Multiple sequence alignment - TraesCS7B01G399200

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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 TraesCS7B01G399200 chr7B 100.000 2774 0 0 1 2774 665512724 665509951 0.000000e+00 5123.0
1 TraesCS7B01G399200 chr7B 80.488 1312 220 27 433 1721 668357079 668355781 0.000000e+00 972.0
2 TraesCS7B01G399200 chr7B 91.919 594 46 1 873 1466 23382317 23382908 0.000000e+00 830.0
3 TraesCS7B01G399200 chr7B 92.780 554 35 3 1999 2547 23388791 23389344 0.000000e+00 797.0
4 TraesCS7B01G399200 chr7B 93.161 541 24 7 1462 2000 23388179 23388708 0.000000e+00 782.0
5 TraesCS7B01G399200 chr7B 88.636 308 31 3 528 832 23380480 23380786 3.370000e-99 372.0
6 TraesCS7B01G399200 chr7B 91.892 222 16 2 2553 2773 218521498 218521278 2.680000e-80 309.0
7 TraesCS7B01G399200 chr7B 91.189 227 17 3 2550 2774 638483743 638483518 3.470000e-79 305.0
8 TraesCS7B01G399200 chr7B 91.111 180 16 0 3 182 23335644 23335823 7.670000e-61 244.0
9 TraesCS7B01G399200 chr7B 85.185 162 17 4 385 545 23380306 23380461 2.860000e-35 159.0
10 TraesCS7B01G399200 chr7B 79.747 158 13 10 239 396 23335918 23336056 2.270000e-16 97.1
11 TraesCS7B01G399200 chr7D 93.146 890 58 1 339 1225 590641728 590640839 0.000000e+00 1303.0
12 TraesCS7B01G399200 chr7D 92.112 786 40 12 1278 2054 590627106 590626334 0.000000e+00 1088.0
13 TraesCS7B01G399200 chr7D 88.355 541 39 8 2011 2547 590626403 590625883 1.810000e-176 628.0
14 TraesCS7B01G399200 chr7D 93.448 290 15 1 3 288 590642028 590641739 7.100000e-116 427.0
15 TraesCS7B01G399200 chr7D 88.235 51 4 1 132 182 592975852 592975900 2.980000e-05 60.2
16 TraesCS7B01G399200 chr3B 90.667 225 19 2 2551 2774 549765391 549765168 5.810000e-77 298.0
17 TraesCS7B01G399200 chr3B 89.823 226 21 2 2550 2774 573530996 573530772 3.500000e-74 289.0
18 TraesCS7B01G399200 chr3B 90.455 220 19 2 2553 2771 778990091 778989873 3.500000e-74 289.0
19 TraesCS7B01G399200 chr4B 90.498 221 20 1 2555 2774 99442217 99441997 9.720000e-75 291.0
20 TraesCS7B01G399200 chr4B 90.090 222 21 1 2553 2774 618599137 618598917 1.260000e-73 287.0
21 TraesCS7B01G399200 chr1B 90.135 223 21 1 2553 2774 605917443 605917665 3.500000e-74 289.0
22 TraesCS7B01G399200 chr2B 90.179 224 17 1 2551 2774 47573038 47573256 1.260000e-73 287.0
23 TraesCS7B01G399200 chrUn 75.941 611 99 24 1472 2049 304063014 304063609 1.270000e-68 270.0
24 TraesCS7B01G399200 chrUn 75.941 611 99 24 1472 2049 304067419 304068014 1.270000e-68 270.0
25 TraesCS7B01G399200 chrUn 75.941 611 99 24 1472 2049 319220845 319221440 1.270000e-68 270.0
26 TraesCS7B01G399200 chr6D 96.970 33 1 0 838 870 32245453 32245421 3.860000e-04 56.5
27 TraesCS7B01G399200 chr6B 96.970 33 1 0 838 870 67692120 67692088 3.860000e-04 56.5
28 TraesCS7B01G399200 chr6B 96.970 33 1 0 838 870 67732262 67732230 3.860000e-04 56.5


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 TraesCS7B01G399200 chr7B 665509951 665512724 2773 True 5123.000000 5123 100.0000 1 2774 1 chr7B.!!$R3 2773
1 TraesCS7B01G399200 chr7B 668355781 668357079 1298 True 972.000000 972 80.4880 433 1721 1 chr7B.!!$R4 1288
2 TraesCS7B01G399200 chr7B 23388179 23389344 1165 False 789.500000 797 92.9705 1462 2547 2 chr7B.!!$F3 1085
3 TraesCS7B01G399200 chr7B 23380306 23382908 2602 False 453.666667 830 88.5800 385 1466 3 chr7B.!!$F2 1081
4 TraesCS7B01G399200 chr7D 590640839 590642028 1189 True 865.000000 1303 93.2970 3 1225 2 chr7D.!!$R2 1222
5 TraesCS7B01G399200 chr7D 590625883 590627106 1223 True 858.000000 1088 90.2335 1278 2547 2 chr7D.!!$R1 1269
6 TraesCS7B01G399200 chrUn 304063014 304068014 5000 False 270.000000 270 75.9410 1472 2049 2 chrUn.!!$F2 577
7 TraesCS7B01G399200 chrUn 319220845 319221440 595 False 270.000000 270 75.9410 1472 2049 1 chrUn.!!$F1 577

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
288 293 0.037232 GTCGGATGGGTAGCCATAGC 60.037 60.0 26.00 14.54 40.32 2.97 F
334 339 0.098200 CGTACGTCCAGCAGATCGAA 59.902 55.0 7.22 0.00 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1235 2810 0.971386 GACCTCTTCCACCCGTTGTA 59.029 55.0 0.0 0.0 0.0 2.41 R
2299 8405 1.207390 GCATCTGACTCATGACGCTC 58.793 55.0 0.0 0.0 0.0 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
30 31 3.414700 GTGAGCAGCGGTGAACGG 61.415 66.667 20.69 0.00 44.51 4.44
83 84 1.749063 ACACGCATCGGAATCTACAGA 59.251 47.619 0.00 0.00 0.00 3.41
160 161 2.883730 GGCAGCATCGTCGCGTTA 60.884 61.111 5.77 0.00 36.85 3.18
