Multiple sequence alignment - TraesCS4B01G313700

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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 TraesCS4B01G313700 chr4B 100.000 5640 0 0 1 5640 603190584 603184945 0.000000e+00 10416.0
1 TraesCS4B01G313700 chr4B 76.310 477 81 20 2369 2814 603168897 603168422 5.690000e-55 226.0
2 TraesCS4B01G313700 chr4B 91.275 149 12 1 3684 3831 603167581 603167433 9.580000e-48 202.0
3 TraesCS4B01G313700 chr4D 93.596 2686 155 12 461 3132 477630689 477628007 0.000000e+00 3991.0
4 TraesCS4B01G313700 chr4D 93.088 1794 98 14 2837 4620 477628206 477626429 0.000000e+00 2603.0
5 TraesCS4B01G313700 chr4D 84.967 459 60 6 1 455 477632505 477632052 1.850000e-124 457.0
6 TraesCS4B01G313700 chr4D 85.476 420 37 14 4982 5379 477625645 477625228 3.140000e-112 416.0
7 TraesCS4B01G313700 chr4D 94.286 245 13 1 5397 5640 477625170 477624926 1.920000e-99 374.0
8 TraesCS4B01G313700 chr4D 85.286 367 41 4 4620 4982 477626041 477625684 3.210000e-97 366.0
9 TraesCS4B01G313700 chr4D 76.398 483 90 14 2353 2814 477582452 477581973 7.300000e-59 239.0
10 TraesCS4B01G313700 chr4D 92.617 149 10 1 3684 3831 477580776 477580628 4.430000e-51 213.0
11 TraesCS4B01G313700 chr4D 87.586 145 13 4 2158 2300 477582595 477582454 4.520000e-36 163.0
12 TraesCS4B01G313700 chr4D 84.112 107 17 0 4502 4608 477628559 477628453 2.780000e-18 104.0
13 TraesCS4B01G313700 chr4A 89.924 2094 183 18 1289 3367 684517889 684515809 0.000000e+00 2673.0
14 TraesCS4B01G313700 chr4A 91.825 1003 60 12 3615 4616 684515810 684514829 0.000000e+00 1378.0
15 TraesCS4B01G313700 chr4A 83.608 970 89 28 491 1453 684518469 684517563 0.000000e+00 846.0
16 TraesCS4B01G313700 chr4A 85.530 698 54 25 4982 5638 684514208 684513517 0.000000e+00 686.0
17 TraesCS4B01G313700 chr4A 92.045 264 13 1 4620 4883 684514572 684514317 1.150000e-96 364.0
18 TraesCS4B01G313700 chr4A 89.437 142 13 2 3684 3824 684505331 684505191 1.610000e-40 178.0
19 TraesCS4B01G313700 chr4A 88.235 136 15 1 2855 2990 684516486 684516352 1.630000e-35 161.0
20 TraesCS4B01G313700 chr4A 96.774 93 3 0 1510 1602 684517728 684517636 7.570000e-34 156.0
21 TraesCS4B01G313700 chr4A 80.905 199 27 7 2116 2304 684506738 684506541 4.550000e-31 147.0
22 TraesCS4B01G313700 chr5D 78.893 488 81 15 2353 2820 94027374 94026889 1.530000e-80 311.0
23 TraesCS4B01G313700 chr5D 77.322 366 67 4 4132 4494 94025875 94025523 9.580000e-48 202.0
24 TraesCS4B01G313700 chr5D 83.333 132 20 2 3686 3816 449851820 449851690 2.760000e-23 121.0
25 TraesCS4B01G313700 chr5A 86.207 116 16 0 3681 3796 569075063 569074948 5.930000e-25 126.0
26 TraesCS4B01G313700 chr5A 95.122 41 2 0 4769 4809 349127992 349127952 1.310000e-06 65.8
27 TraesCS4B01G313700 chr5B 85.345 116 17 0 3681 3796 549674265 549674150 2.760000e-23 121.0
28 TraesCS4B01G313700 chr6B 95.122 41 2 0 4769 4809 314555333 314555293 1.310000e-06 65.8
29 TraesCS4B01G313700 chr3B 95.122 41 2 0 4769 4809 349302252 349302212 1.310000e-06 65.8


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 TraesCS4B01G313700 chr4B 603184945 603190584 5639 True 10416.000000 10416 100.000000 1 5640 1 chr4B.!!$R1 5639
1 TraesCS4B01G313700 chr4B 603167433 603168897 1464 True 214.000000 226 83.792500 2369 3831 2 chr4B.!!$R2 1462
2 TraesCS4B01G313700 chr4D 477624926 477632505 7579 True 1187.285714 3991 88.687286 1 5640 7 chr4D.!!$R2 5639
3 TraesCS4B01G313700 chr4D 477580628 477582595 1967 True 205.000000 239 85.533667 2158 3831 3 chr4D.!!$R1 1673
4 TraesCS4B01G313700 chr4A 684513517 684518469 4952 True 894.857143 2673 89.705857 491 5638 7 chr4A.!!$R2 5147
5 TraesCS4B01G313700 chr5D 94025523 94027374 1851 True 256.500000 311 78.107500 2353 4494 2 chr5D.!!$R2 2141

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
123 125 0.027063 GTTGTTGTCGACGTGGGTTG 59.973 55.0 11.62 0.0 0.00 3.77 F
148 151 0.178981 CCATCCCAATCCGCTCCAAT 60.179 55.0 0.00 0.0 0.00 3.16 F
1185 2550 0.456824 CGCGGGATACGGAGATCATG 60.457 60.0 0.00 0.0 44.51 3.07 F
