Multiple sequence alignment - TraesCS6D01G158600

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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 TraesCS6D01G158600 chr6D 100.000 6698 0 0 849 7546 135426384 135433081 0.000000e+00 12369
1 TraesCS6D01G158600 chr6D 100.000 514 0 0 1 514 135425536 135426049 0.000000e+00 950
2 TraesCS6D01G158600 chr6A 90.868 6450 286 129 849 7126 176980438 176986756 0.000000e+00 8368
3 TraesCS6D01G158600 chr6A 91.765 425 29 5 7124 7546 176988696 176989116 3.030000e-163 586
4 TraesCS6D01G158600 chr6A 90.654 428 25 7 1 414 176979600 176980026 8.550000e-154 555
5 TraesCS6D01G158600 chr6A 96.875 64 2 0 451 514 176980242 176980305 2.880000e-19 108
6 TraesCS6D01G158600 chr6B 91.168 2672 140 45 4512 7126 234152982 234155614 0.000000e+00 3539
7 TraesCS6D01G158600 chr6B 92.293 2141 76 43 849 2942 234149378 234151476 0.000000e+00 2957
8 TraesCS6D01G158600 chr6B 91.928 1499 74 21 2980 4447 234151470 234152952 0.000000e+00 2054
9 TraesCS6D01G158600 chr6B 92.000 450 14 8 72 514 234148814 234149248 5.010000e-171 612
10 TraesCS6D01G158600 chrUn 89.506 324 31 3 7226 7546 80821444 80821121 2.530000e-109 407
11 TraesCS6D01G158600 chrUn 95.327 107 4 1 7124 7230 80825797 80825692 1.300000e-37 169
12 TraesCS6D01G158600 chrUn 92.381 105 8 0 7022 7126 80825957 80825853 4.720000e-32 150
13 TraesCS6D01G158600 chr7B 81.707 246 45 0 3255 3500 532291969 532291724 9.930000e-49 206
14 TraesCS6D01G158600 chr7B 77.308 260 53 6 1028 1284 532465124 532464868 1.700000e-31 148
15 TraesCS6D01G158600 chr7B 84.694 98 15 0 5761 5858 532481905 532481808 1.730000e-16 99
16 TraesCS6D01G158600 chr7A 82.328 232 41 0 3256 3487 571939139 571938908 1.280000e-47 202
17 TraesCS6D01G158600 chr7A 78.077 260 48 8 1028 1284 572185558 572185305 1.010000e-33 156
18 TraesCS6D01G158600 chr7A 78.077 260 48 8 1028 1284 572238507 572238254 1.010000e-33 156
19 TraesCS6D01G158600 chr3B 81.858 226 41 0 3253 3478 792861489 792861714 2.780000e-44 191
20 TraesCS6D01G158600 chr3D 81.991 211 38 0 3277 3487 591822850 591822640 6.020000e-41 180
21 TraesCS6D01G158600 chr3D 80.569 211 41 0 3277 3487 9418603 9418393 6.060000e-36 163
22 TraesCS6D01G158600 chr3A 80.702 228 40 3 3253 3478 722279134 722279359 2.800000e-39 174
23 TraesCS6D01G158600 chr3A 81.188 202 38 0 3277 3478 11760408 11760609 6.060000e-36 163
24 TraesCS6D01G158600 chr7D 77.358 265 46 11 1028 1285 504538410 504538153 2.190000e-30 145


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 TraesCS6D01G158600 chr6D 135425536 135433081 7545 False 6659.50 12369 100.00000 1 7546 2 chr6D.!!$F1 7545
1 TraesCS6D01G158600 chr6A 176979600 176989116 9516 False 2404.25 8368 92.54050 1 7546 4 chr6A.!!$F1 7545
2 TraesCS6D01G158600 chr6B 234148814 234155614 6800 False 2290.50 3539 91.84725 72 7126 4 chr6B.!!$F1 7054

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
260 267 0.383949 CACAAACGAAACCACCCCAG 59.616 55.0 0.00 0.0 0.00 4.45 F
267 274 0.606673 GAAACCACCCCAGCTCAGTC 60.607 60.0 0.00 0.0 0.00 3.51 F
2072 2338 0.240145 TAGACGCGTGTTCAGGAGTG 59.760 55.0 20.70 0.0 0.00 3.51 F
2238 2508 0.109597 CAAAATGCAGTGCCGGTCTC 60.110 55.0 13.72 0.0 0.00 3.36 F
2744 3050 0.177141 GTATGCTTGGCTGGTACGGA 59.823 55.0 0.00 0.0 36.31 4.69 F
3816 4145 0.469917 CGAAGGCCACTGGGATGTAT 59.530 55.0 5.01 0.0 35.59 2.29 F
4543 4960 0.104120 CATTGCATGATGCCACCAGG 59.896 55.0 15.70 0.0 44.23 4.45 F
5024 5475 0.108898 TGTGCTGTTGTTGTTGGTGC 60.109 50.0 0.00 0.0 0.00 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2072 2338 0.458025 GCGTGTCAGCTACTACCACC 60.458 60.000 0.00 0.00 0.00 4.61 R
2237 2507 1.135139 CTCTTCTTCCTCGATTGCCGA 59.865 52.381 0.00 0.00 46.35 5.54 R
3917 4255 0.248825 CTAGCAGAGCGTACTGGCAG 60.249 60.000 14.16 14.16 38.22 4.85 R