230 235 7.479916 CGTTCTTCTCAGATTGTTTTTATGCTC 59.520 37.037 0.00 0.00 0.00 4.26
243 248 8.825667 TGTTTTTATGCTCACTATATATCGCA 57.174 30.769 0.00 0.00 0.00 5.10
267 272 7.258441 CACAGAATTATTAGACCTCGACAAGA 58.742 38.462 0.00 0.00 0.00 3.02
282 287 1.207329 ACAAGAAGTCGGATGGGTAGC 59.793 52.381 0.00 0.00 0.00 3.58
285 290 0.759346 GAAGTCGGATGGGTAGCCAT 59.241 55.000 26.23 26.23 30.94 4.40
286 291 1.968493 GAAGTCGGATGGGTAGCCATA 59.032 52.381 26.00 8.64 30.94 2.74
287 292 1.633774 AGTCGGATGGGTAGCCATAG 58.366 55.000 26.00 21.34 30.94 2.23
288 293 0.037232 GTCGGATGGGTAGCCATAGC 60.037 60.000 26.00 14.54 40.32 2.97
301 306 3.651803 GCCATAGCTGGACTACTGTAG 57.348 52.381 13.13 13.13 46.37 2.74
302 307 2.959707 GCCATAGCTGGACTACTGTAGT 59.040 50.000 19.79 19.79 46.37 2.73
303 308 3.004944 GCCATAGCTGGACTACTGTAGTC 59.995 52.174 30.73 30.73 46.37 2.59
321 326 1.817099 CCTAGAGTCCGGCGTACGT 60.817 63.158 17.90 0.00 42.24 3.57
322 327 1.640604 CTAGAGTCCGGCGTACGTC 59.359 63.158 17.90 14.42 42.24 4.34
323 328 1.770085 CTAGAGTCCGGCGTACGTCC 61.770 65.000 15.26 15.63 42.24 4.79
324 329 2.520465 TAGAGTCCGGCGTACGTCCA 62.520 60.000 22.55 5.90 42.24 4.02
325 330 3.392595 GAGTCCGGCGTACGTCCAG 62.393 68.421 22.55 14.71 42.24 3.86
329 334 4.111016 CGGCGTACGTCCAGCAGA 62.111 66.667 22.55 0.00 37.93 4.26
330 335 2.494918 GGCGTACGTCCAGCAGAT 59.505 61.111 17.90 0.00 0.00 2.90
331 336 1.589196 GGCGTACGTCCAGCAGATC 60.589 63.158 17.90 0.00 0.00 2.75
332 337 1.939785 GCGTACGTCCAGCAGATCG 60.940 63.158 17.90 0.00 0.00 3.69
333 338 1.719709 CGTACGTCCAGCAGATCGA 59.280 57.895 7.22 0.00 0.00 3.59
334 339 0.098200 CGTACGTCCAGCAGATCGAA 59.902 55.000 7.22 0.00 0.00 3.71
335 340 1.828832 GTACGTCCAGCAGATCGAAG 58.171 55.000 0.00 0.00 0.00 3.79
336 341 0.100682 TACGTCCAGCAGATCGAAGC 59.899 55.000 0.00 0.00 0.00 3.86
337 342 1.880340 CGTCCAGCAGATCGAAGCC 60.880 63.158 0.00 0.00 0.00 4.35
338 343 1.219124 GTCCAGCAGATCGAAGCCA 59.781 57.895 0.00 0.00 0.00 4.75
339 344 1.086634 GTCCAGCAGATCGAAGCCAC 61.087 60.000 0.00 0.00 0.00 5.01
340 345 2.169789 CCAGCAGATCGAAGCCACG 61.170 63.158 0.00 0.00 0.00 4.94
367 372 3.474600 CAGATCGAAGCCCAGAAATCAT 58.525 45.455 0.00 0.00 0.00 2.45
377 382 3.546815 GCCCAGAAATCATGAATCGTTCG 60.547 47.826 0.00 0.00 0.00 3.95
497 508 1.519408 AGTCGGGACAAAACCAATCG 58.481 50.000 1.17 0.00 0.00 3.34
556 616 1.628846 ACGGGGAGGCATATGATAACC 59.371 52.381 6.97 2.72 0.00 2.85
639 708 1.548719 GGTGTTTTTACCATGGCCTCC 59.451 52.381 13.04 0.00 40.54 4.30
675 747 2.744202 GTTGCCAGACGATGTGATCTTT 59.256 45.455 0.00 0.00 0.00 2.52
684 756 6.417339 CAGACGATGTGATCTTTGAGATACTG 59.583 42.308 0.00 0.00 34.53 2.74
693 766 0.892755 TTGAGATACTGTCGCGGGTT 59.107 50.000 6.13 0.00 0.00 4.11
694 767 0.892755 TGAGATACTGTCGCGGGTTT 59.107 50.000 6.13 0.00 0.00 3.27
699 772 2.752322 TACTGTCGCGGGTTTCGGTG 62.752 60.000 6.13 0.00 39.69 4.94
720 793 2.124983 TCTGCCTGCAGATTCCGC 60.125 61.111 17.39 10.31 46.80 5.54
826 962 3.131478 CCGCCAATTCCACCGACC 61.131 66.667 0.00 0.00 0.00 4.79
891 2454 6.257193 ACGTCATAAAAGTTATTAAGAGGCCG 59.743 38.462 0.00 0.00 0.00 6.13
897 2460 2.169978 AGTTATTAAGAGGCCGGGTGTC 59.830 50.000 2.18 0.00 0.00 3.67
966 2529 1.512156 ATTTTGGCGTCGCGTCCTTT 61.512 50.000 11.75 0.00 0.00 3.11
1015 2578 4.261405 GGACTGTGATGAAGATCTCTACCG 60.261 50.000 0.00 0.00 0.00 4.02
1047 2610 5.773680 CAGGGAATATTTCTGGCATCTCAAT 59.226 40.000 10.26 0.00 0.00 2.57
1100 2663 1.086634 GTCGTCTGCATCAAGAGCCC 61.087 60.000 0.00 0.00 0.00 5.19
1167 2733 1.303282 GCCGTCCCCTCCAGAAATT 59.697 57.895 0.00 0.00 0.00 1.82
1241 2816 2.432972 CGGGTCCGGGTTACAACG 60.433 66.667 0.00 0.00 35.56 4.10
1299 2874 1.612146 TGAGGAATGGAGGGCGTCA 60.612 57.895 9.66 0.00 0.00 4.35
1307 2882 2.670148 GGAGGGCGTCAATCAGGGT 61.670 63.158 9.66 0.00 0.00 4.34
1329 2911 3.010472 TCCCAATGACATCTGGTGACAAT 59.990 43.478 12.67 0.00 42.06 2.71
1355 2937 5.491982 ACAAGGTAAGACATGGACAAGATC 58.508 41.667 0.00 0.00 0.00 2.75
1410 2992 1.266718 CAACGGACCTCAACCAACATG 59.733 52.381 0.00 0.00 0.00 3.21
1453 3035 2.520458 CCACCAAAGGCACCTGGA 59.480 61.111 0.00 0.00 35.59 3.86
1517 3104 1.752498 GATGCCTTTGATGGTGATGCA 59.248 47.619 0.00 0.00 0.00 3.96
1550 3137 0.173481 TTGCTCTTCTATCTGCGCGT 59.827 50.000 8.43 0.00 0.00 6.01
1602 3189 4.150098 GTCTACGATCCACTCACACAAAAC 59.850 45.833 0.00 0.00 0.00 2.43
1608 3195 2.675844 TCCACTCACACAAAACTTCACG 59.324 45.455 0.00 0.00 0.00 4.35
1716 7708 1.954146 GACTGCGCCGAGTGTTTCA 60.954 57.895 4.18 0.00 0.00 2.69