2809 4279 0.744414 ACAAGCAACGCTCACACTGT 60.744 50.0 0.00 0.0 38.25 3.55 F
3000 4473 0.752009 TACTCGCCCAGTAGAGCCAG 60.752 60.0 0.00 0.0 37.99 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1767 3183 0.618458 ATACCTTGCCTTTCTCCGCA 59.382 50.000 0.0 0.0 0.00 5.69 R
1901 3323 1.536766 TGCTCTCCAAATCACTTTGCG 59.463 47.619 0.0 0.0 40.39 4.85 R
3102 4668 0.035056 GCAGGGCATACTCTTGGTGT 60.035 55.000 0.0 0.0 0.00 4.16 R
4561 6675 1.065126 GCATTCACTGAGGCCCTAACT 60.065 52.381 0.0 0.0 0.00 2.24 R
4886 7645 0.034756 TTGACCGATGGGAGTGTGTG 59.965 55.000 0.0 0.0 36.97 3.82 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
20 21 2.851195 GAAGCAAAAGACCTGACCTCA 58.149 47.619 0.00 0.00 0.00 3.86
37 39 2.402564 CTCAGGAAAGAGGATAGGGCA 58.597 52.381 0.00 0.00 31.94 5.36
43 45 2.803285 AAGAGGATAGGGCAGATCCA 57.197 50.000 16.58 0.00 44.71 3.41
60 62 1.021390 CCATCCCTCTGTCGTGTTGC 61.021 60.000 0.00 0.00 0.00 4.17
68 70 1.613437 TCTGTCGTGTTGCAGATGAGA 59.387 47.619 0.00 0.00 36.89 3.27
96 98 3.196039 GGGGGAGAGTAAGAGTTCTTGAC 59.804 52.174 4.67 0.44 37.40 3.18
98 100 4.090819 GGGAGAGTAAGAGTTCTTGACCT 58.909 47.826 4.67 0.00 37.40 3.85
103 105 7.286775 GGAGAGTAAGAGTTCTTGACCTATCAT 59.713 40.741 4.67 0.00 37.40 2.45
105 107 7.617723 AGAGTAAGAGTTCTTGACCTATCATGT 59.382 37.037 4.67 0.00 37.40 3.21
106 108 8.140112 AGTAAGAGTTCTTGACCTATCATGTT 57.860 34.615 4.67 0.00 37.40 2.71
107 109 8.037758 AGTAAGAGTTCTTGACCTATCATGTTG 58.962 37.037 4.67 0.00 37.40 3.33
108 110 6.365970 AGAGTTCTTGACCTATCATGTTGT 57.634 37.500 0.00 0.00 33.85 3.32
109 111 6.773638 AGAGTTCTTGACCTATCATGTTGTT 58.226 36.000 0.00 0.00 33.85 2.83
116 118 3.250744 ACCTATCATGTTGTTGTCGACG 58.749 45.455 11.62 0.00 0.00 5.12
123 125 0.027063 GTTGTTGTCGACGTGGGTTG 59.973 55.000 11.62 0.00 0.00 3.77
144 147 1.599240 GAGCCATCCCAATCCGCTC 60.599 63.158 0.00 0.00 39.21 5.03
148 151 0.178981 CCATCCCAATCCGCTCCAAT 60.179 55.000 0.00 0.00 0.00 3.16
154 157 1.019673 CAATCCGCTCCAATGGTCAG 58.980 55.000 0.00 0.00 0.00 3.51
162 165 2.486504 CAATGGTCAGCGCGCATT 59.513 55.556 35.10 20.54 0.00 3.56
165 168 2.257286 AATGGTCAGCGCGCATTGAC 62.257 55.000 33.26 33.26 42.25 3.18
177 180 0.462047 GCATTGACCCCTACCTGACG 60.462 60.000 0.00 0.00 0.00 4.35
184 187 0.902531 CCCCTACCTGACGTGTCAAT 59.097 55.000 4.03 0.00 39.39 2.57
202 205 3.692101 TCAATTGTCGGTGTTTTGTGACT 59.308 39.130 5.13 0.00 32.64 3.41
203 206 4.156922 TCAATTGTCGGTGTTTTGTGACTT 59.843 37.500 5.13 0.00 32.64 3.01
207 210 3.619483 TGTCGGTGTTTTGTGACTTGTAG 59.381 43.478 0.00 0.00 32.64 2.74
208 211 3.001939 GTCGGTGTTTTGTGACTTGTAGG 59.998 47.826 0.00 0.00 0.00 3.18
209 212 2.289547 CGGTGTTTTGTGACTTGTAGGG 59.710 50.000 0.00 0.00 0.00 3.53
234 237 2.684374 TCGAGGACGACATATTTTCCGA 59.316 45.455 0.00 0.00 43.81 4.55
235 238 3.317149 TCGAGGACGACATATTTTCCGAT 59.683 43.478 0.00 0.00 43.81 4.18
237 240 3.728845 AGGACGACATATTTTCCGATGG 58.271 45.455 0.00 0.00 32.97 3.51
246 249 4.873810 TTCCGATGGGGCATGCGG 62.874 66.667 12.44 6.14 44.83 5.69
250 253 4.545706 GATGGGGCATGCGGTCGA 62.546 66.667 12.44 1.50 0.00 4.20
251 254 4.552365 ATGGGGCATGCGGTCGAG 62.552 66.667 12.44 0.00 0.00 4.04
268 271 3.421844 TCGAGTGATGGATCGATATGGT 58.578 45.455 0.00 0.00 42.61 3.55
270 273 5.007682 TCGAGTGATGGATCGATATGGTAA 58.992 41.667 0.00 0.00 42.61 2.85
272 275 5.106118 CGAGTGATGGATCGATATGGTAAGT 60.106 44.000 0.00 0.00 41.40 2.24
278 281 6.272822 TGGATCGATATGGTAAGTCATGAG 57.727 41.667 0.00 0.00 0.00 2.90
279 282 6.010219 TGGATCGATATGGTAAGTCATGAGA 58.990 40.000 0.00 0.00 0.00 3.27
299 302 1.142474 CAACGAGTTTACCCACGTCC 58.858 55.000 0.00 0.00 38.00 4.79
301 304 1.172180 ACGAGTTTACCCACGTCCGA 61.172 55.000 0.00 0.00 33.80 4.55
325 328 4.760047 CGGGAGGTGGCAAGACCG 62.760 72.222 6.75 6.75 43.94 4.79
340 343 4.868171 GCAAGACCGTACTCATACATTTGA 59.132 41.667 0.00 0.00 0.00 2.69
365 368 9.110617 GATTATGTATTGCTCGACATTTGATTG 57.889 33.333 3.78 0.00 37.47 2.67
379 382 8.486383 CGACATTTGATTGTTTAGCAAATCAAA 58.514 29.630 19.87 19.87 42.05 2.69
435 440 6.978080 GCAACCTTTTGTGAGTTTGATAAGAA 59.022 34.615 0.00 0.00 34.90 2.52
