Multiple sequence alignment - TraesCS6B01G251300

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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 TraesCS6B01G251300 chr6B 100.000 4747 0 0 1 4747 450642230 450637484 0.000000e+00 8767.0
1 TraesCS6B01G251300 chr6D 94.101 2526 103 14 2247 4736 289630079 289627564 0.000000e+00 3797.0
2 TraesCS6B01G251300 chr6D 93.117 1540 42 16 700 2208 289631569 289630063 0.000000e+00 2198.0
3 TraesCS6B01G251300 chr6D 87.847 288 29 1 338 619 289633805 289633518 2.740000e-87 333.0
4 TraesCS6B01G251300 chr6D 97.872 47 1 0 2206 2252 295590112 295590066 1.090000e-11 82.4
5 TraesCS6B01G251300 chr6A 96.753 1663 44 5 2366 4020 435249463 435251123 0.000000e+00 2763.0
6 TraesCS6B01G251300 chr6A 93.441 1555 45 17 700 2209 435247733 435249275 0.000000e+00 2254.0
7 TraesCS6B01G251300 chr6A 90.016 631 32 3 4125 4727 435251128 435251755 0.000000e+00 787.0
8 TraesCS6B01G251300 chr6A 84.667 300 37 5 1 292 435068329 435068627 1.670000e-74 291.0
9 TraesCS6B01G251300 chr6A 94.488 127 7 0 2244 2370 435249255 435249381 3.750000e-46 196.0
10 TraesCS6B01G251300 chr6A 88.591 149 17 0 471 619 435200222 435200370 1.050000e-41 182.0
11 TraesCS6B01G251300 chr2A 81.048 496 71 10 124 612 431085499 431085020 1.610000e-99 374.0
12 TraesCS6B01G251300 chr2A 81.109 487 62 22 124 595 148020908 148020437 3.490000e-96 363.0
13 TraesCS6B01G251300 chr2A 76.651 651 111 24 1 619 642221352 642220711 5.930000e-84 322.0
14 TraesCS6B01G251300 chr2B 79.394 495 81 14 126 619 583787112 583786638 3.540000e-86 329.0
15 TraesCS6B01G251300 chr2B 78.645 487 84 15 125 600 457334140 457334617 5.970000e-79 305.0
16 TraesCS6B01G251300 chr2B 73.101 632 106 35 1 600 712964601 712965200 2.940000e-37 167.0
17 TraesCS6B01G251300 chr2B 76.344 279 50 10 352 619 241106021 241105748 8.290000e-28 135.0
18 TraesCS6B01G251300 chr2B 94.340 53 1 2 2207 2258 137193093 137193042 3.940000e-11 80.5
19 TraesCS6B01G251300 chr2B 97.826 46 1 0 2203 2248 373986876 373986921 3.940000e-11 80.5
20 TraesCS6B01G251300 chr5B 78.969 485 78 17 143 614 611949796 611950269 4.610000e-80 309.0
21 TraesCS6B01G251300 chr5B 75.641 468 87 12 124 584 590277260 590276813 1.730000e-49 207.0
22 TraesCS6B01G251300 chr5B 73.093 472 98 24 147 601 118423634 118424093 1.780000e-29 141.0
23 TraesCS6B01G251300 chr5B 96.154 52 1 1 2203 2253 87291749 87291698 3.040000e-12 84.2
24 TraesCS6B01G251300 chr5B 100.000 45 0 0 2203 2247 629306747 629306703 3.040000e-12 84.2
25 TraesCS6B01G251300 chr5B 85.507 69 5 5 2208 2274 429639770 429639705 3.070000e-07 67.6
26 TraesCS6B01G251300 chr7A 77.953 508 77 19 124 623 649417265 649416785 7.780000e-73 285.0
27 TraesCS6B01G251300 chr2D 77.846 492 69 24 1 460 326790732 326790249 7.830000e-68 268.0
28 TraesCS6B01G251300 chr2D 86.228 167 19 4 435 600 555113595 555113432 1.360000e-40 178.0
29 TraesCS6B01G251300 chr7D 82.375 261 41 2 360 615 55777345 55777085 6.180000e-54 222.0
30 TraesCS6B01G251300 chr7D 80.992 121 22 1 139 259 378852725 378852844 1.410000e-15 95.3
31 TraesCS6B01G251300 chr7D 97.872 47 1 0 2203 2249 404380554 404380600 1.090000e-11 82.4
32 TraesCS6B01G251300 chr1D 75.837 418 86 13 3111 3522 416099338 416098930 1.040000e-46 198.0
33 TraesCS6B01G251300 chr5D 74.843 477 92 13 135 600 353517048 353517507 1.740000e-44 191.0
34 TraesCS6B01G251300 chr1A 75.485 412 86 13 3117 3522 513624124 513623722 2.260000e-43 187.0
35 TraesCS6B01G251300 chr3B 74.419 473 96 16 124 587 256430275 256429819 3.770000e-41 180.0
36 TraesCS6B01G251300 chr1B 75.061 413 86 14 3117 3522 562375520 562375118 4.880000e-40 176.0
37 TraesCS6B01G251300 chr1B 100.000 46 0 0 2203 2248 354933537 354933582 8.460000e-13 86.1
38 TraesCS6B01G251300 chr3A 75.362 414 73 20 203 601 115620356 115619957 6.320000e-39 172.0
39 TraesCS6B01G251300 chr3A 77.231 325 47 13 1 299 226370241 226369918 1.060000e-36 165.0
40 TraesCS6B01G251300 chr3A 74.242 396 87 10 199 586 115396430 115396042 8.230000e-33 152.0
41 TraesCS6B01G251300 chr3A 74.684 316 68 7 203 511 115168565 115168255 3.860000e-26 130.0
