Multiple sequence alignment - TraesCS6D01G274800

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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 TraesCS6D01G274800 chr6D 100.000 4241 0 0 1 4241 383547908 383543668 0.000000e+00 7832.0
1 TraesCS6D01G274800 chr6B 94.850 1767 67 14 716 2477 573692222 573690475 0.000000e+00 2737.0
2 TraesCS6D01G274800 chr6B 95.631 1236 38 10 2460 3692 573690431 573689209 0.000000e+00 1969.0
3 TraesCS6D01G274800 chr6B 87.600 250 23 5 3997 4241 573684504 573684258 2.500000e-72 283.0
4 TraesCS6D01G274800 chr6B 79.361 407 70 8 4 402 698092410 698092010 1.500000e-69 274.0
5 TraesCS6D01G274800 chr6B 83.140 172 12 10 549 719 175325994 175326149 1.590000e-29 141.0
6 TraesCS6D01G274800 chr6B 98.113 53 1 0 2360 2412 573690487 573690435 4.520000e-15 93.5
7 TraesCS6D01G274800 chr6A 94.249 1652 59 14 719 2357 525762221 525760593 0.000000e+00 2492.0
8 TraesCS6D01G274800 chr6A 96.291 1375 43 7 2334 3706 525760412 525759044 0.000000e+00 2250.0
9 TraesCS6D01G274800 chr6A 89.252 428 24 8 3830 4241 525758406 525757985 2.260000e-142 516.0
10 TraesCS6D01G274800 chr6A 84.364 550 43 12 1 535 525762738 525762217 2.280000e-137 499.0
11 TraesCS6D01G274800 chr6A 78.660 403 75 4 4 400 606973616 606974013 1.510000e-64 257.0
12 TraesCS6D01G274800 chr6A 92.969 128 3 2 3708 3829 525758577 525758450 9.370000e-42 182.0
13 TraesCS6D01G274800 chr7D 79.609 358 56 11 23 369 179526215 179526566 1.520000e-59 241.0
14 TraesCS6D01G274800 chr3B 77.150 407 83 6 3 402 733347974 733347571 1.190000e-55 228.0
15 TraesCS6D01G274800 chr3B 100.000 35 0 0 3831 3865 6683671 6683705 9.840000e-07 65.8
16 TraesCS6D01G274800 chr3D 77.363 402 73 9 4 398 316811508 316811118 5.520000e-54 222.0
17 TraesCS6D01G274800 chr3D 83.529 170 11 6 551 719 247038654 247038807 4.420000e-30 143.0
18 TraesCS6D01G274800 chr4B 77.073 410 74 11 4 402 582203547 582203147 7.140000e-53 219.0
19 TraesCS6D01G274800 chr4A 75.682 440 82 14 4 433 681660213 681660637 3.350000e-46 196.0
20 TraesCS6D01G274800 chr1D 76.791 349 62 12 4 344 422286251 422285914 1.210000e-40 178.0
21 TraesCS6D01G274800 chr1D 84.706 170 13 11 549 717 432334600 432334757 1.580000e-34 158.0
22 TraesCS6D01G274800 chr1D 82.659 173 13 11 549 720 365727318 365727162 2.060000e-28 137.0
23 TraesCS6D01G274800 chr2D 78.102 274 48 6 4 270 590084053 590083785 3.390000e-36 163.0
24 TraesCS6D01G274800 chr7A 83.616 177 12 10 549 724 709731219 709731059 2.640000e-32 150.0
25 TraesCS6D01G274800 chr7A 83.146 178 11 13 549 724 2930841 2930681 1.230000e-30 145.0
26 TraesCS6D01G274800 chr5D 82.486 177 16 8 549 724 50144236 50144074 1.590000e-29 141.0
27 TraesCS6D01G274800 chr5D 100.000 28 0 0 3832 3859 298965706 298965733 8.000000e-03 52.8
28 TraesCS6D01G274800 chr2A 82.353 170 13 11 549 717 608250552 608250399 9.570000e-27 132.0
29 TraesCS6D01G274800 chr3A 74.064 374 71 15 43 402 482410573 482410934 3.440000e-26 130.0
30 TraesCS6D01G274800 chr5B 79.755 163 28 5 210 370 671580019 671580178 3.470000e-21 113.0
31 TraesCS6D01G274800 chr4D 80.240 167 18 10 552 717 23314426 23314578 1.250000e-20 111.0
32 TraesCS6D01G274800 chr4D 84.167 120 14 4 623 738 30618420 30618302 1.250000e-20 111.0
33 TraesCS6D01G274800 chr4D 94.118 34 2 0 3832 3865 508584395 508584362 8.000000e-03 52.8
34 TraesCS6D01G274800 chr1A 93.750 48 3 0 533 580 109579353 109579400 5.880000e-09 73.1
35 TraesCS6D01G274800 chr2B 94.737 38 2 0 3831 3868 750063042 750063005 4.580000e-05 60.2
36 TraesCS6D01G274800 chr1B 100.000 28 0 0 3831 3858 654085573 654085546 8.000000e-03 52.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6D01G274800 chr6D 383543668 383547908 4240 True 7832.000000 7832 100.000 1 4241 1 chr6D.!!$R1 4240
1 TraesCS6D01G274800 chr6B 573689209 573692222 3013 True 1599.833333 2737 96.198 716 3692 3 chr6B.!!$R3 2976
2 TraesCS6D01G274800 chr6A 525757985 525762738 4753 True 1187.800000 2492 91.425 1 4241 5 chr6A.!!$R1 4240