445 450 9.349713 TGTGAGTTTGATAAGAAAAGTTGGTAT 57.650 29.630 0.00 0.00 0.00 2.73
513 1875 3.244112 GGAGCACCTATACGGCATTTACT 60.244 47.826 0.00 0.00 35.61 2.24
548 1910 2.091885 TCAAAGTCAAGCCACTTTCCCT 60.092 45.455 3.62 0.00 43.41 4.20
688 2053 3.854669 CCGCCGCTCATCCCTCTT 61.855 66.667 0.00 0.00 0.00 2.85
754 2119 8.335532 TCCATTAATCGACTGAACAAATCTTT 57.664 30.769 0.00 0.00 0.00 2.52
1005 2370 2.595095 GGTTCCGGATCCATGGCA 59.405 61.111 24.13 0.00 0.00 4.92
1151 2516 1.543802 CTCGAGTTCTTCTCAGGCTGT 59.456 52.381 15.27 0.00 42.88 4.40
1185 2550 0.456824 CGCGGGATACGGAGATCATG 60.457 60.000 0.00 0.00 44.51 3.07
1227 2592 4.357279 GTGGCCAGGGAGCTGCTT 62.357 66.667 5.11 0.00 0.00 3.91
1242 2607 6.714356 GGGAGCTGCTTTTCTCTTATTATCAT 59.286 38.462 2.53 0.00 0.00 2.45
1275 2640 3.636231 CCCGTGGCCAGGAACTCA 61.636 66.667 26.78 0.00 34.60 3.41
1300 2665 4.457496 CGGTGGGCGATCTGTGCT 62.457 66.667 0.00 0.00 0.00 4.40
1310 2675 1.916651 CGATCTGTGCTCGAGTTCTTG 59.083 52.381 15.13 1.51 38.38 3.02
1312 2677 3.426292 CGATCTGTGCTCGAGTTCTTGTA 60.426 47.826 15.13 0.00 38.38 2.41
1313 2678 4.677584 GATCTGTGCTCGAGTTCTTGTAT 58.322 43.478 15.13 0.00 0.00 2.29
1315 2680 2.926200 CTGTGCTCGAGTTCTTGTATGG 59.074 50.000 15.13 0.00 0.00 2.74
1318 2683 3.123621 GTGCTCGAGTTCTTGTATGGTTG 59.876 47.826 15.13 0.00 0.00 3.77
1323 2688 3.610911 GAGTTCTTGTATGGTTGGGAGG 58.389 50.000 0.00 0.00 0.00 4.30
1404 2769 0.881118 GGGAGCTGCGTTTTGATGAA 59.119 50.000 0.00 0.00 0.00 2.57
1718 3134 3.296709 ATCCTTTCAGCGCGGTCGT 62.297 57.895 8.38 0.00 38.14 4.34
1719 3135 1.940883 ATCCTTTCAGCGCGGTCGTA 61.941 55.000 8.38 0.00 38.14 3.43
1746 3162 2.049627 ATGAGAAGGATGGCGGCTCC 62.050 60.000 11.43 14.45 0.00 4.70
1767 3183 2.035704 CGATGAGGAGCTGCAGATAGTT 59.964 50.000 20.43 0.00 0.00 2.24
1863 3282 6.223351 AGAAGCAGTACCTCCTTGTTATAC 57.777 41.667 0.00 0.00 0.00 1.47
1870 3289 6.380274 CAGTACCTCCTTGTTATACTTCAGGA 59.620 42.308 0.00 0.00 0.00 3.86
1961 3383 8.984891 TTTGGTGATAAGCATAACTGAATTTG 57.015 30.769 0.00 0.00 0.00 2.32
1973 3395 7.558137 CATAACTGAATTTGTTGCAAGTTGTC 58.442 34.615 0.00 0.00 0.00 3.18
2018 3440 7.915508 TGTAACATAATTCTTCCACGCTTATG 58.084 34.615 0.00 0.00 36.39 1.90
2023 3445 2.472695 TCTTCCACGCTTATGTGCTT 57.527 45.000 0.00 0.00 38.55 3.91
2029 3455 4.006989 TCCACGCTTATGTGCTTGTATTT 58.993 39.130 0.00 0.00 38.55 1.40
2107 3536 5.362430 AGAGTTTAGGAGCTTCTATGTGGAG 59.638 44.000 1.53 0.00 0.00 3.86
2250 3683 2.353109 CCTCTCACGAGAAGCATTGTGA 60.353 50.000 0.00 6.52 40.54 3.58
2261 3694 2.430465 AGCATTGTGACATGGTGAGTC 58.570 47.619 0.00 0.00 36.55 3.36
2273 3706 5.072055 ACATGGTGAGTCATGAACATTTCA 58.928 37.500 11.20 2.81 45.30 2.69
2559 3993 1.530720 CTGCTGTGTACGCAACAATGA 59.469 47.619 13.12 0.00 40.63 2.57
2657 4109 1.821753 TCAGTTAGAGCCTCACTGAGC 59.178 52.381 10.04 0.00 39.04 4.26
2677 4129 1.668919 CGTAGCACCGAGTGTCAATGT 60.669 52.381 6.02 0.00 35.75 2.71
2809 4279 0.744414 ACAAGCAACGCTCACACTGT 60.744 50.000 0.00 0.00 38.25 3.55
2821 4291 4.496341 CGCTCACACTGTTCAAATTTCTGT 60.496 41.667 0.00 0.00 0.00 3.41
2899 4369 1.135083 TGCTCAAGTTACTCGCCTAGC 60.135 52.381 0.00 0.00 0.00 3.42
2904 4377 1.546961 AGTTACTCGCCTAGCACAGT 58.453 50.000 0.00 0.00 0.00 3.55
2909 4382 1.073216 CTCGCCTAGCACAGTCAACG 61.073 60.000 0.00 0.00 0.00 4.10
2986 4459 3.181526 GCTCACACTGCTCAAATTACTCG 60.182 47.826 0.00 0.00 0.00 4.18
3000 4473 0.752009 TACTCGCCCAGTAGAGCCAG 60.752 60.000 0.00 0.00 37.99 4.85
3102 4668 2.224281 CCTGTGGAGCAAACTGTCAGTA 60.224 50.000 5.77 0.00 0.00 2.74
3115 4681 5.392767 ACTGTCAGTACACCAAGAGTATG 57.607 43.478 2.87 0.00 0.00 2.39
3164 4748 6.409704 TGCTCACTCTGCTCAAATTACTTAT 58.590 36.000 0.00 0.00 0.00 1.73
3455 5453 2.039818 TGGCTGGTTTGTAACGTTCA 57.960 45.000 2.82 0.00 0.00 3.18
3489 5487 5.420421 TCTTTAGATTACACTCTGCTGCTCT 59.580 40.000 0.00 0.00 0.00 4.09
3495 5493 2.739943 ACACTCTGCTGCTCTATGGTA 58.260 47.619 0.00 0.00 0.00 3.25
3496 5494 2.428890 ACACTCTGCTGCTCTATGGTAC 59.571 50.000 0.00 0.00 0.00 3.34
3569 5567 5.363101 TGATTACAAGCTCTGTGGATCATC 58.637 41.667 16.47 9.89 39.20 2.92
