Multiple sequence alignment - TraesCS5B01G042200

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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 TraesCS5B01G042200 chr5B 100.000 2669 0 0 1 2669 46748257 46745589 0.000000e+00 4929.0
1 TraesCS5B01G042200 chr5B 92.923 1413 82 8 828 2240 46768559 46767165 0.000000e+00 2039.0
2 TraesCS5B01G042200 chr5B 87.316 1695 169 24 846 2533 46636096 46634441 0.000000e+00 1897.0
3 TraesCS5B01G042200 chr5B 84.494 1580 214 23 878 2448 48146273 48147830 0.000000e+00 1531.0
4 TraesCS5B01G042200 chr5B 82.640 1659 239 32 883 2532 46152976 46151358 0.000000e+00 1423.0
5 TraesCS5B01G042200 chr5B 85.343 423 36 12 2248 2666 46766611 46766211 5.320000e-112 414.0
6 TraesCS5B01G042200 chr5B 80.180 333 48 10 875 1197 46771222 46770898 1.600000e-57 233.0
7 TraesCS5B01G042200 chr5B 75.514 486 70 35 17 479 369330659 369331118 2.710000e-45 193.0
8 TraesCS5B01G042200 chr5B 91.111 135 11 1 2532 2666 46770125 46769992 5.870000e-42 182.0
9 TraesCS5B01G042200 chr5B 75.297 421 65 27 222 615 676057811 676057403 5.910000e-37 165.0
10 TraesCS5B01G042200 chr5B 94.565 92 5 0 716 807 46764552 46764643 2.770000e-30 143.0
11 TraesCS5B01G042200 chr5A 89.011 1547 125 23 999 2531 36942966 36941451 0.000000e+00 1873.0
12 TraesCS5B01G042200 chr5A 86.778 1732 156 36 828 2534 36826971 36825288 0.000000e+00 1862.0
13 TraesCS5B01G042200 chr5A 84.393 1589 203 21 875 2451 37402367 37400812 0.000000e+00 1519.0
14 TraesCS5B01G042200 chr5A 95.652 138 6 0 2532 2669 36825217 36825080 3.460000e-54 222.0
15 TraesCS5B01G042200 chr5A 91.176 136 11 1 2532 2666 36945044 36944909 1.630000e-42 183.0
16 TraesCS5B01G042200 chr5A 87.417 151 18 1 2381 2531 37400767 37400618 3.530000e-39 172.0
17 TraesCS5B01G042200 chr5A 93.258 89 6 0 828 916 36943384 36943296 6.000000e-27 132.0
18 TraesCS5B01G042200 chr5A 77.059 170 21 8 522 690 670516505 670516353 6.120000e-12 82.4
19 TraesCS5B01G042200 chr5D 91.740 1247 59 12 828 2059 45897681 45898898 0.000000e+00 1692.0
20 TraesCS5B01G042200 chr5D 85.920 1527 168 23 846 2370 45938659 45940140 0.000000e+00 1585.0
21 TraesCS5B01G042200 chr5D 86.032 1482 189 10 995 2469 46128577 46127107 0.000000e+00 1574.0
22 TraesCS5B01G042200 chr5D 98.450 129 2 0 2532 2660 45912463 45912591 7.430000e-56 228.0
23 TraesCS5B01G042200 chr5D 93.182 132 9 0 2532 2663 45896267 45896398 7.540000e-46 195.0
24 TraesCS5B01G042200 chr5D 98.165 109 2 0 699 807 45897521 45897629 9.750000e-45 191.0
25 TraesCS5B01G042200 chr2A 81.644 365 51 11 828 1190 734772918 734773268 3.360000e-74 289.0
26 TraesCS5B01G042200 chr2D 76.923 403 54 29 228 616 555028230 555028607 2.710000e-45 193.0
27 TraesCS5B01G042200 chr2D 73.520 608 102 42 36 617 553890950 553891524 2.730000e-40 176.0
28 TraesCS5B01G042200 chr2D 78.073 301 41 18 100 388 540143605 540143318 1.640000e-37 167.0
29 TraesCS5B01G042200 chr1B 76.966 356 54 25 64 411 487482880 487483215 7.590000e-41 178.0
30 TraesCS5B01G042200 chr7A 76.190 378 63 24 257 616 513226114 513225746 9.820000e-40 174.0
31 TraesCS5B01G042200 chr7A 88.073 109 13 0 699 807 646943391 646943283 2.160000e-26 130.0
32 TraesCS5B01G042200 chr7A 79.006 181 26 10 336 512 154334427 154334255 2.170000e-21 113.0
33 TraesCS5B01G042200 chr1D 75.485 412 69 28 81 478 33733952 33734345 3.530000e-39 172.0
34 TraesCS5B01G042200 chrUn 79.600 250 34 12 222 460 182870155 182869912 2.130000e-36 163.0
35 TraesCS5B01G042200 chrUn 88.235 51 2 3 634 682 363767576 363767624 1.030000e-04 58.4
36 TraesCS5B01G042200 chrUn 100.000 28 0 0 638 665 273415200 273415173 5.000000e-03 52.8
37 TraesCS5B01G042200 chrUn 100.000 28 0 0 638 665 303171365 303171338 5.000000e-03 52.8
38 TraesCS5B01G042200 chr6D 75.405 370 56 32 63 418 437323675 437323327 2.140000e-31 147.0
39 TraesCS5B01G042200 chr6A 78.926 242 28 17 336 570 11247408 11247183 2.770000e-30 143.0
40 TraesCS5B01G042200 chr6B 88.073 109 13 0 699 807 91152827 91152719 2.160000e-26 130.0
41 TraesCS5B01G042200 chr2B 87.156 109 14 0 699 807 776450015 776450123 1.000000e-24 124.0
42 TraesCS5B01G042200 chr3B 88.235 51 2 3 634 682 106699930 106699978 1.030000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G042200 chr5B 46745589 46748257 2668 True 4929.000000 4929 100.000000 1 2669 1 chr5B.!!$R3 2668
1 TraesCS5B01G042200 chr5B 46634441 46636096 1655 True 1897.000000 1897 87.316000 846 2533 1 chr5B.!!$R2 1687
