Multiple sequence alignment - TraesCS6B01G079800

Loading Multiple Alignment...

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 TraesCS6B01G079800 chr6B 100.000 4125 0 0 1 4125 56051975 56047851 0.000000e+00 7618.0
1 TraesCS6B01G079800 chr6B 91.886 949 57 9 3179 4125 132943338 132944268 0.000000e+00 1308.0
2 TraesCS6B01G079800 chr6B 99.074 108 1 0 3066 3173 56048803 56048696 1.170000e-45 195.0
3 TraesCS6B01G079800 chr6A 96.064 1626 49 6 1415 3025 31369476 31367851 0.000000e+00 2634.0
4 TraesCS6B01G079800 chr6A 91.220 410 18 3 833 1224 31370056 31369647 3.630000e-150 542.0
5 TraesCS6B01G079800 chr6A 98.148 54 1 0 1 54 31370844 31370791 1.220000e-15 95.3
6 TraesCS6B01G079800 chrUn 96.020 1583 53 6 1448 3027 103934659 103933084 0.000000e+00 2566.0
7 TraesCS6B01G079800 chrUn 88.825 868 54 14 398 1225 103935738 103934874 0.000000e+00 1026.0
8 TraesCS6B01G079800 chrUn 78.413 315 30 19 1 280 103936129 103935818 1.970000e-38 171.0
9 TraesCS6B01G079800 chr3A 98.990 1089 10 1 3037 4125 424726048 424724961 0.000000e+00 1949.0
10 TraesCS6B01G079800 chr3A 95.008 641 31 1 3483 4122 748055637 748056277 0.000000e+00 1005.0
11 TraesCS6B01G079800 chr3A 99.074 108 1 0 3066 3173 424725912 424725805 1.170000e-45 195.0
12 TraesCS6B01G079800 chr7A 98.532 954 13 1 3173 4125 148533480 148534433 0.000000e+00 1683.0
13 TraesCS6B01G079800 chr7A 91.529 425 26 4 3184 3607 499738162 499737747 9.940000e-161 577.0
14 TraesCS6B01G079800 chr7A 96.644 149 3 2 3027 3173 148533440 148533588 3.180000e-61 246.0
15 TraesCS6B01G079800 chr7A 95.556 45 1 1 3024 3067 441166548 441166592 2.060000e-08 71.3
16 TraesCS6B01G079800 chr2A 97.495 958 19 1 3173 4125 72213335 72212378 0.000000e+00 1631.0
17 TraesCS6B01G079800 chr2A 95.484 155 1 2 3024 3172 72213378 72213224 4.120000e-60 243.0
18 TraesCS6B01G079800 chr2A 100.000 35 0 0 3027 3061 755377258 755377224 9.570000e-07 65.8
19 TraesCS6B01G079800 chr3B 93.165 951 50 9 3179 4125 526355781 526356720 0.000000e+00 1382.0
20 TraesCS6B01G079800 chr3B 84.516 155 9 6 3023 3172 526355730 526355874 5.560000e-29 139.0
21 TraesCS6B01G079800 chr1B 93.490 937 44 6 3191 4125 357436517 357435596 0.000000e+00 1376.0
22 TraesCS6B01G079800 chr1B 89.888 89 1 2 3084 3172 357436517 357436437 1.570000e-19 108.0
23 TraesCS6B01G079800 chr2B 93.207 898 57 4 3228 4125 103546767 103547660 0.000000e+00 1317.0
24 TraesCS6B01G079800 chr2B 98.113 53 1 0 3121 3173 103546767 103546819 4.390000e-15 93.5
25 TraesCS6B01G079800 chr7B 95.007 721 33 2 3407 4125 406931505 406930786 0.000000e+00 1129.0
26 TraesCS6B01G079800 chr7B 91.262 103 4 4 3072 3172 355849106 355849007 7.190000e-28 135.0