4125 4491 0.730155 TCGTTTAGATCGTGCGCGTT 60.730 50.000 20.50 11.81 39.49 4.84 R
4543 4960 0.739561 AGGTGAATCTAGGACGCGAC 59.260 55.000 15.93 6.56 0.00 5.19 R
5585 6050 0.749818 TGTGCTGCTGAAACCGGAAA 60.750 50.000 9.46 0.00 0.00 3.13 R
6259 6727 0.036388 TGAATGACTTCCTGGCCGAC 60.036 55.000 0.00 0.00 0.00 4.79 R
6911 7389 0.109597 GCAGCACACGGAAAATCTGG 60.110 55.000 0.00 0.00 0.00 3.86 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
98 101 3.603965 TGTGTTACCATTTCCCCACTT 57.396 42.857 0.00 0.00 0.00 3.16
160 163 3.388552 ACTGGATTCCTCAATTTCCCC 57.611 47.619 3.95 0.00 0.00 4.81
185 188 3.077484 TGCTCTTAATCTGCTTTGGCT 57.923 42.857 0.00 0.00 39.59 4.75
260 267 0.383949 CACAAACGAAACCACCCCAG 59.616 55.000 0.00 0.00 0.00 4.45
262 269 1.106944 CAAACGAAACCACCCCAGCT 61.107 55.000 0.00 0.00 0.00 4.24
265 272 1.672356 CGAAACCACCCCAGCTCAG 60.672 63.158 0.00 0.00 0.00 3.35
266 273 1.456287 GAAACCACCCCAGCTCAGT 59.544 57.895 0.00 0.00 0.00 3.41
267 274 0.606673 GAAACCACCCCAGCTCAGTC 60.607 60.000 0.00 0.00 0.00 3.51
420 435 1.685148 GACAAATCATGGCCTCCTCC 58.315 55.000 3.32 0.00 0.00 4.30
459 665 3.009253 TGTTAAATCCAGTCCGCCCTTTA 59.991 43.478 0.00 0.00 0.00 1.85
980 1202 4.424711 TGGCTAAGGGCAAGGCGG 62.425 66.667 3.53 0.00 45.10 6.13
1158 1380 1.519455 CATCGTCGGGGTGAAGCTC 60.519 63.158 0.00 0.00 0.00 4.09
1327 1567 2.180017 CATTGCCGCCACAAGCTC 59.820 61.111 0.00 0.00 40.39 4.09
1328 1568 3.434319 ATTGCCGCCACAAGCTCG 61.434 61.111 0.00 0.00 40.39 5.03
1334 1574 2.669569 GCCACAAGCTCGCCTCAA 60.670 61.111 0.00 0.00 38.99 3.02
1335 1575 2.684843 GCCACAAGCTCGCCTCAAG 61.685 63.158 0.00 0.00 38.99 3.02
1336 1576 2.684843 CCACAAGCTCGCCTCAAGC 61.685 63.158 0.00 0.00 40.14 4.01
1357 1597 2.690510 AGCTCCAGCCCCCTCTTC 60.691 66.667 0.00 0.00 43.38 2.87
1813 2071 1.285950 CTTCAGACACGTCGCCTGA 59.714 57.895 8.05 8.05 35.38 3.86
1817 2075 4.357947 GACACGTCGCCTGAGCCA 62.358 66.667 0.00 0.00 34.57 4.75
1918 2181 4.941609 GCTCCCAGCGAGATTTGA 57.058 55.556 0.00 0.00 41.63 2.69
1920 2183 1.424493 GCTCCCAGCGAGATTTGACG 61.424 60.000 0.00 0.00 41.63 4.35
1928 2191 1.156736 CGAGATTTGACGGTTTGGCT 58.843 50.000 0.00 0.00 0.00 4.75
2023 2289 8.627487 GTGTAACAAACAATTCTGAAATGTCA 57.373 30.769 11.23 2.16 40.63 3.58
2025 2291 9.814899 TGTAACAAACAATTCTGAAATGTCATT 57.185 25.926 11.23 8.68 34.29 2.57
2072 2338 0.240145 TAGACGCGTGTTCAGGAGTG 59.760 55.000 20.70 0.00 0.00 3.51
2075 2344 2.310233 CGCGTGTTCAGGAGTGGTG 61.310 63.158 0.00 0.00 0.00 4.17
2083 2352 1.848652 TCAGGAGTGGTGGTAGTAGC 58.151 55.000 0.00 0.00 0.00 3.58
2113 2382 3.365265 GCCTGTCGGTGGCCAAAG 61.365 66.667 7.24 4.29 44.32 2.77
2114 2383 3.365265 CCTGTCGGTGGCCAAAGC 61.365 66.667 7.24 0.00 38.76 3.51
2127 2396 1.557443 CCAAAGCGACGGTGTGTCTC 61.557 60.000 15.59 0.00 45.87 3.36
2142 2411 1.370778 TCTCGTGTGTGCGGTTACG 60.371 57.895 0.00 0.00 44.63 3.18
2223 2493 8.429237 TTTCCATTTTTATCTAGCCTCCAAAA 57.571 30.769 0.00 0.00 0.00 2.44
2226 2496 6.703165 CCATTTTTATCTAGCCTCCAAAATGC 59.297 38.462 8.87 0.00 39.02 3.56
2227 2497 6.849085 TTTTTATCTAGCCTCCAAAATGCA 57.151 33.333 0.00 0.00 0.00 3.96
2228 2498 6.455360 TTTTATCTAGCCTCCAAAATGCAG 57.545 37.500 0.00 0.00 0.00 4.41
2230 2500 2.715046 TCTAGCCTCCAAAATGCAGTG 58.285 47.619 0.00 0.00 0.00 3.66
2232 2502 1.079612 GCCTCCAAAATGCAGTGCC 60.080 57.895 13.72 0.00 0.00 5.01
2233 2503 1.213537 CCTCCAAAATGCAGTGCCG 59.786 57.895 13.72 0.00 0.00 5.69
2234 2504 1.213537 CTCCAAAATGCAGTGCCGG 59.786 57.895 13.72 0.00 0.00 6.13
2236 2506 1.080569 CCAAAATGCAGTGCCGGTC 60.081 57.895 13.72 0.00 0.00 4.79
2237 2507 1.526575 CCAAAATGCAGTGCCGGTCT 61.527 55.000 13.72 0.00 0.00 3.85
2238 2508 0.109597 CAAAATGCAGTGCCGGTCTC 60.110 55.000 13.72 0.00 0.00 3.36
2239 2509 1.577328 AAAATGCAGTGCCGGTCTCG 61.577 55.000 13.72 0.00 0.00 4.04
2408 2695 2.599281 CCCCCAACGGTTTGACCC 60.599 66.667 0.00 0.00 33.75 4.46