2 TraesCS5B01G042200 chr5B 48146273 48147830 1557 False 1531.000000 1531 84.494000 878 2448 1 chr5B.!!$F2 1570
3 TraesCS5B01G042200 chr5B 46151358 46152976 1618 True 1423.000000 1423 82.640000 883 2532 1 chr5B.!!$R1 1649
4 TraesCS5B01G042200 chr5B 46766211 46771222 5011 True 717.000000 2039 87.389250 828 2666 4 chr5B.!!$R5 1838
5 TraesCS5B01G042200 chr5A 36825080 36826971 1891 True 1042.000000 1862 91.215000 828 2669 2 chr5A.!!$R2 1841
6 TraesCS5B01G042200 chr5A 37400618 37402367 1749 True 845.500000 1519 85.905000 875 2531 2 chr5A.!!$R4 1656
7 TraesCS5B01G042200 chr5A 36941451 36945044 3593 True 729.333333 1873 91.148333 828 2666 3 chr5A.!!$R3 1838
8 TraesCS5B01G042200 chr5D 45938659 45940140 1481 False 1585.000000 1585 85.920000 846 2370 1 chr5D.!!$F2 1524
9 TraesCS5B01G042200 chr5D 46127107 46128577 1470 True 1574.000000 1574 86.032000 995 2469 1 chr5D.!!$R1 1474
10 TraesCS5B01G042200 chr5D 45896267 45898898 2631 False 692.666667 1692 94.362333 699 2663 3 chr5D.!!$F3 1964

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
738 739 0.030638 CTGGTTTTCGTTGCCAGTGG 59.969 55.0 4.20 4.2 43.42 4.00 F
1479 3953 0.031721 AAACACTCGAGGTCCACGTC 59.968 55.0 18.41 0.0 0.00 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1541 4015 0.593128 CCCTTGCACCTTGAAAGTCG 59.407 55.0 0.00 0.0 0.0 4.18 R
2463 5629 5.346822 CAGCTGGCATTCAAAATGTAAGTTC 59.653 40.0 5.57 0.0 0.0 3.01 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 9.367160 TCCCTTTGTTATTCTTCATTTCTTTCT 57.633 29.630 0.00 0.00 0.00 2.52
42 43 8.930846 TCTTCATTTCTTTCTCCATTTCTTCT 57.069 30.769 0.00 0.00 0.00 2.85
43 44 8.790718 TCTTCATTTCTTTCTCCATTTCTTCTG 58.209 33.333 0.00 0.00 0.00 3.02
44 45 8.469309 TTCATTTCTTTCTCCATTTCTTCTGT 57.531 30.769 0.00 0.00 0.00 3.41
45 46 8.469309 TCATTTCTTTCTCCATTTCTTCTGTT 57.531 30.769 0.00 0.00 0.00 3.16
46 47 8.917088 TCATTTCTTTCTCCATTTCTTCTGTTT 58.083 29.630 0.00 0.00 0.00 2.83
47 48 9.538508 CATTTCTTTCTCCATTTCTTCTGTTTT 57.461 29.630 0.00 0.00 0.00 2.43
54 55 8.924511 TCTCCATTTCTTCTGTTTTATTCAGT 57.075 30.769 0.00 0.00 34.86 3.41
55 56 9.354673 TCTCCATTTCTTCTGTTTTATTCAGTT 57.645 29.630 0.00 0.00 34.86 3.16
56 57 9.971922 CTCCATTTCTTCTGTTTTATTCAGTTT 57.028 29.630 0.00 0.00 34.86 2.66
64 65 9.586435 CTTCTGTTTTATTCAGTTTTCTTTGGT 57.414 29.630 0.00 0.00 34.86 3.67
65 66 9.936759 TTCTGTTTTATTCAGTTTTCTTTGGTT 57.063 25.926 0.00 0.00 34.86 3.67
66 67 9.936759 TCTGTTTTATTCAGTTTTCTTTGGTTT 57.063 25.926 0.00 0.00 34.86 3.27
74 75 9.725019 ATTCAGTTTTCTTTGGTTTCTTTTTCT 57.275 25.926 0.00 0.00 0.00 2.52
75 76 9.554395 TTCAGTTTTCTTTGGTTTCTTTTTCTT 57.446 25.926 0.00 0.00 0.00 2.52
77 78 9.811655 CAGTTTTCTTTGGTTTCTTTTTCTTTC 57.188 29.630 0.00 0.00 0.00 2.62
78 79 8.999431 AGTTTTCTTTGGTTTCTTTTTCTTTCC 58.001 29.630 0.00 0.00 0.00 3.13
81 82 9.567776 TTTCTTTGGTTTCTTTTTCTTTCCTTT 57.432 25.926 0.00 0.00 0.00 3.11
82 83 9.567776 TTCTTTGGTTTCTTTTTCTTTCCTTTT 57.432 25.926 0.00 0.00 0.00 2.27
83 84 9.214957 TCTTTGGTTTCTTTTTCTTTCCTTTTC 57.785 29.630 0.00 0.00 0.00 2.29
84 85 9.219603 CTTTGGTTTCTTTTTCTTTCCTTTTCT 57.780 29.630 0.00 0.00 0.00 2.52
85 86 9.567776 TTTGGTTTCTTTTTCTTTCCTTTTCTT 57.432 25.926 0.00 0.00 0.00 2.52
87 88 9.567776 TGGTTTCTTTTTCTTTCCTTTTCTTTT 57.432 25.926 0.00 0.00 0.00 2.27
88 89 9.825972 GGTTTCTTTTTCTTTCCTTTTCTTTTG 57.174 29.630 0.00 0.00 0.00 2.44
96 97 9.996554 TTTCTTTCCTTTTCTTTTGTTTCTTCT 57.003 25.926 0.00 0.00 0.00 2.85
97 98 9.996554 TTCTTTCCTTTTCTTTTGTTTCTTCTT 57.003 25.926 0.00 0.00 0.00 2.52
99 100 9.645059 CTTTCCTTTTCTTTTGTTTCTTCTTCT 57.355 29.630 0.00 0.00 0.00 2.85
102 103 9.025041 TCCTTTTCTTTTGTTTCTTCTTCTTCT 57.975 29.630 0.00 0.00 0.00 2.85
107 108 9.981114 TTCTTTTGTTTCTTCTTCTTCTTTGTT 57.019 25.926 0.00 0.00 0.00 2.83
108 109 9.981114 TCTTTTGTTTCTTCTTCTTCTTTGTTT 57.019 25.926 0.00 0.00 0.00 2.83
182 183 9.965902 ATATTCTCTGTGGTTTATTCTGTTTCT 57.034 29.630 0.00 0.00 0.00 2.52
183 184 8.697507 ATTCTCTGTGGTTTATTCTGTTTCTT 57.302 30.769 0.00 0.00 0.00 2.52
184 185 8.519799 TTCTCTGTGGTTTATTCTGTTTCTTT 57.480 30.769 0.00 0.00 0.00 2.52
185 186 8.519799 TCTCTGTGGTTTATTCTGTTTCTTTT 57.480 30.769 0.00 0.00 0.00 2.27
187 188 8.519799 TCTGTGGTTTATTCTGTTTCTTTTCT 57.480 30.769 0.00 0.00 0.00 2.52
188 189 8.405531 TCTGTGGTTTATTCTGTTTCTTTTCTG 58.594 33.333 0.00 0.00 0.00 3.02
189 190 8.287439 TGTGGTTTATTCTGTTTCTTTTCTGA 57.713 30.769 0.00 0.00 0.00 3.27