27 TraesCS6B01G079800 chr5A 78.882 1127 203 27 1836 2949 666873769 666872665 0.000000e+00 730.0
28 TraesCS6B01G079800 chr5A 78.183 1178 212 31 1790 2949 666751657 666750507 0.000000e+00 710.0
29 TraesCS6B01G079800 chr5A 75.393 955 201 29 1836 2773 666824839 666823902 8.190000e-117 431.0
30 TraesCS6B01G079800 chr5A 75.223 448 97 13 2428 2868 663842720 663843160 2.510000e-47 200.0
31 TraesCS6B01G079800 chr5A 95.455 44 1 1 3022 3064 606470055 606470012 7.400000e-08 69.4
32 TraesCS6B01G079800 chr4D 78.691 1131 201 32 1836 2949 486622878 486621771 0.000000e+00 717.0
33 TraesCS6B01G079800 chr4D 77.910 1177 217 30 1790 2949 486432706 486433856 0.000000e+00 693.0
34 TraesCS6B01G079800 chr4D 75.644 427 84 17 2452 2868 483952421 483952837 1.170000e-45 195.0
35 TraesCS6B01G079800 chr4B 78.043 1175 219 26 1790 2949 620946514 620945364 0.000000e+00 704.0
36 TraesCS6B01G079800 chr4B 77.640 1127 217 28 1836 2949 621280079 621281183 0.000000e+00 652.0
37 TraesCS6B01G079800 chr7D 87.660 235 23 6 3186 3417 350162810 350163041 6.800000e-68 268.0
38 TraesCS6B01G079800 chr7D 94.737 38 2 0 3027 3064 402083758 402083721 4.450000e-05 60.2
39 TraesCS6B01G079800 chr5B 71.953 1116 239 54 1847 2925 543820595 543819517 4.090000e-65 259.0
40 TraesCS6B01G079800 chr5B 97.368 38 1 0 3027 3064 248666989 248667026 9.570000e-07 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 TraesCS6B01G079800 chr6B 56047851 56051975 4124 True 3906.500000 7618 99.537000 1 4125 2 chr6B.!!$R1 4124
1 TraesCS6B01G079800 chr6B 132943338 132944268 930 False 1308.000000 1308 91.886000 3179 4125 1 chr6B.!!$F1 946
2 TraesCS6B01G079800 chr6A 31367851 31370844 2993 True 1090.433333 2634 95.144000 1 3025 3 chr6A.!!$R1 3024
3 TraesCS6B01G079800 chrUn 103933084 103936129 3045 True 1254.333333 2566 87.752667 1 3027 3 chrUn.!!$R1 3026
4 TraesCS6B01G079800 chr3A 424724961 424726048 1087 True 1072.000000 1949 99.032000 3037 4125 2 chr3A.!!$R1 1088
5 TraesCS6B01G079800 chr3A 748055637 748056277 640 False 1005.000000 1005 95.008000 3483 4122 1 chr3A.!!$F1 639
6 TraesCS6B01G079800 chr7A 148533440 148534433 993 False 964.500000 1683 97.588000 3027 4125 2 chr7A.!!$F2 1098
7 TraesCS6B01G079800 chr2A 72212378 72213378 1000 True 937.000000 1631 96.489500 3024 4125 2 chr2A.!!$R2 1101
8 TraesCS6B01G079800 chr3B 526355730 526356720 990 False 760.500000 1382 88.840500 3023 4125 2 chr3B.!!$F1 1102
9 TraesCS6B01G079800 chr1B 357435596 357436517 921 True 742.000000 1376 91.689000 3084 4125 2 chr1B.!!$R1 1041
10 TraesCS6B01G079800 chr2B 103546767 103547660 893 False 705.250000 1317 95.660000 3121 4125 2 chr2B.!!$F1 1004