3601 5630 6.400568 CATTTGTTAGGCAATCTGTTCCATT 58.599 36.000 0.00 0.00 36.89 3.16
3651 5704 5.631992 GCAGCTTGTAGGTTATGTTTTCTC 58.368 41.667 0.00 0.00 0.00 2.87
3700 5775 4.519540 AATGTGCAGGTCATTTACAACC 57.480 40.909 0.00 0.00 32.50 3.77
3987 6085 4.681744 AGAAATGTGTCATGCGTTGTTTT 58.318 34.783 0.00 0.00 0.00 2.43
3999 6098 3.980134 TGCGTTGTTTTGTTCATATGCTG 59.020 39.130 0.00 0.00 0.00 4.41
4002 6101 5.345741 GCGTTGTTTTGTTCATATGCTGAAT 59.654 36.000 0.00 0.00 45.36 2.57
4008 6113 9.225436 TGTTTTGTTCATATGCTGAATACTACA 57.775 29.630 0.00 0.00 45.36 2.74
4031 6136 7.614494 ACATAGAAAATATTATGCATTGGGCC 58.386 34.615 3.54 0.00 43.89 5.80
4043 6148 1.605710 CATTGGGCCTCGCTGATTAAG 59.394 52.381 4.53 0.00 0.00 1.85
4096 6207 3.507622 GCAGGCCTCTGACTGTAAAAATT 59.492 43.478 0.00 0.00 43.49 1.82
4175 6286 6.205464 CCCACTCAGAATATTCGTATGCAATT 59.795 38.462 9.78 0.00 0.00 2.32
4279 6393 2.815647 CGAGAAGGGGCTTCGTGC 60.816 66.667 0.00 0.00 44.34 5.34
4407 6521 1.574702 GCTTGAGTTTCCGTTCGGGG 61.575 60.000 11.37 0.00 36.01 5.73
4533 6647 2.438763 AGATTCCTCCTCAGAATGCTGG 59.561 50.000 0.00 0.00 42.53 4.85
4534 6648 1.661463 TTCCTCCTCAGAATGCTGGT 58.339 50.000 0.00 0.00 42.53 4.00
4550 6664 2.685897 GCTGGTAGTCAAAACCAACACA 59.314 45.455 0.00 0.00 46.14 3.72
4561 6675 5.416013 TCAAAACCAACACACACATACTTCA 59.584 36.000 0.00 0.00 0.00 3.02
4565 6679 5.676552 ACCAACACACACATACTTCAGTTA 58.323 37.500 0.00 0.00 0.00 2.24
4567 6681 5.179368 CCAACACACACATACTTCAGTTAGG 59.821 44.000 0.00 0.00 0.00 2.69
4574 6688 3.452627 ACATACTTCAGTTAGGGCCTCAG 59.547 47.826 10.74 0.00 0.00 3.35
4581 6695 1.065126 AGTTAGGGCCTCAGTGAATGC 60.065 52.381 10.74 5.88 0.00 3.56
4646 7401 3.764434 CCTCGAGCCTGCCTAGATTATTA 59.236 47.826 6.99 0.00 0.00 0.98
4750 7505 4.985413 AGACATATTGTTGATTGTTGGCG 58.015 39.130 0.00 0.00 0.00 5.69
4776 7531 4.025145 GGGAACGTTATAAAGAAGCATCCG 60.025 45.833 0.00 0.00 0.00 4.18
4816 7571 2.497138 CTCATGCTTCACACTTCCACA 58.503 47.619 0.00 0.00 0.00 4.17
4817 7572 2.483106 CTCATGCTTCACACTTCCACAG 59.517 50.000 0.00 0.00 0.00 3.66
4818 7573 1.538512 CATGCTTCACACTTCCACAGG 59.461 52.381 0.00 0.00 0.00 4.00
4819 7574 0.836606 TGCTTCACACTTCCACAGGA 59.163 50.000 0.00 0.00 0.00 3.86
4820 7575 1.421268 TGCTTCACACTTCCACAGGAT 59.579 47.619 0.00 0.00 0.00 3.24
4821 7576 1.808945 GCTTCACACTTCCACAGGATG 59.191 52.381 0.00 0.00 46.00 3.51
4822 7577 2.550855 GCTTCACACTTCCACAGGATGA 60.551 50.000 6.01 0.00 39.69 2.92
4823 7578 2.839486 TCACACTTCCACAGGATGAC 57.161 50.000 6.01 0.00 39.69 3.06
4886 7645 0.390735 CTGCAAGGAAATGCCCAAGC 60.391 55.000 0.00 0.00 45.83 4.01
4900 7659 1.300971 CCAAGCACACACTCCCATCG 61.301 60.000 0.00 0.00 0.00 3.84
4919 7678 1.878102 CGGTCAAGCTTGCTGGTAAGT 60.878 52.381 21.99 0.00 0.00 2.24
4966 7725 4.701651 CACATTGAGAATTTAGGAGTGCCA 59.298 41.667 0.00 0.00 36.29 4.92
4972 7731 3.840666 AGAATTTAGGAGTGCCAGTCAGA 59.159 43.478 1.31 0.00 36.29 3.27
5043 7842 9.475620 TGAACCTTGAACTATCTGTATCTCTTA 57.524 33.333 0.00 0.00 0.00 2.10
5082 7887 6.698380 TGAATGTAGTCTAGGAAAGGAACAC 58.302 40.000 0.00 0.00 0.00 3.32
5107 7912 5.245531 TGGTGCACCATTCTCTAGTTTTAG 58.754 41.667 34.74 0.00 42.01 1.85
5112 7917 6.763135 TGCACCATTCTCTAGTTTTAGCATAG 59.237 38.462 0.00 0.00 0.00 2.23
5113 7918 6.293135 GCACCATTCTCTAGTTTTAGCATAGC 60.293 42.308 0.00 0.00 0.00 2.97
5118 7923 9.411801 CATTCTCTAGTTTTAGCATAGCGAATA 57.588 33.333 0.00 0.00 32.18 1.75
5126 7931 2.905075 AGCATAGCGAATAGTGCAACA 58.095 42.857 0.00 0.00 41.43 3.33
5174 7980 3.580895 TGGTACACTCAAGGCACATAAGA 59.419 43.478 0.00 0.00 0.00 2.10
5182 7988 7.230510 ACACTCAAGGCACATAAGACAAAATTA 59.769 33.333 0.00 0.00 0.00 1.40
5183 7989 7.538678 CACTCAAGGCACATAAGACAAAATTAC 59.461 37.037 0.00 0.00 0.00 1.89
5218 8052 6.538945 TGTGGTGAGATAAGCATACTTGTA 57.461 37.500 0.00 0.00 36.57 2.41
5219 8053 6.338146 TGTGGTGAGATAAGCATACTTGTAC 58.662 40.000 0.00 0.00 36.57 2.90
5224 8058 5.299531 TGAGATAAGCATACTTGTACGCTCT 59.700 40.000 1.83 0.00 36.57 4.09