190 191 8.912988 TGTGGTTTATTCTGTTTCTTTTCTGAT 58.087 29.630 0.00 0.00 0.00 2.90
191 192 9.750125 GTGGTTTATTCTGTTTCTTTTCTGATT 57.250 29.630 0.00 0.00 0.00 2.57
224 225 8.678593 TTTTGGTTTTAGTTGTTTCTTTTGGT 57.321 26.923 0.00 0.00 0.00 3.67
226 227 8.678593 TTGGTTTTAGTTGTTTCTTTTGGTTT 57.321 26.923 0.00 0.00 0.00 3.27
227 228 8.678593 TGGTTTTAGTTGTTTCTTTTGGTTTT 57.321 26.923 0.00 0.00 0.00 2.43
228 229 9.121658 TGGTTTTAGTTGTTTCTTTTGGTTTTT 57.878 25.926 0.00 0.00 0.00 1.94
330 331 7.176741 ACACATTTGTAACATTTTTCAAACGC 58.823 30.769 0.00 0.00 35.55 4.84
331 332 7.064016 ACACATTTGTAACATTTTTCAAACGCT 59.936 29.630 0.00 0.00 35.55 5.07
332 333 7.902403 CACATTTGTAACATTTTTCAAACGCTT 59.098 29.630 0.00 0.00 35.55 4.68
334 335 7.582435 TTTGTAACATTTTTCAAACGCTTGA 57.418 28.000 0.00 0.00 39.87 3.02
335 336 7.763172 TTGTAACATTTTTCAAACGCTTGAT 57.237 28.000 1.44 0.00 41.22 2.57
338 339 9.302345 TGTAACATTTTTCAAACGCTTGATTAA 57.698 25.926 1.44 0.75 41.22 1.40
339 340 9.562752 GTAACATTTTTCAAACGCTTGATTAAC 57.437 29.630 1.44 0.00 41.22 2.01
340 341 7.763172 ACATTTTTCAAACGCTTGATTAACA 57.237 28.000 1.44 0.00 41.22 2.41
341 342 8.364129 ACATTTTTCAAACGCTTGATTAACAT 57.636 26.923 1.44 0.00 41.22 2.71
342 343 8.825745 ACATTTTTCAAACGCTTGATTAACATT 58.174 25.926 1.44 0.00 41.22 2.71
343 344 9.649024 CATTTTTCAAACGCTTGATTAACATTT 57.351 25.926 1.44 0.00 41.22 2.32
348 349 8.412608 TCAAACGCTTGATTAACATTTTTCAA 57.587 26.923 0.00 0.00 36.62 2.69
349 350 8.873830 TCAAACGCTTGATTAACATTTTTCAAA 58.126 25.926 0.00 0.00 36.62 2.69
350 351 9.649024 CAAACGCTTGATTAACATTTTTCAAAT 57.351 25.926 0.00 0.00 34.14 2.32
353 354 9.469807 ACGCTTGATTAACATTTTTCAAATACA 57.530 25.926 0.00 0.00 0.00 2.29
389 390 9.703892 TTTTTCTAATACATGGTCAACATTTGG 57.296 29.630 0.00 0.00 37.84 3.28
391 392 7.624360 TCTAATACATGGTCAACATTTGGTC 57.376 36.000 0.00 0.00 37.84 4.02
392 393 7.402054 TCTAATACATGGTCAACATTTGGTCT 58.598 34.615 0.00 0.00 37.84 3.85
393 394 8.544622 TCTAATACATGGTCAACATTTGGTCTA 58.455 33.333 0.00 0.00 37.84 2.59
394 395 7.391148 AATACATGGTCAACATTTGGTCTAC 57.609 36.000 0.00 0.00 37.84 2.59
397 398 5.013704 ACATGGTCAACATTTGGTCTACCTA 59.986 40.000 0.00 0.00 37.84 3.08
398 399 4.901868 TGGTCAACATTTGGTCTACCTAC 58.098 43.478 0.02 0.00 35.96 3.18
399 400 4.348461 TGGTCAACATTTGGTCTACCTACA 59.652 41.667 0.02 0.00 35.96 2.74
401 402 5.944007 GGTCAACATTTGGTCTACCTACATT 59.056 40.000 0.02 0.00 33.51 2.71
402 403 6.433093 GGTCAACATTTGGTCTACCTACATTT 59.567 38.462 0.02 0.00 33.51 2.32
403 404 7.608761 GGTCAACATTTGGTCTACCTACATTTA 59.391 37.037 0.02 0.00 33.51 1.40
404 405 9.005777 GTCAACATTTGGTCTACCTACATTTAA 57.994 33.333 0.02 0.00 36.82 1.52
405 406 9.005777 TCAACATTTGGTCTACCTACATTTAAC 57.994 33.333 0.02 0.00 36.82 2.01
406 407 8.788806 CAACATTTGGTCTACCTACATTTAACA 58.211 33.333 0.02 0.00 36.82 2.41
408 409 9.528489 ACATTTGGTCTACCTACATTTAACATT 57.472 29.630 0.02 0.00 36.82 2.71
413 414 9.005777 TGGTCTACCTACATTTAACATTTTGTC 57.994 33.333 0.02 0.00 36.82 3.18
414 415 9.227777 GGTCTACCTACATTTAACATTTTGTCT 57.772 33.333 0.00 0.00 0.00 3.41
595 596 8.472007 AAATACTTGGTCAACATAGTTTTCCA 57.528 30.769 0.00 0.00 0.00 3.53
596 597 8.472007 AATACTTGGTCAACATAGTTTTCCAA 57.528 30.769 11.97 11.97 33.41 3.53
598 599 7.360113 ACTTGGTCAACATAGTTTTCCAAAT 57.640 32.000 12.94 4.86 33.95 2.32
599 600 8.472007 ACTTGGTCAACATAGTTTTCCAAATA 57.528 30.769 12.94 0.00 33.95 1.40
600 601 9.088987 ACTTGGTCAACATAGTTTTCCAAATAT 57.911 29.630 12.94 4.18 33.95 1.28
601 602 9.927668 CTTGGTCAACATAGTTTTCCAAATATT 57.072 29.630 12.94 0.00 33.95 1.28
603 604 9.703892 TGGTCAACATAGTTTTCCAAATATTTG 57.296 29.630 19.40 19.40 37.90 2.32
604 605 9.921637 GGTCAACATAGTTTTCCAAATATTTGA 57.078 29.630 26.32 11.82 40.55 2.69
676 677 7.790823 ATACATGATCGAATGTGTTTCATCA 57.209 32.000 12.06 0.00 40.93 3.07
677 678 6.688637 ACATGATCGAATGTGTTTCATCAT 57.311 33.333 0.00 0.00 39.94 2.45
678 679 7.092137 ACATGATCGAATGTGTTTCATCATT 57.908 32.000 0.00 0.00 38.77 2.57
679 680 7.541162 ACATGATCGAATGTGTTTCATCATTT 58.459 30.769 0.00 0.00 38.77 2.32
681 682 8.865978 CATGATCGAATGTGTTTCATCATTTTT 58.134 29.630 0.00 0.00 38.77 1.94
706 707 8.854979 TTTAATTCACGATCAAATGCTTATGG 57.145 30.769 0.00 0.00 0.00 2.74
707 708 4.898829 TTCACGATCAAATGCTTATGGG 57.101 40.909 0.00 0.00 0.00 4.00
708 709 2.618241 TCACGATCAAATGCTTATGGGC 59.382 45.455 0.00 0.00 0.00 5.36
709 710 1.956477 ACGATCAAATGCTTATGGGCC 59.044 47.619 0.00 0.00 0.00 5.80