2561 2860 0.601046 GGAGCAAAGCAAGGCAAACC 60.601 55.000 0.00 0.00 0.00 3.27
2566 2865 1.410050 AAAGCAAGGCAAACCCCCTG 61.410 55.000 0.00 0.00 36.11 4.45
2693 2994 1.347707 TCGGCAGACAAGATTCCAGTT 59.652 47.619 0.00 0.00 0.00 3.16
2744 3050 0.177141 GTATGCTTGGCTGGTACGGA 59.823 55.000 0.00 0.00 36.31 4.69
2853 3159 5.072741 TCCACGTTTGGTTCTACTACTACT 58.927 41.667 0.00 0.00 44.35 2.57
2854 3160 6.237901 TCCACGTTTGGTTCTACTACTACTA 58.762 40.000 0.00 0.00 44.35 1.82
2855 3161 6.149474 TCCACGTTTGGTTCTACTACTACTAC 59.851 42.308 0.00 0.00 44.35 2.73
2865 3171 3.272574 ACTACTACTACGCCACTAGCA 57.727 47.619 0.00 0.00 44.04 3.49
2866 3172 3.204526 ACTACTACTACGCCACTAGCAG 58.795 50.000 0.00 0.00 44.04 4.24
2935 3241 9.781633 AACCATGTGTTTAGTACAATGTAGTAA 57.218 29.630 14.71 14.71 38.80 2.24
2936 3242 9.953565 ACCATGTGTTTAGTACAATGTAGTAAT 57.046 29.630 18.19 4.02 38.80 1.89
2939 3245 8.259049 TGTGTTTAGTACAATGTAGTAATGGC 57.741 34.615 18.19 12.95 38.80 4.40
2940 3246 7.878644 TGTGTTTAGTACAATGTAGTAATGGCA 59.121 33.333 18.19 14.74 38.80 4.92
2941 3247 8.889717 GTGTTTAGTACAATGTAGTAATGGCAT 58.110 33.333 18.19 0.00 38.80 4.40
2942 3248 9.104965 TGTTTAGTACAATGTAGTAATGGCATC 57.895 33.333 18.19 8.28 32.64 3.91
2943 3249 9.326413 GTTTAGTACAATGTAGTAATGGCATCT 57.674 33.333 18.19 0.00 0.00 2.90
2944 3250 9.899661 TTTAGTACAATGTAGTAATGGCATCTT 57.100 29.630 18.19 0.00 0.00 2.40
2945 3251 9.542462 TTAGTACAATGTAGTAATGGCATCTTC 57.458 33.333 14.71 0.00 0.00 2.87
2946 3252 6.992715 AGTACAATGTAGTAATGGCATCTTCC 59.007 38.462 0.00 0.00 0.00 3.46
2947 3253 5.133221 ACAATGTAGTAATGGCATCTTCCC 58.867 41.667 0.00 0.00 0.00 3.97
2948 3254 3.857157 TGTAGTAATGGCATCTTCCCC 57.143 47.619 0.00 0.00 0.00 4.81
2949 3255 3.393687 TGTAGTAATGGCATCTTCCCCT 58.606 45.455 0.00 0.00 0.00 4.79
2950 3256 4.562767 TGTAGTAATGGCATCTTCCCCTA 58.437 43.478 0.00 0.00 0.00 3.53
2951 3257 4.972568 TGTAGTAATGGCATCTTCCCCTAA 59.027 41.667 0.00 0.00 0.00 2.69
2952 3258 5.430417 TGTAGTAATGGCATCTTCCCCTAAA 59.570 40.000 0.00 0.00 0.00 1.85
2953 3259 5.466127 AGTAATGGCATCTTCCCCTAAAA 57.534 39.130 0.00 0.00 0.00 1.52
2954 3260 5.837829 AGTAATGGCATCTTCCCCTAAAAA 58.162 37.500 0.00 0.00 0.00 1.94
3021 3330 3.440522 GCTTAGTGGTTTCCAAGCTTAGG 59.559 47.826 0.00 3.44 33.53 2.69
3101 3410 2.243221 AGGAGGAAACCATGATTGGAGG 59.757 50.000 0.00 0.00 46.92 4.30
3102 3411 2.242196 GGAGGAAACCATGATTGGAGGA 59.758 50.000 0.00 0.00 46.92 3.71
3130 3439 1.483827 TCCATGAGAGCTGTGGACATC 59.516 52.381 0.00 0.00 37.12 3.06
3141 3450 4.332819 AGCTGTGGACATCTTAATTTACGC 59.667 41.667 0.00 0.00 0.00 4.42
3230 3543 3.303593 CGGCTAATCATCATGTGTGCTTC 60.304 47.826 0.00 0.00 0.00 3.86
3232 3545 3.310774 GCTAATCATCATGTGTGCTTCGT 59.689 43.478 0.00 0.00 0.00 3.85
3507 3820 2.860971 GCGCTTTGGTAAGTTTTCACCC 60.861 50.000 0.00 0.00 33.61 4.61
3508 3821 2.287970 CGCTTTGGTAAGTTTTCACCCC 60.288 50.000 0.00 0.00 33.61 4.95
3513 3826 5.757099 TTGGTAAGTTTTCACCCCAAAAA 57.243 34.783 0.00 0.00 33.61 1.94
3539 3856 9.918630 AAAATCATTACTTCCAGTTCATCAAAG 57.081 29.630 0.00 0.00 0.00 2.77
3558 3879 8.871862 CATCAAAGTTTGTGAGTTCAATTTCAA 58.128 29.630 15.08 0.00 0.00 2.69
3575 3896 3.358932 AATGGCGTGCCTTAGGGGG 62.359 63.158 12.84 0.00 36.94 5.40
3607 3929 9.643693 AAGTAGAAAATTTTGGCATCTTGTATG 57.356 29.630 8.47 0.00 0.00 2.39
3608 3930 6.973229 AGAAAATTTTGGCATCTTGTATGC 57.027 33.333 8.47 1.33 43.85 3.14
3609 3931 6.465948 AGAAAATTTTGGCATCTTGTATGCA 58.534 32.000 8.47 0.00 46.21 3.96
3716 4042 2.887783 TCAGTCTAGGAATCAGGATCGC 59.112 50.000 0.00 0.00 0.00 4.58
3717 4043 2.890311 CAGTCTAGGAATCAGGATCGCT 59.110 50.000 0.00 0.00 0.00 4.93
3718 4044 3.057596 CAGTCTAGGAATCAGGATCGCTC 60.058 52.174 0.00 0.00 0.00 5.03
3777 4103 3.008049 TCCAAGCCCAACTAACTCTTCTC 59.992 47.826 0.00 0.00 0.00 2.87
3816 4145 0.469917 CGAAGGCCACTGGGATGTAT 59.530 55.000 5.01 0.00 35.59 2.29