11 TraesCS6B01G079800 chr7B 406930786 406931505 719 True 1129.000000 1129 95.007000 3407 4125 1 chr7B.!!$R2 718
12 TraesCS6B01G079800 chr5A 666872665 666873769 1104 True 730.000000 730 78.882000 1836 2949 1 chr5A.!!$R4 1113
13 TraesCS6B01G079800 chr5A 666750507 666751657 1150 True 710.000000 710 78.183000 1790 2949 1 chr5A.!!$R2 1159
14 TraesCS6B01G079800 chr5A 666823902 666824839 937 True 431.000000 431 75.393000 1836 2773 1 chr5A.!!$R3 937
15 TraesCS6B01G079800 chr4D 486621771 486622878 1107 True 717.000000 717 78.691000 1836 2949 1 chr4D.!!$R1 1113
16 TraesCS6B01G079800 chr4D 486432706 486433856 1150 False 693.000000 693 77.910000 1790 2949 1 chr4D.!!$F2 1159
17 TraesCS6B01G079800 chr4B 620945364 620946514 1150 True 704.000000 704 78.043000 1790 2949 1 chr4B.!!$R1 1159
18 TraesCS6B01G079800 chr4B 621280079 621281183 1104 False 652.000000 652 77.640000 1836 2949 1 chr4B.!!$F1 1113
19 TraesCS6B01G079800 chr5B 543819517 543820595 1078 True 259.000000 259 71.953000 1847 2925 1 chr5B.!!$R1 1078

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
590 708 0.109735 GCGACGAGCGATGATGGATA 60.110 55.0 0.00 0.00 44.57 2.59 F
1365 1568 0.025001 AAATCGTCATCTTTCGCGCG 59.975 50.0 26.76 26.76 0.00 6.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1786 2009 0.251354 ACCAGAGCCTCGTACTCGTA 59.749 55.0 0.0 0.0 39.23 3.43 R
3175 3572 0.196118 CCCCCTCCCCCTACACATAT 59.804 60.0 0.0 0.0 0.00 1.78 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
45 46 2.279784 GATCTGAAGCCGGCCTCG 60.280 66.667 26.15 16.14 0.00 4.63
54 55 2.029666 CCGGCCTCGTCATGATCC 59.970 66.667 0.00 0.00 33.95 3.36
65 70 2.045132 ATGATCCCCCAGGTGCCT 59.955 61.111 0.00 0.00 0.00 4.75
105 141 1.947456 GAAGAGAAGCCCGTTGTTTGT 59.053 47.619 0.00 0.00 0.00 2.83
110 146 1.335496 GAAGCCCGTTGTTTGTTGCTA 59.665 47.619 0.00 0.00 0.00 3.49
116 152 3.428316 CCCGTTGTTTGTTGCTAACTGTT 60.428 43.478 0.00 0.00 0.00 3.16
124 160 3.459145 TGTTGCTAACTGTTGAGCGTAA 58.541 40.909 2.69 0.00 41.83 3.18
136 172 4.218478 GCGTAATTTCGCGGCGCT 62.218 61.111 30.54 13.40 46.31 5.92
166 204 4.043200 GGCGCTGCTGGTGGTTTC 62.043 66.667 7.64 0.00 0.00 2.78
174 212 2.166254 CTGCTGGTGGTTTCTGTTTGTT 59.834 45.455 0.00 0.00 0.00 2.83
176 214 3.764434 TGCTGGTGGTTTCTGTTTGTTTA 59.236 39.130 0.00 0.00 0.00 2.01
178 216 4.381079 GCTGGTGGTTTCTGTTTGTTTACA 60.381 41.667 0.00 0.00 0.00 2.41
180 218 4.523173 TGGTGGTTTCTGTTTGTTTACACA 59.477 37.500 0.00 0.00 0.00 3.72
181 219 4.860352 GGTGGTTTCTGTTTGTTTACACAC 59.140 41.667 0.00 0.00 30.32 3.82
182 220 4.555747 GTGGTTTCTGTTTGTTTACACACG 59.444 41.667 0.00 0.00 30.32 4.49
185 223 1.328069 TCTGTTTGTTTACACACGGCG 59.672 47.619 4.80 4.80 33.99 6.46
186 224 1.062880 CTGTTTGTTTACACACGGCGT 59.937 47.619 6.77 6.77 30.32 5.68