710 711 1.069022 CGATCAAATGCTTATGGGCCG 60.069 52.381 0.00 0.00 0.00 6.13
711 712 2.229792 GATCAAATGCTTATGGGCCGA 58.770 47.619 0.00 0.00 0.00 5.54
713 714 0.670162 CAAATGCTTATGGGCCGAGG 59.330 55.000 0.00 0.00 0.00 4.63
714 715 1.109323 AAATGCTTATGGGCCGAGGC 61.109 55.000 5.37 5.37 41.06 4.70
715 716 3.832237 ATGCTTATGGGCCGAGGCG 62.832 63.158 8.14 0.00 43.06 5.52
716 717 4.547367 GCTTATGGGCCGAGGCGT 62.547 66.667 8.14 0.00 43.06 5.68
717 718 2.280186 CTTATGGGCCGAGGCGTC 60.280 66.667 8.14 3.74 43.06 5.19
718 719 4.215742 TTATGGGCCGAGGCGTCG 62.216 66.667 21.30 21.30 46.39 5.12
727 728 2.861006 GAGGCGTCGCTGGTTTTC 59.139 61.111 18.11 0.00 0.00 2.29
728 729 3.011760 GAGGCGTCGCTGGTTTTCG 62.012 63.158 18.11 0.00 0.00 3.46
729 730 3.343421 GGCGTCGCTGGTTTTCGT 61.343 61.111 18.11 0.00 0.00 3.85
730 731 2.629763 GCGTCGCTGGTTTTCGTT 59.370 55.556 10.68 0.00 0.00 3.85
731 732 1.721133 GCGTCGCTGGTTTTCGTTG 60.721 57.895 10.68 0.00 0.00 4.10
732 733 1.721133 CGTCGCTGGTTTTCGTTGC 60.721 57.895 0.00 0.00 0.00 4.17
733 734 1.370051 GTCGCTGGTTTTCGTTGCC 60.370 57.895 0.00 0.00 0.00 4.52
734 735 1.820056 TCGCTGGTTTTCGTTGCCA 60.820 52.632 0.00 0.00 0.00 4.92
738 739 0.030638 CTGGTTTTCGTTGCCAGTGG 59.969 55.000 4.20 4.20 43.42 4.00
739 740 0.394488 TGGTTTTCGTTGCCAGTGGA 60.394 50.000 15.20 0.00 0.00 4.02
740 741 0.958822 GGTTTTCGTTGCCAGTGGAT 59.041 50.000 15.20 0.00 0.00 3.41
741 742 1.335872 GGTTTTCGTTGCCAGTGGATG 60.336 52.381 15.20 0.00 0.00 3.51
744 745 0.537143 TTCGTTGCCAGTGGATGCTT 60.537 50.000 15.20 0.00 0.00 3.91
745 746 0.955428 TCGTTGCCAGTGGATGCTTC 60.955 55.000 15.20 0.00 0.00 3.86
747 748 0.524862 GTTGCCAGTGGATGCTTCTG 59.475 55.000 15.20 3.82 0.00 3.02
749 750 2.413142 GCCAGTGGATGCTTCTGCC 61.413 63.158 15.20 0.00 38.71 4.85
752 753 1.078848 AGTGGATGCTTCTGCCGTC 60.079 57.895 0.00 0.00 38.71 4.79
753 754 2.125552 TGGATGCTTCTGCCGTCG 60.126 61.111 0.00 0.00 38.71 5.12
754 755 2.892425 GGATGCTTCTGCCGTCGG 60.892 66.667 6.99 6.99 38.71 4.79
756 757 1.227380 GATGCTTCTGCCGTCGGAT 60.227 57.895 17.49 0.00 38.71 4.18
757 758 1.493950 GATGCTTCTGCCGTCGGATG 61.494 60.000 17.49 6.53 38.71 3.51
764 765 2.960129 GCCGTCGGATGGCTTACG 60.960 66.667 29.56 5.14 46.66 3.18
765 766 2.802792 CCGTCGGATGGCTTACGA 59.197 61.111 4.91 3.23 37.53 3.43
766 767 1.140161 CCGTCGGATGGCTTACGAA 59.860 57.895 9.49 0.00 38.46 3.85
767 768 1.143969 CCGTCGGATGGCTTACGAAC 61.144 60.000 9.49 3.79 38.46 3.95
768 769 1.469126 CGTCGGATGGCTTACGAACG 61.469 60.000 9.49 11.44 38.46 3.95
770 771 1.153706 CGGATGGCTTACGAACGGT 60.154 57.895 0.00 0.00 0.00 4.83
771 772 1.418342 CGGATGGCTTACGAACGGTG 61.418 60.000 0.00 0.00 0.00 4.94
772 773 1.087771 GGATGGCTTACGAACGGTGG 61.088 60.000 0.00 0.00 0.00 4.61
773 774 0.108520 GATGGCTTACGAACGGTGGA 60.109 55.000 0.00 0.00 0.00 4.02
774 775 0.539986 ATGGCTTACGAACGGTGGAT 59.460 50.000 0.00 0.00 0.00 3.41
775 776 1.184431 TGGCTTACGAACGGTGGATA 58.816 50.000 0.00 0.00 0.00 2.59
776 777 1.135024 TGGCTTACGAACGGTGGATAC 60.135 52.381 0.00 0.00 0.00 2.24
788 789 3.339061 TGGATACGCACATCACGTC 57.661 52.632 0.00 0.00 43.88 4.34
789 790 0.179121 TGGATACGCACATCACGTCC 60.179 55.000 0.00 0.00 43.88 4.79
790 791 0.874607 GGATACGCACATCACGTCCC 60.875 60.000 0.00 0.00 43.88 4.46
791 792 0.102481 GATACGCACATCACGTCCCT 59.898 55.000 0.00 0.00 43.88 4.20
792 793 0.102481 ATACGCACATCACGTCCCTC 59.898 55.000 0.00 0.00 43.88 4.30
793 794 0.963856 TACGCACATCACGTCCCTCT 60.964 55.000 0.00 0.00 43.88 3.69
794 795 1.807165 CGCACATCACGTCCCTCTG 60.807 63.158 0.00 0.00 0.00 3.35
795 796 2.103042 GCACATCACGTCCCTCTGC 61.103 63.158 0.00 0.00 0.00 4.26
796 797 1.293179 CACATCACGTCCCTCTGCA 59.707 57.895 0.00 0.00 0.00 4.41
799 800 0.817654 CATCACGTCCCTCTGCAGTA 59.182 55.000 14.67 0.00 0.00 2.74
800 801 1.107114 ATCACGTCCCTCTGCAGTAG 58.893 55.000 14.67 9.71 0.00 2.57
801 802 1.153745 CACGTCCCTCTGCAGTAGC 60.154 63.158 14.67 0.35 42.57 3.58
803 804 2.055042 CGTCCCTCTGCAGTAGCCT 61.055 63.158 14.67 0.00 41.13 4.58
805 806 0.972983 GTCCCTCTGCAGTAGCCTGA 60.973 60.000 14.67 0.56 41.50 3.86
807 808 1.821936 CCTCTGCAGTAGCCTGAGG 59.178 63.158 14.67 7.59 46.43 3.86
808 809 0.975040 CCTCTGCAGTAGCCTGAGGT 60.975 60.000 14.67 0.00 46.43 3.85
809 810 0.175302 CTCTGCAGTAGCCTGAGGTG 59.825 60.000 14.67 0.00 41.50 4.00
810 811 0.251787 TCTGCAGTAGCCTGAGGTGA 60.252 55.000 14.67 0.00 41.50 4.02