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
208 210 0.035056 CCCTTTGTGAGCCACCTAGG 60.035 60.000 7.41 7.41 41.84 3.02 F
261 263 0.248907 GCGTCGAATTCGGATGAGGA 60.249 55.000 26.47 3.46 40.29 3.71 F
322 324 0.322726 TGACGGAGGTATGTGACGGA 60.323 55.000 0.00 0.00 0.00 4.69 F
1158 1174 0.459585 TCGATTTGAGCGGTACTGGC 60.460 55.000 3.34 2.49 0.00 4.85 F
1564 1580 1.801178 CGAAGCTCCCTTTGTGAGAAC 59.199 52.381 0.00 0.00 31.26 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1618 1634 0.036010 CTCCAAACATCCACGCTCCT 60.036 55.000 0.00 0.0 0.00 3.69 R
1619 1635 0.321653 ACTCCAAACATCCACGCTCC 60.322 55.000 0.00 0.0 0.00 4.70 R
1667 1683 3.733337 AGAACATCAAGAACTGCGAAGT 58.267 40.909 0.00 0.0 0.00 3.01 R
2624 2918 0.179018 AGCTCCTTGGACAAAGCGTT 60.179 50.000 3.80 0.0 39.72 4.84 R
3256 3551 1.832167 GGCACAAGTGAAGGGGCAA 60.832 57.895 4.04 0.0 0.00 4.52 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 39 2.032894 GGTTTGCATCGACGACATATGG 60.033 50.000 7.80 0.00 0.00 2.74
58 60 0.107993 AGATGGTGGATCGTGTGCTG 60.108 55.000 0.00 0.00 36.04 4.41
61 63 2.347490 GTGGATCGTGTGCTGGGT 59.653 61.111 0.00 0.00 0.00 4.51
62 64 1.302511 GTGGATCGTGTGCTGGGTT 60.303 57.895 0.00 0.00 0.00 4.11
63 65 1.003839 TGGATCGTGTGCTGGGTTC 60.004 57.895 0.00 0.00 0.00 3.62
64 66 1.296715 GGATCGTGTGCTGGGTTCT 59.703 57.895 0.00 0.00 0.00 3.01
90 92 1.669795 GGTTCGTGGTTGGTAGGTACG 60.670 57.143 0.00 0.00 36.20 3.67
102 104 2.627221 GGTAGGTACGATTTCCTCCTCC 59.373 54.545 0.00 0.00 35.51 4.30
105 107 1.066757 GGTACGATTTCCTCCTCCGAC 59.933 57.143 0.00 0.00 0.00 4.79
114 116 2.295885 TCCTCCTCCGACGTCTTAATC 58.704 52.381 14.70 0.00 0.00 1.75
115 117 2.022195 CCTCCTCCGACGTCTTAATCA 58.978 52.381 14.70 0.00 0.00 2.57
123 125 0.828022 ACGTCTTAATCATGCGGGGA 59.172 50.000 0.00 0.00 0.00 4.81
124 126 1.217882 CGTCTTAATCATGCGGGGAC 58.782 55.000 0.00 0.00 0.00 4.46
125 127 1.472552 CGTCTTAATCATGCGGGGACA 60.473 52.381 0.00 0.00 0.00 4.02
126 128 1.940613 GTCTTAATCATGCGGGGACAC 59.059 52.381 0.00 0.00 0.00 3.67
127 129 1.134220 TCTTAATCATGCGGGGACACC 60.134 52.381 0.00 0.00 0.00 4.16
161 163 2.656049 TGGCATGTCCATGGTGTTG 58.344 52.632 12.58 8.75 40.72 3.33
168 170 3.168035 TGTCCATGGTGTTGCCTATTT 57.832 42.857 12.58 0.00 38.35 1.40
182 184 5.303747 TGCCTATTTGTTCAACGGTAATG 57.696 39.130 0.00 0.00 0.00 1.90
188 190 2.679450 TGTTCAACGGTAATGGTCTCG 58.321 47.619 0.00 0.00 0.00 4.04
191 193 1.087771 CAACGGTAATGGTCTCGCCC 61.088 60.000 0.00 0.00 36.04 6.13
194 196 0.107848 CGGTAATGGTCTCGCCCTTT 60.108 55.000 0.00 0.00 36.04 3.11
206 208 1.378762 GCCCTTTGTGAGCCACCTA 59.621 57.895 3.33 0.00 32.73 3.08
208 210 0.035056 CCCTTTGTGAGCCACCTAGG 60.035 60.000 7.41 7.41 41.84 3.02
255 257 1.226211 GAGTCGCGTCGAATTCGGA 60.226 57.895 26.47 13.54 37.72 4.55
256 258 0.591741 GAGTCGCGTCGAATTCGGAT 60.592 55.000 26.47 6.10 37.72 4.18
257 259 0.866061 AGTCGCGTCGAATTCGGATG 60.866 55.000 26.47 18.28 37.72 3.51
258 260 0.864377 GTCGCGTCGAATTCGGATGA 60.864 55.000 26.47 16.26 37.72 2.92
259 261 0.591488 TCGCGTCGAATTCGGATGAG 60.591 55.000 26.47 18.51 40.29 2.90
260 262 1.540607 CGCGTCGAATTCGGATGAGG 61.541 60.000 26.47 14.05 40.29 3.86
261 263 0.248907 GCGTCGAATTCGGATGAGGA 60.249 55.000 26.47 3.46 40.29 3.71
262 264 1.759994 CGTCGAATTCGGATGAGGAG 58.240 55.000 26.47 6.69 40.29 3.69
263 265 1.600663 CGTCGAATTCGGATGAGGAGG 60.601 57.143 26.47 8.20 40.29 4.30
264 266 1.409427 GTCGAATTCGGATGAGGAGGT 59.591 52.381 26.47 0.00 40.29 3.85
265 267 1.409064 TCGAATTCGGATGAGGAGGTG 59.591 52.381 26.47 0.00 40.29 4.00
266 268 1.409064 CGAATTCGGATGAGGAGGTGA 59.591 52.381 20.16 0.00 35.37 4.02
294 296 5.220529 GCTATTTGTTCATTTTGATGGCTGC 60.221 40.000 0.00 0.00 0.00 5.25
299 301 4.705991 TGTTCATTTTGATGGCTGCTATGA 59.294 37.500 2.27 0.00 0.00 2.15
305 307 1.688197 TGATGGCTGCTATGATCGTGA 59.312 47.619 2.27 0.00 0.00 4.35
322 324 0.322726 TGACGGAGGTATGTGACGGA 60.323 55.000 0.00 0.00 0.00 4.69