5231 8065 4.330074 GCATACTTGTACGCTCTTTGTGAT 59.670 41.667 0.00 0.00 0.00 3.06
5240 8074 4.437239 ACGCTCTTTGTGATCTATTCTGG 58.563 43.478 0.00 0.00 0.00 3.86
5246 8080 6.778821 TCTTTGTGATCTATTCTGGGAACAA 58.221 36.000 0.00 0.00 42.06 2.83
5247 8081 7.405292 TCTTTGTGATCTATTCTGGGAACAAT 58.595 34.615 0.00 0.00 42.06 2.71
5248 8082 8.548025 TCTTTGTGATCTATTCTGGGAACAATA 58.452 33.333 0.00 0.00 42.06 1.90
5249 8083 9.347240 CTTTGTGATCTATTCTGGGAACAATAT 57.653 33.333 0.00 0.00 42.06 1.28
5250 8084 8.681486 TTGTGATCTATTCTGGGAACAATATG 57.319 34.615 0.00 0.00 42.06 1.78
5251 8085 7.805163 TGTGATCTATTCTGGGAACAATATGT 58.195 34.615 0.00 0.00 42.06 2.29
5252 8086 7.933577 TGTGATCTATTCTGGGAACAATATGTC 59.066 37.037 0.00 0.00 42.06 3.06
5253 8087 8.153550 GTGATCTATTCTGGGAACAATATGTCT 58.846 37.037 0.00 0.00 42.06 3.41
5322 8158 9.367444 AGGTCATGAAACTTAAATACTCTTACG 57.633 33.333 0.00 0.00 0.00 3.18
5326 8162 8.857216 CATGAAACTTAAATACTCTTACGTCGT 58.143 33.333 2.21 2.21 0.00 4.34
5379 8215 6.764379 TGAGGTGTGTATGTTGAAGTGAATA 58.236 36.000 0.00 0.00 0.00 1.75
5381 8217 7.172532 TGAGGTGTGTATGTTGAAGTGAATAAC 59.827 37.037 0.00 0.00 0.00 1.89
5382 8218 7.224297 AGGTGTGTATGTTGAAGTGAATAACT 58.776 34.615 0.00 0.00 42.60 2.24
5394 8230 5.886960 AGTGAATAACTTGGATGCAGAAC 57.113 39.130 0.00 0.00 34.57 3.01
5395 8231 5.316167 AGTGAATAACTTGGATGCAGAACA 58.684 37.500 0.00 0.00 34.57 3.18
5404 8280 3.899734 TGGATGCAGAACAACAATTTCG 58.100 40.909 0.00 0.00 0.00 3.46
5471 8347 6.927416 TCTAAAGAACAGCCTACGAACATAA 58.073 36.000 0.00 0.00 0.00 1.90
5486 8362 9.206870 CTACGAACATAACCAGTTTAAAACCTA 57.793 33.333 0.00 0.00 0.00 3.08
5491 8367 8.117813 ACATAACCAGTTTAAAACCTACATGG 57.882 34.615 0.00 0.00 42.93 3.66
5493 8369 3.504520 ACCAGTTTAAAACCTACATGGCG 59.495 43.478 0.00 0.00 40.22 5.69
5585 8462 5.063880 AGAAGGCATTACGACAAAGTTTCT 58.936 37.500 0.00 0.00 0.00 2.52
5610 8487 6.079763 GTGTAATGTTGCAACAGTGACTATG 58.920 40.000 35.44 0.00 43.04 2.23
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 2.023015 TCTGCCCTATCCTCTTTCCTGA 60.023 50.000 0.00 0.00 0.00 3.86
19 20 2.402564 TCTGCCCTATCCTCTTTCCTG 58.597 52.381 0.00 0.00 0.00 3.86
20 21 2.877154 TCTGCCCTATCCTCTTTCCT 57.123 50.000 0.00 0.00 0.00 3.36
35 37 0.033228 CGACAGAGGGATGGATCTGC 59.967 60.000 2.23 0.00 45.56 4.26
37 39 1.342474 ACACGACAGAGGGATGGATCT 60.342 52.381 0.00 0.00 0.00 2.75
43 45 0.036952 CTGCAACACGACAGAGGGAT 60.037 55.000 0.00 0.00 35.90 3.85
83 85 7.907389 ACAACATGATAGGTCAAGAACTCTTA 58.093 34.615 0.00 0.00 38.01 2.10
96 98 3.060761 CACGTCGACAACAACATGATAGG 59.939 47.826 17.16 0.00 0.00 2.57
98 100 2.990514 CCACGTCGACAACAACATGATA 59.009 45.455 17.16 0.00 0.00 2.15
103 105 0.391395 AACCCACGTCGACAACAACA 60.391 50.000 17.16 0.00 0.00 3.33
105 107 0.108281 TCAACCCACGTCGACAACAA 60.108 50.000 17.16 0.00 0.00 2.83
106 108 0.528901 CTCAACCCACGTCGACAACA 60.529 55.000 17.16 0.00 0.00 3.33
107 109 1.219522 CCTCAACCCACGTCGACAAC 61.220 60.000 17.16 0.00 0.00 3.32
108 110 1.068417 CCTCAACCCACGTCGACAA 59.932 57.895 17.16 0.00 0.00 3.18
109 111 1.802337 CTCCTCAACCCACGTCGACA 61.802 60.000 17.16 0.00 0.00 4.35
116 118 1.077429 GGATGGCTCCTCAACCCAC 60.077 63.158 0.00 0.00 38.65 4.61
123 125 1.072159 CGGATTGGGATGGCTCCTC 59.928 63.158 3.54 0.00 41.74 3.71
133 136 1.076777 ACCATTGGAGCGGATTGGG 60.077 57.895 10.37 0.00 0.00 4.12
135 138 1.019673 CTGACCATTGGAGCGGATTG 58.980 55.000 10.37 0.00 0.00 2.67
144 147 3.055080 AATGCGCGCTGACCATTGG 62.055 57.895 33.29 0.00 0.00 3.16
148 151 3.422303 GTCAATGCGCGCTGACCA 61.422 61.111 31.89 15.55 36.72 4.02
154 157 3.573491 GTAGGGGTCAATGCGCGC 61.573 66.667 27.26 27.26 0.00 6.86
156 159 1.819632 CAGGTAGGGGTCAATGCGC 60.820 63.158 0.00 0.00 0.00 6.09
162 165 0.896940 GACACGTCAGGTAGGGGTCA 60.897 60.000 0.00 0.00 44.24 4.02
165 168 0.902531 ATTGACACGTCAGGTAGGGG 59.097 55.000 0.00 0.00 41.13 4.79
177 180 3.545873 CACAAAACACCGACAATTGACAC 59.454 43.478 13.59 2.42 0.00 3.67
184 187 2.814919 ACAAGTCACAAAACACCGACAA 59.185 40.909 0.00 0.00 0.00 3.18
202 205 2.036098 TCCTCGACGGCCCTACAA 59.964 61.111 0.00 0.00 0.00 2.41