813 814 0.972983 GCAGTAGCCTGAGGTGAGGA 60.973 60.000 0.00 0.00 41.50 3.71
815 816 1.686052 CAGTAGCCTGAGGTGAGGATC 59.314 57.143 0.00 0.00 41.50 3.36
817 818 0.937441 TAGCCTGAGGTGAGGATCCT 59.063 55.000 16.13 16.13 34.69 3.24
818 819 0.043940 AGCCTGAGGTGAGGATCCTT 59.956 55.000 17.42 0.00 34.69 3.36
819 820 0.915364 GCCTGAGGTGAGGATCCTTT 59.085 55.000 17.42 2.02 34.69 3.11
823 824 1.909302 TGAGGTGAGGATCCTTTGTCC 59.091 52.381 17.42 15.15 35.20 4.02
824 825 1.909302 GAGGTGAGGATCCTTTGTCCA 59.091 52.381 17.42 5.79 38.25 4.02
826 827 2.716424 AGGTGAGGATCCTTTGTCCAAA 59.284 45.455 17.42 0.00 38.25 3.28
844 3020 0.685660 AAGTCCAAACCCTCGTCTCC 59.314 55.000 0.00 0.00 0.00 3.71
980 3190 4.489771 CGCATCCTCCCCACACCC 62.490 72.222 0.00 0.00 0.00 4.61
981 3191 4.489771 GCATCCTCCCCACACCCG 62.490 72.222 0.00 0.00 0.00 5.28
982 3192 4.489771 CATCCTCCCCACACCCGC 62.490 72.222 0.00 0.00 0.00 6.13
1154 3617 2.108976 GGCATTCTCCATCGGCGA 59.891 61.111 13.87 13.87 0.00 5.54
1233 3696 1.297456 ACGTCTCCGTCTTCCTCGTC 61.297 60.000 0.00 0.00 46.28 4.20
1239 3702 1.280133 TCCGTCTTCCTCGTCCTCTTA 59.720 52.381 0.00 0.00 0.00 2.10
1401 3865 3.964688 TGAAGACCACCACTGAAGTAGAA 59.035 43.478 0.00 0.00 0.00 2.10
1407 3871 3.589988 CACCACTGAAGTAGAATCGCTT 58.410 45.455 0.00 0.00 0.00 4.68
1479 3953 0.031721 AAACACTCGAGGTCCACGTC 59.968 55.000 18.41 0.00 0.00 4.34
1524 3998 6.456795 AATCTTGCAAAATTACTAGAGGGC 57.543 37.500 0.00 0.00 0.00 5.19
1541 4015 1.499502 GCAAGAAAGGAGCAGACGC 59.500 57.895 0.00 0.00 38.99 5.19
1645 4119 2.036572 GGCCGATGGGGGACAAAA 59.963 61.111 0.00 0.00 34.16 2.44
1654 4128 2.915137 GGGACAAAAGGGGCGCAA 60.915 61.111 10.83 0.00 0.00 4.85
1741 4215 1.019673 CAATGCCTTCCATGGACGAG 58.980 55.000 19.45 12.77 33.49 4.18
2065 4539 3.428316 CCCGCAAAATTTAGTACGCCAAT 60.428 43.478 0.00 0.00 0.00 3.16
2245 5274 0.899720 ATGAGGTTGCCATGCCTTTG 59.100 50.000 0.00 0.00 34.81 2.77
2266 5295 4.144297 TGTGTTTCCAGAGATCTTTTGGG 58.856 43.478 20.82 10.61 32.76 4.12
2281 5311 3.810310 TTTGGGGTAAGCAGTTTGTTG 57.190 42.857 0.00 0.00 0.00 3.33
2396 5545 7.015584 TCTGCTCAGTTTAATATCTGGCTCATA 59.984 37.037 0.00 0.00 32.93 2.15
2397 5546 6.931281 TGCTCAGTTTAATATCTGGCTCATAC 59.069 38.462 0.00 0.00 32.93 2.39
2557 5796 1.210538 TTGAGATCAGGAGCAGGCAT 58.789 50.000 0.00 0.00 0.00 4.40
2563 5802 2.877097 TCAGGAGCAGGCATTTGTAA 57.123 45.000 0.00 0.00 0.00 2.41
2651 5894 1.651987 GCTACACAAGCGCAATCCTA 58.348 50.000 11.47 0.00 42.53 2.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 9.981114 GAAAGAAATGAAGAATAACAAAGGGAA 57.019 29.630 0.00 0.00 0.00 3.97
7 8 9.631452 GGAGAAAGAAATGAAGAATAACAAAGG 57.369 33.333 0.00 0.00 0.00 3.11
16 17 9.359653 AGAAGAAATGGAGAAAGAAATGAAGAA 57.640 29.630 0.00 0.00 0.00 2.52
19 20 8.469309 ACAGAAGAAATGGAGAAAGAAATGAA 57.531 30.769 0.00 0.00 0.00 2.57
20 21 8.469309 AACAGAAGAAATGGAGAAAGAAATGA 57.531 30.769 0.00 0.00 0.00 2.57
28 29 9.354673 ACTGAATAAAACAGAAGAAATGGAGAA 57.645 29.630 0.00 0.00 38.55 2.87
37 38 9.801873 CCAAAGAAAACTGAATAAAACAGAAGA 57.198 29.630 0.00 0.00 38.55 2.87
39 40 9.936759 AACCAAAGAAAACTGAATAAAACAGAA 57.063 25.926 0.00 0.00 38.55 3.02
40 41 9.936759 AAACCAAAGAAAACTGAATAAAACAGA 57.063 25.926 0.00 0.00 38.55 3.41
42 43 9.936759 AGAAACCAAAGAAAACTGAATAAAACA 57.063 25.926 0.00 0.00 0.00 2.83
48 49 9.725019 AGAAAAAGAAACCAAAGAAAACTGAAT 57.275 25.926 0.00 0.00 0.00 2.57
49 50 9.554395 AAGAAAAAGAAACCAAAGAAAACTGAA 57.446 25.926 0.00 0.00 0.00 3.02
52 53 8.999431 GGAAAGAAAAAGAAACCAAAGAAAACT 58.001 29.630 0.00 0.00 0.00 2.66
53 54 8.999431 AGGAAAGAAAAAGAAACCAAAGAAAAC 58.001 29.630 0.00 0.00 0.00 2.43
54 55 9.567776 AAGGAAAGAAAAAGAAACCAAAGAAAA 57.432 25.926 0.00 0.00 0.00 2.29
55 56 9.567776 AAAGGAAAGAAAAAGAAACCAAAGAAA 57.432 25.926 0.00 0.00 0.00 2.52
56 57 9.567776 AAAAGGAAAGAAAAAGAAACCAAAGAA 57.432 25.926 0.00 0.00 0.00 2.52
57 58 9.214957 GAAAAGGAAAGAAAAAGAAACCAAAGA 57.785 29.630 0.00 0.00 0.00 2.52
59 60 9.567776 AAGAAAAGGAAAGAAAAAGAAACCAAA 57.432 25.926 0.00 0.00 0.00 3.28
60 61 9.567776 AAAGAAAAGGAAAGAAAAAGAAACCAA 57.432 25.926 0.00 0.00 0.00 3.67
62 63 9.825972 CAAAAGAAAAGGAAAGAAAAAGAAACC 57.174 29.630 0.00 0.00 0.00 3.27
70 71 9.996554 AGAAGAAACAAAAGAAAAGGAAAGAAA 57.003 25.926 0.00 0.00 0.00 2.52
73 74 9.645059 AGAAGAAGAAACAAAAGAAAAGGAAAG 57.355 29.630 0.00 0.00 0.00 2.62
74 75 9.996554 AAGAAGAAGAAACAAAAGAAAAGGAAA 57.003 25.926 0.00 0.00 0.00 3.13