323 325 1.030457 GACGGAGGTATGTGACGGAT 58.970 55.000 0.00 0.00 0.00 4.18
328 330 2.550978 GAGGTATGTGACGGATGTTGG 58.449 52.381 0.00 0.00 0.00 3.77
345 347 1.067295 TGGTGTCAAGCTCAGGGAAT 58.933 50.000 0.00 0.00 0.00 3.01
369 371 9.626045 AATTCTTCGGTCTTGATTGTAATTTTC 57.374 29.630 0.00 0.00 0.00 2.29
402 405 3.781079 TGTTTCTTTGTGTCAAGGCTG 57.219 42.857 0.00 0.00 0.00 4.85
403 406 3.088532 TGTTTCTTTGTGTCAAGGCTGT 58.911 40.909 0.00 0.00 0.00 4.40
432 445 6.624423 TCAGTTTTATTAGGTCGGTGTCTAC 58.376 40.000 0.00 0.00 0.00 2.59
433 446 5.514204 CAGTTTTATTAGGTCGGTGTCTACG 59.486 44.000 0.00 0.00 0.00 3.51
434 447 5.183904 AGTTTTATTAGGTCGGTGTCTACGT 59.816 40.000 0.00 0.00 0.00 3.57
435 448 6.374333 AGTTTTATTAGGTCGGTGTCTACGTA 59.626 38.462 0.00 0.00 0.00 3.57
436 449 5.991328 TTATTAGGTCGGTGTCTACGTAG 57.009 43.478 16.73 16.73 0.00 3.51
437 450 1.656652 TAGGTCGGTGTCTACGTAGC 58.343 55.000 18.00 13.01 0.00 3.58
439 452 0.807496 GGTCGGTGTCTACGTAGCTT 59.193 55.000 18.00 0.00 0.00 3.74
440 453 2.009774 GGTCGGTGTCTACGTAGCTTA 58.990 52.381 18.00 3.59 0.00 3.09
441 454 2.223135 GGTCGGTGTCTACGTAGCTTAC 60.223 54.545 18.00 14.63 0.00 2.34
542 558 9.566331 TCATGAGTATATATTTCCTCCATTCCT 57.434 33.333 0.00 0.00 0.00 3.36
653 669 6.259550 AGAATGTAGGTTCACTCATTTTGC 57.740 37.500 0.00 0.00 31.53 3.68
654 670 6.006449 AGAATGTAGGTTCACTCATTTTGCT 58.994 36.000 0.00 0.00 31.53 3.91
655 671 6.491403 AGAATGTAGGTTCACTCATTTTGCTT 59.509 34.615 0.00 0.00 31.53 3.91
656 672 5.689383 TGTAGGTTCACTCATTTTGCTTC 57.311 39.130 0.00 0.00 0.00 3.86
657 673 3.904136 AGGTTCACTCATTTTGCTTCG 57.096 42.857 0.00 0.00 0.00 3.79
658 674 3.214328 AGGTTCACTCATTTTGCTTCGT 58.786 40.909 0.00 0.00 0.00 3.85
659 675 4.385825 AGGTTCACTCATTTTGCTTCGTA 58.614 39.130 0.00 0.00 0.00 3.43
660 676 5.003804 AGGTTCACTCATTTTGCTTCGTAT 58.996 37.500 0.00 0.00 0.00 3.06
661 677 6.170506 AGGTTCACTCATTTTGCTTCGTATA 58.829 36.000 0.00 0.00 0.00 1.47
662 678 6.823689 AGGTTCACTCATTTTGCTTCGTATAT 59.176 34.615 0.00 0.00 0.00 0.86
663 679 7.985184 AGGTTCACTCATTTTGCTTCGTATATA 59.015 33.333 0.00 0.00 0.00 0.86
664 680 8.276325 GGTTCACTCATTTTGCTTCGTATATAG 58.724 37.037 0.00 0.00 0.00 1.31
665 681 8.818057 GTTCACTCATTTTGCTTCGTATATAGT 58.182 33.333 0.00 0.00 0.00 2.12
666 682 8.575565 TCACTCATTTTGCTTCGTATATAGTC 57.424 34.615 0.00 0.00 0.00 2.59
667 683 8.194769 TCACTCATTTTGCTTCGTATATAGTCA 58.805 33.333 0.00 0.00 0.00 3.41
668 684 8.982685 CACTCATTTTGCTTCGTATATAGTCAT 58.017 33.333 0.00 0.00 0.00 3.06
669 685 9.547753 ACTCATTTTGCTTCGTATATAGTCATT 57.452 29.630 0.00 0.00 0.00 2.57
672 688 9.935682 CATTTTGCTTCGTATATAGTCATTTGT 57.064 29.630 0.00 0.00 0.00 2.83
674 690 9.767684 TTTTGCTTCGTATATAGTCATTTGTTG 57.232 29.630 0.00 0.00 0.00 3.33
675 691 7.477144 TGCTTCGTATATAGTCATTTGTTGG 57.523 36.000 0.00 0.00 0.00 3.77
676 692 6.481976 TGCTTCGTATATAGTCATTTGTTGGG 59.518 38.462 0.00 0.00 0.00 4.12
677 693 6.704493 GCTTCGTATATAGTCATTTGTTGGGA 59.296 38.462 0.00 0.00 0.00 4.37
678 694 7.387948 GCTTCGTATATAGTCATTTGTTGGGAT 59.612 37.037 0.00 0.00 0.00 3.85
679 695 8.827177 TTCGTATATAGTCATTTGTTGGGATC 57.173 34.615 0.00 0.00 0.00 3.36
680 696 8.190326 TCGTATATAGTCATTTGTTGGGATCT 57.810 34.615 0.00 0.00 0.00 2.75
681 697 8.304596 TCGTATATAGTCATTTGTTGGGATCTC 58.695 37.037 0.00 0.00 0.00 2.75
682 698 8.307483 CGTATATAGTCATTTGTTGGGATCTCT 58.693 37.037 0.00 0.00 0.00 3.10
687 703 9.753674 ATAGTCATTTGTTGGGATCTCTAAAAA 57.246 29.630 0.00 0.00 0.00 1.94
711 727 8.459911 AAACTTATTATATTTGGGAACGGAGG 57.540 34.615 0.00 0.00 0.00 4.30
712 728 6.540083 ACTTATTATATTTGGGAACGGAGGG 58.460 40.000 0.00 0.00 0.00 4.30
713 729 6.330778 ACTTATTATATTTGGGAACGGAGGGA 59.669 38.462 0.00 0.00 0.00 4.20
714 730 4.699925 TTATATTTGGGAACGGAGGGAG 57.300 45.455 0.00 0.00 0.00 4.30
816 832 2.695712 GATTATTCGTGCACGCCGCC 62.696 60.000 33.63 15.88 41.33 6.13
1158 1174 0.459585 TCGATTTGAGCGGTACTGGC 60.460 55.000 3.34 2.49 0.00 4.85
1161 1177 2.801699 CGATTTGAGCGGTACTGGCATA 60.802 50.000 3.34 0.00 0.00 3.14
