3512 238536638 238536278 1.210000e-91 348.0
28 TraesCS4A01G424900 chrUn 84.211 361 54 2 3155 3512 271021410 271021050 1.210000e-91 348.0
29 TraesCS4A01G424900 chrUn 84.211 361 54 2 3155 3512 278813470 278813830 1.210000e-91 348.0
30 TraesCS4A01G424900 chrUn 83.103 290 48 1 1862 2151 298011876 298011588 4.490000e-66 263.0
31 TraesCS4A01G424900 chrUn 86.752 234 27 2 5383 5612 235799321 235799088 2.090000e-64 257.0
32 TraesCS4A01G424900 chrUn 82.653 294 40 7 1857 2150 238523476 238523194 3.500000e-62 250.0
33 TraesCS4A01G424900 chrUn 82.653 294 40 7 1857 2150 238537585 238537303 3.500000e-62 250.0
34 TraesCS4A01G424900 chr3B 84.807 362 50 4 3155 3512 713873021 713872661 5.570000e-95 359.0
35 TraesCS4A01G424900 chr3B 87.097 62 6 2 299 359 465972048 465971988 1.050000e-07 69.4
36 TraesCS4A01G424900 chr6A 85.532 235 29 4 5383 5612 48550179 48549945 2.110000e-59 241.0
37 TraesCS4A01G424900 chr6D 89.535 172 17 1 5407 5578 298139321 298139491 3.550000e-52 217.0
38 TraesCS4A01G424900 chr2B 84.746 118 14 3 5499 5612 745508431 745508314 1.330000e-21 115.0
39 TraesCS4A01G424900 chr2B 88.060 67 8 0 5396 5462 745508500 745508434 4.860000e-11 80.5
40 TraesCS4A01G424900 chr3D 87.931 58 6 1 303 359 434045043 434045100 3.780000e-07 67.6
41 TraesCS4A01G424900 chr2D 89.091 55 4 2 306 359 270854534 270854587 3.780000e-07 67.6
42 TraesCS4A01G424900 chr5B 100.000 28 0 0 326 353 392152341 392152314 1.100000e-02 52.8


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 TraesCS4A01G424900 chr4A 695999979 696005826 5847 False 10800.000 10800 100.0000 1 5848 1 chr4A.!!$F2 5847
1 TraesCS4A01G424900 chr7A 32025301 32037196 11895 True 1093.125 3304 90.3895 19 5848 8 chr7A.!!$R3 5829
2 TraesCS4A01G424900 chr7A 32302702 32303224 522 True 745.000 745 92.3360 3840 4369 1 chr7A.!!$R2 529
3 TraesCS4A01G424900 chr7A 32293871 32295512 1641 True 285.000 294 87.0790 1857 4239 2 chr7A.!!$R4 2382
4 TraesCS4A01G424900 chr7D 31948295 31954375 6080 True 1755.400 2815 93.7016 1 5848 5 chr7D.!!$R1 5847
5 TraesCS4A01G424900 chr7D 31958525 31960774 2249 True 393.000 497 81.3470 1857 4871 2 chr7D.!!$R2 3014
6 TraesCS4A01G424900 chrUn 298009612 298011876 2264 True 373.500 484 80.4465 1862 4871 2 chrUn.!!$R5 3009
7 TraesCS4A01G424900 chrUn 238522169 238523476 1307 True 299.000 348 83.4320 1857 3512 2 chrUn.!!$R3 1655
8 TraesCS4A01G424900 chrUn 238536278 238537585 1307 True 299.000 348 83.4320 1857 3512 2 chrUn.!!$R4 1655

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
362 370 1.221840 CCATGAGGTTCGGGTCCTG 59.778 63.158 0.0 0.0 35.20 3.86 F
1106 1185 0.878416 TACATCCTTGGCGTTGTTGC 59.122 50.000 0.0 0.0 0.00 4.17 F
1890 1996 0.251165 AGGGGGATTTCAACACACGG 60.251 55.000 0.0 0.0 0.00 4.94 F
2388 2600 2.423185 TGCAAAGTTCACAGACCAAGTG 59.577 45.455 0.0 0.0 38.32 3.16 F
3295 3526 2.107950 TTGCTGGGAAAGATACCACG 57.892 50.000 0.0 0.0 32.33 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1170 1249 1.300620 TTGACGAAGCACAGTCCCG 60.301 57.895 0.00 0.0 36.61 5.14 R
2263 2393 2.961062 AGTGAAATGCTTGCTCCAGTTT 59.039 40.909 0.00 0.0 0.00 2.66 R
3211 3442 0.251832 TCACTGGGTCCTCCTCACTC 60.252 60.000 0.00 0.0 36.20 3.51 R
3589 12105 0.618981 GGGTATATAGTGCCAGGCCC 59.381 60.000 9.64 0.0 33.61 5.80 R
4936 13596 0.386858 TTCTTCGCGAGAACTGGACG 60.387 55.000 9.59 0.0 46.92 4.79 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
122 123 2.827322 CCTTGACTGCCAATCCAATTGA 59.173 45.455 7.12 0.00 42.83 2.57
124 125 3.438216 TGACTGCCAATCCAATTGAGA 57.562 42.857 7.12 2.94 42.83 3.27
167 168 1.610038 CCAGTTTGCTGAACTCATGCA 59.390 47.619 0.00 0.00 45.40 3.96
223 224 5.698545 ACTTCTTCAGCTTGCTTGTACTTAG 59.301 40.000 0.00 0.00 0.00 2.18
234 235 3.619038 GCTTGTACTTAGCAGCCAAGTAG 59.381 47.826 13.10 5.78 38.74 2.57
264 265 4.219507 TCCAAAGACACAACACAACAATGT 59.780 37.500 0.00 0.00 41.61 2.71