42 TraesCS6B01G251300 chr3A 73.404 376 87 8 202 570 115616207 115615838 1.390000e-25 128.0
43 TraesCS6B01G251300 chr4D 73.004 526 113 16 1 509 389516317 389516830 1.770000e-34 158.0
44 TraesCS6B01G251300 chr7B 97.872 47 1 0 2203 2249 321349415 321349461 1.090000e-11 82.4


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 TraesCS6B01G251300 chr6B 450637484 450642230 4746 True 8767.000000 8767 100.000000 1 4747 1 chr6B.!!$R1 4746
1 TraesCS6B01G251300 chr6D 289627564 289633805 6241 True 2109.333333 3797 91.688333 338 4736 3 chr6D.!!$R2 4398
2 TraesCS6B01G251300 chr6A 435247733 435251755 4022 False 1500.000000 2763 93.674500 700 4727 4 chr6A.!!$F3 4027
3 TraesCS6B01G251300 chr2A 642220711 642221352 641 True 322.000000 322 76.651000 1 619 1 chr2A.!!$R3 618

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
606 639 0.252103 TAGGGTTCGGAGCTGGAAGT 60.252 55.000 0.00 0.0 35.30 3.01 F
654 1339 1.475403 AGACGTCGGACAATCTGGAT 58.525 50.000 10.46 0.0 0.00 3.41 F
1467 3419 0.341258 AGGAGGAGGAGGAAGCATCA 59.659 55.000 0.00 0.0 0.00 3.07 F
1678 3631 2.205022 TACAAGAGCTTGCAGCCATT 57.795 45.000 9.99 0.0 43.77 3.16 F
2251 4210 3.319972 GGAAACCCTTTTTCGGTAAAGCT 59.680 43.478 5.09 0.0 34.51 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1443 3395 0.105709 CTTCCTCCTCCTCCTCCTCC 60.106 65.000 0.00 0.0 0.00 4.30 R
2395 4439 2.102420 CACCATACGGGAGAAGTATGCA 59.898 50.000 9.99 0.0 45.98 3.96 R
2686 4730 0.388649 CCGCACGAGATAGTATGGGC 60.389 60.000 0.00 0.0 0.00 5.36 R
2738 4782 1.273606 GAGACAGCAGTTCCAGCACTA 59.726 52.381 0.00 0.0 0.00 2.74 R
4223 6275 0.452784 GAGCACATTTTCGACGCCAC 60.453 55.000 0.00 0.0 0.00 5.01 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
31 32 0.889638 CCCGCTCCGACTGCTCTATA 60.890 60.000 0.00 0.00 0.00 1.31
32 33 0.519519 CCGCTCCGACTGCTCTATAG 59.480 60.000 0.00 0.00 0.00 1.31
47 48 0.612174 TATAGCTAGCAGGAGGGCCG 60.612 60.000 18.83 0.00 39.96 6.13
51 52 4.096003 TAGCAGGAGGGCCGTTGC 62.096 66.667 18.22 18.22 39.96 4.17
60 61 4.084888 GGCCGTTGCGTTCTTCCG 62.085 66.667 0.00 0.00 38.85 4.30
61 62 4.084888 GCCGTTGCGTTCTTCCGG 62.085 66.667 0.00 0.00 41.50 5.14
62 63 2.663852 CCGTTGCGTTCTTCCGGT 60.664 61.111 0.00 0.00 34.10 5.28
68 69 3.057337 CGTTCTTCCGGTGGAGGT 58.943 61.111 0.00 0.00 31.21 3.85
70 71 1.812686 CGTTCTTCCGGTGGAGGTGA 61.813 60.000 0.00 0.00 31.21 4.02
71 72 0.613777 GTTCTTCCGGTGGAGGTGAT 59.386 55.000 0.00 0.00 31.21 3.06
72 73 0.613260 TTCTTCCGGTGGAGGTGATG 59.387 55.000 0.00 0.00 31.21 3.07
78 79 1.448540 GGTGGAGGTGATGAGCGTG 60.449 63.158 0.00 0.00 0.00 5.34
79 80 1.293498 GTGGAGGTGATGAGCGTGT 59.707 57.895 0.00 0.00 0.00 4.49
87 88 1.213013 GATGAGCGTGTGTCTCCGT 59.787 57.895 0.00 0.00 0.00 4.69
92 93 2.499098 CGTGTGTCTCCGTCGTCG 60.499 66.667 0.00 0.00 0.00 5.12
93 94 2.635899 GTGTGTCTCCGTCGTCGT 59.364 61.111 0.71 0.00 35.01 4.34
97 98 1.596203 TGTCTCCGTCGTCGTGAGT 60.596 57.895 15.57 0.00 36.50 3.41
102 103 2.635338 CGTCGTCGTGAGTGACCA 59.365 61.111 0.00 0.00 35.40 4.02
103 104 1.009335 CGTCGTCGTGAGTGACCAA 60.009 57.895 0.00 0.00 35.40 3.67
104 105 0.386858 CGTCGTCGTGAGTGACCAAT 60.387 55.000 0.00 0.00 35.40 3.16
106 107 0.666274 TCGTCGTGAGTGACCAATGC 60.666 55.000 0.00 0.00 35.40 3.56
107 108 1.626654 CGTCGTGAGTGACCAATGCC 61.627 60.000 0.00 0.00 35.40 4.40
169 196 2.960688 GCTCCACCGCTTCCCTCTT 61.961 63.158 0.00 0.00 0.00 2.85
176 203 1.298014 CGCTTCCCTCTTCCTTGCT 59.702 57.895 0.00 0.00 0.00 3.91
189 216 3.348055 CTTGCTCGCTGCCTCTCGA 62.348 63.158 0.00 0.00 42.00 4.04
252 279 2.501128 GCGATGCAGGGACTAGCA 59.499 61.111 0.00 0.00 43.85 3.49
255 282 1.147153 GATGCAGGGACTAGCACCC 59.853 63.158 15.39 15.39 42.92 4.61
261 288 2.590114 GGGACTAGCACCCACCGTT 61.590 63.158 17.51 0.00 46.05 4.44
262 289 1.375523 GGACTAGCACCCACCGTTG 60.376 63.158 0.00 0.00 0.00 4.10
264 291 2.746277 CTAGCACCCACCGTTGCC 60.746 66.667 0.00 0.00 0.00 4.52
265 292 3.246112 TAGCACCCACCGTTGCCT 61.246 61.111 0.00 0.00 0.00 4.75
278 305 3.982316 TTGCCTGCATGGAGGAGCG 62.982 63.158 35.08 10.54 38.35 5.03