1279 1295 5.810587 GCAGTTAGATCCACGTTAGATCAAA 59.189 40.000 21.50 10.54 42.19 2.69
1469 1485 4.525487 AGAGTGTTCCACAATTCATTGCAT 59.475 37.500 0.00 0.00 41.38 3.96
1513 1529 5.011227 GGGCCTGTGTTGTTAAAAAGGAATA 59.989 40.000 0.84 0.00 0.00 1.75
1564 1580 1.801178 CGAAGCTCCCTTTGTGAGAAC 59.199 52.381 0.00 0.00 31.26 3.01
1599 1615 6.976934 ACTACTCATTTGGGTTGAATTTGT 57.023 33.333 0.00 0.00 0.00 2.83
1618 1634 9.101655 GAATTTGTTACGCTAAAGGTTATAGGA 57.898 33.333 0.00 0.00 0.00 2.94
1619 1635 8.658499 ATTTGTTACGCTAAAGGTTATAGGAG 57.342 34.615 0.00 0.00 0.00 3.69
1646 1662 4.546570 GTGGATGTTTGGAGTTTTACTGC 58.453 43.478 0.00 0.00 37.06 4.40
1674 1690 3.007506 TCCAATCCTGAGTAAACTTCGCA 59.992 43.478 0.00 0.00 0.00 5.10
1762 1781 9.281371 GATCAAGTTTTACTACCCAGTTTAGTT 57.719 33.333 0.00 0.00 36.14 2.24
1801 1830 9.490379 GTATCCTTACTCGACCAATCATAAAAT 57.510 33.333 0.00 0.00 0.00 1.82
1818 1847 9.923143 ATCATAAAATATGAAGATGTGCCAATG 57.077 29.630 4.33 0.00 0.00 2.82
1853 1882 7.337689 TGAATTGTCTTTGAAGGATATGACCAG 59.662 37.037 0.00 0.00 0.00 4.00
1877 1906 7.599621 CAGTCAATCAAAATTAACTCATGGCAA 59.400 33.333 0.00 0.00 0.00 4.52
1883 1912 9.941325 ATCAAAATTAACTCATGGCAATAACAA 57.059 25.926 0.00 0.00 0.00 2.83
1981 2010 9.053840 CATCTCTAGTCAATTCAATTGCTGTAT 57.946 33.333 5.12 0.00 40.05 2.29
2004 2033 7.928307 ATGCATCAACTCATACAACTTAAGT 57.072 32.000 1.12 1.12 0.00 2.24
2436 2670 2.496899 AGGTAATCCTTGGTGTGCTG 57.503 50.000 0.00 0.00 42.12 4.41
2542 2835 6.859112 ATATACTTCTGCGAGGACCATTAT 57.141 37.500 0.00 0.00 0.00 1.28
2714 3008 3.957671 ACCTCCTTTTCGAACGAAAAC 57.042 42.857 24.40 0.00 45.59 2.43
2915 3209 1.228657 GGGATAGCGTTCCGATTGCC 61.229 60.000 2.40 0.00 36.58 4.52
2948 3242 3.278367 CATGACCTGCTGACAAAACAG 57.722 47.619 0.00 0.00 40.43 3.16
3147 3442 3.665190 CCTGGAATCTATAAAGGACCGC 58.335 50.000 0.00 0.00 0.00 5.68
3256 3551 2.335316 TTAGGGTCGCTGTGTGTTTT 57.665 45.000 0.00 0.00 0.00 2.43
3268 3564 1.480545 GTGTGTTTTTGCCCCTTCACT 59.519 47.619 0.00 0.00 0.00 3.41
3353 3649 4.471386 AGGTGACAGCCTTGTAATCTATGT 59.529 41.667 0.00 0.00 37.76 2.29
3375 3671 2.050144 ACATCTTGGGTGTCACTGAGT 58.950 47.619 2.35 0.00 0.00 3.41
3376 3672 2.439507 ACATCTTGGGTGTCACTGAGTT 59.560 45.455 2.35 0.00 0.00 3.01
3402 3698 0.817634 TGGAGTTTGACACTTGGGCG 60.818 55.000 0.00 0.00 35.01 6.13
3650 3947 5.685511 CACAACACAACATAGTTTAGCAACC 59.314 40.000 0.00 0.00 32.70 3.77
3694 3991 5.844396 CGTGTTGTTTTCTCCGTCTAAAATC 59.156 40.000 0.00 0.00 0.00 2.17
3696 3993 5.754406 TGTTGTTTTCTCCGTCTAAAATCGA 59.246 36.000 0.00 0.00 0.00 3.59
3697 3994 6.425721 TGTTGTTTTCTCCGTCTAAAATCGAT 59.574 34.615 0.00 0.00 0.00 3.59
3698 3995 7.599621 TGTTGTTTTCTCCGTCTAAAATCGATA 59.400 33.333 0.00 0.00 0.00 2.92
3699 3996 7.751047 TGTTTTCTCCGTCTAAAATCGATAG 57.249 36.000 0.00 0.00 0.00 2.08
3720 4482 1.114627 CCTTTATTGCTGAAGCCCCC 58.885 55.000 0.00 0.00 41.18 5.40
3750 4517 3.617540 TGTTTATGTTGCAAGGTGACG 57.382 42.857 0.00 0.00 0.00 4.35
3785 4552 1.474077 CTACAACATTGCAGAAGCCCC 59.526 52.381 0.00 0.00 41.13 5.80
3878 4697 6.881602 AGATCTATGTTGGGAGTTTCTGTTTC 59.118 38.462 0.00 0.00 0.00 2.78
3929 4748 3.698029 ACAAAGCAGCTGTTGTTGTAG 57.302 42.857 22.24 2.89 34.29 2.74
3930 4749 3.278574 ACAAAGCAGCTGTTGTTGTAGA 58.721 40.909 22.24 0.00 34.29 2.59
3931 4750 3.313526 ACAAAGCAGCTGTTGTTGTAGAG 59.686 43.478 22.24 1.95 34.29 2.43
3933 4752 0.164647 GCAGCTGTTGTTGTAGAGCG 59.835 55.000 16.64 0.00 36.52 5.03
3934 4753 1.783284 CAGCTGTTGTTGTAGAGCGA 58.217 50.000 5.25 0.00 36.52 4.93
3935 4754 1.457303 CAGCTGTTGTTGTAGAGCGAC 59.543 52.381 5.25 0.00 36.52 5.19
3936 4755 0.790814 GCTGTTGTTGTAGAGCGACC 59.209 55.000 0.00 0.00 0.00 4.79
3937 4756 1.605712 GCTGTTGTTGTAGAGCGACCT 60.606 52.381 0.00 0.00 0.00 3.85
3938 4757 2.061773 CTGTTGTTGTAGAGCGACCTG 58.938 52.381 0.00 0.00 0.00 4.00
3948 4767 3.583383 GCGACCTGCAAAGCATCT 58.417 55.556 0.00 0.00 45.45 2.90