280 281 2.028561 ATGTTGTGCATTTTCCCCCT 57.971 45.000 0.00 0.00 33.14 4.79
281 282 1.337118 TGTTGTGCATTTTCCCCCTC 58.663 50.000 0.00 0.00 0.00 4.30
282 283 1.337118 GTTGTGCATTTTCCCCCTCA 58.663 50.000 0.00 0.00 0.00 3.86
283 284 1.691434 GTTGTGCATTTTCCCCCTCAA 59.309 47.619 0.00 0.00 0.00 3.02
295 296 3.850752 TCCCCCTCAAAAACATAGCAAA 58.149 40.909 0.00 0.00 0.00 3.68
297 298 3.055891 CCCCCTCAAAAACATAGCAAAGG 60.056 47.826 0.00 0.00 0.00 3.11
298 299 3.831911 CCCCTCAAAAACATAGCAAAGGA 59.168 43.478 0.00 0.00 0.00 3.36
299 300 4.467438 CCCCTCAAAAACATAGCAAAGGAT 59.533 41.667 0.00 0.00 0.00 3.24
301 302 6.101997 CCCTCAAAAACATAGCAAAGGATTC 58.898 40.000 0.00 0.00 0.00 2.52
302 303 5.801947 CCTCAAAAACATAGCAAAGGATTCG 59.198 40.000 0.00 0.00 0.00 3.34
303 304 6.349280 CCTCAAAAACATAGCAAAGGATTCGA 60.349 38.462 0.00 0.00 0.00 3.71
304 305 6.976088 TCAAAAACATAGCAAAGGATTCGAA 58.024 32.000 0.00 0.00 0.00 3.71
307 308 4.487714 ACATAGCAAAGGATTCGAAGGA 57.512 40.909 3.35 0.00 0.00 3.36
325 326 4.087892 GAGCCTTGGCAGAGCGGA 62.088 66.667 14.54 0.00 0.00 5.54
329 330 1.878775 CCTTGGCAGAGCGGAAAAG 59.121 57.895 0.00 0.00 0.00 2.27
362 370 1.221840 CCATGAGGTTCGGGTCCTG 59.778 63.158 0.00 0.00 35.20 3.86
365 373 1.903877 ATGAGGTTCGGGTCCTGCAG 61.904 60.000 6.78 6.78 35.20 4.41
366 374 2.203788 AGGTTCGGGTCCTGCAGA 60.204 61.111 17.39 0.00 33.62 4.26
390 450 5.046304 ACTCTTGCAGAAATGTAGGAGCTAA 60.046 40.000 5.59 0.00 32.52 3.09
406 466 3.567579 TAAGTGCACCAGGCTGCCC 62.568 63.158 16.57 0.00 45.15 5.36
430 490 6.480320 CCTGTAGAAACATAGCAAGGATGTAC 59.520 42.308 0.00 0.00 36.50 2.90
460 530 7.983307 AGAATACTATTATACGCGTCCTAAGG 58.017 38.462 18.63 13.74 0.00 2.69
515 593 9.535878 TTGGATACTTAATTTTGTTGAACCAAC 57.464 29.630 3.10 3.10 40.38 3.77
541 619 3.890756 TGAATCTTCAACACAGTTGCCAT 59.109 39.130 5.06 0.00 33.55 4.40
545 624 6.594788 ATCTTCAACACAGTTGCCATTATT 57.405 33.333 5.06 0.00 0.00 1.40
550 629 7.459795 TCAACACAGTTGCCATTATTATTCA 57.540 32.000 5.06 0.00 0.00 2.57
580 659 3.244911 GGGTGGACTTGATTCTTCTCCAA 60.245 47.826 0.00 0.00 32.77 3.53
585 664 6.484977 GTGGACTTGATTCTTCTCCAATATCC 59.515 42.308 0.00 0.00 32.77 2.59
590 669 7.348274 ACTTGATTCTTCTCCAATATCCTGGTA 59.652 37.037 0.00 0.00 37.74 3.25
595 674 6.393897 TCTTCTCCAATATCCTGGTATTCCT 58.606 40.000 0.00 0.00 37.74 3.36
608 687 8.337118 TCCTGGTATTCCTGATTAGATTCTTT 57.663 34.615 0.00 0.00 35.11 2.52
658 737 6.942005 TGGTAAGTGAAATATGCATATGGAGG 59.058 38.462 19.77 0.00 0.00 4.30
780 859 3.791353 GCATAAGCGATTTGTTTAGCCAC 59.209 43.478 0.00 0.00 0.00 5.01
798 877 3.568007 GCCACTTGAATAGTTTGACCACA 59.432 43.478 0.00 0.00 33.85 4.17
825 904 4.552674 TGCCCACTTACTATCATACAGGA 58.447 43.478 0.00 0.00 0.00 3.86
828 907 5.509840 GCCCACTTACTATCATACAGGACAG 60.510 48.000 0.00 0.00 0.00 3.51
836 915 7.200434 ACTATCATACAGGACAGTCCAAAAT 57.800 36.000 22.31 8.40 39.61 1.82
1020 1099 0.975040 TGGCTTCTCAGCTCTCCTCC 60.975 60.000 0.00 0.00 46.44 4.30
1021 1100 1.685355 GGCTTCTCAGCTCTCCTCCC 61.685 65.000 0.00 0.00 46.44 4.30
1028 1107 2.124778 GCTCTCCTCCCTTGCTGC 60.125 66.667 0.00 0.00 0.00 5.25
1106 1185 0.878416 TACATCCTTGGCGTTGTTGC 59.122 50.000 0.00 0.00 0.00 4.17
1156 1235 2.993853 CCCAGAGAGCCCAAGACC 59.006 66.667 0.00 0.00 0.00 3.85
1191 1270 1.140816 GGACTGTGCTTCGTCAACTC 58.859 55.000 0.00 0.00 31.88 3.01
1215 1294 5.491635 AGAACTTTGACAAGCTCTTTGAC 57.508 39.130 0.00 0.00 39.21 3.18
1317 1396 2.285486 CGCTGTCATCGAGCATTTTCTC 60.285 50.000 0.00 0.00 36.12 2.87
1366 1445 4.528206 AGGTGATTATCCATGCTGATCGTA 59.472 41.667 0.00 0.00 0.00 3.43
1518 1597 9.730705 TCCTGAAGATTTATACAATGGATGATC 57.269 33.333 0.00 0.00 0.00 2.92
1541 1620 7.316544 TCAAGTCAAACTTTGAGTAGTTTCC 57.683 36.000 11.50 0.00 44.33 3.13
1641 1720 6.646653 TCAGCTGACAGTTATTAAGTTCACAG 59.353 38.462 13.74 0.00 0.00 3.66
1721 1827 6.458888 GCAAAGAGGCAGCTATTAACCTTAAG 60.459 42.308 0.00 0.00 30.95 1.85