280 307 3.473647 CCTGCATGGAGGAGCGGA 61.474 66.667 28.19 0.00 39.47 5.54
283 310 3.838271 GCATGGAGGAGCGGACGA 61.838 66.667 0.00 0.00 0.00 4.20
285 312 2.362503 ATGGAGGAGCGGACGACA 60.363 61.111 0.00 0.00 0.00 4.35
287 314 3.827898 GGAGGAGCGGACGACAGG 61.828 72.222 0.00 0.00 0.00 4.00
288 315 3.827898 GAGGAGCGGACGACAGGG 61.828 72.222 0.00 0.00 0.00 4.45
295 322 2.284405 GGACGACAGGGGAAGGGA 60.284 66.667 0.00 0.00 0.00 4.20
297 324 1.295746 GACGACAGGGGAAGGGAAC 59.704 63.158 0.00 0.00 0.00 3.62
302 329 2.203743 AGGGGAAGGGAACGACGT 60.204 61.111 0.00 0.00 0.00 4.34
308 335 1.530013 GAAGGGAACGACGTGAGGGA 61.530 60.000 0.00 0.00 0.00 4.20
309 336 1.533469 AAGGGAACGACGTGAGGGAG 61.533 60.000 0.00 0.00 0.00 4.30
310 337 2.572284 GGAACGACGTGAGGGAGG 59.428 66.667 0.00 0.00 0.00 4.30
311 338 2.572284 GAACGACGTGAGGGAGGG 59.428 66.667 0.00 0.00 0.00 4.30
312 339 2.995574 AACGACGTGAGGGAGGGG 60.996 66.667 0.00 0.00 0.00 4.79
399 426 2.345991 GCGCCAGTGTGGGAGTTA 59.654 61.111 0.00 0.00 38.19 2.24
402 429 1.669440 GCCAGTGTGGGAGTTACGA 59.331 57.895 0.00 0.00 38.19 3.43
413 440 1.346365 GAGTTACGACGATGCTGCAA 58.654 50.000 6.36 0.00 0.00 4.08
429 456 3.017581 AAATCCGGAGCTGCCCCT 61.018 61.111 11.34 0.00 0.00 4.79
559 592 1.629297 GGAGGGGAGAGGACAGGAT 59.371 63.158 0.00 0.00 0.00 3.24
606 639 0.252103 TAGGGTTCGGAGCTGGAAGT 60.252 55.000 0.00 0.00 35.30 3.01
619 652 2.365617 GCTGGAAGTCGGATTGGAGATA 59.634 50.000 0.00 0.00 35.30 1.98
621 654 4.220821 GCTGGAAGTCGGATTGGAGATATA 59.779 45.833 0.00 0.00 35.30 0.86
622 655 5.623368 GCTGGAAGTCGGATTGGAGATATAG 60.623 48.000 0.00 0.00 35.30 1.31
623 656 4.772624 TGGAAGTCGGATTGGAGATATAGG 59.227 45.833 0.00 0.00 0.00 2.57
624 657 4.382147 GGAAGTCGGATTGGAGATATAGGC 60.382 50.000 0.00 0.00 0.00 3.93
625 658 3.100671 AGTCGGATTGGAGATATAGGCC 58.899 50.000 0.00 0.00 0.00 5.19
635 1320 7.743116 TTGGAGATATAGGCCGGATATAAAA 57.257 36.000 5.05 4.09 0.00 1.52
640 1325 6.606395 AGATATAGGCCGGATATAAAAGACGT 59.394 38.462 5.05 0.00 0.00 4.34
647 1332 4.353737 CGGATATAAAAGACGTCGGACAA 58.646 43.478 10.46 0.00 0.00 3.18
650 1335 6.214399 GGATATAAAAGACGTCGGACAATCT 58.786 40.000 10.46 7.46 0.00 2.40
654 1339 1.475403 AGACGTCGGACAATCTGGAT 58.525 50.000 10.46 0.00 0.00 3.41
655 1340 2.651455 AGACGTCGGACAATCTGGATA 58.349 47.619 10.46 0.00 0.00 2.59
660 1345 4.142026 ACGTCGGACAATCTGGATATTTGA 60.142 41.667 9.10 0.00 0.00 2.69
661 1346 4.445718 CGTCGGACAATCTGGATATTTGAG 59.554 45.833 9.10 0.00 0.00 3.02
662 1347 4.752101 GTCGGACAATCTGGATATTTGAGG 59.248 45.833 2.62 0.00 0.00 3.86
663 1348 3.499918 CGGACAATCTGGATATTTGAGGC 59.500 47.826 0.00 0.00 0.00 4.70
664 1349 4.723309 GGACAATCTGGATATTTGAGGCT 58.277 43.478 0.00 0.00 0.00 4.58
665 1350 4.518211 GGACAATCTGGATATTTGAGGCTG 59.482 45.833 0.00 0.00 0.00 4.85
674 2078 5.415701 TGGATATTTGAGGCTGTTTTGAGAC 59.584 40.000 0.00 0.00 0.00 3.36
678 2082 3.777106 TGAGGCTGTTTTGAGACATCT 57.223 42.857 0.00 0.00 0.00 2.90
680 2084 4.464008 TGAGGCTGTTTTGAGACATCTTT 58.536 39.130 0.00 0.00 0.00 2.52
681 2085 4.276678 TGAGGCTGTTTTGAGACATCTTTG 59.723 41.667 0.00 0.00 0.00 2.77
683 2087 5.075493 AGGCTGTTTTGAGACATCTTTGAT 58.925 37.500 0.00 0.00 0.00 2.57
1019 2926 2.172293 AGATGGATTCTGAGGTTCTGGC 59.828 50.000 0.00 0.00 31.79 4.85
1185 3110 5.046807 TGCTGAGATGAATTCTGAAGTCTCA 60.047 40.000 17.42 17.90 39.59 3.27
1290 3224 2.993937 ACTTCGAGTAGTGAGGAGGAG 58.006 52.381 0.00 0.00 0.00 3.69
1383 3320 2.031919 GGTGTCGGTGACATGGCA 59.968 61.111 0.00 0.00 44.63 4.92
1437 3389 7.687941 TGGAATCAATGATGATGATGATGAG 57.312 36.000 0.00 0.00 45.60 2.90
1441 3393 5.805728 TCAATGATGATGATGATGAGGAGG 58.194 41.667 0.00 0.00 0.00 4.30
1442 3394 5.546499 TCAATGATGATGATGATGAGGAGGA 59.454 40.000 0.00 0.00 0.00 3.71
1443 3395 5.685520 ATGATGATGATGATGAGGAGGAG 57.314 43.478 0.00 0.00 0.00 3.69
1444 3396 3.838903 TGATGATGATGATGAGGAGGAGG 59.161 47.826 0.00 0.00 0.00 4.30
1445 3397 3.625252 TGATGATGATGAGGAGGAGGA 57.375 47.619 0.00 0.00 0.00 3.71
1446 3398 3.508426 TGATGATGATGAGGAGGAGGAG 58.492 50.000 0.00 0.00 0.00 3.69