3963 4782 4.708726 AGCATCTACCTTGTTGCAATTC 57.291 40.909 0.59 0.00 35.71 2.17
3972 4791 3.550639 CCTTGTTGCAATTCGTGACACAT 60.551 43.478 0.59 0.00 0.00 3.21
3977 4796 5.181056 TGTTGCAATTCGTGACACATCTTAT 59.819 36.000 0.59 0.00 0.00 1.73
3982 4801 3.260475 TCGTGACACATCTTATTGGGG 57.740 47.619 6.37 0.00 0.00 4.96
4003 4822 0.582005 GATCCGACGGCTATTTGTGC 59.418 55.000 9.66 0.00 0.00 4.57
4092 4911 5.185056 GGCCCTTTTTAGTAGAAGCAATCAA 59.815 40.000 0.00 0.00 0.00 2.57
4099 4922 8.635765 TTTTAGTAGAAGCAATCAAATGAGGT 57.364 30.769 0.00 0.00 0.00 3.85
4126 4949 7.824779 ACCTTGAAATAGTGAACTAACCTGATC 59.175 37.037 0.00 0.00 31.39 2.92
4146 4969 4.325028 TCATCAGCTTTGCAACAACATT 57.675 36.364 0.00 0.00 0.00 2.71
4151 4974 6.768029 TCAGCTTTGCAACAACATTAAATC 57.232 33.333 0.00 0.00 0.00 2.17
4152 4975 6.514947 TCAGCTTTGCAACAACATTAAATCT 58.485 32.000 0.00 0.00 0.00 2.40
4156 4979 4.533919 TGCAACAACATTAAATCTGGGG 57.466 40.909 0.00 0.00 0.00 4.96
4163 4986 2.025321 ACATTAAATCTGGGGCGAACCT 60.025 45.455 0.00 0.00 40.03 3.50
4169 4992 3.552384 TGGGGCGAACCTCAACGT 61.552 61.111 0.00 0.00 46.33 3.99
4170 4993 2.741211 GGGGCGAACCTCAACGTC 60.741 66.667 0.00 0.00 35.91 4.34
4171 4994 2.029964 GGGCGAACCTCAACGTCA 59.970 61.111 0.00 0.00 35.79 4.35
4175 4999 1.596220 GGCGAACCTCAACGTCAAAAC 60.596 52.381 0.00 0.00 34.20 2.43
4201 5025 0.901827 GGTTCGCCCCCAATTTCATT 59.098 50.000 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.737838 ATGTCGTCGATGCAAACCAT 58.262 45.000 0.00 0.00 36.70 3.55
37 39 1.009829 GCACACGATCCACCATCTTC 58.990 55.000 0.00 0.00 0.00 2.87
58 60 1.539827 CCACGAACCATGAAAGAACCC 59.460 52.381 0.00 0.00 0.00 4.11
61 63 2.621055 CCAACCACGAACCATGAAAGAA 59.379 45.455 0.00 0.00 0.00 2.52
62 64 2.226330 CCAACCACGAACCATGAAAGA 58.774 47.619 0.00 0.00 0.00 2.52
63 65 1.953686 ACCAACCACGAACCATGAAAG 59.046 47.619 0.00 0.00 0.00 2.62
64 66 2.060050 ACCAACCACGAACCATGAAA 57.940 45.000 0.00 0.00 0.00 2.69
90 92 1.104630 AGACGTCGGAGGAGGAAATC 58.895 55.000 10.46 0.00 0.00 2.17
102 104 0.852777 CCCGCATGATTAAGACGTCG 59.147 55.000 10.46 0.00 0.00 5.12
105 107 1.217882 GTCCCCGCATGATTAAGACG 58.782 55.000 0.00 0.00 0.00 4.18
114 116 1.524621 GATCTGGTGTCCCCGCATG 60.525 63.158 0.00 0.00 35.15 4.06
115 117 1.690633 AGATCTGGTGTCCCCGCAT 60.691 57.895 0.00 0.00 35.15 4.73
127 129 2.995283 TGCCATCAAACTCCAGATCTG 58.005 47.619 16.24 16.24 0.00 2.90
161 163 4.157105 ACCATTACCGTTGAACAAATAGGC 59.843 41.667 0.00 0.00 0.00 3.93
168 170 2.679450 CGAGACCATTACCGTTGAACA 58.321 47.619 0.00 0.00 0.00 3.18
182 184 2.035442 GCTCACAAAGGGCGAGACC 61.035 63.158 0.00 0.00 37.93 3.85
188 190 0.678048 CTAGGTGGCTCACAAAGGGC 60.678 60.000 7.49 0.00 35.86 5.19
191 193 1.065854 CCTCCTAGGTGGCTCACAAAG 60.066 57.143 16.80 0.00 35.86 2.77
194 196 4.461119 CCTCCTAGGTGGCTCACA 57.539 61.111 16.80 0.00 35.86 3.58
206 208 0.472471 TTCAACTTTGCGGACCTCCT 59.528 50.000 0.00 0.00 0.00 3.69
208 210 3.938963 TGATATTCAACTTTGCGGACCTC 59.061 43.478 0.00 0.00 0.00 3.85
220 222 3.426859 CGACTCCATCGCTGATATTCAAC 59.573 47.826 0.00 0.00 45.52 3.18
247 249 3.556004 GGATCACCTCCTCATCCGAATTC 60.556 52.174 0.00 0.00 41.29 2.17
255 257 2.317371 ATAGCGGATCACCTCCTCAT 57.683 50.000 0.00 0.00 42.47 2.90
256 258 2.088104 AATAGCGGATCACCTCCTCA 57.912 50.000 0.00 0.00 42.47 3.86
257 259 2.103263 ACAAATAGCGGATCACCTCCTC 59.897 50.000 0.00 0.00 42.47 3.71
258 260 2.119495 ACAAATAGCGGATCACCTCCT 58.881 47.619 0.00 0.00 42.47 3.69
259 261 2.622064 ACAAATAGCGGATCACCTCC 57.378 50.000 0.00 0.00 41.07 4.30
260 262 3.531538 TGAACAAATAGCGGATCACCTC 58.468 45.455 0.00 0.00 0.00 3.85
261 263 3.627395 TGAACAAATAGCGGATCACCT 57.373 42.857 0.00 0.00 0.00 4.00
262 264 4.900635 AATGAACAAATAGCGGATCACC 57.099 40.909 0.00 0.00 0.00 4.02
263 265 6.321717 TCAAAATGAACAAATAGCGGATCAC 58.678 36.000 0.00 0.00 0.00 3.06
264 266 6.507958 TCAAAATGAACAAATAGCGGATCA 57.492 33.333 0.00 0.00 0.00 2.92
265 267 6.418819 CCATCAAAATGAACAAATAGCGGATC 59.581 38.462 0.00 0.00 34.61 3.36