1726 1832 4.755629 GGCAGCTATTAACCTTAAGCCTAC 59.244 45.833 0.00 0.00 36.72 3.18
1747 1853 1.358152 TACAGGCTAGTTGGGTTGCT 58.642 50.000 0.00 0.00 0.00 3.91
1775 1881 8.173542 TGTTTTACCCCTACAAGAAAAAGATC 57.826 34.615 0.00 0.00 0.00 2.75
1890 1996 0.251165 AGGGGGATTTCAACACACGG 60.251 55.000 0.00 0.00 0.00 4.94
1935 2041 2.890311 TGGAATTTTCGCAACTGATGGT 59.110 40.909 0.00 0.00 0.00 3.55
2091 2197 6.437162 ACAGAATTACCATAAACATGCAGGTT 59.563 34.615 11.64 11.64 33.91 3.50
2099 2205 5.593909 CCATAAACATGCAGGTTCTTCCATA 59.406 40.000 18.18 5.37 39.02 2.74
2109 2223 5.406780 GCAGGTTCTTCCATAACTATGATCG 59.593 44.000 0.00 0.00 39.02 3.69
2177 2291 8.184848 GCACCTTTTATCTCTTCTCCATTTTAC 58.815 37.037 0.00 0.00 0.00 2.01
2259 2389 9.512588 ACCCAAATTCAATCTAGCTATAATGAG 57.487 33.333 0.00 0.00 0.00 2.90
2378 2590 3.111098 CAAGCTCAACTGCAAAGTTCAC 58.889 45.455 0.00 0.00 34.99 3.18
2387 2599 2.684881 CTGCAAAGTTCACAGACCAAGT 59.315 45.455 0.00 0.00 33.10 3.16
2388 2600 2.423185 TGCAAAGTTCACAGACCAAGTG 59.577 45.455 0.00 0.00 38.32 3.16
2455 2686 4.645535 TCAGGACCTTTTGATGAGAACAG 58.354 43.478 0.00 0.00 0.00 3.16
2649 2880 6.536224 CAGAAGCCAAACTCAAAAAGAACATT 59.464 34.615 0.00 0.00 0.00 2.71
2804 3035 6.020599 CACAGTTTTATAATGTCCGAGTCTCG 60.021 42.308 15.53 15.53 40.07 4.04
2864 3095 6.719370 TGGCATTGAAATAGATATTGGTACCC 59.281 38.462 10.07 0.00 0.00 3.69
2915 3146 2.825532 GGCTTGGCAGGATTAGTTGAAA 59.174 45.455 0.00 0.00 0.00 2.69
3000 3231 3.955471 AGTACAATGTTGGTCATCTGGG 58.045 45.455 0.00 0.00 35.48 4.45
3074 3305 5.189180 AGAAAGTTCAGAATATGGTCAGCC 58.811 41.667 0.00 0.00 0.00 4.85
3137 3368 3.317149 ACAAAGCTGCATATACCATGCTG 59.683 43.478 10.30 10.48 44.79 4.41
3149 3380 9.383519 GCATATACCATGCTGTATTAACTATGT 57.616 33.333 2.04 0.00 41.52 2.29
3211 3442 7.093354 ACATACTATCAAGATTCATACTGGCG 58.907 38.462 0.00 0.00 0.00 5.69
3242 3473 3.074412 GACCCAGTGACAATGAACGATT 58.926 45.455 4.07 0.00 0.00 3.34
3295 3526 2.107950 TTGCTGGGAAAGATACCACG 57.892 50.000 0.00 0.00 32.33 4.94
3534 12050 4.196193 TGAACAACTCCAAACTTCGACAT 58.804 39.130 0.00 0.00 0.00 3.06
3554 12070 6.072397 CGACATCTATTCCTTGTAGGGAGTAG 60.072 46.154 6.32 6.32 43.02 2.57
3576 12092 9.862371 AGTAGACTACAACTAAAATGAGACATG 57.138 33.333 14.95 0.00 0.00 3.21
3590 12106 9.480053 AAAATGAGACATGACTTGTTATTTTGG 57.520 29.630 0.00 0.00 39.18 3.28
3591 12107 6.573664 TGAGACATGACTTGTTATTTTGGG 57.426 37.500 0.00 0.00 39.18 4.12
3592 12108 5.048083 TGAGACATGACTTGTTATTTTGGGC 60.048 40.000 0.00 0.00 39.18 5.36
3593 12109 4.220602 AGACATGACTTGTTATTTTGGGCC 59.779 41.667 0.00 0.00 39.18 5.80
3594 12110 4.159557 ACATGACTTGTTATTTTGGGCCT 58.840 39.130 4.53 0.00 33.74 5.19
3595 12111 4.021192 ACATGACTTGTTATTTTGGGCCTG 60.021 41.667 4.53 0.00 33.74 4.85
3596 12112 2.896685 TGACTTGTTATTTTGGGCCTGG 59.103 45.455 4.53 0.00 0.00 4.45
3597 12113 1.623311 ACTTGTTATTTTGGGCCTGGC 59.377 47.619 11.05 11.05 0.00 4.85
3598 12114 1.622811 CTTGTTATTTTGGGCCTGGCA 59.377 47.619 22.05 0.00 0.00 4.92
3599 12115 0.972883 TGTTATTTTGGGCCTGGCAC 59.027 50.000 22.05 19.06 0.00 5.01
3600 12116 1.266178 GTTATTTTGGGCCTGGCACT 58.734 50.000 23.45 3.76 30.56 4.40
3601 12117 2.225142 TGTTATTTTGGGCCTGGCACTA 60.225 45.455 23.45 12.51 30.56 2.74
3602 12118 3.031013 GTTATTTTGGGCCTGGCACTAT 58.969 45.455 23.45 14.66 30.56 2.12
3603 12119 4.211920 GTTATTTTGGGCCTGGCACTATA 58.788 43.478 23.45 10.41 30.56 1.31
3604 12120 3.618120 ATTTTGGGCCTGGCACTATAT 57.382 42.857 23.45 12.42 30.56 0.86
3605 12121 4.740154 ATTTTGGGCCTGGCACTATATA 57.260 40.909 23.45 0.00 30.56 0.86
3606 12122 3.502123 TTTGGGCCTGGCACTATATAC 57.498 47.619 23.45 0.13 30.56 1.47
3607 12123 1.358152 TGGGCCTGGCACTATATACC 58.642 55.000 23.45 10.84 30.56 2.73
3608 12124 0.618981 GGGCCTGGCACTATATACCC 59.381 60.000 22.05 4.98 0.00 3.69
3609 12125 1.358152 GGCCTGGCACTATATACCCA 58.642 55.000 22.05 0.00 0.00 4.51
3610 12126 1.003233 GGCCTGGCACTATATACCCAC 59.997 57.143 22.05 0.00 0.00 4.61