1447 3399 2.395336 TGATGATGAGGAGGAGGAGG 57.605 55.000 0.00 0.00 0.00 4.30
1448 3400 1.862242 TGATGATGAGGAGGAGGAGGA 59.138 52.381 0.00 0.00 0.00 3.71
1449 3401 2.158340 TGATGATGAGGAGGAGGAGGAG 60.158 54.545 0.00 0.00 0.00 3.69
1467 3419 0.341258 AGGAGGAGGAGGAAGCATCA 59.659 55.000 0.00 0.00 0.00 3.07
1520 3472 6.989169 GCAGAGGTATTGAGATGTATCTTGTT 59.011 38.462 0.00 0.00 37.25 2.83
1601 3554 5.791974 CGTCTAATCAGCACAATTGACTTTG 59.208 40.000 13.59 0.46 0.00 2.77
1678 3631 2.205022 TACAAGAGCTTGCAGCCATT 57.795 45.000 9.99 0.00 43.77 3.16
1694 3647 6.147492 TGCAGCCATTTCAACAATTGTTTATC 59.853 34.615 21.10 6.70 35.83 1.75
1726 3681 6.256757 GCTAAGTACTCCAGCTAAATCAACAG 59.743 42.308 17.87 0.00 32.46 3.16
2048 4007 8.160765 TGGGAACAATTTCATCTGTAAGTCTTA 58.839 33.333 0.00 0.00 37.44 2.10
2205 4164 4.012374 TGCCTGGAAAAGCTAGAAATCTG 58.988 43.478 0.00 0.00 0.00 2.90
2208 4167 5.620879 GCCTGGAAAAGCTAGAAATCTGTTG 60.621 44.000 0.00 0.00 0.00 3.33
2209 4168 5.376854 TGGAAAAGCTAGAAATCTGTTGC 57.623 39.130 0.00 0.00 0.00 4.17
2210 4169 5.072741 TGGAAAAGCTAGAAATCTGTTGCT 58.927 37.500 0.00 0.00 32.70 3.91
2211 4170 5.536161 TGGAAAAGCTAGAAATCTGTTGCTT 59.464 36.000 11.57 11.57 38.73 3.91
2212 4171 6.040842 TGGAAAAGCTAGAAATCTGTTGCTTT 59.959 34.615 18.29 18.29 43.17 3.51
2213 4172 7.230510 TGGAAAAGCTAGAAATCTGTTGCTTTA 59.769 33.333 21.41 11.52 41.96 1.85
2214 4173 8.246871 GGAAAAGCTAGAAATCTGTTGCTTTAT 58.753 33.333 21.41 15.62 41.96 1.40
2250 4209 3.645884 GGAAACCCTTTTTCGGTAAAGC 58.354 45.455 5.09 0.00 34.51 3.51
2251 4210 3.319972 GGAAACCCTTTTTCGGTAAAGCT 59.680 43.478 5.09 0.00 34.51 3.74
2252 4211 4.520111 GGAAACCCTTTTTCGGTAAAGCTA 59.480 41.667 0.00 0.00 34.51 3.32
2253 4212 5.335426 GGAAACCCTTTTTCGGTAAAGCTAG 60.335 44.000 0.00 0.00 34.51 3.42
2254 4213 4.628963 ACCCTTTTTCGGTAAAGCTAGA 57.371 40.909 0.00 0.00 34.51 2.43
2255 4214 4.976864 ACCCTTTTTCGGTAAAGCTAGAA 58.023 39.130 0.00 0.00 34.51 2.10
2256 4215 5.379187 ACCCTTTTTCGGTAAAGCTAGAAA 58.621 37.500 0.00 0.00 34.51 2.52
2257 4216 6.008331 ACCCTTTTTCGGTAAAGCTAGAAAT 58.992 36.000 0.00 0.00 34.51 2.17
2258 4217 6.150641 ACCCTTTTTCGGTAAAGCTAGAAATC 59.849 38.462 0.00 0.00 34.51 2.17
2259 4218 6.374613 CCCTTTTTCGGTAAAGCTAGAAATCT 59.625 38.462 0.00 0.00 34.51 2.40
2281 4240 5.121611 TCTGTTGGACTTGTATTTGTATGCG 59.878 40.000 0.00 0.00 0.00 4.73
2348 4307 6.494893 TGACAGTGTTTACATATTTCCTGC 57.505 37.500 0.00 0.00 0.00 4.85
2351 4310 7.088589 ACAGTGTTTACATATTTCCTGCATC 57.911 36.000 0.00 0.00 0.00 3.91
2370 4329 6.387465 TGCATCGCAACTATTATCTAGTACC 58.613 40.000 0.00 0.00 34.76 3.34
2372 4331 7.036220 GCATCGCAACTATTATCTAGTACCAT 58.964 38.462 0.00 0.00 0.00 3.55
2686 4730 8.802267 TGAGGAATTATTTGGACCAGTAAAAAG 58.198 33.333 0.00 0.00 0.00 2.27
2953 4997 2.413453 GGCAACTTGACTCTAAGAAGCG 59.587 50.000 0.00 0.00 34.38 4.68
2984 5028 0.546267 AGAAGAGGAAGCAGCCCAGA 60.546 55.000 0.00 0.00 0.00 3.86
3092 5136 2.408271 TGGCTCCTGTTGCTGATAAG 57.592 50.000 0.00 0.00 0.00 1.73
3442 5489 4.191544 CAGAGCGGAATTCCTGTAAATCA 58.808 43.478 22.05 0.00 0.00 2.57
3602 5649 0.613260 GATATGGGCGCCTACCATCA 59.387 55.000 28.56 15.32 45.33 3.07
3605 5652 2.357517 GGGCGCCTACCATCATCG 60.358 66.667 28.56 0.00 0.00 3.84
3775 5822 2.505866 GCAGGCGTGTATTTTTCTTCG 58.494 47.619 8.40 0.00 0.00 3.79
3947 5999 9.323985 GGATGGATAGACAATGAATTAGATAGC 57.676 37.037 0.00 0.00 0.00 2.97
3976 6028 5.815222 AGTTTTGTATTTTGGTTTGCACCTC 59.185 36.000 0.00 0.00 44.61 3.85
3982 6034 3.518634 TTTGGTTTGCACCTCAAAGTC 57.481 42.857 0.00 0.00 44.59 3.01
3987 6039 3.489229 GGTTTGCACCTCAAAGTCAAGTC 60.489 47.826 0.00 0.00 44.59 3.01
3993 6045 4.562789 GCACCTCAAAGTCAAGTCAAAAAC 59.437 41.667 0.00 0.00 0.00 2.43
3995 6047 4.142469 ACCTCAAAGTCAAGTCAAAAACGG 60.142 41.667 0.00 0.00 0.00 4.44
4006 6058 3.251487 AGTCAAAAACGGTTTATCGTGGG 59.749 43.478 6.53 0.00 43.07 4.61
4027 6079 2.414161 GGTAATTTTCTGCTGCCGTCAC 60.414 50.000 0.00 0.00 0.00 3.67
4068 6120 2.679837 AGCAATTCAGCATGGTAACTCG 59.320 45.455 0.00 0.00 36.16 4.18