1879 7883 9.614792 AGGTTGATAAGGAATGTTAAGATGTAC 57.385 33.333 0.00 0.00 0.00 2.90
1906 7922 7.150783 AGTGGAGCTATTGAAAAACTTGATC 57.849 36.000 0.00 0.00 0.00 2.92
1947 7965 5.549347 AGATGATGAGCCATGTATGACTTC 58.451 41.667 0.00 0.00 0.00 3.01
1948 7966 5.307456 AGATGATGAGCCATGTATGACTTCT 59.693 40.000 0.00 0.00 0.00 2.85
2160 8265 0.104934 AGGGGCTTATCCTCGATGGT 60.105 55.000 0.00 0.00 41.53 3.55
2168 8273 0.683973 ATCCTCGATGGTGATGCCTC 59.316 55.000 0.00 0.00 38.35 4.70
2213 8318 0.111061 AGTGTTCCTGCTGGCATTGA 59.889 50.000 4.42 0.00 0.00 2.57
2238 8343 0.825010 AAGCAGTTGTGAAGCCCCAG 60.825 55.000 0.00 0.00 0.00 4.45
2241 8346 1.915141 CAGTTGTGAAGCCCCAGATT 58.085 50.000 0.00 0.00 0.00 2.40
2251 8357 2.191513 CCCCAGATTGCTGATGCCG 61.192 63.158 0.00 0.00 45.17 5.69
2268 8374 2.932234 CGTGGCGAGGAAGACCAGT 61.932 63.158 0.00 0.00 38.94 4.00
2299 8405 4.512944 AGATAACATGCATAAAGTCCAGCG 59.487 41.667 0.00 0.00 0.00 5.18
2307 8413 0.530744 TAAAGTCCAGCGAGCGTCAT 59.469 50.000 0.00 0.00 0.00 3.06
2311 8417 2.182791 CCAGCGAGCGTCATGAGT 59.817 61.111 0.00 0.00 0.00 3.41
2313 8419 1.153958 CAGCGAGCGTCATGAGTCA 60.154 57.895 0.00 0.00 0.00 3.41
2390 8496 1.108776 AGCTCGGTATAGAAACGCCA 58.891 50.000 0.00 0.00 0.00 5.69
2396 8502 5.563475 GCTCGGTATAGAAACGCCATAGTAA 60.563 44.000 0.00 0.00 0.00 2.24
2434 8540 2.029073 CACGCTGTCGGTGAAGGT 59.971 61.111 0.00 0.00 40.69 3.50
2444 8553 1.227999 CGGTGAAGGTGAACACGCAT 61.228 55.000 0.00 0.00 37.82 4.73
2450 8559 1.563924 AGGTGAACACGCATAGGGTA 58.436 50.000 0.00 0.00 33.60 3.69
2512 8622 0.664166 GATTTGCACTTGCCGTGGTG 60.664 55.000 0.00 0.00 43.97 4.17
2547 8657 0.101399 CAGAGCCTGGTACACTAGCG 59.899 60.000 0.00 0.00 0.00 4.26
2548 8658 1.227002 GAGCCTGGTACACTAGCGC 60.227 63.158 0.00 0.00 0.00 5.92
2549 8659 1.668101 GAGCCTGGTACACTAGCGCT 61.668 60.000 17.26 17.26 35.16 5.92
2550 8660 1.218316 GCCTGGTACACTAGCGCTT 59.782 57.895 18.68 0.00 0.00 4.68
2551 8661 0.391263 GCCTGGTACACTAGCGCTTT 60.391 55.000 18.68 0.00 0.00 3.51
2552 8662 1.134907 GCCTGGTACACTAGCGCTTTA 60.135 52.381 18.68 0.00 0.00 1.85
2553 8663 2.810650 CCTGGTACACTAGCGCTTTAG 58.189 52.381 18.68 11.11 0.00 1.85
2554 8664 2.426024 CCTGGTACACTAGCGCTTTAGA 59.574 50.000 18.68 0.00 0.00 2.10
2555 8665 3.489398 CCTGGTACACTAGCGCTTTAGAG 60.489 52.174 18.68 9.76 0.00 2.43
2556 8666 2.159282 TGGTACACTAGCGCTTTAGAGC 60.159 50.000 18.68 8.24 45.65 4.09
2571 8681 2.373938 GAGCATCTCCAACCGTTCG 58.626 57.895 0.00 0.00 0.00 3.95
2572 8682 1.079127 AGCATCTCCAACCGTTCGG 60.079 57.895 9.81 9.81 0.00 4.30
2573 8683 2.750888 GCATCTCCAACCGTTCGGC 61.751 63.158 11.32 0.00 0.00 5.54
2574 8684 2.106683 CATCTCCAACCGTTCGGCC 61.107 63.158 11.32 0.00 0.00 6.13
2575 8685 3.325201 ATCTCCAACCGTTCGGCCC 62.325 63.158 11.32 0.00 0.00 5.80
2591 8701 4.676951 CCCCCAGGGCGCTGAAAA 62.677 66.667 30.57 0.00 35.35 2.29
2592 8702 2.600173 CCCCAGGGCGCTGAAAAA 60.600 61.111 30.57 0.00 0.00 1.94
2593 8703 2.639327 CCCCAGGGCGCTGAAAAAG 61.639 63.158 30.57 13.90 0.00 2.27
2594 8704 1.903404 CCCAGGGCGCTGAAAAAGT 60.903 57.895 30.57 0.00 0.00 2.66
2595 8705 1.286880 CCAGGGCGCTGAAAAAGTG 59.713 57.895 30.57 9.29 39.57 3.16
2596 8706 1.455383 CCAGGGCGCTGAAAAAGTGT 61.455 55.000 30.57 0.00 38.75 3.55
2597 8707 0.318107 CAGGGCGCTGAAAAAGTGTG 60.318 55.000 25.55 0.00 38.75 3.82
2598 8708 1.007387 GGGCGCTGAAAAAGTGTGG 60.007 57.895 7.64 0.00 38.75 4.17
2599 8709 1.661509 GGCGCTGAAAAAGTGTGGC 60.662 57.895 7.64 0.00 38.75 5.01
2600 8710 1.661509 GCGCTGAAAAAGTGTGGCC 60.662 57.895 0.00 0.00 38.75 5.36
2601 8711 2.032981 CGCTGAAAAAGTGTGGCCT 58.967 52.632 3.32 0.00 0.00 5.19
2602 8712 0.318107 CGCTGAAAAAGTGTGGCCTG 60.318 55.000 3.32 0.00 0.00 4.85
2603 8713 0.032540 GCTGAAAAAGTGTGGCCTGG 59.967 55.000 3.32 0.00 0.00 4.45
2604 8714 0.675633 CTGAAAAAGTGTGGCCTGGG 59.324 55.000 3.32 0.00 0.00 4.45
2605 8715 0.758685 TGAAAAAGTGTGGCCTGGGG 60.759 55.000 3.32 0.00 0.00 4.96
2606 8716 1.459348 AAAAAGTGTGGCCTGGGGG 60.459 57.895 3.32 0.00 0.00 5.40
2607 8717 2.250635 AAAAAGTGTGGCCTGGGGGT 62.251 55.000 3.32 0.00 34.45 4.95
2608 8718 2.945178 AAAAGTGTGGCCTGGGGGTG 62.945 60.000 3.32 0.00 34.45 4.61
2609 8719 4.918360 AGTGTGGCCTGGGGGTGA 62.918 66.667 3.32 0.00 34.45 4.02
2610 8720 4.351054 GTGTGGCCTGGGGGTGAG 62.351 72.222 3.32 0.00 34.45 3.51
2620 8730 3.857038 GGGGTGAGCCGGCGATAA 61.857 66.667 23.20 4.88 34.97 1.75
2621 8731 2.188469 GGGTGAGCCGGCGATAAA 59.812 61.111 23.20 2.78 34.97 1.40