3611 12127 1.978580 GCCTGGCACTATATACCCACT 59.021 52.381 15.17 0.00 0.00 4.00
3612 12128 2.372172 GCCTGGCACTATATACCCACTT 59.628 50.000 15.17 0.00 0.00 3.16
3613 12129 3.581332 GCCTGGCACTATATACCCACTTA 59.419 47.826 15.17 0.00 0.00 2.24
3614 12130 4.562963 GCCTGGCACTATATACCCACTTAC 60.563 50.000 15.17 0.00 0.00 2.34
3615 12131 4.838986 CCTGGCACTATATACCCACTTACT 59.161 45.833 0.00 0.00 0.00 2.24
3616 12132 5.279506 CCTGGCACTATATACCCACTTACTG 60.280 48.000 0.00 0.00 0.00 2.74
3617 12133 4.039973 TGGCACTATATACCCACTTACTGC 59.960 45.833 0.00 0.00 0.00 4.40
3726 12242 9.624373 AATGATAGATCTGAGCATGTAAAGTTT 57.376 29.630 5.18 0.00 0.00 2.66
3822 12339 7.168219 TGTAGCTGTAGAATGAGTTCCAAAAT 58.832 34.615 0.00 0.00 34.81 1.82
3823 12340 8.318412 TGTAGCTGTAGAATGAGTTCCAAAATA 58.682 33.333 0.00 0.00 34.81 1.40
3860 12377 7.072263 AGAATAATACCAGAATAGCTGCTGT 57.928 36.000 13.43 1.77 43.50 4.40
4064 12585 5.594317 AGATGATTTGCTACCCAATGGTTAC 59.406 40.000 0.00 0.00 44.75 2.50
4348 12877 7.541437 GGCGAGAATATCACTATAAGTTGGTAC 59.459 40.741 0.00 0.00 0.00 3.34
4397 12926 9.450807 GTCACATTGCTGGTATTTAAATATGAC 57.549 33.333 11.00 12.27 0.00 3.06
4512 13168 6.000219 AGAAAGTACTGCAACTGACATCAAT 59.000 36.000 0.00 0.00 0.00 2.57
4815 13475 4.851540 TCCATATGGATCAAGGCCTTCATA 59.148 41.667 20.98 19.59 39.78 2.15
4853 13513 5.448632 CCGTAATATTTCAGCTTGAACACCC 60.449 44.000 0.00 0.00 35.89 4.61
4879 13539 7.219917 CGAACAAGCTACTAGATCTTTTCTGAG 59.780 40.741 0.00 0.00 35.79 3.35
4882 13542 4.642885 AGCTACTAGATCTTTTCTGAGCGT 59.357 41.667 0.00 0.00 39.30 5.07
4896 13556 5.419760 TCTGAGCGTACTGTCATATGTAC 57.580 43.478 1.90 0.80 36.59 2.90
4950 13610 1.625616 AATAACGTCCAGTTCTCGCG 58.374 50.000 0.00 0.00 43.06 5.87
4951 13611 0.806868 ATAACGTCCAGTTCTCGCGA 59.193 50.000 9.26 9.26 43.06 5.87
4953 13613 0.663568 AACGTCCAGTTCTCGCGAAG 60.664 55.000 11.33 4.62 39.16 3.79
4954 13614 1.209383 CGTCCAGTTCTCGCGAAGA 59.791 57.895 11.33 7.24 0.00 2.87
5010 13675 6.568869 TCCCATTCCAAAAGCAAATAATACG 58.431 36.000 0.00 0.00 0.00 3.06
5016 13681 7.876896 TCCAAAAGCAAATAATACGTTTTCC 57.123 32.000 0.00 0.00 0.00 3.13
5033 13698 3.857157 TTCCTAATCCCAGAATTCCCG 57.143 47.619 0.65 0.00 0.00 5.14
5042 13708 2.108250 CCCAGAATTCCCGATTACCCAT 59.892 50.000 0.65 0.00 0.00 4.00
5082 13748 4.911514 TTAGGGAAGCAAAACAGAACAC 57.088 40.909 0.00 0.00 0.00 3.32
5111 13777 7.461107 ACCTCGAATCAAACAACAATATAACG 58.539 34.615 0.00 0.00 0.00 3.18
5134 13800 5.848036 CGTTTCACAATTGCTTACAAGAGAG 59.152 40.000 5.05 0.00 39.69 3.20
5138 13804 3.187227 ACAATTGCTTACAAGAGAGTGCG 59.813 43.478 5.05 0.00 39.69 5.34
5142 13808 1.127582 GCTTACAAGAGAGTGCGCAAG 59.872 52.381 14.00 2.19 43.44 4.01
5181 13847 5.467035 ACTCTGATCTAGCATAAGAAGGC 57.533 43.478 0.00 0.00 0.00 4.35
5182 13848 4.898265 ACTCTGATCTAGCATAAGAAGGCA 59.102 41.667 0.00 0.00 33.96 4.75
5201 13867 4.394920 AGGCACAAGATAAATGGTTACACG 59.605 41.667 0.00 0.00 0.00 4.49
5203 13869 4.438200 GCACAAGATAAATGGTTACACGGG 60.438 45.833 0.00 0.00 0.00 5.28
5237 13903 2.232298 GAGTGGGAAGCTGGAGACCG 62.232 65.000 0.00 0.00 0.00 4.79
5248 13914 2.670148 GGAGACCGGGCCTTGATGT 61.670 63.158 1.76 0.00 0.00 3.06
5334 14000 4.142816 CCAAATGACTCTTCCGCTACAAAG 60.143 45.833 0.00 0.00 0.00 2.77
5335 14001 2.080286 TGACTCTTCCGCTACAAAGC 57.920 50.000 0.00 0.00 45.86 3.51
5345 14011 2.228822 CCGCTACAAAGCCAAGAACAAT 59.771 45.455 0.00 0.00 46.68 2.71
5401 14067 5.485353 AGTTCACATAGAGGGACATGAGAAA 59.515 40.000 0.00 0.00 34.82 2.52
5465 14131 8.428063 TCAACAATATCACCAAATTTGACCTTT 58.572 29.630 19.86 3.04 0.00 3.11
5471 14137 3.245048 CACCAAATTTGACCTTTTCACGC 59.755 43.478 19.86 0.00 32.26 5.34
5556 14222 2.957680 TGTCTGCAACCAATGACACAAT 59.042 40.909 0.44 0.00 34.94 2.71
5561 14227 7.122501 TGTCTGCAACCAATGACACAATATATT 59.877 33.333 0.44 0.00 34.94 1.28
5641 14308 3.804873 GCCTACTACACTAGAGCATTTGC 59.195 47.826 0.00 0.00 42.49 3.68