3835 4164 1.352083 TCTGGACACCTGAAGGAAGG 58.648 55.000 2.62 0.00 43.57 3.46
3908 4246 1.004080 CATGGGGGATCAGCTAGCG 60.004 63.158 9.55 4.60 0.00 4.26
3909 4247 1.460305 ATGGGGGATCAGCTAGCGT 60.460 57.895 9.55 0.00 0.00 5.07
3911 4249 2.134287 GGGGGATCAGCTAGCGTGA 61.134 63.158 9.55 13.53 0.00 4.35
3912 4250 1.476007 GGGGGATCAGCTAGCGTGAT 61.476 60.000 21.94 21.94 37.36 3.06
3917 4255 0.531532 ATCAGCTAGCGTGATGGTGC 60.532 55.000 21.44 0.00 33.24 5.01
3943 4281 1.950909 GTACGCTCTGCTAGATCTGGT 59.049 52.381 5.18 0.00 0.00 4.00
4371 4756 0.973632 TCACTACCGCATCCAGTTGT 59.026 50.000 0.00 0.00 0.00 3.32
4385 4771 4.208403 TTGTGGTGCAGGCAGGCT 62.208 61.111 0.00 0.00 34.04 4.58
4416 4802 1.745489 GCGCCCGAGATTTGTCCTT 60.745 57.895 0.00 0.00 0.00 3.36
4519 4919 5.679894 GCATCTGAGATTCTCGGTGTTTAGA 60.680 44.000 19.56 10.33 38.01 2.10
4520 4920 6.511416 CATCTGAGATTCTCGGTGTTTAGAT 58.489 40.000 19.56 11.90 38.01 1.98
4521 4921 6.137794 TCTGAGATTCTCGGTGTTTAGATC 57.862 41.667 19.56 0.00 38.01 2.75
4522 4922 5.652452 TCTGAGATTCTCGGTGTTTAGATCA 59.348 40.000 19.56 0.00 38.01 2.92
4543 4960 0.104120 CATTGCATGATGCCACCAGG 59.896 55.000 15.70 0.00 44.23 4.45
4695 5116 1.927174 CAAGATTTACGAGTGCTCCCG 59.073 52.381 0.00 0.00 0.00 5.14
4782 5203 1.706443 GGTCCAACTGTACTGTACGC 58.294 55.000 12.87 0.00 0.00 4.42
4810 5243 1.842052 ACCGAACAAAACCAACCTGT 58.158 45.000 0.00 0.00 0.00 4.00
4812 5245 3.354467 ACCGAACAAAACCAACCTGTTA 58.646 40.909 0.00 0.00 33.53 2.41
4892 5336 1.221414 AAGAAGCGAGCAACTGTGTC 58.779 50.000 0.00 0.00 0.00 3.67
5018 5469 2.615447 CTGATGAGTGTGCTGTTGTTGT 59.385 45.455 0.00 0.00 0.00 3.32
5024 5475 0.108898 TGTGCTGTTGTTGTTGGTGC 60.109 50.000 0.00 0.00 0.00 5.01
5153 5604 3.862642 GCTTCAACGGTGAGATTCAGTCT 60.863 47.826 2.09 0.00 40.81 3.24
5162 5624 2.834549 TGAGATTCAGTCTGGTCTTCCC 59.165 50.000 0.00 0.00 37.29 3.97
5171 5633 0.462759 CTGGTCTTCCCTTCCGATGC 60.463 60.000 0.00 0.00 0.00 3.91
5173 5635 0.462759 GGTCTTCCCTTCCGATGCTG 60.463 60.000 0.00 0.00 0.00 4.41
5189 5651 4.591202 GATGCTGTTATTCGACATTGGTG 58.409 43.478 0.00 0.00 0.00 4.17
5216 5681 4.299586 TCCATGGCATCTGTCTAACAAA 57.700 40.909 6.96 0.00 0.00 2.83
5262 5727 3.669344 CCGGTGTGTGGCGCATTT 61.669 61.111 10.83 0.00 0.00 2.32
5393 5858 9.276590 GATGTTCAGGTACATTGATCAATCATA 57.723 33.333 18.16 10.80 38.80 2.15
5394 5859 9.803507 ATGTTCAGGTACATTGATCAATCATAT 57.196 29.630 18.16 7.04 35.24 1.78
5404 5869 9.006839 ACATTGATCAATCATATACACCATCAC 57.993 33.333 18.16 0.00 36.56 3.06
5413 5878 8.788325 ATCATATACACCATCACATTCAGATG 57.212 34.615 0.00 0.00 41.91 2.90
5415 5880 8.599792 TCATATACACCATCACATTCAGATGAT 58.400 33.333 4.84 0.00 44.34 2.45
5453 5918 6.777580 TCCTTTGGCTTTTCTCTTTCATTACT 59.222 34.615 0.00 0.00 0.00 2.24
5463 5928 8.976986 TTTCTCTTTCATTACTACGTTCCTAC 57.023 34.615 0.00 0.00 0.00 3.18
5464 5929 7.093322 TCTCTTTCATTACTACGTTCCTACC 57.907 40.000 0.00 0.00 0.00 3.18
5465 5930 6.660521 TCTCTTTCATTACTACGTTCCTACCA 59.339 38.462 0.00 0.00 0.00 3.25
5468 5933 7.977853 TCTTTCATTACTACGTTCCTACCATTC 59.022 37.037 0.00 0.00 0.00 2.67
5469 5934 6.778834 TCATTACTACGTTCCTACCATTCA 57.221 37.500 0.00 0.00 0.00 2.57
5470 5935 7.172868 TCATTACTACGTTCCTACCATTCAA 57.827 36.000 0.00 0.00 0.00 2.69
5471 5936 7.613585 TCATTACTACGTTCCTACCATTCAAA 58.386 34.615 0.00 0.00 0.00 2.69
5473 5938 8.889717 CATTACTACGTTCCTACCATTCAAAAT 58.110 33.333 0.00 0.00 0.00 1.82
5475 5940 9.590451 TTACTACGTTCCTACCATTCAAAATAG 57.410 33.333 0.00 0.00 0.00 1.73
5476 5941 7.618137 ACTACGTTCCTACCATTCAAAATAGT 58.382 34.615 0.00 0.00 0.00 2.12
5477 5942 8.752187 ACTACGTTCCTACCATTCAAAATAGTA 58.248 33.333 0.00 0.00 0.00 1.82
5478 5943 9.590451 CTACGTTCCTACCATTCAAAATAGTAA 57.410 33.333 0.00 0.00 0.00 2.24
5510 5975 7.039313 AGACAACAGTAAAAGGAATTTGACC 57.961 36.000 0.00 0.00 32.27 4.02