2622 8732 2.178235 GGGTGAGCCGGCGATAAAC 61.178 63.158 23.20 15.42 34.97 2.01
2623 8733 1.153429 GGTGAGCCGGCGATAAACT 60.153 57.895 23.20 0.00 0.00 2.66
2624 8734 1.152383 GGTGAGCCGGCGATAAACTC 61.152 60.000 23.20 12.00 0.00 3.01
2633 8743 2.003672 CGATAAACTCGGCGTTGGG 58.996 57.895 6.85 0.00 43.82 4.12
2634 8744 0.458889 CGATAAACTCGGCGTTGGGA 60.459 55.000 6.85 0.00 43.82 4.37
2635 8745 1.004595 GATAAACTCGGCGTTGGGAC 58.995 55.000 6.85 0.00 35.61 4.46
2644 8754 4.973055 CGTTGGGACGGTTCGGCA 62.973 66.667 0.00 0.00 45.32 5.69
2645 8755 3.351416 GTTGGGACGGTTCGGCAC 61.351 66.667 0.00 0.00 39.65 5.01
2646 8756 4.629523 TTGGGACGGTTCGGCACC 62.630 66.667 0.00 0.00 37.58 5.01
2674 8784 3.465403 CCTCCAGGTCGCTCCCAG 61.465 72.222 0.00 0.00 36.75 4.45
2675 8785 3.465403 CTCCAGGTCGCTCCCAGG 61.465 72.222 0.00 0.00 36.75 4.45
2684 8794 2.439156 GCTCCCAGGCGCTGATTT 60.439 61.111 7.64 0.00 32.44 2.17
2685 8795 2.476320 GCTCCCAGGCGCTGATTTC 61.476 63.158 7.64 0.00 32.44 2.17
2686 8796 2.125147 TCCCAGGCGCTGATTTCG 60.125 61.111 7.64 0.00 32.44 3.46
2687 8797 3.204827 CCCAGGCGCTGATTTCGG 61.205 66.667 7.64 0.00 32.44 4.30
2692 8802 3.880846 GCGCTGATTTCGGCCCAG 61.881 66.667 0.00 0.00 45.16 4.45
2693 8803 2.436646 CGCTGATTTCGGCCCAGT 60.437 61.111 0.00 0.00 45.16 4.00
2694 8804 2.753966 CGCTGATTTCGGCCCAGTG 61.754 63.158 0.00 0.41 45.16 3.66
2695 8805 1.675641 GCTGATTTCGGCCCAGTGT 60.676 57.895 0.00 0.00 42.27 3.55
2696 8806 1.244019 GCTGATTTCGGCCCAGTGTT 61.244 55.000 0.00 0.00 42.27 3.32
2697 8807 0.804989 CTGATTTCGGCCCAGTGTTC 59.195 55.000 0.00 0.00 0.00 3.18
2698 8808 0.953471 TGATTTCGGCCCAGTGTTCG 60.953 55.000 0.00 0.00 0.00 3.95
2699 8809 1.644786 GATTTCGGCCCAGTGTTCGG 61.645 60.000 0.00 0.00 0.00 4.30
2700 8810 2.406002 ATTTCGGCCCAGTGTTCGGT 62.406 55.000 0.00 0.00 0.00 4.69
2701 8811 2.999739 TTTCGGCCCAGTGTTCGGTC 63.000 60.000 0.00 0.00 0.00 4.79
2703 8813 3.948719 GGCCCAGTGTTCGGTCCA 61.949 66.667 0.00 0.00 0.00 4.02
2704 8814 2.112297 GCCCAGTGTTCGGTCCAA 59.888 61.111 0.00 0.00 0.00 3.53
2705 8815 1.303317 GCCCAGTGTTCGGTCCAAT 60.303 57.895 0.00 0.00 0.00 3.16
2706 8816 0.893727 GCCCAGTGTTCGGTCCAATT 60.894 55.000 0.00 0.00 0.00 2.32
2707 8817 1.612199 GCCCAGTGTTCGGTCCAATTA 60.612 52.381 0.00 0.00 0.00 1.40
2708 8818 2.944094 GCCCAGTGTTCGGTCCAATTAT 60.944 50.000 0.00 0.00 0.00 1.28
2709 8819 2.682856 CCCAGTGTTCGGTCCAATTATG 59.317 50.000 0.00 0.00 0.00 1.90
2710 8820 3.343617 CCAGTGTTCGGTCCAATTATGT 58.656 45.455 0.00 0.00 0.00 2.29
2711 8821 3.374058 CCAGTGTTCGGTCCAATTATGTC 59.626 47.826 0.00 0.00 0.00 3.06
2712 8822 3.374058 CAGTGTTCGGTCCAATTATGTCC 59.626 47.826 0.00 0.00 0.00 4.02
2713 8823 3.008594 AGTGTTCGGTCCAATTATGTCCA 59.991 43.478 0.00 0.00 0.00 4.02
2714 8824 3.754323 GTGTTCGGTCCAATTATGTCCAA 59.246 43.478 0.00 0.00 0.00 3.53
2715 8825 4.216687 GTGTTCGGTCCAATTATGTCCAAA 59.783 41.667 0.00 0.00 0.00 3.28
2716 8826 4.827835 TGTTCGGTCCAATTATGTCCAAAA 59.172 37.500 0.00 0.00 0.00 2.44
2717 8827 5.302059 TGTTCGGTCCAATTATGTCCAAAAA 59.698 36.000 0.00 0.00 0.00 1.94
2718 8828 5.379732 TCGGTCCAATTATGTCCAAAAAC 57.620 39.130 0.00 0.00 0.00 2.43
2719 8829 4.083217 TCGGTCCAATTATGTCCAAAAACG 60.083 41.667 0.00 0.00 0.00 3.60
2720 8830 4.490743 GGTCCAATTATGTCCAAAAACGG 58.509 43.478 0.00 0.00 0.00 4.44
2721 8831 3.924073 GTCCAATTATGTCCAAAAACGGC 59.076 43.478 0.00 0.00 0.00 5.68
2722 8832 3.056465 TCCAATTATGTCCAAAAACGGCC 60.056 43.478 0.00 0.00 0.00 6.13
2723 8833 3.258228 CAATTATGTCCAAAAACGGCCC 58.742 45.455 0.00 0.00 0.00 5.80
2724 8834 0.882474 TTATGTCCAAAAACGGCCCG 59.118 50.000 0.00 0.00 0.00 6.13
2725 8835 0.036448 TATGTCCAAAAACGGCCCGA 59.964 50.000 11.71 0.00 0.00 5.14
2726 8836 0.610785 ATGTCCAAAAACGGCCCGAT 60.611 50.000 11.71 0.00 0.00 4.18
2727 8837 0.036448 TGTCCAAAAACGGCCCGATA 59.964 50.000 11.71 0.00 0.00 2.92
2728 8838 1.340211 TGTCCAAAAACGGCCCGATAT 60.340 47.619 11.71 0.00 0.00 1.63
2729 8839 1.332686 GTCCAAAAACGGCCCGATATC 59.667 52.381 11.71 0.00 0.00 1.63
2730 8840 1.210967 TCCAAAAACGGCCCGATATCT 59.789 47.619 11.71 0.00 0.00 1.98
2731 8841 1.333619 CCAAAAACGGCCCGATATCTG 59.666 52.381 11.71 0.00 0.00 2.90
2732 8842 1.021968 AAAAACGGCCCGATATCTGC 58.978 50.000 11.71 3.47 0.00 4.26
2733 8843 1.157870 AAAACGGCCCGATATCTGCG 61.158 55.000 11.71 0.00 0.00 5.18
2734 8844 2.306255 AAACGGCCCGATATCTGCGT 62.306 55.000 11.71 0.00 0.00 5.24
2735 8845 2.734723 CGGCCCGATATCTGCGTG 60.735 66.667 0.00 0.00 0.00 5.34