5650 14317 2.426842 AGAGCATTTGCCCTAGTTCC 57.573 50.000 0.00 0.00 43.38 3.62
5655 14322 3.006859 AGCATTTGCCCTAGTTCCAAAAC 59.993 43.478 0.00 0.00 43.38 2.43
5694 14361 4.634883 AGCATCACTTGAAGCAAGATACTG 59.365 41.667 13.56 2.35 43.42 2.74
5699 14366 5.926542 TCACTTGAAGCAAGATACTGTGTAC 59.073 40.000 13.56 0.00 43.42 2.90
5738 14405 4.744631 CACCAGGCAACATAGAAACAAAAC 59.255 41.667 0.00 0.00 41.41 2.43
5739 14406 4.404073 ACCAGGCAACATAGAAACAAAACA 59.596 37.500 0.00 0.00 41.41 2.83
5740 14407 5.105146 ACCAGGCAACATAGAAACAAAACAA 60.105 36.000 0.00 0.00 41.41 2.83
5750 14417 8.767085 ACATAGAAACAAAACAAATTGATGCAG 58.233 29.630 0.00 0.00 34.38 4.41
5753 14420 7.912383 AGAAACAAAACAAATTGATGCAGAAG 58.088 30.769 0.00 0.00 34.38 2.85
5772 14439 1.299468 GCTACACGATCCGAGCCAG 60.299 63.158 0.00 0.00 0.00 4.85
5774 14441 1.379443 TACACGATCCGAGCCAGGT 60.379 57.895 0.00 0.00 0.00 4.00
5786 14453 0.400594 AGCCAGGTAAACCAGGACAC 59.599 55.000 14.34 0.00 44.73 3.67
5796 14463 1.549203 ACCAGGACACATCAAATGGC 58.451 50.000 0.00 0.00 31.04 4.40
5800 14467 2.947652 CAGGACACATCAAATGGCTAGG 59.052 50.000 0.00 0.00 33.60 3.02
5829 14496 5.297776 TCACTTCTTCCTTTTCTGCTTCTTG 59.702 40.000 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
122 123 9.167311 GGATGATGGCGAAACTAAATTATATCT 57.833 33.333 0.00 0.00 0.00 1.98
124 125 8.862325 TGGATGATGGCGAAACTAAATTATAT 57.138 30.769 0.00 0.00 0.00 0.86
215 216 3.170717 ACCTACTTGGCTGCTAAGTACA 58.829 45.455 27.83 15.53 39.06 2.90
223 224 2.289565 GGAATGTACCTACTTGGCTGC 58.710 52.381 0.00 0.00 40.22 5.25
234 235 4.336993 TGTGTTGTGTCTTTGGAATGTACC 59.663 41.667 0.00 0.00 0.00 3.34
264 265 2.094100 TTGAGGGGGAAAATGCACAA 57.906 45.000 0.00 0.00 0.00 3.33
267 268 2.774234 TGTTTTTGAGGGGGAAAATGCA 59.226 40.909 0.00 0.00 0.00 3.96
280 281 6.567687 TCGAATCCTTTGCTATGTTTTTGA 57.432 33.333 0.00 0.00 0.00 2.69
281 282 6.308766 CCTTCGAATCCTTTGCTATGTTTTTG 59.691 38.462 0.00 0.00 0.00 2.44
282 283 6.208599 TCCTTCGAATCCTTTGCTATGTTTTT 59.791 34.615 0.00 0.00 0.00 1.94
283 284 5.710099 TCCTTCGAATCCTTTGCTATGTTTT 59.290 36.000 0.00 0.00 0.00 2.43
295 296 3.625314 AGGCTCTCCTTCGAATCCT 57.375 52.632 0.00 0.00 40.66 3.24
307 308 4.093291 CCGCTCTGCCAAGGCTCT 62.093 66.667 12.96 0.00 42.51 4.09
319 320 1.081175 GGCAACAGCTTTTCCGCTC 60.081 57.895 0.00 0.00 38.41 5.03
325 326 1.136891 GGTCACAAGGCAACAGCTTTT 59.863 47.619 0.00 0.00 41.41 2.27
329 330 0.038892 CATGGTCACAAGGCAACAGC 60.039 55.000 0.00 0.00 41.41 4.40
355 363 1.376553 GCAAGAGTCTGCAGGACCC 60.377 63.158 15.13 1.77 45.54 4.46
356 364 4.292784 GCAAGAGTCTGCAGGACC 57.707 61.111 15.13 2.19 45.54 4.46
399 459 2.565841 CTATGTTTCTACAGGGCAGCC 58.434 52.381 1.26 1.26 37.77 4.85
406 466 7.041721 TGTACATCCTTGCTATGTTTCTACAG 58.958 38.462 0.00 0.00 38.49 2.74
408 468 9.542462 TTATGTACATCCTTGCTATGTTTCTAC 57.458 33.333 12.68 0.00 38.49 2.59
430 490 9.784680 AGGACGCGTATAATAGTATTCTTTATG 57.215 33.333 13.97 0.00 0.00 1.90
449 509 2.173669 CATGTGGCCTTAGGACGCG 61.174 63.158 13.51 3.53 45.71 6.01
450 510 2.472909 GCATGTGGCCTTAGGACGC 61.473 63.158 11.37 11.37 42.51 5.19
460 530 1.246056 ATGTGTCACTGGCATGTGGC 61.246 55.000 12.69 12.69 42.34 5.01
515 593 4.534168 CAACTGTGTTGAAGATTCAGCTG 58.466 43.478 7.63 7.63 38.92 4.24
541 619 7.872138 AGTCCACCCTTGAGAATGAATAATAA 58.128 34.615 0.00 0.00 0.00 1.40
545 624 5.250543 TCAAGTCCACCCTTGAGAATGAATA 59.749 40.000 0.00 0.00 44.39 1.75
580 659 9.796242 AGAATCTAATCAGGAATACCAGGATAT 57.204 33.333 0.00 0.00 38.94 1.63
595 674 9.988815 GCTACTTCAGGATAAAGAATCTAATCA 57.011 33.333 7.53 0.00 34.75 2.57
631 710 9.671279 CTCCATATGCATATTTCACTTACCATA 57.329 33.333 16.71 0.00 0.00 2.74
737 816 7.951347 ATGCTTTGATTAGATTTCAAGGTCT 57.049 32.000 0.00 0.00 34.76 3.85
740 819 7.377928 CGCTTATGCTTTGATTAGATTTCAAGG 59.622 37.037 0.00 0.00 34.76 3.61