4154 6206 6.829298 TGTTTATATGGAACCCGAAAGCAATA 59.171 34.615 0.00 0.00 0.00 1.90
4155 6207 7.012894 TGTTTATATGGAACCCGAAAGCAATAG 59.987 37.037 0.00 0.00 0.00 1.73
4248 6300 2.159787 CGTCGAAAATGTGCTCCTTCTG 60.160 50.000 0.00 0.00 0.00 3.02
4250 6302 2.807967 TCGAAAATGTGCTCCTTCTGTG 59.192 45.455 0.00 0.00 0.00 3.66
4251 6303 2.549754 CGAAAATGTGCTCCTTCTGTGT 59.450 45.455 0.00 0.00 0.00 3.72
4282 6334 6.398935 GCGTTATTGCAAGAAAACATGTCTTC 60.399 38.462 8.30 3.58 32.96 2.87
4444 6522 5.714047 CCTTCTCAGGTCTTTTAAAATGCC 58.286 41.667 0.09 6.91 35.06 4.40
4454 6532 5.342259 GTCTTTTAAAATGCCTGCAGTTACG 59.658 40.000 13.81 0.00 32.85 3.18
4465 6543 4.791411 GCCTGCAGTTACGAAACAAATCAA 60.791 41.667 13.81 0.00 38.12 2.57
4576 6654 3.454812 TGGGGAGTTAGGCTGATAAACTC 59.545 47.826 16.17 16.17 45.38 3.01
4616 6694 0.767375 AAGAGGGACTTGCTGCTTGA 59.233 50.000 0.00 0.00 41.55 3.02
4660 6738 4.567959 AGAGTTGTTTCAGTTTGCATTTGC 59.432 37.500 0.00 0.00 42.50 3.68
4674 6755 2.863137 GCATTTGCACGACAAGGAAAAA 59.137 40.909 0.00 0.00 40.06 1.94
4707 6788 5.065859 CACGACATGTTTATGCAAGGGATTA 59.934 40.000 0.00 0.00 37.85 1.75
4711 6792 7.516198 ACATGTTTATGCAAGGGATTATCTC 57.484 36.000 0.00 0.00 37.85 2.75
4712 6793 7.293073 ACATGTTTATGCAAGGGATTATCTCT 58.707 34.615 0.00 0.00 37.85 3.10
4722 6803 6.931840 GCAAGGGATTATCTCTCGATAGTTTT 59.068 38.462 0.00 0.00 33.85 2.43
4727 6808 7.546316 GGGATTATCTCTCGATAGTTTTTAGGC 59.454 40.741 0.00 0.00 33.85 3.93
4729 6810 4.303086 TCTCTCGATAGTTTTTAGGCCG 57.697 45.455 0.00 0.00 37.40 6.13
4730 6811 3.949754 TCTCTCGATAGTTTTTAGGCCGA 59.050 43.478 0.00 0.00 37.40 5.54
4731 6812 4.400251 TCTCTCGATAGTTTTTAGGCCGAA 59.600 41.667 0.00 0.00 37.40 4.30
4733 6814 5.667466 TCTCGATAGTTTTTAGGCCGAAAT 58.333 37.500 12.12 0.00 37.40 2.17
4736 6817 6.548171 TCGATAGTTTTTAGGCCGAAATTTG 58.452 36.000 12.12 0.53 37.40 2.32
4737 6818 5.741982 CGATAGTTTTTAGGCCGAAATTTGG 59.258 40.000 12.12 0.00 0.00 3.28
4738 6819 4.265904 AGTTTTTAGGCCGAAATTTGGG 57.734 40.909 14.46 14.46 0.00 4.12
4745 6826 1.506262 CCGAAATTTGGGCAGACCG 59.494 57.895 6.27 0.00 44.64 4.79
4746 6827 1.154035 CGAAATTTGGGCAGACCGC 60.154 57.895 0.00 0.00 44.64 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 4.787280 ACGGCCCTCCTGCTAGCT 62.787 66.667 17.23 0.00 0.00 3.32
32 33 3.787001 AACGGCCCTCCTGCTAGC 61.787 66.667 8.10 8.10 0.00 3.42
38 39 4.699522 GAACGCAACGGCCCTCCT 62.700 66.667 0.00 0.00 36.38 3.69
43 44 4.084888 CGGAAGAACGCAACGGCC 62.085 66.667 0.00 0.00 36.38 6.13
47 48 1.566018 CTCCACCGGAAGAACGCAAC 61.566 60.000 9.46 0.00 0.00 4.17
51 52 1.374252 CACCTCCACCGGAAGAACG 60.374 63.158 9.46 0.00 0.00 3.95
60 61 1.448540 CACGCTCATCACCTCCACC 60.449 63.158 0.00 0.00 0.00 4.61
61 62 1.016130 CACACGCTCATCACCTCCAC 61.016 60.000 0.00 0.00 0.00 4.02
62 63 1.293179 CACACGCTCATCACCTCCA 59.707 57.895 0.00 0.00 0.00 3.86
68 69 1.212751 CGGAGACACACGCTCATCA 59.787 57.895 0.00 0.00 34.07 3.07
70 71 1.213013 GACGGAGACACACGCTCAT 59.787 57.895 0.00 0.00 34.07 2.90
71 72 2.643272 GACGGAGACACACGCTCA 59.357 61.111 0.00 0.00 34.07 4.26
72 73 2.502080 CGACGGAGACACACGCTC 60.502 66.667 0.00 0.00 0.00 5.03
78 79 1.154450 CTCACGACGACGGAGACAC 60.154 63.158 12.58 0.00 44.46 3.67
79 80 1.596203 ACTCACGACGACGGAGACA 60.596 57.895 23.58 0.86 44.46 3.41
87 88 0.666274 GCATTGGTCACTCACGACGA 60.666 55.000 0.00 0.00 36.73 4.20
92 93 1.160137 GTCTGGCATTGGTCACTCAC 58.840 55.000 0.00 0.00 0.00 3.51
93 94 0.036732 GGTCTGGCATTGGTCACTCA 59.963 55.000 0.00 0.00 0.00 3.41
97 98 0.323633 CATGGGTCTGGCATTGGTCA 60.324 55.000 0.00 0.00 0.00 4.02
102 103 1.452651 CTCGCATGGGTCTGGCATT 60.453 57.895 9.86 0.00 0.00 3.56
103 104 2.191375 CTCGCATGGGTCTGGCAT 59.809 61.111 9.86 0.00 0.00 4.40
104 105 4.100084 CCTCGCATGGGTCTGGCA 62.100 66.667 9.86 0.00 0.00 4.92
106 107 2.503061 CTCCTCGCATGGGTCTGG 59.497 66.667 9.86 10.52 0.00 3.86
107 108 2.503061 CCTCCTCGCATGGGTCTG 59.497 66.667 9.86 1.95 0.00 3.51
156 183 1.679898 CAAGGAAGAGGGAAGCGGT 59.320 57.895 0.00 0.00 0.00 5.68