2736 8846 2.734591 GGCCCGATATCTGCGTGA 59.265 61.111 0.34 0.00 0.00 4.35
2737 8847 1.069090 GGCCCGATATCTGCGTGAA 59.931 57.895 0.34 0.00 0.00 3.18
2738 8848 0.320771 GGCCCGATATCTGCGTGAAT 60.321 55.000 0.34 0.00 0.00 2.57
2739 8849 1.071605 GCCCGATATCTGCGTGAATC 58.928 55.000 0.34 0.00 0.00 2.52
2740 8850 1.340658 CCCGATATCTGCGTGAATCG 58.659 55.000 0.34 4.82 40.60 3.34
2741 8851 1.068541 CCCGATATCTGCGTGAATCGA 60.069 52.381 11.45 0.00 42.88 3.59
2742 8852 1.979469 CCGATATCTGCGTGAATCGAC 59.021 52.381 11.45 0.00 42.88 4.20
2743 8853 1.979469 CGATATCTGCGTGAATCGACC 59.021 52.381 0.34 0.00 42.88 4.79
2744 8854 2.329379 GATATCTGCGTGAATCGACCC 58.671 52.381 0.00 0.00 42.86 4.46
2745 8855 1.107945 TATCTGCGTGAATCGACCCA 58.892 50.000 0.00 0.00 42.86 4.51
2746 8856 0.465705 ATCTGCGTGAATCGACCCAT 59.534 50.000 0.00 0.00 42.86 4.00
2747 8857 1.107945 TCTGCGTGAATCGACCCATA 58.892 50.000 0.00 0.00 42.86 2.74
2748 8858 1.686587 TCTGCGTGAATCGACCCATAT 59.313 47.619 0.00 0.00 42.86 1.78
2749 8859 2.102420 TCTGCGTGAATCGACCCATATT 59.898 45.455 0.00 0.00 42.86 1.28
2750 8860 2.476619 CTGCGTGAATCGACCCATATTC 59.523 50.000 0.00 0.00 42.86 1.75
2751 8861 1.455786 GCGTGAATCGACCCATATTCG 59.544 52.381 0.00 0.00 42.86 3.34
2752 8862 2.058798 CGTGAATCGACCCATATTCGG 58.941 52.381 0.00 0.00 42.86 4.30
2753 8863 1.798813 GTGAATCGACCCATATTCGGC 59.201 52.381 0.00 0.00 37.09 5.54
2754 8864 1.068474 GAATCGACCCATATTCGGCG 58.932 55.000 0.00 0.00 37.09 6.46
2755 8865 0.949105 AATCGACCCATATTCGGCGC 60.949 55.000 0.00 0.00 37.09 6.53
2756 8866 3.403057 CGACCCATATTCGGCGCG 61.403 66.667 0.00 0.00 32.66 6.86
2757 8867 3.041940 GACCCATATTCGGCGCGG 61.042 66.667 8.83 8.94 0.00 6.46
2758 8868 3.802418 GACCCATATTCGGCGCGGT 62.802 63.158 15.06 6.97 0.00 5.68
2759 8869 2.590575 CCCATATTCGGCGCGGTT 60.591 61.111 15.06 6.63 0.00 4.44
2760 8870 2.604174 CCCATATTCGGCGCGGTTC 61.604 63.158 15.06 0.00 0.00 3.62
2761 8871 2.544359 CATATTCGGCGCGGTTCG 59.456 61.111 15.06 6.13 42.12 3.95
2762 8872 2.660552 ATATTCGGCGCGGTTCGG 60.661 61.111 15.06 0.00 38.94 4.30
2771 8881 4.712873 GCGGTTCGGCGTGTTTCG 62.713 66.667 6.85 6.65 43.12 3.46
2772 8882 4.067016 CGGTTCGGCGTGTTTCGG 62.067 66.667 6.85 0.00 40.26 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.527951 ATCTCTGGCCAGCCGTTCAC 62.528 60.000 28.91 0.00 39.42 3.18
30 31 1.227615 GCTCTCATCTCTGGCCAGC 60.228 63.158 28.91 10.19 0.00 4.85
32 33 1.683707 ACGCTCTCATCTCTGGCCA 60.684 57.895 4.71 4.71 0.00 5.36
37 38 1.815196 CTGGCACGCTCTCATCTCT 59.185 57.895 0.00 0.00 0.00 3.10
120 121 1.968017 TCGTTACCAGCCGACGTCT 60.968 57.895 14.70 0.00 37.95 4.18
121 122 1.799121 GTCGTTACCAGCCGACGTC 60.799 63.158 5.18 5.18 43.22 4.34
160 161 0.108377 TGTTACCATCGCACATCGCT 60.108 50.000 0.00 0.00 39.08 4.93
243 248 7.406031 TCTTGTCGAGGTCTAATAATTCTGT 57.594 36.000 0.00 0.00 0.00 3.41
267 272 4.472701 TGGCTACCCATCCGACTT 57.527 55.556 0.00 0.00 35.79 3.01
292 297 3.134442 CCGGACTCTAGGACTACAGTAGT 59.866 52.174 13.41 13.41 42.86 2.73
293 298 3.731089 CCGGACTCTAGGACTACAGTAG 58.269 54.545 6.00 6.00 0.00 2.57
294 299 2.158842 GCCGGACTCTAGGACTACAGTA 60.159 54.545 5.05 0.00 0.00 2.74
295 300 1.408544 GCCGGACTCTAGGACTACAGT 60.409 57.143 5.05 0.00 0.00 3.55
296 301 1.310904 GCCGGACTCTAGGACTACAG 58.689 60.000 5.05 0.00 0.00 2.74
297 302 0.463295 CGCCGGACTCTAGGACTACA 60.463 60.000 5.05 0.00 0.00 2.74
298 303 0.463474 ACGCCGGACTCTAGGACTAC 60.463 60.000 5.05 0.00 0.00 2.73
299 304 1.123077 TACGCCGGACTCTAGGACTA 58.877 55.000 5.05 0.00 0.00 2.59
300 305 0.463474 GTACGCCGGACTCTAGGACT 60.463 60.000 5.05 0.00 0.00 3.85
301 306 1.770085 CGTACGCCGGACTCTAGGAC 61.770 65.000 5.05 0.00 0.00 3.85
302 307 1.522355 CGTACGCCGGACTCTAGGA 60.522 63.158 5.05 0.00 0.00 2.94
303 308 1.770085 GACGTACGCCGGACTCTAGG 61.770 65.000 16.72 0.00 42.24 3.02
304 309 1.640604 GACGTACGCCGGACTCTAG 59.359 63.158 16.72 0.00 42.24 2.43
321 326 1.219124 GTGGCTTCGATCTGCTGGA 59.781 57.895 5.74 0.00 0.00 3.86
322 327 2.169789 CGTGGCTTCGATCTGCTGG 61.170 63.158 5.74 0.00 0.00 4.85
323 328 2.806856 GCGTGGCTTCGATCTGCTG 61.807 63.158 6.82 0.00 0.00 4.41
324 329 2.510238 GCGTGGCTTCGATCTGCT 60.510 61.111 6.82 0.00 0.00 4.24
325 330 3.567797 GGCGTGGCTTCGATCTGC 61.568 66.667 6.82 0.00 0.00 4.26
326 331 2.892425 GGGCGTGGCTTCGATCTG 60.892 66.667 6.82 0.00 0.00 2.90
327 332 3.376935 CTGGGCGTGGCTTCGATCT 62.377 63.158 6.82 0.00 0.00 2.75
328 333 2.892425 CTGGGCGTGGCTTCGATC 60.892 66.667 6.82 0.00 0.00 3.69