266 268 6.275335 CCATCAAAATGAACAAATAGCGGAT 58.725 36.000 0.00 0.00 34.61 4.18
271 273 6.103997 AGCAGCCATCAAAATGAACAAATAG 58.896 36.000 0.00 0.00 34.61 1.73
294 296 3.502595 ACATACCTCCGTCACGATCATAG 59.497 47.826 0.00 0.00 0.00 2.23
299 301 1.404391 GTCACATACCTCCGTCACGAT 59.596 52.381 0.00 0.00 0.00 3.73
305 307 0.744874 CATCCGTCACATACCTCCGT 59.255 55.000 0.00 0.00 0.00 4.69
322 324 1.546323 CCCTGAGCTTGACACCAACAT 60.546 52.381 0.00 0.00 0.00 2.71
323 325 0.179020 CCCTGAGCTTGACACCAACA 60.179 55.000 0.00 0.00 0.00 3.33
328 330 3.064900 AGAATTCCCTGAGCTTGACAC 57.935 47.619 0.65 0.00 0.00 3.67
345 347 8.160521 TGAAAATTACAATCAAGACCGAAGAA 57.839 30.769 0.00 0.00 0.00 2.52
369 371 9.173939 GACACAAAGAAACATTAGACAAGATTG 57.826 33.333 0.00 0.00 0.00 2.67
378 380 5.916883 CAGCCTTGACACAAAGAAACATTAG 59.083 40.000 0.00 0.00 0.00 1.73
380 382 4.160252 ACAGCCTTGACACAAAGAAACATT 59.840 37.500 0.00 0.00 0.00 2.71
416 429 2.615912 GCTACGTAGACACCGACCTAAT 59.384 50.000 26.53 0.00 0.00 1.73
418 431 1.208052 AGCTACGTAGACACCGACCTA 59.792 52.381 26.53 0.00 0.00 3.08
472 485 8.907222 AAAAGAATTGAACGGTAAGTAGGTAA 57.093 30.769 0.00 0.00 0.00 2.85
473 486 8.907222 AAAAAGAATTGAACGGTAAGTAGGTA 57.093 30.769 0.00 0.00 0.00 3.08
474 487 7.812690 AAAAAGAATTGAACGGTAAGTAGGT 57.187 32.000 0.00 0.00 0.00 3.08
500 513 6.971726 ACTCATGAATGAATGCAATATGGT 57.028 33.333 0.00 0.00 36.18 3.55
627 643 8.296713 GCAAAATGAGTGAACCTACATTCTAAA 58.703 33.333 0.00 0.00 32.84 1.85
628 644 7.665559 AGCAAAATGAGTGAACCTACATTCTAA 59.334 33.333 0.00 0.00 32.84 2.10
629 645 7.168219 AGCAAAATGAGTGAACCTACATTCTA 58.832 34.615 0.00 0.00 32.84 2.10
630 646 6.006449 AGCAAAATGAGTGAACCTACATTCT 58.994 36.000 0.00 0.00 32.84 2.40
631 647 6.259550 AGCAAAATGAGTGAACCTACATTC 57.740 37.500 0.00 0.00 32.84 2.67
632 648 6.568462 CGAAGCAAAATGAGTGAACCTACATT 60.568 38.462 0.00 0.00 34.99 2.71
633 649 5.106555 CGAAGCAAAATGAGTGAACCTACAT 60.107 40.000 0.00 0.00 0.00 2.29
634 650 4.213270 CGAAGCAAAATGAGTGAACCTACA 59.787 41.667 0.00 0.00 0.00 2.74
635 651 4.213482 ACGAAGCAAAATGAGTGAACCTAC 59.787 41.667 0.00 0.00 0.00 3.18
636 652 4.385825 ACGAAGCAAAATGAGTGAACCTA 58.614 39.130 0.00 0.00 0.00 3.08
637 653 3.214328 ACGAAGCAAAATGAGTGAACCT 58.786 40.909 0.00 0.00 0.00 3.50
638 654 3.626028 ACGAAGCAAAATGAGTGAACC 57.374 42.857 0.00 0.00 0.00 3.62
639 655 8.818057 ACTATATACGAAGCAAAATGAGTGAAC 58.182 33.333 0.00 0.00 0.00 3.18
640 656 8.942338 ACTATATACGAAGCAAAATGAGTGAA 57.058 30.769 0.00 0.00 0.00 3.18
641 657 8.194769 TGACTATATACGAAGCAAAATGAGTGA 58.805 33.333 0.00 0.00 0.00 3.41
642 658 8.352752 TGACTATATACGAAGCAAAATGAGTG 57.647 34.615 0.00 0.00 0.00 3.51
643 659 9.547753 AATGACTATATACGAAGCAAAATGAGT 57.452 29.630 0.00 0.00 0.00 3.41
646 662 9.935682 ACAAATGACTATATACGAAGCAAAATG 57.064 29.630 0.00 0.00 0.00 2.32
648 664 9.767684 CAACAAATGACTATATACGAAGCAAAA 57.232 29.630 0.00 0.00 0.00 2.44
649 665 8.394877 CCAACAAATGACTATATACGAAGCAAA 58.605 33.333 0.00 0.00 0.00 3.68
650 666 7.011950 CCCAACAAATGACTATATACGAAGCAA 59.988 37.037 0.00 0.00 0.00 3.91
651 667 6.481976 CCCAACAAATGACTATATACGAAGCA 59.518 38.462 0.00 0.00 0.00 3.91
652 668 6.704493 TCCCAACAAATGACTATATACGAAGC 59.296 38.462 0.00 0.00 0.00 3.86
653 669 8.833231 ATCCCAACAAATGACTATATACGAAG 57.167 34.615 0.00 0.00 0.00 3.79
654 670 8.647796 AGATCCCAACAAATGACTATATACGAA 58.352 33.333 0.00 0.00 0.00 3.85
655 671 8.190326 AGATCCCAACAAATGACTATATACGA 57.810 34.615 0.00 0.00 0.00 3.43
656 672 8.307483 AGAGATCCCAACAAATGACTATATACG 58.693 37.037 0.00 0.00 0.00 3.06
661 677 9.753674 TTTTTAGAGATCCCAACAAATGACTAT 57.246 29.630 0.00 0.00 0.00 2.12
685 701 8.909923 CCTCCGTTCCCAAATATAATAAGTTTT 58.090 33.333 0.00 0.00 0.00 2.43
686 702 7.504574 CCCTCCGTTCCCAAATATAATAAGTTT 59.495 37.037 0.00 0.00 0.00 2.66
687 703 7.002276 CCCTCCGTTCCCAAATATAATAAGTT 58.998 38.462 0.00 0.00 0.00 2.66
688 704 6.330778 TCCCTCCGTTCCCAAATATAATAAGT 59.669 38.462 0.00 0.00 0.00 2.24