161 188 1.194781 AGCGAGCAAGGAAGAGGGAA 61.195 55.000 0.00 0.00 0.00 3.97
162 189 1.610673 AGCGAGCAAGGAAGAGGGA 60.611 57.895 0.00 0.00 0.00 4.20
210 237 3.017323 CATGCGCACTCCGGAATC 58.983 61.111 14.90 0.00 41.78 2.52
234 261 2.280457 GCTAGTCCCTGCATCGCC 60.280 66.667 0.00 0.00 0.00 5.54
235 262 1.884926 GTGCTAGTCCCTGCATCGC 60.885 63.158 0.00 0.00 41.45 4.58
236 263 1.227380 GGTGCTAGTCCCTGCATCG 60.227 63.158 0.00 0.00 41.45 3.84
238 265 1.616327 TGGGTGCTAGTCCCTGCAT 60.616 57.895 20.33 0.00 44.84 3.96
239 266 2.203922 TGGGTGCTAGTCCCTGCA 60.204 61.111 20.33 0.00 44.84 4.41
242 269 2.683933 CGGTGGGTGCTAGTCCCT 60.684 66.667 20.33 0.00 44.84 4.20
245 272 2.033194 GCAACGGTGGGTGCTAGTC 61.033 63.158 0.90 0.00 0.00 2.59
252 279 4.284550 ATGCAGGCAACGGTGGGT 62.285 61.111 0.90 0.00 46.39 4.51
255 282 2.672651 TCCATGCAGGCAACGGTG 60.673 61.111 0.00 0.00 46.39 4.94
256 283 2.360350 CTCCATGCAGGCAACGGT 60.360 61.111 11.45 0.00 46.39 4.83
257 284 3.136123 CCTCCATGCAGGCAACGG 61.136 66.667 0.00 2.28 46.39 4.44
258 285 2.046023 TCCTCCATGCAGGCAACG 60.046 61.111 0.00 0.00 46.39 4.10
259 286 2.413142 GCTCCTCCATGCAGGCAAC 61.413 63.158 0.00 0.00 37.29 4.17
261 288 4.478371 CGCTCCTCCATGCAGGCA 62.478 66.667 0.00 0.00 37.29 4.75
264 291 2.202987 GTCCGCTCCTCCATGCAG 60.203 66.667 0.00 0.00 0.00 4.41
265 292 4.147449 CGTCCGCTCCTCCATGCA 62.147 66.667 0.00 0.00 0.00 3.96
267 294 2.105128 GTCGTCCGCTCCTCCATG 59.895 66.667 0.00 0.00 0.00 3.66
268 295 2.362503 TGTCGTCCGCTCCTCCAT 60.363 61.111 0.00 0.00 0.00 3.41
278 305 1.916777 TTCCCTTCCCCTGTCGTCC 60.917 63.158 0.00 0.00 0.00 4.79
280 307 2.580601 CGTTCCCTTCCCCTGTCGT 61.581 63.158 0.00 0.00 0.00 4.34
283 310 2.580601 CGTCGTTCCCTTCCCCTGT 61.581 63.158 0.00 0.00 0.00 4.00
285 312 2.203743 ACGTCGTTCCCTTCCCCT 60.204 61.111 0.00 0.00 0.00 4.79
287 314 1.080025 CTCACGTCGTTCCCTTCCC 60.080 63.158 0.00 0.00 0.00 3.97
288 315 1.080025 CCTCACGTCGTTCCCTTCC 60.080 63.158 0.00 0.00 0.00 3.46
295 322 2.995574 CCCCTCCCTCACGTCGTT 60.996 66.667 0.00 0.00 0.00 3.85
327 354 3.368190 CTCAGCTCCGGCAGGACAG 62.368 68.421 0.00 0.00 42.75 3.51
387 414 1.201647 CATCGTCGTAACTCCCACACT 59.798 52.381 0.00 0.00 0.00 3.55
388 415 1.625616 CATCGTCGTAACTCCCACAC 58.374 55.000 0.00 0.00 0.00 3.82
389 416 0.108992 GCATCGTCGTAACTCCCACA 60.109 55.000 0.00 0.00 0.00 4.17
391 418 0.172578 CAGCATCGTCGTAACTCCCA 59.827 55.000 0.00 0.00 0.00 4.37
399 426 1.695893 CGGATTTGCAGCATCGTCGT 61.696 55.000 0.00 0.00 0.00 4.34
402 429 1.078497 TCCGGATTTGCAGCATCGT 60.078 52.632 0.00 0.00 0.00 3.73
413 440 3.801997 CAGGGGCAGCTCCGGATT 61.802 66.667 5.29 0.00 34.94 3.01
485 518 4.832608 CAACTACCCGGGCTCCGC 62.833 72.222 24.08 0.00 46.86 5.54
493 526 3.718210 GAGCTCCGGCAACTACCCG 62.718 68.421 0.87 0.00 45.17 5.28
495 528 2.202756 CGAGCTCCGGCAACTACC 60.203 66.667 8.47 0.00 41.70 3.18
559 592 2.826287 CTCGCCTCTCTCGCTCCA 60.826 66.667 0.00 0.00 0.00 3.86
606 639 2.100197 CGGCCTATATCTCCAATCCGA 58.900 52.381 0.00 0.00 38.02 4.55
619 652 4.380233 CGACGTCTTTTATATCCGGCCTAT 60.380 45.833 14.70 0.00 0.00 2.57
621 654 2.288030 CGACGTCTTTTATATCCGGCCT 60.288 50.000 14.70 0.00 0.00 5.19
622 655 2.056577 CGACGTCTTTTATATCCGGCC 58.943 52.381 14.70 0.00 0.00 6.13
623 656 2.056577 CCGACGTCTTTTATATCCGGC 58.943 52.381 14.70 0.00 0.00 6.13
624 657 3.243168 TGTCCGACGTCTTTTATATCCGG 60.243 47.826 14.70 6.32 37.29 5.14
625 658 3.956233 TGTCCGACGTCTTTTATATCCG 58.044 45.455 14.70 0.00 0.00 4.18
635 1320 1.475403 ATCCAGATTGTCCGACGTCT 58.525 50.000 14.70 0.00 0.00 4.18
640 1325 4.743651 GCCTCAAATATCCAGATTGTCCGA 60.744 45.833 0.00 0.00 0.00 4.55
647 1332 6.189859 TCAAAACAGCCTCAAATATCCAGAT 58.810 36.000 0.00 0.00 0.00 2.90
650 1335 5.415701 GTCTCAAAACAGCCTCAAATATCCA 59.584 40.000 0.00 0.00 0.00 3.41
654 1339 6.240894 AGATGTCTCAAAACAGCCTCAAATA 58.759 36.000 0.00 0.00 36.21 1.40
655 1340 5.075493 AGATGTCTCAAAACAGCCTCAAAT 58.925 37.500 0.00 0.00 36.21 2.32
660 1345 4.464008 TCAAAGATGTCTCAAAACAGCCT 58.536 39.130 0.00 0.00 36.21 4.58
661 1346 4.836125 TCAAAGATGTCTCAAAACAGCC 57.164 40.909 0.00 0.00 36.21 4.85