332 337 3.984193 ATCTGCTGGGCGTGGCTTC 62.984 63.158 0.00 0.00 0.00 3.86
333 338 3.984193 GATCTGCTGGGCGTGGCTT 62.984 63.158 0.00 0.00 0.00 4.35
334 339 4.479993 GATCTGCTGGGCGTGGCT 62.480 66.667 0.00 0.00 0.00 4.75
336 341 3.664025 TTCGATCTGCTGGGCGTGG 62.664 63.158 0.00 0.00 0.00 4.94
337 342 2.125552 TTCGATCTGCTGGGCGTG 60.126 61.111 0.00 0.00 0.00 5.34
338 343 2.185350 CTTCGATCTGCTGGGCGT 59.815 61.111 0.00 0.00 0.00 5.68
339 344 3.267860 GCTTCGATCTGCTGGGCG 61.268 66.667 0.00 0.00 0.00 6.13
340 345 2.899339 GGCTTCGATCTGCTGGGC 60.899 66.667 5.74 0.00 0.00 5.36
367 372 1.868498 GGTTGGACAACGAACGATTCA 59.132 47.619 8.89 0.00 42.02 2.57
377 382 2.018515 TCGGAAGTTTGGTTGGACAAC 58.981 47.619 6.64 6.64 40.45 3.32
556 616 1.721389 CGTTGGTCGAACTCTCATGTG 59.279 52.381 0.33 0.00 42.86 3.21
639 708 2.202878 AACGACGGCATCATCGGG 60.203 61.111 0.00 0.00 42.67 5.14
675 747 0.892755 AAACCCGCGACAGTATCTCA 59.107 50.000 8.23 0.00 0.00 3.27
684 756 2.662527 TTCACCGAAACCCGCGAC 60.663 61.111 8.23 0.00 36.84 5.19
693 766 1.301716 GCAGGCAGACTTCACCGAA 60.302 57.895 0.00 0.00 0.00 4.30
694 767 2.343758 GCAGGCAGACTTCACCGA 59.656 61.111 0.00 0.00 0.00 4.69
720 793 2.666190 CACCCACTGGACACGCAG 60.666 66.667 0.00 0.00 34.81 5.18
826 962 2.320587 GCAGGTCGCTGTGGACTTG 61.321 63.158 8.13 8.13 44.26 3.16
871 1687 5.826208 CACCCGGCCTCTTAATAACTTTTAT 59.174 40.000 0.00 0.00 0.00 1.40
897 2460 2.509336 CGGTAGGCGAAGGTGCAG 60.509 66.667 0.00 0.00 36.28 4.41
936 2499 2.100584 GACGCCAAAATAATCATGGGCA 59.899 45.455 0.00 0.00 41.41 5.36
1015 2578 4.578105 CCAGAAATATTCCCTGCTCAACTC 59.422 45.833 10.64 0.00 0.00 3.01
1100 2663 7.821595 TGTAACGTGAGAACCTTACAATATG 57.178 36.000 0.00 0.00 0.00 1.78
1167 2733 3.056458 CTGCCGTGGGTAGTGACA 58.944 61.111 0.00 0.00 30.75 3.58
1192 2767 2.358957 CATGACACCATTGACCGTGAT 58.641 47.619 0.00 0.00 34.05 3.06
1235 2810 0.971386 GACCTCTTCCACCCGTTGTA 59.029 55.000 0.00 0.00 0.00 2.41
1241 2816 3.637694 GAGTACATAGACCTCTTCCACCC 59.362 52.174 0.00 0.00 0.00 4.61
1299 2874 2.854967 AGATGTCATTGGGACCCTGATT 59.145 45.455 13.00 0.23 46.38 2.57
1307 2882 1.984424 TGTCACCAGATGTCATTGGGA 59.016 47.619 14.63 8.72 38.82 4.37
1329 2911 5.778241 TCTTGTCCATGTCTTACCTTGTAGA 59.222 40.000 0.00 0.00 0.00 2.59
1355 2937 3.248602 GGCGTCATTAAGCTTGGTCATAG 59.751 47.826 9.86 0.00 0.00 2.23
1410 2992 5.611374 TCAGTTAGAAGCCATATTAGCCAC 58.389 41.667 0.00 0.00 0.00 5.01
1453 3035 5.298276 CCATTGGTATTGTGTACGCCTTAAT 59.702 40.000 3.51 0.00 0.00 1.40
1517 3104 5.075493 AGAAGAGCAACTTTTGACCATCAT 58.925 37.500 0.00 0.00 39.13 2.45
1602 3189 4.143824 GCAAATTTTAGACGTTGCGTGAAG 60.144 41.667 0.00 0.00 41.37 3.02
1608 3195 2.338520 GCTCGCAAATTTTAGACGTTGC 59.661 45.455 0.00 0.00 42.29 4.17
1716 7708 3.055094 ACTGGCGAAATGTTAGGTGAGAT 60.055 43.478 0.00 0.00 0.00 2.75
1879 7883 4.003648 AGTTTTTCAATAGCTCCACTCCG 58.996 43.478 0.00 0.00 0.00 4.63
1906 7922 5.597806 TCATCTACGGGTGCATAAAGTTAG 58.402 41.667 0.00 0.00 0.00 2.34
1914 7930 1.270518 GCTCATCATCTACGGGTGCAT 60.271 52.381 0.00 0.00 0.00 3.96
2066 8171 7.186804 CGAACTTCACCGCTTTATGATTAAAT 58.813 34.615 0.00 0.00 0.00 1.40
2168 8273 1.541588 GGTGCTAAAGAACCTGCCTTG 59.458 52.381 0.00 0.00 40.76 3.61
2213 8318 2.225467 GCTTCACAACTGCTTCTTCCT 58.775 47.619 0.00 0.00 0.00 3.36
2238 8343 2.410469 GCCACGGCATCAGCAATC 59.590 61.111 2.36 0.00 44.61 2.67
2251 8357 1.374758 CACTGGTCTTCCTCGCCAC 60.375 63.158 0.00 0.00 34.23 5.01
2268 8374 2.106477 TGCATGTTATCTTCACGGCA 57.894 45.000 0.00 0.00 0.00 5.69
2299 8405 1.207390 GCATCTGACTCATGACGCTC 58.793 55.000 0.00 0.00 0.00 5.03
2307 8413 3.272925 AGTCTCCGCATCTGACTCA 57.727 52.632 0.00 0.00 36.45 3.41
2344 8450 1.181741 AGGAGACGAAGCAGCAGTGA 61.182 55.000 0.00 0.00 0.00 3.41
2434 8540 0.179121 CGCTACCCTATGCGTGTTCA 60.179 55.000 0.00 0.00 46.09 3.18
2444 8553 2.515854 GTCATCATCCTCGCTACCCTA 58.484 52.381 0.00 0.00 0.00 3.53
2450 8559 1.361993 GCTCGTCATCATCCTCGCT 59.638 57.895 0.00 0.00 0.00 4.93
2512 8622 1.004918 CTGTCCCCGTCCTTCACAC 60.005 63.158 0.00 0.00 0.00 3.82
2548 8658 3.252974 ACGGTTGGAGATGCTCTAAAG 57.747 47.619 0.00 0.00 33.06 1.85
2549 8659 3.596214 GAACGGTTGGAGATGCTCTAAA 58.404 45.455 0.00 0.00 33.06 1.85
2550 8660 2.416836 CGAACGGTTGGAGATGCTCTAA 60.417 50.000 0.00 0.00 0.00 2.10
2551 8661 1.134367 CGAACGGTTGGAGATGCTCTA 59.866 52.381 0.00 0.00 0.00 2.43
2552 8662 0.108615 CGAACGGTTGGAGATGCTCT 60.109 55.000 0.00 0.00 0.00 4.09