75 76 9.639601 GAAGAAGAAGAAACAAAAGAAAAGGAA 57.360 29.630 0.00 0.00 0.00 3.36
77 78 9.645059 AAGAAGAAGAAGAAACAAAAGAAAAGG 57.355 29.630 0.00 0.00 0.00 3.11
81 82 9.981114 AACAAAGAAGAAGAAGAAACAAAAGAA 57.019 25.926 0.00 0.00 0.00 2.52
82 83 9.981114 AAACAAAGAAGAAGAAGAAACAAAAGA 57.019 25.926 0.00 0.00 0.00 2.52
156 157 9.965902 AGAAACAGAATAAACCACAGAGAATAT 57.034 29.630 0.00 0.00 0.00 1.28
157 158 9.793259 AAGAAACAGAATAAACCACAGAGAATA 57.207 29.630 0.00 0.00 0.00 1.75
158 159 8.697507 AAGAAACAGAATAAACCACAGAGAAT 57.302 30.769 0.00 0.00 0.00 2.40
160 161 8.519799 AAAAGAAACAGAATAAACCACAGAGA 57.480 30.769 0.00 0.00 0.00 3.10
162 163 8.405531 CAGAAAAGAAACAGAATAAACCACAGA 58.594 33.333 0.00 0.00 0.00 3.41
163 164 8.405531 TCAGAAAAGAAACAGAATAAACCACAG 58.594 33.333 0.00 0.00 0.00 3.66
165 166 9.750125 AATCAGAAAAGAAACAGAATAAACCAC 57.250 29.630 0.00 0.00 0.00 4.16
199 200 8.678593 ACCAAAAGAAACAACTAAAACCAAAA 57.321 26.923 0.00 0.00 0.00 2.44
200 201 8.678593 AACCAAAAGAAACAACTAAAACCAAA 57.321 26.923 0.00 0.00 0.00 3.28
201 202 8.678593 AAACCAAAAGAAACAACTAAAACCAA 57.321 26.923 0.00 0.00 0.00 3.67
202 203 8.678593 AAAACCAAAAGAAACAACTAAAACCA 57.321 26.923 0.00 0.00 0.00 3.67
304 305 8.321716 GCGTTTGAAAAATGTTACAAATGTGTA 58.678 29.630 0.00 0.00 39.72 2.90
305 306 7.064016 AGCGTTTGAAAAATGTTACAAATGTGT 59.936 29.630 0.00 0.00 39.72 3.72
306 307 7.397970 AGCGTTTGAAAAATGTTACAAATGTG 58.602 30.769 0.00 0.00 39.72 3.21
307 308 7.532682 AGCGTTTGAAAAATGTTACAAATGT 57.467 28.000 0.00 0.00 39.72 2.71
309 310 8.190888 TCAAGCGTTTGAAAAATGTTACAAAT 57.809 26.923 12.63 0.00 40.26 2.32
310 311 7.582435 TCAAGCGTTTGAAAAATGTTACAAA 57.418 28.000 12.63 0.00 40.26 2.83
311 312 7.763172 ATCAAGCGTTTGAAAAATGTTACAA 57.237 28.000 18.80 0.00 45.82 2.41
312 313 7.763172 AATCAAGCGTTTGAAAAATGTTACA 57.237 28.000 18.80 0.00 45.82 2.41
313 314 9.562752 GTTAATCAAGCGTTTGAAAAATGTTAC 57.437 29.630 18.80 5.47 45.82 2.50
314 315 9.302345 TGTTAATCAAGCGTTTGAAAAATGTTA 57.698 25.926 18.80 8.77 45.82 2.41
315 316 8.190888 TGTTAATCAAGCGTTTGAAAAATGTT 57.809 26.923 18.80 9.72 45.82 2.71
317 318 9.649024 AAATGTTAATCAAGCGTTTGAAAAATG 57.351 25.926 18.80 0.00 45.82 2.32
320 321 9.695884 GAAAAATGTTAATCAAGCGTTTGAAAA 57.304 25.926 18.80 12.86 45.82 2.29
321 322 8.873830 TGAAAAATGTTAATCAAGCGTTTGAAA 58.126 25.926 18.80 6.89 45.82 2.69
322 323 8.412608 TGAAAAATGTTAATCAAGCGTTTGAA 57.587 26.923 18.80 2.21 45.82 2.69
323 324 7.993821 TGAAAAATGTTAATCAAGCGTTTGA 57.006 28.000 17.27 17.27 46.67 2.69
324 325 9.649024 ATTTGAAAAATGTTAATCAAGCGTTTG 57.351 25.926 5.53 5.53 33.71 2.93
327 328 9.469807 TGTATTTGAAAAATGTTAATCAAGCGT 57.530 25.926 0.00 0.00 33.71 5.07
365 366 8.415950 ACCAAATGTTGACCATGTATTAGAAA 57.584 30.769 0.00 0.00 32.82 2.52
366 367 7.888021 AGACCAAATGTTGACCATGTATTAGAA 59.112 33.333 0.00 0.00 32.82 2.10
368 369 7.630242 AGACCAAATGTTGACCATGTATTAG 57.370 36.000 0.00 0.00 32.82 1.73
370 371 6.377146 GGTAGACCAAATGTTGACCATGTATT 59.623 38.462 0.00 0.00 34.00 1.89
371 372 5.885912 GGTAGACCAAATGTTGACCATGTAT 59.114 40.000 0.00 0.00 34.00 2.29
372 373 5.013704 AGGTAGACCAAATGTTGACCATGTA 59.986 40.000 0.66 0.00 38.89 2.29
373 374 4.079253 GGTAGACCAAATGTTGACCATGT 58.921 43.478 0.00 0.00 34.00 3.21
374 375 4.335416 AGGTAGACCAAATGTTGACCATG 58.665 43.478 0.66 0.00 38.89 3.66
375 376 4.657814 AGGTAGACCAAATGTTGACCAT 57.342 40.909 0.66 0.00 38.89 3.55
378 379 7.448748 AAATGTAGGTAGACCAAATGTTGAC 57.551 36.000 0.66 0.00 38.89 3.18
379 380 9.005777 GTTAAATGTAGGTAGACCAAATGTTGA 57.994 33.333 0.66 0.00 38.89 3.18
380 381 8.788806 TGTTAAATGTAGGTAGACCAAATGTTG 58.211 33.333 0.66 0.00 38.89 3.33
381 382 8.927675 TGTTAAATGTAGGTAGACCAAATGTT 57.072 30.769 0.66 0.00 38.89 2.71
382 383 9.528489 AATGTTAAATGTAGGTAGACCAAATGT 57.472 29.630 0.66 0.00 38.89 2.71
386 387 9.357161 ACAAAATGTTAAATGTAGGTAGACCAA 57.643 29.630 0.66 0.00 38.89 3.67
388 389 9.227777 AGACAAAATGTTAAATGTAGGTAGACC 57.772 33.333 0.00 0.00 0.00 3.85
569 570 9.575868 TGGAAAACTATGTTGACCAAGTATTTA 57.424 29.630 0.00 0.00 0.00 1.40
570 571 8.472007 TGGAAAACTATGTTGACCAAGTATTT 57.528 30.769 0.00 0.00 0.00 1.40
571 572 8.472007 TTGGAAAACTATGTTGACCAAGTATT 57.528 30.769 13.31 0.00 33.11 1.89
572 573 8.472007 TTTGGAAAACTATGTTGACCAAGTAT 57.528 30.769 15.28 0.00 37.27 2.12
573 574 7.883391 TTTGGAAAACTATGTTGACCAAGTA 57.117 32.000 15.28 5.91 37.27 2.24
574 575 6.783708 TTTGGAAAACTATGTTGACCAAGT 57.216 33.333 15.28 0.00 37.27 3.16