662 1347 7.704789 AAAATCAAAGATGTCTCAAAACAGC 57.295 32.000 0.00 0.00 35.81 4.40
689 2093 1.226888 GCTTCGAGCGACCGGTTAT 60.227 57.895 9.42 0.00 0.00 1.89
691 2095 4.736896 GGCTTCGAGCGACCGGTT 62.737 66.667 9.42 0.00 43.62 4.44
693 2097 4.856607 GAGGCTTCGAGCGACCGG 62.857 72.222 0.00 0.00 43.62 5.28
1019 2926 5.073311 TCCATCTTTCAGTACCTCTTTCG 57.927 43.478 0.00 0.00 0.00 3.46
1185 3110 0.391597 TCTCCGTTTCCACTTTCGCT 59.608 50.000 0.00 0.00 0.00 4.93
1189 3114 3.412386 CTCCATTCTCCGTTTCCACTTT 58.588 45.455 0.00 0.00 0.00 2.66
1290 3224 1.293683 ACTCCTCCTCCTCCTCCTCC 61.294 65.000 0.00 0.00 0.00 4.30
1437 3389 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
1441 3393 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
1442 3394 0.556380 TTCCTCCTCCTCCTCCTCCT 60.556 60.000 0.00 0.00 0.00 3.69
1443 3395 0.105709 CTTCCTCCTCCTCCTCCTCC 60.106 65.000 0.00 0.00 0.00 4.30
1444 3396 0.759060 GCTTCCTCCTCCTCCTCCTC 60.759 65.000 0.00 0.00 0.00 3.71
1445 3397 1.313129 GCTTCCTCCTCCTCCTCCT 59.687 63.158 0.00 0.00 0.00 3.69
1446 3398 0.399806 ATGCTTCCTCCTCCTCCTCC 60.400 60.000 0.00 0.00 0.00 4.30
1447 3399 1.047801 GATGCTTCCTCCTCCTCCTC 58.952 60.000 0.00 0.00 0.00 3.71
1448 3400 0.341258 TGATGCTTCCTCCTCCTCCT 59.659 55.000 0.00 0.00 0.00 3.69
1449 3401 1.207791 TTGATGCTTCCTCCTCCTCC 58.792 55.000 0.00 0.00 0.00 4.30
1467 3419 5.640147 TGTTTGGAGTTGATATGACCCTTT 58.360 37.500 0.00 0.00 0.00 3.11
1533 3485 9.640963 AAATGATTCACACTCAACTACTACTAC 57.359 33.333 0.00 0.00 0.00 2.73
1544 3497 3.371898 CGCTAGCAAATGATTCACACTCA 59.628 43.478 16.45 0.00 0.00 3.41
1601 3554 7.902387 TCATCATCTAATAGAGCTTGATTGC 57.098 36.000 2.95 0.00 29.92 3.56
1678 3631 5.982516 GCACACTGGATAAACAATTGTTGAA 59.017 36.000 23.93 15.52 38.44 2.69
1694 3647 2.675317 GCTGGAGTACTTAGCACACTGG 60.675 54.545 21.41 0.00 37.40 4.00
2048 4007 9.956720 CTTTAGATGAAAAGTCAAGTTCAACAT 57.043 29.630 0.00 0.00 37.31 2.71
2228 4187 3.553508 GCTTTACCGAAAAAGGGTTTCCC 60.554 47.826 10.28 0.00 45.90 3.97
2229 4188 3.319972 AGCTTTACCGAAAAAGGGTTTCC 59.680 43.478 10.28 0.00 38.99 3.13
2230 4189 4.579454 AGCTTTACCGAAAAAGGGTTTC 57.421 40.909 10.28 0.00 38.99 2.78
2231 4190 5.379187 TCTAGCTTTACCGAAAAAGGGTTT 58.621 37.500 0.00 0.00 38.99 3.27
2232 4191 4.976864 TCTAGCTTTACCGAAAAAGGGTT 58.023 39.130 0.00 0.00 38.99 4.11
2233 4192 4.628963 TCTAGCTTTACCGAAAAAGGGT 57.371 40.909 0.00 0.00 41.62 4.34
2234 4193 5.952526 TTTCTAGCTTTACCGAAAAAGGG 57.047 39.130 0.00 0.00 37.03 3.95
2235 4194 7.094762 ACAGATTTCTAGCTTTACCGAAAAAGG 60.095 37.037 0.00 0.00 37.03 3.11
2236 4195 7.807680 ACAGATTTCTAGCTTTACCGAAAAAG 58.192 34.615 0.00 5.40 39.10 2.27
2237 4196 7.739498 ACAGATTTCTAGCTTTACCGAAAAA 57.261 32.000 0.00 0.00 0.00 1.94
2238 4197 7.308348 CCAACAGATTTCTAGCTTTACCGAAAA 60.308 37.037 0.00 0.00 0.00 2.29
2239 4198 6.148811 CCAACAGATTTCTAGCTTTACCGAAA 59.851 38.462 0.00 0.00 0.00 3.46
2240 4199 5.642063 CCAACAGATTTCTAGCTTTACCGAA 59.358 40.000 0.00 0.00 0.00 4.30
2241 4200 5.046878 TCCAACAGATTTCTAGCTTTACCGA 60.047 40.000 0.00 0.00 0.00 4.69
2242 4201 5.063564 GTCCAACAGATTTCTAGCTTTACCG 59.936 44.000 0.00 0.00 0.00 4.02
2243 4202 6.174049 AGTCCAACAGATTTCTAGCTTTACC 58.826 40.000 0.00 0.00 0.00 2.85
2244 4203 7.173390 ACAAGTCCAACAGATTTCTAGCTTTAC 59.827 37.037 0.00 0.00 0.00 2.01
2245 4204 7.224297 ACAAGTCCAACAGATTTCTAGCTTTA 58.776 34.615 0.00 0.00 0.00 1.85
2246 4205 6.064717 ACAAGTCCAACAGATTTCTAGCTTT 58.935 36.000 0.00 0.00 0.00 3.51
2247 4206 5.625150 ACAAGTCCAACAGATTTCTAGCTT 58.375 37.500 0.00 0.00 0.00 3.74
2248 4207 5.234466 ACAAGTCCAACAGATTTCTAGCT 57.766 39.130 0.00 0.00 0.00 3.32
2249 4208 7.617041 AATACAAGTCCAACAGATTTCTAGC 57.383 36.000 0.00 0.00 0.00 3.42
2250 4209 9.003658 ACAAATACAAGTCCAACAGATTTCTAG 57.996 33.333 0.00 0.00 0.00 2.43
2251 4210 8.918202 ACAAATACAAGTCCAACAGATTTCTA 57.082 30.769 0.00 0.00 0.00 2.10
2252 4211 7.823745 ACAAATACAAGTCCAACAGATTTCT 57.176 32.000 0.00 0.00 0.00 2.52
2253 4212 9.559958 CATACAAATACAAGTCCAACAGATTTC 57.440 33.333 0.00 0.00 0.00 2.17