689 705 6.775708 TCCCTCCGTTCCCAAATATAATAAG 58.224 40.000 0.00 0.00 0.00 1.73
690 706 6.330778 ACTCCCTCCGTTCCCAAATATAATAA 59.669 38.462 0.00 0.00 0.00 1.40
691 707 5.847817 ACTCCCTCCGTTCCCAAATATAATA 59.152 40.000 0.00 0.00 0.00 0.98
692 708 4.663592 ACTCCCTCCGTTCCCAAATATAAT 59.336 41.667 0.00 0.00 0.00 1.28
693 709 4.042174 ACTCCCTCCGTTCCCAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
694 710 3.660959 ACTCCCTCCGTTCCCAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
695 711 2.488836 ACTCCCTCCGTTCCCAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
696 712 1.961133 ACTCCCTCCGTTCCCAAATA 58.039 50.000 0.00 0.00 0.00 1.40
697 713 1.558294 GTACTCCCTCCGTTCCCAAAT 59.442 52.381 0.00 0.00 0.00 2.32
698 714 0.978907 GTACTCCCTCCGTTCCCAAA 59.021 55.000 0.00 0.00 0.00 3.28
699 715 0.178926 TGTACTCCCTCCGTTCCCAA 60.179 55.000 0.00 0.00 0.00 4.12
700 716 0.042131 ATGTACTCCCTCCGTTCCCA 59.958 55.000 0.00 0.00 0.00 4.37
701 717 0.751452 GATGTACTCCCTCCGTTCCC 59.249 60.000 0.00 0.00 0.00 3.97
702 718 0.384669 CGATGTACTCCCTCCGTTCC 59.615 60.000 0.00 0.00 0.00 3.62
703 719 1.101331 ACGATGTACTCCCTCCGTTC 58.899 55.000 0.00 0.00 0.00 3.95
704 720 2.019984 GTACGATGTACTCCCTCCGTT 58.980 52.381 0.00 0.00 0.00 4.44
705 721 1.673168 GTACGATGTACTCCCTCCGT 58.327 55.000 0.00 0.00 0.00 4.69
706 722 0.585357 CGTACGATGTACTCCCTCCG 59.415 60.000 10.44 0.00 0.00 4.63
707 723 0.950116 CCGTACGATGTACTCCCTCC 59.050 60.000 18.76 0.00 0.00 4.30
708 724 0.310232 GCCGTACGATGTACTCCCTC 59.690 60.000 18.76 0.00 0.00 4.30
709 725 1.105759 GGCCGTACGATGTACTCCCT 61.106 60.000 18.76 0.00 0.00 4.20
710 726 1.361632 GGCCGTACGATGTACTCCC 59.638 63.158 18.76 0.03 0.00 4.30
711 727 0.457035 TTGGCCGTACGATGTACTCC 59.543 55.000 18.76 6.39 0.00 3.85
712 728 2.282701 TTTGGCCGTACGATGTACTC 57.717 50.000 18.76 0.00 0.00 2.59
713 729 2.747396 TTTTGGCCGTACGATGTACT 57.253 45.000 18.76 0.00 0.00 2.73
714 730 2.995258 TCTTTTTGGCCGTACGATGTAC 59.005 45.455 18.76 2.32 0.00 2.90
1158 1174 2.884639 CCTATCCCGCAAAAACCCTATG 59.115 50.000 0.00 0.00 0.00 2.23
1161 1177 0.702316 ACCTATCCCGCAAAAACCCT 59.298 50.000 0.00 0.00 0.00 4.34
1279 1295 4.527509 ATGCGTATGCTCTACATTAGCT 57.472 40.909 8.69 0.00 43.34 3.32
1380 1396 9.332713 TCAAAATTATTTCCCTTTACCCTTCAT 57.667 29.630 0.00 0.00 0.00 2.57
1564 1580 5.865552 CCAAATGAGTAGTTCCAGCAATTTG 59.134 40.000 0.00 0.00 0.00 2.32
1599 1615 5.010415 GCTCCTCCTATAACCTTTAGCGTAA 59.990 44.000 0.00 0.00 0.00 3.18
1618 1634 0.036010 CTCCAAACATCCACGCTCCT 60.036 55.000 0.00 0.00 0.00 3.69
1619 1635 0.321653 ACTCCAAACATCCACGCTCC 60.322 55.000 0.00 0.00 0.00 4.70
1667 1683 3.733337 AGAACATCAAGAACTGCGAAGT 58.267 40.909 0.00 0.00 0.00 3.01
1674 1690 7.275920 ACTGACAGTTAAGAACATCAAGAACT 58.724 34.615 1.07 0.00 31.18 3.01
1762 1781 8.057011 TCGAGTAAGGATACCCATATAGCATTA 58.943 37.037 0.00 0.00 32.08 1.90
1801 1830 9.797642 AGTATTAATCATTGGCACATCTTCATA 57.202 29.630 0.00 0.00 39.30 2.15
1846 1875 8.408043 TGAGTTAATTTTGATTGACTGGTCAT 57.592 30.769 4.19 0.00 39.64 3.06
1853 1882 7.887996 TTGCCATGAGTTAATTTTGATTGAC 57.112 32.000 0.00 0.00 0.00 3.18
1883 1912 7.011389 GCTTAAAGAACAGGCTGAAACAAAAAT 59.989 33.333 23.66 0.00 0.00 1.82
1981 2010 7.744087 AACTTAAGTTGTATGAGTTGATGCA 57.256 32.000 19.94 0.00 36.80 3.96
2330 2360 6.535274 TCAGATGTGCAAAATATGAGATCG 57.465 37.500 4.32 0.00 0.00 3.69
2431 2665 3.702045 ACTGTACTATCTCCTTCCAGCAC 59.298 47.826 0.00 0.00 0.00 4.40
2485 2778 6.494059 AGGTTTGGACTGGCTAAGAAATAAT 58.506 36.000 0.00 0.00 0.00 1.28
2624 2918 0.179018 AGCTCCTTGGACAAAGCGTT 60.179 50.000 3.80 0.00 39.72 4.84
3147 3442 3.620374 AGATCATGTAGCAGCAAACTTCG 59.380 43.478 0.00 0.00 0.00 3.79
3256 3551 1.832167 GGCACAAGTGAAGGGGCAA 60.832 57.895 4.04 0.00 0.00 4.52
3268 3564 5.698832 CAAACTAAATTCATCTCGGCACAA 58.301 37.500 0.00 0.00 0.00 3.33
3353 3649 3.646162 ACTCAGTGACACCCAAGATGTAA 59.354 43.478 0.84 0.00 0.00 2.41
3375 3671 5.995282 CCAAGTGTCAAACTCCATACTGTAA 59.005 40.000 0.00 0.00 38.56 2.41