771 850 6.016610 TGGTCAAACTATTCAAGTGGCTAAAC 60.017 38.462 0.00 0.00 38.88 2.01
780 859 6.605849 CAGTCATGTGGTCAAACTATTCAAG 58.394 40.000 0.00 0.00 0.00 3.02
798 877 5.602561 TGTATGATAGTAAGTGGGCAGTCAT 59.397 40.000 0.00 0.00 0.00 3.06
825 904 7.118723 TCTATATTCTTGGCATTTTGGACTGT 58.881 34.615 0.00 0.00 0.00 3.55
828 907 8.250332 TGTTTCTATATTCTTGGCATTTTGGAC 58.750 33.333 0.00 0.00 0.00 4.02
836 915 6.321945 ACATGCATGTTTCTATATTCTTGGCA 59.678 34.615 26.61 0.00 37.90 4.92
885 964 9.634163 CTTTGGGTTTAGTTAATGTTAATGTCC 57.366 33.333 0.00 0.00 0.00 4.02
971 1050 1.092348 CTGCTGCTGCTTGCTGAATA 58.908 50.000 17.00 0.00 42.27 1.75
1008 1087 1.079987 AGCAAGGGAGGAGAGCTGA 59.920 57.895 0.00 0.00 33.67 4.26
1020 1099 3.136123 CCCATGGACGCAGCAAGG 61.136 66.667 15.22 0.00 0.00 3.61
1021 1100 2.898920 ATCCCCATGGACGCAGCAAG 62.899 60.000 15.22 0.00 45.58 4.01
1028 1107 0.758734 TAAGCAGATCCCCATGGACG 59.241 55.000 15.22 2.40 45.58 4.79
1106 1185 2.730626 CAGAAGACTGCGAAGGACG 58.269 57.895 0.00 0.00 45.66 4.79
1128 1207 1.671901 CTCTCTGGGCGAACTCCCTC 61.672 65.000 1.55 0.00 46.67 4.30
1131 1210 2.185608 GCTCTCTGGGCGAACTCC 59.814 66.667 0.00 0.00 0.00 3.85
1170 1249 1.300620 TTGACGAAGCACAGTCCCG 60.301 57.895 0.00 0.00 36.61 5.14
1215 1294 1.660607 AGCGCATATGACACTTGTTCG 59.339 47.619 11.47 0.00 0.00 3.95
1317 1396 7.730364 ACTGTATTTACTGAAGTTGGTCTTG 57.270 36.000 2.14 0.00 36.40 3.02
1351 1430 4.562347 GGAACAGATACGATCAGCATGGAT 60.562 45.833 0.00 0.00 36.16 3.41
1354 1433 3.986572 GAGGAACAGATACGATCAGCATG 59.013 47.826 0.00 0.00 37.54 4.06
1366 1445 1.963985 AAGGCAGAGGAGGAACAGAT 58.036 50.000 0.00 0.00 0.00 2.90
1518 1597 7.065803 TGAGGAAACTACTCAAAGTTTGACTTG 59.934 37.037 14.35 7.87 46.92 3.16
1541 1620 9.547753 AAATTATAGCATGTAGTTACCACTGAG 57.452 33.333 0.00 0.00 34.06 3.35
1588 1667 7.230510 TGTCTCACTACCTTGCAAAATACATTT 59.769 33.333 0.00 0.00 0.00 2.32
1641 1720 5.862845 TCCTATTCTGAATGGAGATTGCTC 58.137 41.667 14.47 0.00 40.54 4.26
1726 1832 2.017049 GCAACCCAACTAGCCTGTATG 58.983 52.381 0.00 0.00 0.00 2.39
1747 1853 7.780745 TCTTTTTCTTGTAGGGGTAAAACATGA 59.219 33.333 0.00 0.00 0.00 3.07
1821 1927 5.990120 AATTGTGCTCATAGGCTCTTTTT 57.010 34.783 0.00 0.00 0.00 1.94
1935 2041 3.544772 TGGTGTCGCCAGTTCTCA 58.455 55.556 0.00 0.00 43.61 3.27
2129 2243 8.773762 GTGCAAATATGATCTTAGCACTTAAC 57.226 34.615 17.34 0.32 45.24 2.01
2259 2389 3.930634 AATGCTTGCTCCAGTTTCTTC 57.069 42.857 0.00 0.00 0.00 2.87
2263 2393 2.961062 AGTGAAATGCTTGCTCCAGTTT 59.039 40.909 0.00 0.00 0.00 2.66
2387 2599 6.059484 AGAAATAGGAAGAACGAAACAACCA 58.941 36.000 0.00 0.00 0.00 3.67
2388 2600 6.555812 AGAAATAGGAAGAACGAAACAACC 57.444 37.500 0.00 0.00 0.00 3.77
2390 2602 7.447594 AGGTAGAAATAGGAAGAACGAAACAA 58.552 34.615 0.00 0.00 0.00 2.83
2392 2604 7.902387 AAGGTAGAAATAGGAAGAACGAAAC 57.098 36.000 0.00 0.00 0.00 2.78
2393 2605 8.780249 CAAAAGGTAGAAATAGGAAGAACGAAA 58.220 33.333 0.00 0.00 0.00 3.46
2396 2608 7.900782 TCAAAAGGTAGAAATAGGAAGAACG 57.099 36.000 0.00 0.00 0.00 3.95
2455 2686 4.628333 CACTTTGAACATGGAATCCATTGC 59.372 41.667 12.91 5.50 42.23 3.56
2649 2880 7.227116 TGCATCACAAAATCATCGATTATCTGA 59.773 33.333 0.00 0.00 31.46 3.27
2774 3005 8.879759 ACTCGGACATTATAAAACTGTGTTATG 58.120 33.333 12.48 2.61 0.00 1.90
2796 3027 4.567558 AGTTATCTGTGTACTCGAGACTCG 59.432 45.833 21.68 18.91 42.10 4.18
2838 3069 8.177119 GGTACCAATATCTATTTCAATGCCAA 57.823 34.615 7.15 0.00 0.00 4.52
3053 3284 4.922206 TGGCTGACCATATTCTGAACTTT 58.078 39.130 0.00 0.00 42.67 2.66
3149 3380 5.648960 TCTGCATGCATCATAAAAGAGAACA 59.351 36.000 22.97 0.00 0.00 3.18
3150 3381 6.127810 TCTGCATGCATCATAAAAGAGAAC 57.872 37.500 22.97 0.00 0.00 3.01
3211 3442 0.251832 TCACTGGGTCCTCCTCACTC 60.252 60.000 0.00 0.00 36.20 3.51
3242 3473 2.947652 GGACTATGTCACGTAGGTAGCA 59.052 50.000 8.95 0.00 33.68 3.49
3295 3526 4.469657 TGAACCATGATAGGGTATTTGCC 58.530 43.478 0.00 0.00 37.77 4.52