2254 4213 8.028938 GCATACAAATACAAGTCCAACAGATTT 58.971 33.333 0.00 0.00 0.00 2.17
2255 4214 7.538575 GCATACAAATACAAGTCCAACAGATT 58.461 34.615 0.00 0.00 0.00 2.40
2256 4215 6.183360 CGCATACAAATACAAGTCCAACAGAT 60.183 38.462 0.00 0.00 0.00 2.90
2257 4216 5.121611 CGCATACAAATACAAGTCCAACAGA 59.878 40.000 0.00 0.00 0.00 3.41
2258 4217 5.323900 CGCATACAAATACAAGTCCAACAG 58.676 41.667 0.00 0.00 0.00 3.16
2259 4218 4.378978 GCGCATACAAATACAAGTCCAACA 60.379 41.667 0.30 0.00 0.00 3.33
2348 4307 8.988064 AATGGTACTAGATAATAGTTGCGATG 57.012 34.615 0.00 0.00 0.00 3.84
2395 4439 2.102420 CACCATACGGGAGAAGTATGCA 59.898 50.000 9.99 0.00 45.98 3.96
2686 4730 0.388649 CCGCACGAGATAGTATGGGC 60.389 60.000 0.00 0.00 0.00 5.36
2738 4782 1.273606 GAGACAGCAGTTCCAGCACTA 59.726 52.381 0.00 0.00 0.00 2.74
2953 4997 4.873259 GCTTCCTCTTCTTATCACCAGAAC 59.127 45.833 0.00 0.00 0.00 3.01
2984 5028 3.059097 ACCCTTATGGAATCCAGCATCT 58.941 45.455 8.40 0.00 36.75 2.90
3442 5489 1.799933 TGGTCCACCAAAAGGCATTT 58.200 45.000 0.00 0.00 44.35 2.32
3602 5649 2.257409 GACCACCACCTCCATGCGAT 62.257 60.000 0.00 0.00 0.00 4.58
3605 5652 1.377725 CTGACCACCACCTCCATGC 60.378 63.158 0.00 0.00 0.00 4.06
3775 5822 6.398918 TCTCAAGTATAACTCTTCCTGCAAC 58.601 40.000 0.00 0.00 0.00 4.17
3932 5984 9.941664 CAAAACTACCAGCTATCTAATTCATTG 57.058 33.333 0.00 0.00 0.00 2.82
3933 5985 9.686683 ACAAAACTACCAGCTATCTAATTCATT 57.313 29.630 0.00 0.00 0.00 2.57
3946 5998 6.292649 GCAAACCAAAATACAAAACTACCAGC 60.293 38.462 0.00 0.00 0.00 4.85
3947 5999 6.758886 TGCAAACCAAAATACAAAACTACCAG 59.241 34.615 0.00 0.00 0.00 4.00
3963 6015 2.451490 TGACTTTGAGGTGCAAACCAA 58.549 42.857 0.00 0.00 41.37 3.67
3964 6016 2.136298 TGACTTTGAGGTGCAAACCA 57.864 45.000 0.00 0.00 41.37 3.67
3976 6028 7.305190 CGATAAACCGTTTTTGACTTGACTTTG 60.305 37.037 0.96 0.00 0.00 2.77
3982 6034 4.673311 CCACGATAAACCGTTTTTGACTTG 59.327 41.667 0.96 0.00 41.29 3.16
3987 6039 2.293955 ACCCCACGATAAACCGTTTTTG 59.706 45.455 0.96 0.00 41.29 2.44
3993 6045 4.637091 AGAAAATTACCCCACGATAAACCG 59.363 41.667 0.00 0.00 0.00 4.44
3995 6047 5.124936 AGCAGAAAATTACCCCACGATAAAC 59.875 40.000 0.00 0.00 0.00 2.01
4006 6058 1.810151 TGACGGCAGCAGAAAATTACC 59.190 47.619 0.00 0.00 0.00 2.85
4027 6079 3.865164 GCTCCTTTTAATTCCAAATGCCG 59.135 43.478 0.00 0.00 0.00 5.69
4032 6084 6.650390 GCTGAATTGCTCCTTTTAATTCCAAA 59.350 34.615 0.00 0.00 39.09 3.28
4033 6085 6.165577 GCTGAATTGCTCCTTTTAATTCCAA 58.834 36.000 0.00 0.00 39.09 3.53
4068 6120 7.369803 TGACTACAGAATCAAAATGAGAAGC 57.630 36.000 0.00 0.00 0.00 3.86
4154 6206 2.639065 TCAACCTCAAGAAAACACGCT 58.361 42.857 0.00 0.00 0.00 5.07
4155 6207 3.414549 TTCAACCTCAAGAAAACACGC 57.585 42.857 0.00 0.00 0.00 5.34
4188 6240 1.996292 TTTCAGCGAAGGACAGATCG 58.004 50.000 0.00 0.00 41.81 3.69
4223 6275 0.452784 GAGCACATTTTCGACGCCAC 60.453 55.000 0.00 0.00 0.00 5.01
4248 6300 3.187637 TCTTGCAATAACGCCTACAACAC 59.812 43.478 0.00 0.00 0.00 3.32
4250 6302 4.413495 TTCTTGCAATAACGCCTACAAC 57.587 40.909 0.00 0.00 0.00 3.32
4251 6303 5.216648 GTTTTCTTGCAATAACGCCTACAA 58.783 37.500 0.00 0.00 0.00 2.41
4444 6522 5.747565 TCTTGATTTGTTTCGTAACTGCAG 58.252 37.500 13.48 13.48 35.24 4.41
4454 6532 5.175673 CCGAAAAGGCTTCTTGATTTGTTTC 59.824 40.000 0.00 0.00 0.00 2.78
4465 6543 3.955471 TCATTCATCCGAAAAGGCTTCT 58.045 40.909 0.00 0.00 40.77 2.85
4616 6694 5.185454 TCTCACATTTTTCAGGTATCGCAT 58.815 37.500 0.00 0.00 0.00 4.73
4660 6738 2.422127 AGGTGTGTTTTTCCTTGTCGTG 59.578 45.455 0.00 0.00 0.00 4.35
4674 6755 0.463654 AACATGTCGTGCAGGTGTGT 60.464 50.000 6.26 7.18 41.71 3.72
4711 6792 5.986004 ATTTCGGCCTAAAAACTATCGAG 57.014 39.130 6.52 0.00 0.00 4.04
4712 6793 6.403855 CCAAATTTCGGCCTAAAAACTATCGA 60.404 38.462 6.52 0.00 0.00 3.59
4722 6803 1.181786 CTGCCCAAATTTCGGCCTAA 58.818 50.000 22.07 4.93 45.07 2.69
4727 6808 1.506262 CGGTCTGCCCAAATTTCGG 59.494 57.895 0.00 0.00 0.00 4.30
4729 6810 4.889427 GCGGTCTGCCCAAATTTC 57.111 55.556 0.00 0.00 37.76 2.17


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

AutoCloner maintained by Alex Coulton.