3376 3672 5.512404 CCCAAGTGTCAAACTCCATACTGTA 60.512 44.000 0.00 0.00 38.56 2.74
3402 3698 9.846248 AATTTACAGAGCATTACAGATTTTGAC 57.154 29.630 0.00 0.00 0.00 3.18
3650 3947 3.188460 ACGACAGGATTTTGATGTTTCCG 59.812 43.478 0.00 0.00 33.35 4.30
3694 3991 4.212214 GGCTTCAGCAATAAAGGTCTATCG 59.788 45.833 0.30 0.00 44.36 2.92
3696 3993 4.464947 GGGCTTCAGCAATAAAGGTCTAT 58.535 43.478 0.30 0.00 44.36 1.98
3697 3994 3.371595 GGGGCTTCAGCAATAAAGGTCTA 60.372 47.826 0.30 0.00 44.36 2.59
3698 3995 2.621668 GGGGCTTCAGCAATAAAGGTCT 60.622 50.000 0.30 0.00 44.36 3.85
3699 3996 1.751351 GGGGCTTCAGCAATAAAGGTC 59.249 52.381 0.30 0.00 44.36 3.85
3700 3997 1.619704 GGGGGCTTCAGCAATAAAGGT 60.620 52.381 0.30 0.00 44.36 3.50
3730 4492 2.287308 GCGTCACCTTGCAACATAAACA 60.287 45.455 0.00 0.00 0.00 2.83
3750 4517 7.043192 GCAATGTTGTAGGAATTTATGTCATGC 60.043 37.037 0.00 0.00 0.00 4.06
3785 4552 0.731174 GCGGTAAACAATGTTGCGGG 60.731 55.000 0.00 0.00 0.00 6.13
3850 4660 6.176183 CAGAAACTCCCAACATAGATCTTGT 58.824 40.000 0.00 2.53 0.00 3.16
3861 4671 1.607148 CCCGAAACAGAAACTCCCAAC 59.393 52.381 0.00 0.00 0.00 3.77
3878 4697 1.807742 TCGAGGTGTTATTTTTGCCCG 59.192 47.619 0.00 0.00 0.00 6.13
3925 4744 0.670546 GCTTTGCAGGTCGCTCTACA 60.671 55.000 0.00 0.00 43.06 2.74
3927 4746 0.250234 ATGCTTTGCAGGTCGCTCTA 59.750 50.000 0.00 0.00 43.65 2.43
3928 4747 1.002868 ATGCTTTGCAGGTCGCTCT 60.003 52.632 0.00 0.00 43.65 4.09
3929 4748 1.023513 AGATGCTTTGCAGGTCGCTC 61.024 55.000 0.00 0.00 43.65 5.03
3930 4749 0.250234 TAGATGCTTTGCAGGTCGCT 59.750 50.000 0.00 0.00 43.65 4.93
3931 4750 0.375106 GTAGATGCTTTGCAGGTCGC 59.625 55.000 0.00 0.00 43.65 5.19
3933 4752 2.409948 AGGTAGATGCTTTGCAGGTC 57.590 50.000 0.00 0.00 43.65 3.85
3934 4753 2.224867 ACAAGGTAGATGCTTTGCAGGT 60.225 45.455 0.00 0.00 43.65 4.00
3935 4754 2.440409 ACAAGGTAGATGCTTTGCAGG 58.560 47.619 0.00 0.00 43.65 4.85
3936 4755 3.829948 CAACAAGGTAGATGCTTTGCAG 58.170 45.455 0.00 0.00 43.65 4.41
3937 4756 2.030007 GCAACAAGGTAGATGCTTTGCA 60.030 45.455 0.00 0.00 44.86 4.08
3938 4757 2.030007 TGCAACAAGGTAGATGCTTTGC 60.030 45.455 0.00 0.00 38.05 3.68
3941 4760 4.379813 CGAATTGCAACAAGGTAGATGCTT 60.380 41.667 0.00 0.00 38.05 3.91
3943 4762 3.119849 ACGAATTGCAACAAGGTAGATGC 60.120 43.478 0.00 0.00 37.75 3.91
3948 4767 3.002862 GTGTCACGAATTGCAACAAGGTA 59.997 43.478 0.00 0.00 0.00 3.08
3963 4782 3.118775 TCTCCCCAATAAGATGTGTCACG 60.119 47.826 0.00 0.00 0.00 4.35
3972 4791 1.961394 CGTCGGATCTCCCCAATAAGA 59.039 52.381 0.00 0.00 0.00 2.10
3977 4796 2.577020 TAGCCGTCGGATCTCCCCAA 62.577 60.000 17.49 0.00 0.00 4.12
3982 4801 2.128035 CACAAATAGCCGTCGGATCTC 58.872 52.381 17.49 0.00 0.00 2.75
4003 4822 1.108776 CCTGCACCATTGGATTGAGG 58.891 55.000 10.37 5.19 0.00 3.86
4034 4853 5.123227 TCGGATGGTAGATGAATTGGAAAC 58.877 41.667 0.00 0.00 0.00 2.78
4069 4888 5.897377 TGATTGCTTCTACTAAAAAGGGC 57.103 39.130 0.00 0.00 0.00 5.19
4092 4911 7.690256 AGTTCACTATTTCAAGGTACCTCATT 58.310 34.615 16.64 0.00 0.00 2.57
4099 4922 8.197592 TCAGGTTAGTTCACTATTTCAAGGTA 57.802 34.615 0.00 0.00 0.00 3.08
4126 4949 6.528014 TTTAATGTTGTTGCAAAGCTGATG 57.472 33.333 0.00 0.00 0.00 3.07
4146 4969 1.281419 TGAGGTTCGCCCCAGATTTA 58.719 50.000 0.00 0.00 38.27 1.40
4151 4974 2.742372 CGTTGAGGTTCGCCCCAG 60.742 66.667 0.00 0.00 38.27 4.45
4152 4975 3.524648 GACGTTGAGGTTCGCCCCA 62.525 63.158 0.00 0.00 38.27 4.96
4156 4979 1.738432 GTTTTGACGTTGAGGTTCGC 58.262 50.000 0.00 0.00 0.00 4.70
4163 4986 2.206750 CCCTCTTCGTTTTGACGTTGA 58.793 47.619 0.00 0.00 0.00 3.18
4165 4988 2.320745 ACCCTCTTCGTTTTGACGTT 57.679 45.000 0.00 0.00 0.00 3.99
4169 4992 1.223187 GCGAACCCTCTTCGTTTTGA 58.777 50.000 4.55 0.00 43.24 2.69
4170 4993 0.237498 GGCGAACCCTCTTCGTTTTG 59.763 55.000 4.55 0.00 43.24 2.44
4171 4994 2.625375 GGCGAACCCTCTTCGTTTT 58.375 52.632 4.55 0.00 43.24 2.43


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

AutoCloner maintained by Alex Coulton.