5585 6050 0.185901 TCCCCAGCACTTTCAAAGCT 59.814 50.000 0.00 0.00 39.63 3.74
5685 6150 4.051167 TCTGCCCCAGCACCCATG 62.051 66.667 0.00 0.00 46.52 3.66
5758 6226 4.388485 TGCTATTGATCTTGTGTGTGTGT 58.612 39.130 0.00 0.00 0.00 3.72
5759 6227 4.213906 TGCTATTGATCTTGTGTGTGTGTG 59.786 41.667 0.00 0.00 0.00 3.82
5917 6385 2.042404 TACCGAAGTGGGGTTGCGTT 62.042 55.000 0.00 0.00 44.64 4.84
6008 6476 8.725148 AGTAAAGAGCTCACATTCACATAAAAG 58.275 33.333 17.77 0.00 0.00 2.27
6145 6613 3.005472 TCCTCTTCGAAAACGTCATGTCT 59.995 43.478 0.00 0.00 0.00 3.41
6262 6730 6.222028 GATGAAATCTGCTAACAAAGCGTCG 61.222 44.000 0.00 0.00 44.16 5.12
6317 6785 7.730364 AGGTACTCAACAAATAAGACAACTG 57.270 36.000 0.00 0.00 0.00 3.16
6322 6790 5.577835 TCAACAAATAAGACAACTGCACAC 58.422 37.500 0.00 0.00 0.00 3.82
6395 6865 5.067936 TGAAAATTTCAGGCTAAACGTTCCA 59.932 36.000 4.03 0.00 34.08 3.53
6443 6913 3.450817 TCTCATGTGGATGGTACGATGTT 59.549 43.478 0.00 0.00 0.00 2.71
6577 7047 1.804396 CGGGATCATCTCGCTCAGCT 61.804 60.000 0.00 0.00 31.65 4.24
6653 7130 6.038271 AGTTCAAAAGTAAAGATCACGCAGTT 59.962 34.615 0.00 0.00 41.61 3.16
6893 7371 3.321968 AGGAAAAAGGTTCAGGAATGTGC 59.678 43.478 0.00 0.00 0.00 4.57
6907 7385 1.649664 ATGTGCGAGCAAGATCAGAC 58.350 50.000 0.00 0.00 0.00 3.51
6911 7389 1.276415 GCGAGCAAGATCAGACTGTC 58.724 55.000 1.59 0.00 0.00 3.51
6913 7391 1.203287 CGAGCAAGATCAGACTGTCCA 59.797 52.381 3.76 0.00 0.00 4.02
6931 7410 0.877071 CAGATTTTCCGTGTGCTGCT 59.123 50.000 0.00 0.00 0.00 4.24
6959 7438 1.374560 TTTACGTGTGCAGTGTGCTT 58.625 45.000 0.00 0.00 45.31 3.91
6964 7443 0.946528 GTGTGCAGTGTGCTTGATGA 59.053 50.000 0.00 0.00 45.31 2.92
7007 7486 2.028876 TCAGTCGACACCTGTTGAAGA 58.971 47.619 19.50 0.00 39.93 2.87
7036 7515 4.007644 CACGCCACTGCTCCAGGA 62.008 66.667 0.00 0.00 35.51 3.86
7155 9578 1.786937 TGCCTCCCTTTTCTGCAAAA 58.213 45.000 0.00 0.00 0.00 2.44
7156 9579 2.328319 TGCCTCCCTTTTCTGCAAAAT 58.672 42.857 0.00 0.00 30.91 1.82
7158 9581 2.354103 GCCTCCCTTTTCTGCAAAATCC 60.354 50.000 0.00 0.00 30.91 3.01
7243 9666 1.073284 GGTCAGGAAACCTAACAGCCA 59.927 52.381 0.00 0.00 36.32 4.75
7295 9718 1.202722 CCTACCTCTCCGTCCTCTCTC 60.203 61.905 0.00 0.00 0.00 3.20
7302 9726 3.213402 CGTCCTCTCTCCCCTCGC 61.213 72.222 0.00 0.00 0.00 5.03
7332 9756 2.109181 CTAGTGGCCGGGCTAAGC 59.891 66.667 29.87 15.87 0.00 3.09
7356 9780 1.811266 CACTGGTCGATGAAGGCGG 60.811 63.158 0.00 0.00 0.00 6.13
7384 9809 5.352016 CGGGAGATCTCTACTCTATTAACCG 59.648 48.000 21.81 16.36 35.10 4.44
7386 9811 7.393216 GGGAGATCTCTACTCTATTAACCGTA 58.607 42.308 21.81 0.00 35.10 4.02
7409 9834 9.392259 CGTAGTAGGTAAGATGTGATATATGGA 57.608 37.037 0.00 0.00 0.00 3.41
7414 9839 7.776107 AGGTAAGATGTGATATATGGATGACG 58.224 38.462 0.00 0.00 0.00 4.35
7415 9840 7.615757 AGGTAAGATGTGATATATGGATGACGA 59.384 37.037 0.00 0.00 0.00 4.20
7416 9841 7.702772 GGTAAGATGTGATATATGGATGACGAC 59.297 40.741 0.00 0.00 0.00 4.34
7417 9842 7.473735 AAGATGTGATATATGGATGACGACT 57.526 36.000 0.00 0.00 0.00 4.18
7418 9843 7.473735 AGATGTGATATATGGATGACGACTT 57.526 36.000 0.00 0.00 0.00 3.01
7419 9844 7.318893 AGATGTGATATATGGATGACGACTTG 58.681 38.462 0.00 0.00 0.00 3.16
7425 9850 0.037326 TGGATGACGACTTGAGGCAC 60.037 55.000 0.00 0.00 0.00 5.01
7438 9863 3.981308 GGCACACGTTATGGCTGT 58.019 55.556 14.13 0.00 39.45 4.40
7443 9868 1.199789 CACACGTTATGGCTGTGCAAT 59.800 47.619 0.00 0.00 37.11 3.56
7460 9885 2.158971 GCAATGGTGAAGGTGGTGTTTT 60.159 45.455 0.00 0.00 0.00 2.43
7461 9886 3.716601 CAATGGTGAAGGTGGTGTTTTC 58.283 45.455 0.00 0.00 0.00 2.29
7466 9891 1.076632 AAGGTGGTGTTTTCGGCCA 60.077 52.632 2.24 0.00 0.00 5.36
7486 9911 1.258445 GGTCGATGGTCTCTGGTGGT 61.258 60.000 0.00 0.00 0.00 4.16
7497 9922 2.927856 TGGTGGTGAGGCATCGGT 60.928 61.111 0.00 0.00 0.00 4.69