203 206 2.753043 GTCCTCGACGGCCCTACA 60.753 66.667 0.00 0.00 0.00 2.74
223 226 2.353011 GCATGCCCCATCGGAAAATATG 60.353 50.000 6.36 0.00 0.00 1.78
234 237 4.552365 CTCGACCGCATGCCCCAT 62.552 66.667 13.15 0.00 0.00 4.00
237 240 3.740128 ATCACTCGACCGCATGCCC 62.740 63.158 13.15 0.40 0.00 5.36
246 249 3.191581 ACCATATCGATCCATCACTCGAC 59.808 47.826 0.00 0.00 45.63 4.20
247 250 3.421844 ACCATATCGATCCATCACTCGA 58.578 45.455 0.00 0.00 46.71 4.04
249 252 6.071896 TGACTTACCATATCGATCCATCACTC 60.072 42.308 0.00 0.00 0.00 3.51
250 253 5.775195 TGACTTACCATATCGATCCATCACT 59.225 40.000 0.00 0.00 0.00 3.41
251 254 6.025749 TGACTTACCATATCGATCCATCAC 57.974 41.667 0.00 0.00 0.00 3.06
252 255 6.437162 TCATGACTTACCATATCGATCCATCA 59.563 38.462 0.00 0.00 0.00 3.07
253 256 6.867550 TCATGACTTACCATATCGATCCATC 58.132 40.000 0.00 0.00 0.00 3.51
263 266 5.417894 ACTCGTTGTCTCATGACTTACCATA 59.582 40.000 0.00 0.00 43.29 2.74
268 271 6.154445 GGTAAACTCGTTGTCTCATGACTTA 58.846 40.000 0.00 0.00 43.29 2.24
270 273 4.557205 GGTAAACTCGTTGTCTCATGACT 58.443 43.478 0.00 0.00 43.29 3.41
272 275 3.322541 TGGGTAAACTCGTTGTCTCATGA 59.677 43.478 0.00 0.00 0.00 3.07
278 281 1.788886 GACGTGGGTAAACTCGTTGTC 59.211 52.381 0.00 0.00 36.67 3.18
279 282 1.538849 GGACGTGGGTAAACTCGTTGT 60.539 52.381 0.00 0.00 36.67 3.32
311 314 0.108756 GAGTACGGTCTTGCCACCTC 60.109 60.000 0.00 0.00 36.97 3.85
315 318 2.172679 TGTATGAGTACGGTCTTGCCA 58.827 47.619 0.00 0.00 36.97 4.92
318 321 7.539712 AATCAAATGTATGAGTACGGTCTTG 57.460 36.000 0.00 0.00 33.36 3.02
340 343 8.623903 ACAATCAAATGTCGAGCAATACATAAT 58.376 29.630 0.00 0.00 0.00 1.28
445 450 4.160065 CACATCTATTGGCCATTGGTTGAA 59.840 41.667 21.82 0.89 0.00 2.69
458 463 4.987408 TGGTTTGATGCCACATCTATTG 57.013 40.909 8.87 0.00 0.00 1.90
463 1825 4.191033 TGATTTGGTTTGATGCCACATC 57.809 40.909 0.55 0.55 41.26 3.06
534 1896 1.338020 GACACAAGGGAAAGTGGCTTG 59.662 52.381 0.00 0.00 40.62 4.01
535 1897 1.692411 GACACAAGGGAAAGTGGCTT 58.308 50.000 0.00 0.00 40.62 4.35
538 1900 1.545651 GGAGGACACAAGGGAAAGTGG 60.546 57.143 0.00 0.00 39.99 4.00
548 1910 1.752198 CCACGGAAGGAGGACACAA 59.248 57.895 0.00 0.00 32.87 3.33
651 2016 2.821366 CAGTGGAGGTGATGGCGC 60.821 66.667 0.00 0.00 0.00 6.53
655 2020 1.153489 CGGCTCAGTGGAGGTGATG 60.153 63.158 0.00 0.00 41.67 3.07
656 2021 3.023949 GCGGCTCAGTGGAGGTGAT 62.024 63.158 0.00 0.00 41.67 3.06
688 2053 0.115547 GAAAAGGGGCTGGGGGTTTA 59.884 55.000 0.00 0.00 0.00 2.01
949 2314 3.458163 TAACGCCTCCGGGAGCAG 61.458 66.667 18.91 15.63 39.22 4.24
1227 2592 7.791766 AGGTCCTCCTCATGATAATAAGAGAAA 59.208 37.037 0.00 0.00 40.58 2.52
1259 2624 2.358737 GTGAGTTCCTGGCCACGG 60.359 66.667 0.00 8.27 0.00 4.94
1283 2648 4.457496 AGCACAGATCGCCCACCG 62.457 66.667 0.00 0.00 38.61 4.94
1286 2651 3.068064 TCGAGCACAGATCGCCCA 61.068 61.111 0.00 0.00 41.41 5.36
1300 2665 2.901192 TCCCAACCATACAAGAACTCGA 59.099 45.455 0.00 0.00 0.00 4.04
1310 2675 1.525442 CCCGTCCTCCCAACCATAC 59.475 63.158 0.00 0.00 0.00 2.39
1312 2677 3.015145 CCCCGTCCTCCCAACCAT 61.015 66.667 0.00 0.00 0.00 3.55
1313 2678 4.585216 ACCCCGTCCTCCCAACCA 62.585 66.667 0.00 0.00 0.00 3.67
1315 2680 4.078516 CGACCCCGTCCTCCCAAC 62.079 72.222 0.00 0.00 0.00 3.77
1718 3134 4.502087 CGCCATCCTTCTCATCATTCACTA 60.502 45.833 0.00 0.00 0.00 2.74
1719 3135 3.743584 CGCCATCCTTCTCATCATTCACT 60.744 47.826 0.00 0.00 0.00 3.41
1746 3162 1.612950 ACTATCTGCAGCTCCTCATCG 59.387 52.381 9.47 0.00 0.00 3.84
1767 3183 0.618458 ATACCTTGCCTTTCTCCGCA 59.382 50.000 0.00 0.00 0.00 5.69
1791 3207 6.555463 ATTCCAAGATCAAAATGCAAGGAT 57.445 33.333 0.00 0.00 0.00 3.24
1863 3282 8.834465 CATATCTCTACCAAAAATGTCCTGAAG 58.166 37.037 0.00 0.00 0.00 3.02
1896 3318 4.071423 TCTCCAAATCACTTTGCGAATCA 58.929 39.130 0.00 0.00 40.39 2.57
1901 3323 1.536766 TGCTCTCCAAATCACTTTGCG 59.463 47.619 0.00 0.00 40.39 4.85
1961 3383 8.970691 ATAATGTATCTTTGACAACTTGCAAC 57.029 30.769 0.00 0.00 0.00 4.17
2011 3433 5.509272 CACAGAAAATACAAGCACATAAGCG 59.491 40.000 0.00 0.00 40.15 4.68