3534 12050 6.593759 AGTCTACTCCCTACAAGGAATAGA 57.406 41.667 0.00 0.00 41.30 1.98
3554 12070 8.764524 AGTCATGTCTCATTTTAGTTGTAGTC 57.235 34.615 0.00 0.00 0.00 2.59
3556 12072 8.993121 ACAAGTCATGTCTCATTTTAGTTGTAG 58.007 33.333 0.00 0.00 37.96 2.74
3576 12092 2.353704 GCCAGGCCCAAAATAACAAGTC 60.354 50.000 0.00 0.00 0.00 3.01
3587 12103 1.702957 GGTATATAGTGCCAGGCCCAA 59.297 52.381 9.64 0.00 31.99 4.12
3588 12104 1.358152 GGTATATAGTGCCAGGCCCA 58.642 55.000 9.64 0.00 31.99 5.36
3589 12105 0.618981 GGGTATATAGTGCCAGGCCC 59.381 60.000 9.64 0.00 33.61 5.80
3590 12106 1.003233 GTGGGTATATAGTGCCAGGCC 59.997 57.143 9.64 0.00 33.61 5.19
3591 12107 1.978580 AGTGGGTATATAGTGCCAGGC 59.021 52.381 3.66 3.66 33.61 4.85
3592 12108 4.838986 AGTAAGTGGGTATATAGTGCCAGG 59.161 45.833 0.00 0.00 33.61 4.45
3593 12109 5.784177 CAGTAAGTGGGTATATAGTGCCAG 58.216 45.833 0.00 0.00 33.61 4.85
3594 12110 4.039973 GCAGTAAGTGGGTATATAGTGCCA 59.960 45.833 0.00 0.00 38.28 4.92
3595 12111 4.039973 TGCAGTAAGTGGGTATATAGTGCC 59.960 45.833 8.49 0.00 41.70 5.01
3596 12112 4.989168 GTGCAGTAAGTGGGTATATAGTGC 59.011 45.833 0.00 4.87 42.36 4.40
3597 12113 6.406692 AGTGCAGTAAGTGGGTATATAGTG 57.593 41.667 0.00 0.00 0.00 2.74
3598 12114 8.722622 ATTAGTGCAGTAAGTGGGTATATAGT 57.277 34.615 18.43 0.00 0.00 2.12
3599 12115 8.803235 TGATTAGTGCAGTAAGTGGGTATATAG 58.197 37.037 18.43 0.00 0.00 1.31
3600 12116 8.715190 TGATTAGTGCAGTAAGTGGGTATATA 57.285 34.615 18.43 0.00 0.00 0.86
3601 12117 7.612065 TGATTAGTGCAGTAAGTGGGTATAT 57.388 36.000 18.43 0.00 0.00 0.86
3602 12118 7.612065 ATGATTAGTGCAGTAAGTGGGTATA 57.388 36.000 18.43 0.00 0.00 1.47
3603 12119 5.950544 TGATTAGTGCAGTAAGTGGGTAT 57.049 39.130 18.43 0.92 0.00 2.73
3604 12120 5.950544 ATGATTAGTGCAGTAAGTGGGTA 57.049 39.130 18.43 3.12 0.00 3.69
3605 12121 4.844349 ATGATTAGTGCAGTAAGTGGGT 57.156 40.909 18.43 2.33 0.00 4.51
3606 12122 5.527582 GGTTATGATTAGTGCAGTAAGTGGG 59.472 44.000 18.43 0.00 0.00 4.61
3607 12123 6.258727 CAGGTTATGATTAGTGCAGTAAGTGG 59.741 42.308 18.43 0.00 0.00 4.00
3608 12124 7.041721 TCAGGTTATGATTAGTGCAGTAAGTG 58.958 38.462 18.43 6.71 31.12 3.16
3609 12125 7.182817 TCAGGTTATGATTAGTGCAGTAAGT 57.817 36.000 18.43 10.08 31.12 2.24
3610 12126 8.391106 GTTTCAGGTTATGATTAGTGCAGTAAG 58.609 37.037 18.43 3.16 37.89 2.34
3611 12127 7.880713 TGTTTCAGGTTATGATTAGTGCAGTAA 59.119 33.333 16.13 16.13 37.89 2.24
3612 12128 7.390823 TGTTTCAGGTTATGATTAGTGCAGTA 58.609 34.615 0.00 0.00 37.89 2.74
3613 12129 6.237901 TGTTTCAGGTTATGATTAGTGCAGT 58.762 36.000 0.00 0.00 37.89 4.40
3614 12130 6.741992 TGTTTCAGGTTATGATTAGTGCAG 57.258 37.500 0.00 0.00 37.89 4.41
3615 12131 7.362834 CCAATGTTTCAGGTTATGATTAGTGCA 60.363 37.037 0.00 0.00 37.89 4.57
3616 12132 6.974622 CCAATGTTTCAGGTTATGATTAGTGC 59.025 38.462 0.00 0.00 37.89 4.40
3617 12133 8.055279 ACCAATGTTTCAGGTTATGATTAGTG 57.945 34.615 0.00 0.00 37.89 2.74
3725 12241 9.520204 GGAAAGTGCATAAACTACGTAGTATAA 57.480 33.333 27.59 16.21 44.56 0.98
3726 12242 8.137437 GGGAAAGTGCATAAACTACGTAGTATA 58.863 37.037 27.59 8.66 44.56 1.47
3730 12246 5.172934 TGGGAAAGTGCATAAACTACGTAG 58.827 41.667 20.97 20.97 0.00 3.51
3888 12405 7.503521 TTGACAGCAGTTTAACATTGTATCA 57.496 32.000 0.00 0.00 0.00 2.15
3893 12410 7.697352 TGATTTTGACAGCAGTTTAACATTG 57.303 32.000 0.00 0.00 0.00 2.82
3969 12489 2.574006 GCCATGCCATTCTGGAGATA 57.426 50.000 0.00 0.00 40.96 1.98
3970 12490 3.434053 GCCATGCCATTCTGGAGAT 57.566 52.632 0.00 0.00 40.96 2.75
3986 12506 4.213270 GCCAAGTTTTTCTTAACAATGGCC 59.787 41.667 17.99 0.00 46.51 5.36
3992 12512 9.436957 TGTAAAATTGCCAAGTTTTTCTTAACA 57.563 25.926 8.26 3.09 34.66 2.41
4064 12585 7.278135 TCATTCCATCTCCTTTTATCACTCTG 58.722 38.462 0.00 0.00 0.00 3.35
4360 12889 9.777297 ATACCAGCAATGTGACTTTTTAATTTT 57.223 25.926 0.00 0.00 0.00 1.82
4362 12891 9.777297 AAATACCAGCAATGTGACTTTTTAATT 57.223 25.926 0.00 0.00 0.00 1.40