7521 9946 2.885266 TCGTGATCCCATCTACAGCTAC 59.115 50.000 0.00 0.00 0.00 3.58
7534 9959 1.091771 CAGCTACGAGGGCACAATGG 61.092 60.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.620428 CCTACGCACGCGCTCATG 61.620 66.667 12.02 1.85 44.19 3.07
8 9 4.129737 ACCTACGCACGCGCTCAT 62.130 61.111 12.02 0.00 44.19 2.90
15 16 3.112075 CACTGCCACCTACGCACG 61.112 66.667 0.00 0.00 31.61 5.34
27 28 0.040514 TAAACATGCGCACACACTGC 60.041 50.000 14.90 0.00 43.21 4.40
37 38 4.357142 AGTACGATGTAGGTAAACATGCG 58.643 43.478 0.00 1.77 40.17 4.73
98 101 6.816640 GGACATGTTTCTTGTACTGCTGTATA 59.183 38.462 6.73 1.23 0.00 1.47
160 163 5.638783 CCAAAGCAGATTAAGAGCAAAGAG 58.361 41.667 0.00 0.00 0.00 2.85
260 267 1.446272 GCCGTACTGGTGACTGAGC 60.446 63.158 5.79 0.00 41.21 4.26
420 435 1.101049 ACAGTGCAAAACGGTGAGGG 61.101 55.000 0.00 0.00 35.72 4.30
459 665 2.978824 AGCGGCGTGGTGATAAGT 59.021 55.556 9.37 0.00 0.00 2.24
1286 1508 0.699399 TGGGGCGGAAGGAAAATGTA 59.301 50.000 0.00 0.00 0.00 2.29
1348 1588 0.614979 TGAGAGGAACGAAGAGGGGG 60.615 60.000 0.00 0.00 0.00 5.40
1357 1597 3.159298 CCAATGGGTGAGAGGAACG 57.841 57.895 0.00 0.00 0.00 3.95
1404 1654 6.096673 TGATACACCTGCACGTATTATCAT 57.903 37.500 11.86 0.00 0.00 2.45
1783 2041 2.747855 CTGAAGGACAAGGCCGGC 60.748 66.667 21.18 21.18 0.00 6.13
1813 2071 2.224621 GGCAGTACCATATGATGTGGCT 60.225 50.000 8.23 0.00 40.49 4.75
1817 2075 2.289072 GCGAGGCAGTACCATATGATGT 60.289 50.000 3.65 0.00 43.14 3.06
1918 2181 0.756903 ATAGCCGATAGCCAAACCGT 59.243 50.000 0.00 0.00 45.47 4.83
1920 2183 4.004196 ACTAATAGCCGATAGCCAAACC 57.996 45.455 0.00 0.00 45.47 3.27
2072 2338 0.458025 GCGTGTCAGCTACTACCACC 60.458 60.000 0.00 0.00 0.00 4.61
2117 2386 2.585869 GCACACACGAGACACACCG 61.586 63.158 0.00 0.00 0.00 4.94
2237 2507 1.135139 CTCTTCTTCCTCGATTGCCGA 59.865 52.381 0.00 0.00 46.35 5.54
2238 2508 1.565305 CTCTTCTTCCTCGATTGCCG 58.435 55.000 0.00 0.00 40.25 5.69
2239 2509 1.294857 GCTCTTCTTCCTCGATTGCC 58.705 55.000 0.00 0.00 0.00 4.52
2241 2511 1.135139 TCGGCTCTTCTTCCTCGATTG 59.865 52.381 0.00 0.00 0.00 2.67
2328 2606 3.198489 GCGCCCTCTTGCTACAGC 61.198 66.667 0.00 0.00 42.50 4.40
2329 2607 2.887568 CGCGCCCTCTTGCTACAG 60.888 66.667 0.00 0.00 0.00 2.74
2476 2767 9.203421 AGGCCGTAAAATAAAAGAAAGAAAATG 57.797 29.630 0.00 0.00 0.00 2.32
2566 2865 2.117941 GAATAACCGCGAGCCATGCC 62.118 60.000 8.23 0.00 0.00 4.40
2693 2994 3.070015 GCCTACGTACCCCAAGCTTAATA 59.930 47.826 0.00 0.00 0.00 0.98
2853 3159 1.895238 GGGAACTGCTAGTGGCGTA 59.105 57.895 0.00 0.00 45.43 4.42
2854 3160 2.663196 GGGAACTGCTAGTGGCGT 59.337 61.111 0.00 0.00 45.43 5.68
2855 3161 2.509336 CGGGAACTGCTAGTGGCG 60.509 66.667 0.00 0.00 45.43 5.69
2865 3171 2.529389 AGGACCAAGCCGGGAACT 60.529 61.111 2.18 0.00 40.22 3.01
2866 3172 2.359975 CAGGACCAAGCCGGGAAC 60.360 66.667 2.18 0.00 40.22 3.62
2955 3261 9.499479 CATCTCTAGATGCCATTACTACATTTT 57.501 33.333 7.02 0.00 44.44 1.82
2959 3265 8.676396 ATGCCATCTCTAGATGCCATTACTACA 61.676 40.741 13.46 2.43 44.98 2.74
2960 3266 6.351711 ATGCCATCTCTAGATGCCATTACTAC 60.352 42.308 13.46 0.00 44.98 2.73
2961 3267 5.723405 ATGCCATCTCTAGATGCCATTACTA 59.277 40.000 13.46 0.00 44.98 1.82
2962 3268 4.535294 ATGCCATCTCTAGATGCCATTACT 59.465 41.667 13.46 0.00 44.98 2.24
2963 3269 4.841422 ATGCCATCTCTAGATGCCATTAC 58.159 43.478 13.46 1.12 44.98 1.89
2965 3271 4.383931 AATGCCATCTCTAGATGCCATT 57.616 40.909 18.54 18.54 46.07 3.16
2974 3280 4.580167 GCAAACCATGTAATGCCATCTCTA 59.420 41.667 3.24 0.00 44.97 2.43
3051 3360 7.162082 GGAGGGACAAGTACCATAATCAATAG 58.838 42.308 3.94 0.00 35.45 1.73
3130 3439 5.694458 GGCAATTATTGGGGCGTAAATTAAG 59.306 40.000 7.08 0.00 0.00 1.85
3141 3450 3.139077 GACGAGTAGGCAATTATTGGGG 58.861 50.000 7.08 0.00 0.00 4.96
3230 3543 1.997606 GAACCATTTCCTACACGGACG 59.002 52.381 0.00 0.00 42.97 4.79
3232 3545 1.066716 CCGAACCATTTCCTACACGGA 60.067 52.381 0.00 0.00 41.30 4.69