2553 8663 1.084370 CCGAACGGTTGGAGATGCTC 61.084 60.000 0.00 0.00 0.00 4.26
2554 8664 1.079127 CCGAACGGTTGGAGATGCT 60.079 57.895 0.00 0.00 0.00 3.79
2555 8665 2.750888 GCCGAACGGTTGGAGATGC 61.751 63.158 12.22 0.00 37.65 3.91
2556 8666 2.106683 GGCCGAACGGTTGGAGATG 61.107 63.158 12.22 0.00 37.65 2.90
2557 8667 2.267961 GGCCGAACGGTTGGAGAT 59.732 61.111 12.22 0.00 37.65 2.75
2558 8668 4.011517 GGGCCGAACGGTTGGAGA 62.012 66.667 12.22 0.00 37.65 3.71
2575 8685 2.600173 TTTTTCAGCGCCCTGGGG 60.600 61.111 16.03 4.75 39.61 4.96
2576 8686 1.903404 ACTTTTTCAGCGCCCTGGG 60.903 57.895 8.86 8.86 39.61 4.45
2577 8687 1.286880 CACTTTTTCAGCGCCCTGG 59.713 57.895 2.29 0.00 39.61 4.45
2578 8688 0.318107 CACACTTTTTCAGCGCCCTG 60.318 55.000 2.29 0.00 40.54 4.45
2579 8689 1.455383 CCACACTTTTTCAGCGCCCT 61.455 55.000 2.29 0.00 0.00 5.19
2580 8690 1.007387 CCACACTTTTTCAGCGCCC 60.007 57.895 2.29 0.00 0.00 6.13
2581 8691 1.661509 GCCACACTTTTTCAGCGCC 60.662 57.895 2.29 0.00 0.00 6.53
2582 8692 1.661509 GGCCACACTTTTTCAGCGC 60.662 57.895 0.00 0.00 0.00 5.92
2583 8693 0.318107 CAGGCCACACTTTTTCAGCG 60.318 55.000 5.01 0.00 0.00 5.18
2584 8694 0.032540 CCAGGCCACACTTTTTCAGC 59.967 55.000 5.01 0.00 0.00 4.26
2585 8695 0.675633 CCCAGGCCACACTTTTTCAG 59.324 55.000 5.01 0.00 0.00 3.02
2586 8696 0.758685 CCCCAGGCCACACTTTTTCA 60.759 55.000 5.01 0.00 0.00 2.69
2587 8697 1.471829 CCCCCAGGCCACACTTTTTC 61.472 60.000 5.01 0.00 0.00 2.29
2588 8698 1.459348 CCCCCAGGCCACACTTTTT 60.459 57.895 5.01 0.00 0.00 1.94
2589 8699 2.201210 CCCCCAGGCCACACTTTT 59.799 61.111 5.01 0.00 0.00 2.27
2590 8700 3.110031 ACCCCCAGGCCACACTTT 61.110 61.111 5.01 0.00 36.11 2.66
2591 8701 3.902112 CACCCCCAGGCCACACTT 61.902 66.667 5.01 0.00 36.11 3.16
2592 8702 4.918360 TCACCCCCAGGCCACACT 62.918 66.667 5.01 0.00 36.11 3.55
2593 8703 4.351054 CTCACCCCCAGGCCACAC 62.351 72.222 5.01 0.00 36.11 3.82
2603 8713 3.394635 TTTATCGCCGGCTCACCCC 62.395 63.158 26.68 0.00 0.00 4.95
2604 8714 2.178235 GTTTATCGCCGGCTCACCC 61.178 63.158 26.68 3.86 0.00 4.61
2605 8715 1.152383 GAGTTTATCGCCGGCTCACC 61.152 60.000 26.68 7.23 0.00 4.02
2606 8716 1.480219 CGAGTTTATCGCCGGCTCAC 61.480 60.000 26.68 13.13 45.98 3.51
2607 8717 1.226859 CGAGTTTATCGCCGGCTCA 60.227 57.895 26.68 11.65 45.98 4.26
2608 8718 3.614143 CGAGTTTATCGCCGGCTC 58.386 61.111 26.68 12.39 45.98 4.70
2616 8726 1.004595 GTCCCAACGCCGAGTTTATC 58.995 55.000 0.00 0.00 42.02 1.75
2617 8727 0.738412 CGTCCCAACGCCGAGTTTAT 60.738 55.000 0.00 0.00 42.82 1.40
2618 8728 1.373246 CGTCCCAACGCCGAGTTTA 60.373 57.895 0.00 0.00 42.82 2.01
2619 8729 2.663852 CGTCCCAACGCCGAGTTT 60.664 61.111 0.00 0.00 42.82 2.66
2628 8738 3.351416 GTGCCGAACCGTCCCAAC 61.351 66.667 0.00 0.00 0.00 3.77
2629 8739 4.629523 GGTGCCGAACCGTCCCAA 62.630 66.667 0.00 0.00 39.81 4.12
2657 8767 3.465403 CTGGGAGCGACCTGGAGG 61.465 72.222 0.00 0.00 42.17 4.30
2667 8777 2.439156 AAATCAGCGCCTGGGAGC 60.439 61.111 2.29 7.25 41.21 4.70
2668 8778 2.176273 CGAAATCAGCGCCTGGGAG 61.176 63.158 2.29 0.00 31.51 4.30
2669 8779 2.125147 CGAAATCAGCGCCTGGGA 60.125 61.111 2.29 0.00 31.51 4.37
2670 8780 3.204827 CCGAAATCAGCGCCTGGG 61.205 66.667 2.29 0.00 31.51 4.45
2671 8781 3.880846 GCCGAAATCAGCGCCTGG 61.881 66.667 2.29 0.00 31.51 4.45
2672 8782 3.880846 GGCCGAAATCAGCGCCTG 61.881 66.667 2.29 1.50 0.00 4.85
2675 8785 3.880846 CTGGGCCGAAATCAGCGC 61.881 66.667 0.00 0.00 41.90 5.92
2676 8786 2.436646 ACTGGGCCGAAATCAGCG 60.437 61.111 5.92 0.00 32.19 5.18
2677 8787 1.244019 AACACTGGGCCGAAATCAGC 61.244 55.000 5.92 0.00 32.19 4.26
2678 8788 0.804989 GAACACTGGGCCGAAATCAG 59.195 55.000 0.00 0.00 34.91 2.90
2679 8789 0.953471 CGAACACTGGGCCGAAATCA 60.953 55.000 0.00 0.00 0.00 2.57
2680 8790 1.644786 CCGAACACTGGGCCGAAATC 61.645 60.000 0.00 0.00 0.00 2.17
2681 8791 1.674322 CCGAACACTGGGCCGAAAT 60.674 57.895 0.00 0.00 0.00 2.17
2682 8792 2.281208 CCGAACACTGGGCCGAAA 60.281 61.111 0.00 0.00 0.00 3.46
2683 8793 3.524648 GACCGAACACTGGGCCGAA 62.525 63.158 0.00 0.00 0.00 4.30
2684 8794 3.998672 GACCGAACACTGGGCCGA 61.999 66.667 0.00 0.00 0.00 5.54
2687 8797 0.893727 AATTGGACCGAACACTGGGC 60.894 55.000 0.00 0.00 0.00 5.36
2688 8798 2.483014 TAATTGGACCGAACACTGGG 57.517 50.000 0.00 0.00 0.00 4.45
2689 8799 3.343617 ACATAATTGGACCGAACACTGG 58.656 45.455 0.00 0.00 0.00 4.00
2690 8800 3.374058 GGACATAATTGGACCGAACACTG 59.626 47.826 0.00 0.00 0.00 3.66
2691 8801 3.008594 TGGACATAATTGGACCGAACACT 59.991 43.478 0.00 0.00 0.00 3.55