577 578 9.703892 CAAATATTTGGAAAACTATGTTGACCA 57.296 29.630 18.72 0.00 34.59 4.02
578 579 9.921637 TCAAATATTTGGAAAACTATGTTGACC 57.078 29.630 24.40 0.00 38.66 4.02
650 651 9.492973 TGATGAAACACATTCGATCATGTATAT 57.507 29.630 2.50 0.00 41.18 0.86
651 652 8.885494 TGATGAAACACATTCGATCATGTATA 57.115 30.769 2.50 0.00 41.18 1.47
652 653 7.790823 TGATGAAACACATTCGATCATGTAT 57.209 32.000 2.50 0.00 41.18 2.29
654 655 6.688637 ATGATGAAACACATTCGATCATGT 57.311 33.333 0.37 0.00 40.61 3.21
656 657 8.991243 AAAAATGATGAAACACATTCGATCAT 57.009 26.923 0.00 0.00 42.07 2.45
681 682 7.920151 CCCATAAGCATTTGATCGTGAATTAAA 59.080 33.333 0.00 0.00 0.00 1.52
682 683 7.424803 CCCATAAGCATTTGATCGTGAATTAA 58.575 34.615 0.00 0.00 0.00 1.40
683 684 6.514870 GCCCATAAGCATTTGATCGTGAATTA 60.515 38.462 0.00 0.00 0.00 1.40
684 685 5.737063 GCCCATAAGCATTTGATCGTGAATT 60.737 40.000 0.00 0.00 0.00 2.17
685 686 4.261741 GCCCATAAGCATTTGATCGTGAAT 60.262 41.667 0.00 0.00 0.00 2.57
687 688 2.618241 GCCCATAAGCATTTGATCGTGA 59.382 45.455 0.00 0.00 0.00 4.35
690 691 1.069022 CGGCCCATAAGCATTTGATCG 60.069 52.381 0.00 0.00 0.00 3.69
691 692 2.227388 CTCGGCCCATAAGCATTTGATC 59.773 50.000 0.00 0.00 0.00 2.92
693 694 1.679139 CTCGGCCCATAAGCATTTGA 58.321 50.000 0.00 0.00 0.00 2.69
694 695 0.670162 CCTCGGCCCATAAGCATTTG 59.330 55.000 0.00 0.00 0.00 2.32
695 696 1.109323 GCCTCGGCCCATAAGCATTT 61.109 55.000 0.00 0.00 34.56 2.32
696 697 1.529244 GCCTCGGCCCATAAGCATT 60.529 57.895 0.00 0.00 34.56 3.56
699 700 4.547367 ACGCCTCGGCCCATAAGC 62.547 66.667 0.00 0.00 37.98 3.09
700 701 2.280186 GACGCCTCGGCCCATAAG 60.280 66.667 0.00 0.00 37.98 1.73
701 702 4.215742 CGACGCCTCGGCCCATAA 62.216 66.667 0.00 0.00 36.16 1.90
709 710 3.011760 GAAAACCAGCGACGCCTCG 62.012 63.158 17.79 6.54 43.28 4.63
710 711 2.861006 GAAAACCAGCGACGCCTC 59.139 61.111 17.79 0.12 0.00 4.70
711 712 3.041940 CGAAAACCAGCGACGCCT 61.042 61.111 17.79 0.50 0.00 5.52
713 714 1.721133 CAACGAAAACCAGCGACGC 60.721 57.895 13.03 13.03 0.00 5.19
714 715 1.721133 GCAACGAAAACCAGCGACG 60.721 57.895 0.00 0.00 0.00 5.12
715 716 1.370051 GGCAACGAAAACCAGCGAC 60.370 57.895 0.00 0.00 0.00 5.19
716 717 1.781025 CTGGCAACGAAAACCAGCGA 61.781 55.000 0.00 0.00 44.16 4.93
717 718 1.370414 CTGGCAACGAAAACCAGCG 60.370 57.895 0.00 0.00 44.16 5.18
718 719 4.633980 CTGGCAACGAAAACCAGC 57.366 55.556 0.00 0.00 44.16 4.85
720 721 0.394488 TCCACTGGCAACGAAAACCA 60.394 50.000 0.00 0.00 42.51 3.67
721 722 0.958822 ATCCACTGGCAACGAAAACC 59.041 50.000 0.00 0.00 42.51 3.27
722 723 1.930371 GCATCCACTGGCAACGAAAAC 60.930 52.381 0.00 0.00 42.51 2.43
723 724 0.313672 GCATCCACTGGCAACGAAAA 59.686 50.000 0.00 0.00 42.51 2.29
724 725 0.537143 AGCATCCACTGGCAACGAAA 60.537 50.000 0.00 0.00 42.51 3.46
725 726 0.537143 AAGCATCCACTGGCAACGAA 60.537 50.000 0.00 0.00 42.51 3.85
727 728 0.957395 AGAAGCATCCACTGGCAACG 60.957 55.000 0.00 0.00 42.51 4.10
728 729 0.524862 CAGAAGCATCCACTGGCAAC 59.475 55.000 0.00 0.00 0.00 4.17
729 730 1.246056 GCAGAAGCATCCACTGGCAA 61.246 55.000 0.00 0.00 41.58 4.52
730 731 1.676635 GCAGAAGCATCCACTGGCA 60.677 57.895 0.00 0.00 41.58 4.92
731 732 2.413142 GGCAGAAGCATCCACTGGC 61.413 63.158 0.00 0.00 46.30 4.85
732 733 2.110967 CGGCAGAAGCATCCACTGG 61.111 63.158 0.00 0.00 44.61 4.00
733 734 1.364626 GACGGCAGAAGCATCCACTG 61.365 60.000 0.00 0.00 44.61 3.66
734 735 1.078848 GACGGCAGAAGCATCCACT 60.079 57.895 0.00 0.00 44.61 4.00
738 739 1.227380 ATCCGACGGCAGAAGCATC 60.227 57.895 9.66 0.00 44.61 3.91
739 740 1.522355 CATCCGACGGCAGAAGCAT 60.522 57.895 9.66 0.00 44.61 3.79
740 741 2.125552 CATCCGACGGCAGAAGCA 60.126 61.111 9.66 0.00 44.61 3.91
741 742 2.892425 CCATCCGACGGCAGAAGC 60.892 66.667 9.66 0.00 41.10 3.86
749 750 1.469126 CGTTCGTAAGCCATCCGACG 61.469 60.000 0.00 0.00 36.66 5.12
752 753 1.153706 ACCGTTCGTAAGCCATCCG 60.154 57.895 0.00 0.00 37.18 4.18
753 754 1.087771 CCACCGTTCGTAAGCCATCC 61.088 60.000 0.00 0.00 37.18 3.51
754 755 0.108520 TCCACCGTTCGTAAGCCATC 60.109 55.000 0.00 0.00 37.18 3.51
756 757 1.135024 GTATCCACCGTTCGTAAGCCA 60.135 52.381 0.00 0.00 37.18 4.75
757 758 1.564207 GTATCCACCGTTCGTAAGCC 58.436 55.000 0.00 0.00 37.18 4.35
759 760 1.194495 GCGTATCCACCGTTCGTAAG 58.806 55.000 0.00 0.00 0.00 2.34
761 762 0.179166 GTGCGTATCCACCGTTCGTA 60.179 55.000 0.00 0.00 0.00 3.43
762 763 1.444895 GTGCGTATCCACCGTTCGT 60.445 57.895 0.00 0.00 0.00 3.85