3533 3850 9.603921 ATTGAAATTGAACTCACAAACTTTGAT 57.396 25.926 8.55 0.00 33.44 2.57
3539 3856 5.332506 CGCCATTGAAATTGAACTCACAAAC 60.333 40.000 0.00 0.00 33.44 2.93
3558 3879 3.809013 CCCCCTAAGGCACGCCAT 61.809 66.667 11.35 0.00 38.92 4.40
3575 3896 7.657354 AGATGCCAAAATTTTCTACTTTTGTCC 59.343 33.333 0.00 0.29 39.55 4.02
3576 3897 8.593492 AGATGCCAAAATTTTCTACTTTTGTC 57.407 30.769 0.00 0.00 39.55 3.18
3606 3928 7.906327 TGATTATTCTAGCCTACATACATGCA 58.094 34.615 0.00 0.00 0.00 3.96
3607 3929 8.777865 TTGATTATTCTAGCCTACATACATGC 57.222 34.615 0.00 0.00 0.00 4.06
3646 3972 4.339530 GTGGCCTCTGTCTTTTTCTTTCTT 59.660 41.667 3.32 0.00 0.00 2.52
3777 4103 2.738521 CGAGACAGCACGGTTGGG 60.739 66.667 0.00 0.00 0.00 4.12
3816 4145 1.352083 CCTTCCTTCAGGTGTCCAGA 58.648 55.000 0.00 0.00 36.34 3.86
3835 4164 9.720667 TTTTTAGCGTTAAGAGGAAACTTTAAC 57.279 29.630 0.00 0.00 44.43 2.01
3917 4255 0.248825 CTAGCAGAGCGTACTGGCAG 60.249 60.000 14.16 14.16 38.22 4.85
4125 4491 0.730155 TCGTTTAGATCGTGCGCGTT 60.730 50.000 20.50 11.81 39.49 4.84
4126 4492 1.132199 CTCGTTTAGATCGTGCGCGT 61.132 55.000 20.50 7.02 39.49 6.01
4543 4960 0.739561 AGGTGAATCTAGGACGCGAC 59.260 55.000 15.93 6.56 0.00 5.19
4655 5076 0.756903 GAGCTTTATAGGGCGGACCA 59.243 55.000 0.92 0.00 43.89 4.02
4695 5116 5.685728 AGTAAATCTTGGAGGTTAGCCATC 58.314 41.667 0.00 0.00 34.90 3.51
4782 5203 3.063725 TGGTTTTGTTCGGTTACTTCACG 59.936 43.478 0.00 0.00 0.00 4.35
4810 5243 4.919793 TCCGTTTTGTGTGGGGAATATAA 58.080 39.130 0.00 0.00 0.00 0.98
4812 5245 3.443145 TCCGTTTTGTGTGGGGAATAT 57.557 42.857 0.00 0.00 0.00 1.28
4892 5336 8.812147 TTGACTTTTCACAGTACTACATAGTG 57.188 34.615 0.00 0.00 39.77 2.74
5018 5469 2.243957 CGCGTTCACTGAGCACCAA 61.244 57.895 0.00 0.00 0.00 3.67
5024 5475 1.325640 CATTCATCCGCGTTCACTGAG 59.674 52.381 4.92 0.00 0.00 3.35
5153 5604 0.909610 AGCATCGGAAGGGAAGACCA 60.910 55.000 0.00 0.00 43.89 4.02
5162 5624 3.186909 TGTCGAATAACAGCATCGGAAG 58.813 45.455 0.00 0.00 37.20 3.46
5171 5633 8.070171 GGATAAATCACCAATGTCGAATAACAG 58.930 37.037 0.00 0.00 31.50 3.16
5173 5635 7.925993 TGGATAAATCACCAATGTCGAATAAC 58.074 34.615 0.00 0.00 32.93 1.89
5189 5651 6.712095 TGTTAGACAGATGCCATGGATAAATC 59.288 38.462 18.40 12.03 0.00 2.17
5216 5681 7.443302 TCCTGGTAGAAGAAATCATTGAGAT 57.557 36.000 0.00 0.00 39.09 2.75
5393 5858 8.093307 GTCTATCATCTGAATGTGATGGTGTAT 58.907 37.037 3.16 0.00 41.01 2.29
5394 5859 7.069826 TGTCTATCATCTGAATGTGATGGTGTA 59.930 37.037 3.16 0.00 41.01 2.90
5396 5861 6.285990 TGTCTATCATCTGAATGTGATGGTG 58.714 40.000 3.16 0.00 41.01 4.17
5404 5869 3.183976 GTGCGCTGTCTATCATCTGAATG 59.816 47.826 9.73 0.00 0.00 2.67
5413 5878 2.231215 AAGGATGTGCGCTGTCTATC 57.769 50.000 9.73 5.24 0.00 2.08
5415 5880 1.675714 CCAAAGGATGTGCGCTGTCTA 60.676 52.381 9.73 0.00 0.00 2.59
5417 5882 1.503542 CCAAAGGATGTGCGCTGTC 59.496 57.895 9.73 3.67 0.00 3.51
5481 5946 9.533253 CAAATTCCTTTTACTGTTGTCTCAAAT 57.467 29.630 0.00 0.00 0.00 2.32
5482 5947 8.744652 TCAAATTCCTTTTACTGTTGTCTCAAA 58.255 29.630 0.00 0.00 0.00 2.69
5483 5948 8.188139 GTCAAATTCCTTTTACTGTTGTCTCAA 58.812 33.333 0.00 0.00 0.00 3.02
5491 5956 5.127491 TCACGGTCAAATTCCTTTTACTGT 58.873 37.500 0.00 0.00 0.00 3.55
5492 5957 5.682943 TCACGGTCAAATTCCTTTTACTG 57.317 39.130 0.00 0.00 0.00 2.74
5510 5975 7.439204 TTTTCGTTAACTCCAATTTTTCACG 57.561 32.000 3.71 0.00 0.00 4.35
5585 6050 0.749818 TGTGCTGCTGAAACCGGAAA 60.750 50.000 9.46 0.00 0.00 3.13
5685 6150 8.188139 TGTTGTCTTAAAACAGAATTGGACTTC 58.812 33.333 0.00 0.00 32.71 3.01
5758 6226 2.880268 CCAGATTGTCACTTTCTGCACA 59.120 45.455 2.87 0.00 36.41 4.57
5759 6227 3.141398 TCCAGATTGTCACTTTCTGCAC 58.859 45.455 2.87 0.00 36.41 4.57
5917 6385 7.884877 AGAAGAGTGATGATTGTTGGAATGTAA 59.115 33.333 0.00 0.00 0.00 2.41
6145 6613 0.991146 TGGCCTTGGTTCTATGCAGA 59.009 50.000 3.32 0.00 0.00 4.26