2052 3480 9.434420 TGTCTTTGTCAAATTTGATTTCAACTT 57.566 25.926 23.05 0.00 39.73 2.66
2107 3536 4.811557 CAGGTAAACAGAAGTAGCATAGGC 59.188 45.833 0.00 0.00 41.61 3.93
2170 3603 3.134127 GGGAAGTCACGGCATGCC 61.134 66.667 27.67 27.67 0.00 4.40
2250 3683 5.072055 TGAAATGTTCATGACTCACCATGT 58.928 37.500 0.00 0.00 43.22 3.21
2261 3694 5.647589 CATCAGGGAGTTGAAATGTTCATG 58.352 41.667 0.00 0.00 39.84 3.07
2273 3706 1.302285 CCAGCAGCATCAGGGAGTT 59.698 57.895 0.00 0.00 0.00 3.01
2361 3795 4.418392 CAGTAGCACTGCATTTGGAAATC 58.582 43.478 3.30 0.00 39.62 2.17
2550 3984 1.154413 CGAGTGGCGTCATTGTTGC 60.154 57.895 0.00 0.00 34.64 4.17
2657 4109 0.992072 CATTGACACTCGGTGCTACG 59.008 55.000 4.23 0.00 36.98 3.51
2668 4120 1.808945 CCTCTCTTGGCACATTGACAC 59.191 52.381 0.00 0.00 33.32 3.67
2677 4129 0.768221 ACCACTTCCCTCTCTTGGCA 60.768 55.000 0.00 0.00 0.00 4.92
2774 4244 0.895530 TTGTACCTCTTCCAGCTCCG 59.104 55.000 0.00 0.00 0.00 4.63
2809 4279 3.981211 GCTCTTGGCACAGAAATTTGAA 58.019 40.909 0.00 0.00 42.39 2.69
2899 4369 0.809636 TGCACTGACCGTTGACTGTG 60.810 55.000 0.00 0.00 38.45 3.66
2904 4377 0.813610 CTTGGTGCACTGACCGTTGA 60.814 55.000 17.98 0.00 39.07 3.18
2909 4382 2.985847 GGCCTTGGTGCACTGACC 60.986 66.667 17.98 7.91 36.43 4.02
2986 4459 2.188994 CAGCTGGCTCTACTGGGC 59.811 66.667 5.57 0.00 0.00 5.36
3044 4610 1.819288 GACTGAGCACTGCTAGTACCA 59.181 52.381 2.71 0.00 39.88 3.25
3102 4668 0.035056 GCAGGGCATACTCTTGGTGT 60.035 55.000 0.00 0.00 0.00 4.16
3359 4995 1.520342 GGTGGTGAGCGATCTGAGC 60.520 63.158 0.90 0.00 0.00 4.26
3509 5507 3.492011 CAGCACAAGCATCCTTTGAAAAC 59.508 43.478 0.00 0.00 45.49 2.43
3558 5556 1.478105 TGGACGAGTGATGATCCACAG 59.522 52.381 5.12 1.83 39.42 3.66
3569 5567 2.422597 TGCCTAACAAATGGACGAGTG 58.577 47.619 0.00 0.00 0.00 3.51
3601 5630 4.701651 CCAACAGTAATGATGAAGAAGCCA 59.298 41.667 1.63 0.00 0.00 4.75
3651 5704 9.125906 CATGCATTTTAGAACAAAAAGAGAGAG 57.874 33.333 0.00 0.00 32.20 3.20
3700 5775 3.882025 GCTCTGGCCTGTTTCTCG 58.118 61.111 3.32 0.00 0.00 4.04
3842 5939 6.426587 AGAAAAGGATGATTAAGCTGGCTTA 58.573 36.000 10.53 10.53 37.47 3.09
3890 5987 1.135083 AGCACCTACGAACGAATGAGG 60.135 52.381 0.14 4.78 0.00 3.86
4007 6112 7.844009 AGGCCCAATGCATAATATTTTCTATG 58.156 34.615 0.00 0.00 43.89 2.23
4008 6113 7.148018 CGAGGCCCAATGCATAATATTTTCTAT 60.148 37.037 0.00 0.00 43.89 1.98
4009 6114 6.150976 CGAGGCCCAATGCATAATATTTTCTA 59.849 38.462 0.00 0.00 43.89 2.10
4010 6115 5.047802 CGAGGCCCAATGCATAATATTTTCT 60.048 40.000 0.00 0.00 43.89 2.52
4011 6116 5.163513 CGAGGCCCAATGCATAATATTTTC 58.836 41.667 0.00 0.00 43.89 2.29
4012 6117 4.561326 GCGAGGCCCAATGCATAATATTTT 60.561 41.667 0.00 0.00 43.89 1.82
4043 6148 2.159627 CCTGTAATGTCCACACGAAAGC 59.840 50.000 0.00 0.00 0.00 3.51
4175 6286 2.224113 GGTTGTCCACTTGACTCGGTAA 60.224 50.000 0.00 0.00 44.75 2.85
4279 6393 2.488153 GACAAAACCAAATCCCCTCGAG 59.512 50.000 5.13 5.13 0.00 4.04
4407 6521 3.540314 ATGCAGAGTGAGAACCAGATC 57.460 47.619 0.00 0.00 0.00 2.75
4533 6647 4.688511 TGTGTGTGTTGGTTTTGACTAC 57.311 40.909 0.00 0.00 0.00 2.73
4534 6648 6.116806 AGTATGTGTGTGTTGGTTTTGACTA 58.883 36.000 0.00 0.00 0.00 2.59
4550 6664 3.182152 AGGCCCTAACTGAAGTATGTGT 58.818 45.455 0.00 0.00 0.00 3.72
4561 6675 1.065126 GCATTCACTGAGGCCCTAACT 60.065 52.381 0.00 0.00 0.00 2.24
4565 6679 1.302285 CTGCATTCACTGAGGCCCT 59.698 57.895 0.00 0.00 0.00 5.19
4567 6681 2.758089 CGCTGCATTCACTGAGGCC 61.758 63.158 0.00 0.00 0.00 5.19
4574 6688 1.443194 CAGTTGGCGCTGCATTCAC 60.443 57.895 7.64 0.00 0.00 3.18
4581 6695 4.034258 CACTGGCAGTTGGCGCTG 62.034 66.667 19.43 0.34 46.16 5.18
4593 6707 1.450134 TATGCTCTTGGCGCACTGG 60.450 57.895 10.83 0.00 45.43 4.00
4646 7401 5.376625 TGTAGGCTTCATGTTCTCAAACTT 58.623 37.500 0.00 0.00 36.30 2.66
4687 7442 2.717639 AGCACACTTCTTCACCAAGT 57.282 45.000 0.00 0.00 34.24 3.16
4750 7505 4.004982 TGCTTCTTTATAACGTTCCCACC 58.995 43.478 2.82 0.00 0.00 4.61
4812 7567 3.211865 CATTGATCCTGTCATCCTGTGG 58.788 50.000 0.00 0.00 36.54 4.17
4816 7571 1.848388 TGCCATTGATCCTGTCATCCT 59.152 47.619 0.00 0.00 36.54 3.24