763 764 0.804544 ATGTGCGTATCCACCGTTCG 60.805 55.000 0.00 0.00 34.85 3.95
764 765 0.928229 GATGTGCGTATCCACCGTTC 59.072 55.000 0.00 0.00 34.85 3.95
765 766 0.248012 TGATGTGCGTATCCACCGTT 59.752 50.000 0.00 0.00 34.85 4.44
766 767 0.459585 GTGATGTGCGTATCCACCGT 60.460 55.000 0.00 0.00 34.85 4.83
767 768 1.479420 CGTGATGTGCGTATCCACCG 61.479 60.000 0.00 0.00 34.85 4.94
768 769 0.459585 ACGTGATGTGCGTATCCACC 60.460 55.000 0.00 0.00 41.06 4.61
770 771 0.179121 GGACGTGATGTGCGTATCCA 60.179 55.000 0.00 0.00 43.04 3.41
771 772 0.874607 GGGACGTGATGTGCGTATCC 60.875 60.000 0.00 0.00 43.04 2.59
772 773 0.102481 AGGGACGTGATGTGCGTATC 59.898 55.000 0.00 0.00 43.04 2.24
773 774 0.102481 GAGGGACGTGATGTGCGTAT 59.898 55.000 0.00 0.00 43.04 3.06
774 775 0.963856 AGAGGGACGTGATGTGCGTA 60.964 55.000 0.00 0.00 43.04 4.42
775 776 2.261671 GAGGGACGTGATGTGCGT 59.738 61.111 0.00 0.00 45.86 5.24
776 777 1.807165 CAGAGGGACGTGATGTGCG 60.807 63.158 0.00 0.00 40.35 5.34
778 779 0.738762 CTGCAGAGGGACGTGATGTG 60.739 60.000 8.42 0.00 0.00 3.21
779 780 1.188219 ACTGCAGAGGGACGTGATGT 61.188 55.000 23.35 0.00 0.00 3.06
780 781 0.817654 TACTGCAGAGGGACGTGATG 59.182 55.000 23.35 0.00 0.00 3.07
781 782 1.107114 CTACTGCAGAGGGACGTGAT 58.893 55.000 23.35 0.00 0.00 3.06
783 784 1.153745 GCTACTGCAGAGGGACGTG 60.154 63.158 23.35 2.03 39.41 4.49
784 785 2.352032 GGCTACTGCAGAGGGACGT 61.352 63.158 23.35 0.00 41.91 4.34
785 786 2.055042 AGGCTACTGCAGAGGGACG 61.055 63.158 23.35 2.66 41.91 4.79
788 789 1.821936 CTCAGGCTACTGCAGAGGG 59.178 63.158 23.35 10.65 44.54 4.30
790 791 0.175302 CACCTCAGGCTACTGCAGAG 59.825 60.000 23.35 14.33 44.54 3.35
791 792 0.251787 TCACCTCAGGCTACTGCAGA 60.252 55.000 23.35 2.95 44.54 4.26
792 793 0.175302 CTCACCTCAGGCTACTGCAG 59.825 60.000 13.48 13.48 44.54 4.41
793 794 1.260538 CCTCACCTCAGGCTACTGCA 61.261 60.000 0.00 0.00 44.54 4.41
794 795 0.972983 TCCTCACCTCAGGCTACTGC 60.973 60.000 0.00 0.00 44.54 4.40
795 796 1.686052 GATCCTCACCTCAGGCTACTG 59.314 57.143 0.00 0.00 46.30 2.74
796 797 1.412361 GGATCCTCACCTCAGGCTACT 60.412 57.143 3.84 0.00 32.91 2.57
799 800 0.043940 AAGGATCCTCACCTCAGGCT 59.956 55.000 16.52 0.00 36.67 4.58
800 801 0.915364 AAAGGATCCTCACCTCAGGC 59.085 55.000 16.52 0.00 36.67 4.85
801 802 1.912043 ACAAAGGATCCTCACCTCAGG 59.088 52.381 16.52 0.00 36.67 3.86
803 804 1.909302 GGACAAAGGATCCTCACCTCA 59.091 52.381 16.52 0.00 36.67 3.86
805 806 2.044793 TGGACAAAGGATCCTCACCT 57.955 50.000 16.52 0.00 39.69 4.00
817 818 3.028130 GAGGGTTTGGACTTTGGACAAA 58.972 45.455 0.00 0.00 0.00 2.83
818 819 2.661718 GAGGGTTTGGACTTTGGACAA 58.338 47.619 0.00 0.00 0.00 3.18
819 820 1.476110 CGAGGGTTTGGACTTTGGACA 60.476 52.381 0.00 0.00 0.00 4.02
823 824 2.143925 GAGACGAGGGTTTGGACTTTG 58.856 52.381 0.00 0.00 0.00 2.77
824 825 1.071857 GGAGACGAGGGTTTGGACTTT 59.928 52.381 0.00 0.00 0.00 2.66
826 827 0.471211 TGGAGACGAGGGTTTGGACT 60.471 55.000 0.00 0.00 0.00 3.85
844 3020 1.032114 GCCGAGATTGGGGAAGGTTG 61.032 60.000 0.00 0.00 0.00 3.77
868 3059 4.148645 GGCGCGACGGAAGAAAGC 62.149 66.667 12.10 0.00 0.00 3.51
915 3115 4.767255 GCGCTGGGAGAGGTGGTG 62.767 72.222 0.00 0.00 0.00 4.17
981 3191 3.770040 GTGGGATTTTGGGCGGGC 61.770 66.667 0.00 0.00 0.00 6.13
982 3192 1.264045 ATTGTGGGATTTTGGGCGGG 61.264 55.000 0.00 0.00 0.00 6.13
983 3193 0.108233 CATTGTGGGATTTTGGGCGG 60.108 55.000 0.00 0.00 0.00 6.13
984 3194 0.108233 CCATTGTGGGATTTTGGGCG 60.108 55.000 0.00 0.00 32.67 6.13
985 3195 0.392863 GCCATTGTGGGATTTTGGGC 60.393 55.000 0.00 0.00 38.19 5.36
989 3199 1.350071 TGCTGCCATTGTGGGATTTT 58.650 45.000 0.00 0.00 37.20 1.82
1233 3696 1.076332 CGGCGTTCTTGGTTAAGAGG 58.924 55.000 0.00 0.00 43.41 3.69
1239 3702 1.597027 CACCTCGGCGTTCTTGGTT 60.597 57.895 6.85 0.00 0.00 3.67
1407 3871 3.616821 CGAGACAATCATTTCGCAGGTAA 59.383 43.478 0.00 0.00 0.00 2.85
1524 3998 0.667487 TCGCGTCTGCTCCTTTCTTG 60.667 55.000 5.77 0.00 39.65 3.02
1541 4015 0.593128 CCCTTGCACCTTGAAAGTCG 59.407 55.000 0.00 0.00 0.00 4.18
1645 4119 1.200519 TAGTTATGTCTTGCGCCCCT 58.799 50.000 4.18 0.00 0.00 4.79
1654 4128 6.204301 GCTGCATGTCATCAATAGTTATGTCT 59.796 38.462 0.00 0.00 0.00 3.41
1741 4215 3.525537 TCTTTTGTCATCATCCTCGAGC 58.474 45.455 6.99 0.00 0.00 5.03
2245 5274 3.507622 CCCCAAAAGATCTCTGGAAACAC 59.492 47.826 20.51 0.00 35.60 3.32
2463 5629 5.346822 CAGCTGGCATTCAAAATGTAAGTTC 59.653 40.000 5.57 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.