4435 12964 9.357161 ACCATGTTGTTTCCTACTTTATTTGTA 57.643 29.630 0.00 0.00 0.00 2.41
4545 13205 5.462068 TGACTTGAGAACTGATGTTAACACG 59.538 40.000 11.22 5.19 36.39 4.49
4645 13305 3.877450 GGCCCGCCTGATCATGGA 61.877 66.667 13.48 0.00 0.00 3.41
4815 13475 7.396623 TGAAATATTACGGGGGTACACAAAAAT 59.603 33.333 0.00 0.00 0.00 1.82
4853 13513 7.030165 TCAGAAAAGATCTAGTAGCTTGTTCG 58.970 38.462 0.00 0.00 36.32 3.95
4879 13539 5.154932 GGAGATGTACATATGACAGTACGC 58.845 45.833 7.92 7.20 42.62 4.42
4882 13542 7.654022 TGTTGGAGATGTACATATGACAGTA 57.346 36.000 7.92 0.00 0.00 2.74
4896 13556 5.121454 GTCAAAAGAGTAGCTGTTGGAGATG 59.879 44.000 0.00 0.00 41.38 2.90
4936 13596 0.386858 TTCTTCGCGAGAACTGGACG 60.387 55.000 9.59 0.00 46.92 4.79
4950 13610 6.305693 ACTCATGCTACTTTGTTGTTCTTC 57.694 37.500 0.00 0.00 0.00 2.87
4951 13611 6.699575 AACTCATGCTACTTTGTTGTTCTT 57.300 33.333 0.00 0.00 0.00 2.52
4953 13613 7.061094 GCATAAACTCATGCTACTTTGTTGTTC 59.939 37.037 0.92 0.00 46.35 3.18
4954 13614 6.863126 GCATAAACTCATGCTACTTTGTTGTT 59.137 34.615 0.92 0.00 46.35 2.83
4956 13616 6.859715 GCATAAACTCATGCTACTTTGTTG 57.140 37.500 0.92 0.00 46.35 3.33
4987 13652 6.337356 ACGTATTATTTGCTTTTGGAATGGG 58.663 36.000 0.00 0.00 0.00 4.00
5010 13675 4.338400 CGGGAATTCTGGGATTAGGAAAAC 59.662 45.833 5.23 0.00 0.00 2.43
5016 13681 5.246307 GGTAATCGGGAATTCTGGGATTAG 58.754 45.833 18.20 0.00 32.13 1.73
5082 13748 4.285807 TGTTGTTTGATTCGAGGTTGTG 57.714 40.909 0.00 0.00 0.00 3.33
5111 13777 6.634436 CACTCTCTTGTAAGCAATTGTGAAAC 59.366 38.462 7.40 1.81 33.65 2.78
5134 13800 6.655062 TGCTTATATATAACAACTTGCGCAC 58.345 36.000 11.12 0.00 0.00 5.34
5138 13804 9.869844 CAGAGTTGCTTATATATAACAACTTGC 57.130 33.333 29.49 23.60 40.44 4.01
5170 13836 6.183360 ACCATTTATCTTGTGCCTTCTTATGC 60.183 38.462 0.00 0.00 0.00 3.14
5181 13847 4.698304 ACCCGTGTAACCATTTATCTTGTG 59.302 41.667 0.00 0.00 0.00 3.33
5182 13848 4.698304 CACCCGTGTAACCATTTATCTTGT 59.302 41.667 0.00 0.00 0.00 3.16
5201 13867 4.192317 CCACTCTAGCTGAATAAACACCC 58.808 47.826 0.00 0.00 0.00 4.61
5203 13869 5.086104 TCCCACTCTAGCTGAATAAACAC 57.914 43.478 0.00 0.00 0.00 3.32
5248 13914 3.228188 ACAGAAACATCAAAGGCTGGA 57.772 42.857 0.00 0.00 0.00 3.86
5334 14000 6.472163 CGTGGATTAAATGTATTGTTCTTGGC 59.528 38.462 0.00 0.00 0.00 4.52
5335 14001 7.757526 TCGTGGATTAAATGTATTGTTCTTGG 58.242 34.615 0.00 0.00 0.00 3.61
5389 14055 1.004745 TGCCCTCTTTTCTCATGTCCC 59.995 52.381 0.00 0.00 0.00 4.46
5401 14067 0.786435 ATTCCCAAAGGTGCCCTCTT 59.214 50.000 0.00 0.00 30.89 2.85
5465 14131 1.001393 GGAATTCCCTGGGCGTGAA 60.001 57.895 14.03 0.00 0.00 3.18
5471 14137 1.849039 ACTCATCTGGAATTCCCTGGG 59.151 52.381 21.90 17.39 34.88 4.45
5561 14227 9.283768 AGCAACGTATAATGAATGGATGATAAA 57.716 29.630 0.00 0.00 0.00 1.40
5641 14308 2.350498 CGCATACGTTTTGGAACTAGGG 59.650 50.000 0.00 0.00 33.51 3.53
5650 14317 6.244999 TGCTAAGTTAATCGCATACGTTTTG 58.755 36.000 0.00 0.00 41.18 2.44
5655 14322 5.402568 AGTGATGCTAAGTTAATCGCATACG 59.597 40.000 7.80 0.00 42.60 3.06
5694 14361 5.063312 GGTGCAAATAAAATGCCATGTACAC 59.937 40.000 0.00 0.00 43.16 2.90
5699 14366 3.623960 CCTGGTGCAAATAAAATGCCATG 59.376 43.478 0.00 0.00 43.16 3.66
5738 14405 4.418392 GTGTAGCCTTCTGCATCAATTTG 58.582 43.478 0.00 0.00 44.83 2.32
5739 14406 3.127548 CGTGTAGCCTTCTGCATCAATTT 59.872 43.478 0.00 0.00 44.83 1.82
5740 14407 2.679837 CGTGTAGCCTTCTGCATCAATT 59.320 45.455 0.00 0.00 44.83 2.32
5750 14417 0.595310 GCTCGGATCGTGTAGCCTTC 60.595 60.000 0.00 0.00 0.00 3.46
5772 14439 4.082245 CCATTTGATGTGTCCTGGTTTACC 60.082 45.833 0.00 0.00 0.00 2.85
5774 14441 3.509575 GCCATTTGATGTGTCCTGGTTTA 59.490 43.478 0.00 0.00 0.00 2.01
5786 14453 3.018856 TGAGTTGCCTAGCCATTTGATG 58.981 45.455 0.00 0.00 0.00 3.07
5796 14463 3.971245 AGGAAGAAGTGAGTTGCCTAG 57.029 47.619 0.00 0.00 0.00 3.02
5800 14467 4.791088 GCAGAAAAGGAAGAAGTGAGTTGC 60.791 45.833 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.