4817 7572 2.353357 TGCCATTGATCCTGTCATCC 57.647 50.000 0.00 0.00 36.54 3.51
4818 7573 4.142790 AGATTGCCATTGATCCTGTCATC 58.857 43.478 0.00 0.00 36.54 2.92
4819 7574 4.180377 AGATTGCCATTGATCCTGTCAT 57.820 40.909 0.00 0.00 36.54 3.06
4820 7575 3.657398 AGATTGCCATTGATCCTGTCA 57.343 42.857 0.00 0.00 34.25 3.58
4821 7576 6.645790 ATTTAGATTGCCATTGATCCTGTC 57.354 37.500 0.00 0.00 0.00 3.51
4822 7577 6.208204 GCTATTTAGATTGCCATTGATCCTGT 59.792 38.462 0.00 0.00 0.00 4.00
4823 7578 6.208007 TGCTATTTAGATTGCCATTGATCCTG 59.792 38.462 0.00 0.00 33.79 3.86
4886 7645 0.034756 TTGACCGATGGGAGTGTGTG 59.965 55.000 0.00 0.00 36.97 3.82
4900 7659 1.897560 ACTTACCAGCAAGCTTGACC 58.102 50.000 30.39 13.17 0.00 4.02
4966 7725 1.312815 GCACACCAAGCTTTCTGACT 58.687 50.000 0.00 0.00 0.00 3.41
5043 7842 3.434309 ACATTCAGCCCTATTTTGCACT 58.566 40.909 0.00 0.00 0.00 4.40
5096 7901 7.148885 GCACTATTCGCTATGCTAAAACTAGAG 60.149 40.741 0.00 0.00 35.16 2.43
5107 7912 3.248363 TGATGTTGCACTATTCGCTATGC 59.752 43.478 0.00 0.00 38.59 3.14
5112 7917 3.190079 TCTCTGATGTTGCACTATTCGC 58.810 45.455 0.00 0.00 0.00 4.70
5113 7918 5.050499 GGAATCTCTGATGTTGCACTATTCG 60.050 44.000 0.00 0.00 0.00 3.34
5118 7923 2.575279 AGGGAATCTCTGATGTTGCACT 59.425 45.455 0.00 0.00 0.00 4.40
5174 7980 7.552330 ACCACAAATCAAGCTTTGTAATTTTGT 59.448 29.630 0.00 4.52 45.18 2.83
5183 7989 4.572985 TCTCACCACAAATCAAGCTTTG 57.427 40.909 0.00 0.00 41.02 2.77
5218 8052 4.437239 CCAGAATAGATCACAAAGAGCGT 58.563 43.478 0.00 0.00 37.82 5.07
5219 8053 3.806521 CCCAGAATAGATCACAAAGAGCG 59.193 47.826 0.00 0.00 37.82 5.03
5224 8058 9.123902 CATATTGTTCCCAGAATAGATCACAAA 57.876 33.333 0.00 0.00 0.00 2.83
5231 8065 7.437713 ACAGACATATTGTTCCCAGAATAGA 57.562 36.000 0.00 0.00 0.00 1.98
5240 8074 8.677148 ATAACCACATACAGACATATTGTTCC 57.323 34.615 0.00 0.00 0.00 3.62
5248 8082 9.197306 TCTGTAGTAATAACCACATACAGACAT 57.803 33.333 8.39 0.00 42.36 3.06
5249 8083 8.584063 TCTGTAGTAATAACCACATACAGACA 57.416 34.615 8.39 0.00 42.36 3.41
5250 8084 9.517609 CTTCTGTAGTAATAACCACATACAGAC 57.482 37.037 11.30 0.00 45.16 3.51
5251 8085 8.692710 CCTTCTGTAGTAATAACCACATACAGA 58.307 37.037 8.39 8.39 44.33 3.41
5252 8086 8.475639 ACCTTCTGTAGTAATAACCACATACAG 58.524 37.037 4.23 4.23 40.79 2.74
5253 8087 8.370266 ACCTTCTGTAGTAATAACCACATACA 57.630 34.615 0.00 0.00 0.00 2.29
5326 8162 1.945819 GCATCCAAGCAAGTTCGAGGA 60.946 52.381 0.00 0.00 0.00 3.71
5356 8192 7.387948 AGTTATTCACTTCAACATACACACCTC 59.612 37.037 0.00 0.00 27.32 3.85
5363 8199 7.698130 GCATCCAAGTTATTCACTTCAACATAC 59.302 37.037 0.00 0.00 44.60 2.39
5379 8215 4.942761 ATTGTTGTTCTGCATCCAAGTT 57.057 36.364 0.00 0.00 0.00 2.66
5381 8217 4.383649 CGAAATTGTTGTTCTGCATCCAAG 59.616 41.667 0.00 0.00 0.00 3.61
5382 8218 4.202101 ACGAAATTGTTGTTCTGCATCCAA 60.202 37.500 0.00 0.00 0.00 3.53
5385 8221 4.787598 AGACGAAATTGTTGTTCTGCATC 58.212 39.130 0.00 0.00 0.00 3.91
5386 8222 4.836125 AGACGAAATTGTTGTTCTGCAT 57.164 36.364 0.00 0.00 0.00 3.96
5389 8225 8.835467 TTTCTTAAGACGAAATTGTTGTTCTG 57.165 30.769 4.18 0.00 0.00 3.02
5390 8226 9.450807 CATTTCTTAAGACGAAATTGTTGTTCT 57.549 29.630 4.18 0.00 38.62 3.01
5392 8228 9.581099 AACATTTCTTAAGACGAAATTGTTGTT 57.419 25.926 4.18 2.91 38.62 2.83
5393 8229 9.233232 GAACATTTCTTAAGACGAAATTGTTGT 57.767 29.630 15.02 4.52 38.62 3.32
5394 8230 9.232082 TGAACATTTCTTAAGACGAAATTGTTG 57.768 29.630 15.02 4.05 38.62 3.33
5395 8231 9.965824 ATGAACATTTCTTAAGACGAAATTGTT 57.034 25.926 4.18 9.30 38.62 2.83
5471 8347 3.504520 CGCCATGTAGGTTTTAAACTGGT 59.495 43.478 7.79 0.00 40.61 4.00
5486 8362 2.812358 TTATCGCATCTACGCCATGT 57.188 45.000 0.00 0.00 0.00 3.21
5491 8367 3.635331 TGGTACTTTATCGCATCTACGC 58.365 45.455 0.00 0.00 0.00 4.42
5493 8369 7.535489 AGTTTTGGTACTTTATCGCATCTAC 57.465 36.000 0.00 0.00 0.00 2.59
5585 8462 3.944650 AGTCACTGTTGCAACATTACACA 59.055 39.130 31.17 8.87 38.41 3.72
5610 8487 9.754382 ACAAATGCTTCATCCATTCAATAATAC 57.246 29.630 0.00 0.00 32.07 1.89


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

AutoCloner maintained by Alex Coulton.