2692 8802 3.340034 TGGACATAATTGGACCGAACAC 58.660 45.455 0.00 0.00 0.00 3.32
2693 8803 3.704800 TGGACATAATTGGACCGAACA 57.295 42.857 0.00 0.00 0.00 3.18
2694 8804 5.379732 TTTTGGACATAATTGGACCGAAC 57.620 39.130 0.00 0.00 31.29 3.95
2695 8805 5.563085 CGTTTTTGGACATAATTGGACCGAA 60.563 40.000 0.00 0.00 0.00 4.30
2696 8806 4.083217 CGTTTTTGGACATAATTGGACCGA 60.083 41.667 0.00 0.00 0.00 4.69
2697 8807 4.162812 CGTTTTTGGACATAATTGGACCG 58.837 43.478 0.00 0.00 0.00 4.79
2698 8808 4.490743 CCGTTTTTGGACATAATTGGACC 58.509 43.478 0.00 0.00 0.00 4.46
2699 8809 3.924073 GCCGTTTTTGGACATAATTGGAC 59.076 43.478 0.00 0.00 0.00 4.02
2700 8810 3.056465 GGCCGTTTTTGGACATAATTGGA 60.056 43.478 0.00 0.00 36.84 3.53
2701 8811 3.258228 GGCCGTTTTTGGACATAATTGG 58.742 45.455 0.00 0.00 36.84 3.16
2702 8812 3.258228 GGGCCGTTTTTGGACATAATTG 58.742 45.455 0.00 0.00 39.59 2.32
2703 8813 2.094442 CGGGCCGTTTTTGGACATAATT 60.094 45.455 19.97 0.00 39.59 1.40
2704 8814 1.474879 CGGGCCGTTTTTGGACATAAT 59.525 47.619 19.97 0.00 39.59 1.28
2705 8815 0.882474 CGGGCCGTTTTTGGACATAA 59.118 50.000 19.97 0.00 39.59 1.90
2706 8816 0.036448 TCGGGCCGTTTTTGGACATA 59.964 50.000 27.32 0.00 39.59 2.29
2707 8817 0.610785 ATCGGGCCGTTTTTGGACAT 60.611 50.000 27.32 5.38 39.59 3.06
2708 8818 0.036448 TATCGGGCCGTTTTTGGACA 59.964 50.000 27.32 2.67 39.59 4.02
2709 8819 1.332686 GATATCGGGCCGTTTTTGGAC 59.667 52.381 27.32 6.87 35.71 4.02
2710 8820 1.210967 AGATATCGGGCCGTTTTTGGA 59.789 47.619 27.32 4.44 0.00 3.53
2711 8821 1.333619 CAGATATCGGGCCGTTTTTGG 59.666 52.381 27.32 9.31 0.00 3.28
2712 8822 1.268539 GCAGATATCGGGCCGTTTTTG 60.269 52.381 27.32 18.61 0.00 2.44
2713 8823 1.021968 GCAGATATCGGGCCGTTTTT 58.978 50.000 27.32 11.89 0.00 1.94
2714 8824 1.157870 CGCAGATATCGGGCCGTTTT 61.158 55.000 27.32 13.11 0.00 2.43
2715 8825 1.594293 CGCAGATATCGGGCCGTTT 60.594 57.895 27.32 17.08 0.00 3.60
2716 8826 2.029073 CGCAGATATCGGGCCGTT 59.971 61.111 27.32 20.77 0.00 4.44
2717 8827 3.224324 ACGCAGATATCGGGCCGT 61.224 61.111 27.32 15.73 0.00 5.68
2718 8828 2.693250 TTCACGCAGATATCGGGCCG 62.693 60.000 22.51 22.51 0.00 6.13
2719 8829 0.320771 ATTCACGCAGATATCGGGCC 60.321 55.000 14.28 0.00 0.00 5.80
2720 8830 1.071605 GATTCACGCAGATATCGGGC 58.928 55.000 11.13 11.13 0.00 6.13
2721 8831 1.068541 TCGATTCACGCAGATATCGGG 60.069 52.381 4.98 7.38 42.26 5.14
2722 8832 1.979469 GTCGATTCACGCAGATATCGG 59.021 52.381 15.62 0.00 42.26 4.18
2723 8833 1.979469 GGTCGATTCACGCAGATATCG 59.021 52.381 0.00 0.00 42.26 2.92
2724 8834 2.288213 TGGGTCGATTCACGCAGATATC 60.288 50.000 0.00 0.00 42.26 1.63
2725 8835 1.686587 TGGGTCGATTCACGCAGATAT 59.313 47.619 0.00 0.00 42.26 1.63
2726 8836 1.107945 TGGGTCGATTCACGCAGATA 58.892 50.000 0.00 0.00 42.26 1.98
2727 8837 0.465705 ATGGGTCGATTCACGCAGAT 59.534 50.000 0.00 0.00 41.99 2.90
2728 8838 1.107945 TATGGGTCGATTCACGCAGA 58.892 50.000 0.00 5.07 41.99 4.26
2729 8839 2.154854 ATATGGGTCGATTCACGCAG 57.845 50.000 0.00 0.00 41.99 5.18
2730 8840 2.479837 GAATATGGGTCGATTCACGCA 58.520 47.619 0.00 7.89 42.79 5.24
2731 8841 1.455786 CGAATATGGGTCGATTCACGC 59.544 52.381 0.00 0.00 41.02 5.34
2732 8842 2.058798 CCGAATATGGGTCGATTCACG 58.941 52.381 0.00 0.00 41.02 4.35
2733 8843 1.798813 GCCGAATATGGGTCGATTCAC 59.201 52.381 0.00 0.00 41.02 3.18
2734 8844 1.604438 CGCCGAATATGGGTCGATTCA 60.604 52.381 0.00 0.00 41.02 2.57
2735 8845 1.068474 CGCCGAATATGGGTCGATTC 58.932 55.000 0.00 0.00 41.02 2.52
2736 8846 0.949105 GCGCCGAATATGGGTCGATT 60.949 55.000 0.00 0.00 41.02 3.34
2737 8847 1.374252 GCGCCGAATATGGGTCGAT 60.374 57.895 0.00 0.00 41.02 3.59
2738 8848 2.028484 GCGCCGAATATGGGTCGA 59.972 61.111 0.00 0.00 41.02 4.20
2739 8849 3.403057 CGCGCCGAATATGGGTCG 61.403 66.667 0.00 0.00 38.24 4.79
2740 8850 3.041940 CCGCGCCGAATATGGGTC 61.042 66.667 0.00 0.00 0.00 4.46
2741 8851 3.394635 AACCGCGCCGAATATGGGT 62.395 57.895 0.00 0.00 0.00 4.51
2742 8852 2.590575 AACCGCGCCGAATATGGG 60.591 61.111 0.00 0.00 0.00 4.00
2743 8853 2.935955 GAACCGCGCCGAATATGG 59.064 61.111 0.00 0.00 0.00 2.74
2744 8854 2.544359 CGAACCGCGCCGAATATG 59.456 61.111 0.00 0.00 0.00 1.78
2745 8855 2.660552 CCGAACCGCGCCGAATAT 60.661 61.111 13.76 0.00 39.11 1.28
2754 8864 4.712873 CGAAACACGCCGAACCGC 62.713 66.667 0.00 0.00 34.51 5.68
2755 8865 4.067016 CCGAAACACGCCGAACCG 62.067 66.667 0.00 0.00 41.07 4.44
2756 8866 4.379143 GCCGAAACACGCCGAACC 62.379 66.667 0.00 0.00 41.07 3.62


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

AutoCloner maintained by Alex Coulton.