6214 6682 4.810661 GCGCTGCCGAGCTTCTCT 62.811 66.667 0.00 0.00 43.77 3.10
6259 6727 0.036388 TGAATGACTTCCTGGCCGAC 60.036 55.000 0.00 0.00 0.00 4.79
6262 6730 2.295885 CTCATGAATGACTTCCTGGCC 58.704 52.381 0.00 0.00 32.50 5.36
6300 6768 5.339177 TGTGTGCAGTTGTCTTATTTGTTG 58.661 37.500 0.00 0.00 0.00 3.33
6316 6784 0.829333 AAGGTGGCAAAATGTGTGCA 59.171 45.000 0.00 0.00 44.07 4.57
6317 6785 1.952193 AAAGGTGGCAAAATGTGTGC 58.048 45.000 0.00 0.00 41.45 4.57
6322 6790 1.271325 GGGGGAAAAGGTGGCAAAATG 60.271 52.381 0.00 0.00 0.00 2.32
6443 6913 0.250553 AATTGTCCTTCCCGAACGCA 60.251 50.000 0.00 0.00 0.00 5.24
6653 7130 4.939052 AACAGAGAGAAACCGAGAGAAA 57.061 40.909 0.00 0.00 0.00 2.52
6765 7243 5.767816 AAAGAGAACACCACAAATACACC 57.232 39.130 0.00 0.00 0.00 4.16
6893 7371 1.203287 TGGACAGTCTGATCTTGCTCG 59.797 52.381 6.91 0.00 0.00 5.03
6907 7385 1.197721 GCACACGGAAAATCTGGACAG 59.802 52.381 0.00 0.00 0.00 3.51
6911 7389 0.109597 GCAGCACACGGAAAATCTGG 60.110 55.000 0.00 0.00 0.00 3.86
6913 7391 1.609208 AAGCAGCACACGGAAAATCT 58.391 45.000 0.00 0.00 0.00 2.40
6931 7410 5.864474 ACACTGCACACGTAAAATTTTGAAA 59.136 32.000 13.76 0.00 0.00 2.69
6959 7438 3.577848 CCTGGGGAACAATGTTTTCATCA 59.422 43.478 0.00 0.00 39.94 3.07
6964 7443 3.895041 CACTACCTGGGGAACAATGTTTT 59.105 43.478 0.00 0.00 0.00 2.43
7007 7486 1.689273 AGTGGCGTGTCTTCTCTTCTT 59.311 47.619 0.00 0.00 0.00 2.52
7044 7523 1.765314 TGTTTGGTTGGTTTGATGGGG 59.235 47.619 0.00 0.00 0.00 4.96
7104 7585 1.025812 CGAGGATGAAGACCTACGCT 58.974 55.000 0.00 0.00 37.93 5.07
7131 9554 1.135286 GCAGAAAAGGGAGGCAAATCG 60.135 52.381 0.00 0.00 0.00 3.34
7185 9608 2.547855 GGGGCAAACAATCTGACAAACC 60.548 50.000 0.00 0.00 0.00 3.27
7192 9615 3.157087 ACTTGTAGGGGCAAACAATCTG 58.843 45.455 0.01 0.00 35.21 2.90
7198 9621 2.102420 AGCAAAACTTGTAGGGGCAAAC 59.898 45.455 0.00 0.00 0.00 2.93
7225 9648 1.073284 GGTGGCTGTTAGGTTTCCTGA 59.927 52.381 0.00 0.00 34.61 3.86
7302 9726 1.066908 GCCACTAGTCTCTAGCAGCAG 59.933 57.143 0.00 0.00 0.00 4.24
7332 9756 2.341257 CTTCATCGACCAGTGTCAAGG 58.659 52.381 0.00 0.00 41.85 3.61
7334 9758 1.608025 GCCTTCATCGACCAGTGTCAA 60.608 52.381 0.00 0.00 41.85 3.18
7356 9780 0.869730 GAGTAGAGATCTCCCGTCGC 59.130 60.000 19.30 5.72 0.00 5.19
7386 9811 9.997172 TCATCCATATATCACATCTTACCTACT 57.003 33.333 0.00 0.00 0.00 2.57
7389 9814 7.615757 TCGTCATCCATATATCACATCTTACCT 59.384 37.037 0.00 0.00 0.00 3.08
7409 9834 0.667487 CGTGTGCCTCAAGTCGTCAT 60.667 55.000 0.00 0.00 0.00 3.06
7410 9835 1.299850 CGTGTGCCTCAAGTCGTCA 60.300 57.895 0.00 0.00 0.00 4.35
7414 9839 1.732259 CCATAACGTGTGCCTCAAGTC 59.268 52.381 0.00 0.00 37.75 3.01
7415 9840 1.808411 CCATAACGTGTGCCTCAAGT 58.192 50.000 0.00 0.00 40.20 3.16
7416 9841 0.447801 GCCATAACGTGTGCCTCAAG 59.552 55.000 0.00 0.00 0.00 3.02
7417 9842 0.036164 AGCCATAACGTGTGCCTCAA 59.964 50.000 0.00 0.00 0.00 3.02
7418 9843 0.673333 CAGCCATAACGTGTGCCTCA 60.673 55.000 0.00 0.00 0.00 3.86
7419 9844 0.673644 ACAGCCATAACGTGTGCCTC 60.674 55.000 0.00 0.00 0.00 4.70
7425 9850 1.467883 CCATTGCACAGCCATAACGTG 60.468 52.381 0.00 0.00 0.00 4.49
7438 9863 0.106268 ACACCACCTTCACCATTGCA 60.106 50.000 0.00 0.00 0.00 4.08
7443 9868 1.384525 CGAAAACACCACCTTCACCA 58.615 50.000 0.00 0.00 0.00 4.17
7460 9885 3.458163 GACCATCGACCTGGCCGA 61.458 66.667 7.74 7.74 40.15 5.54
7461 9886 3.432051 GAGACCATCGACCTGGCCG 62.432 68.421 4.93 0.00 40.15 6.13
7466 9891 0.972983 CCACCAGAGACCATCGACCT 60.973 60.000 0.00 0.00 0.00 3.85
7486 9911 2.994995 ACGACCACCGATGCCTCA 60.995 61.111 0.00 0.00 41.76 3.86
7497 9922 2.031870 CTGTAGATGGGATCACGACCA 58.968 52.381 0.00 0.00 41.76 4.02
7521 9946 2.568090 GTTGCCATTGTGCCCTCG 59.432 61.111 0.00 0.00 0.00 4.63


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

AutoCloner maintained by Alex Coulton.