202 250 2.478831 GGCGTTTTCCTTTTGCATTCA 58.521 42.857 0.00 0.00 0.00 2.57
203 251 3.066380 GGCGTTTTCCTTTTGCATTCAT 58.934 40.909 0.00 0.00 0.00 2.57
204 252 4.241681 GGCGTTTTCCTTTTGCATTCATA 58.758 39.130 0.00 0.00 0.00 2.15
221 269 7.827729 TGCATTCATATTCCAGATATTGAGGAG 59.172 37.037 0.00 0.00 32.11 3.69
267 317 1.014044 GTCGTGCCATTCGAGCTTCA 61.014 55.000 0.00 0.00 37.99 3.02
280 330 2.728839 CGAGCTTCATATCGAGCTTTCC 59.271 50.000 9.97 0.00 41.40 3.13
281 331 2.728839 GAGCTTCATATCGAGCTTTCCG 59.271 50.000 9.97 0.00 37.79 4.30
282 332 2.101582 AGCTTCATATCGAGCTTTCCGT 59.898 45.455 3.98 0.00 33.34 4.69
286 336 4.642445 TCATATCGAGCTTTCCGTGTAA 57.358 40.909 0.00 0.00 0.00 2.41
293 360 5.953183 TCGAGCTTTCCGTGTAAGTATTTA 58.047 37.500 0.00 0.00 0.00 1.40
300 367 6.519353 TTCCGTGTAAGTATTTATCATGCG 57.481 37.500 0.00 0.00 0.00 4.73
303 370 7.372714 TCCGTGTAAGTATTTATCATGCGTAT 58.627 34.615 0.00 0.00 0.00 3.06
309 376 5.931532 AGTATTTATCATGCGTATGCTTGC 58.068 37.500 16.04 2.96 43.81 4.01
317 384 1.226211 CGTATGCTTGCAGTGCAGC 60.226 57.895 24.04 24.04 44.04 5.25
319 386 1.001764 TATGCTTGCAGTGCAGCCT 60.002 52.632 26.22 21.42 44.04 4.58
336 403 3.564262 CTGCTGGATTCAGAAGGCA 57.436 52.632 4.75 0.00 41.92 4.75
337 404 1.093159 CTGCTGGATTCAGAAGGCAC 58.907 55.000 4.75 0.00 41.92 5.01
338 405 0.322816 TGCTGGATTCAGAAGGCACC 60.323 55.000 4.75 0.00 43.49 5.01
339 406 0.322816 GCTGGATTCAGAAGGCACCA 60.323 55.000 4.75 0.00 43.49 4.17
340 407 1.457346 CTGGATTCAGAAGGCACCAC 58.543 55.000 0.00 0.00 43.49 4.16
341 408 0.321564 TGGATTCAGAAGGCACCACG 60.322 55.000 0.00 0.00 0.00 4.94
342 409 1.648467 GGATTCAGAAGGCACCACGC 61.648 60.000 0.00 0.00 41.28 5.34
366 433 1.136224 CCTTCGCTGCTTCTTTCGTTC 60.136 52.381 0.00 0.00 0.00 3.95
367 434 0.506932 TTCGCTGCTTCTTTCGTTCG 59.493 50.000 0.00 0.00 0.00 3.95
368 435 0.596600 TCGCTGCTTCTTTCGTTCGT 60.597 50.000 0.00 0.00 0.00 3.85
377 444 3.213009 TTTCGTTCGTTGTCGCCGC 62.213 57.895 0.00 0.00 36.96 6.53
381 448 2.017783 GTTCGTTGTCGCCGCTGTA 61.018 57.895 0.00 0.00 36.96 2.74
394 477 1.811679 GCTGTACAGGAAGCGAGCC 60.812 63.158 23.95 0.38 0.00 4.70
501 592 1.690893 CGGGTCAGATGGATGATCACT 59.309 52.381 0.00 0.00 31.55 3.41
503 594 2.702478 GGGTCAGATGGATGATCACTGA 59.298 50.000 8.48 8.48 31.55 3.41
523 641 3.118884 TGACCGTCTGTCCTATTTAAGCC 60.119 47.826 0.00 0.00 43.78 4.35
589 707 1.372251 GCGACGAGCGATGATGGAT 60.372 57.895 0.00 0.00 44.57 3.41
590 708 0.109735 GCGACGAGCGATGATGGATA 60.110 55.000 0.00 0.00 44.57 2.59
591 709 1.607713 CGACGAGCGATGATGGATAC 58.392 55.000 0.00 0.00 44.57 2.24
592 710 1.197949 CGACGAGCGATGATGGATACT 59.802 52.381 0.00 0.00 44.57 2.12
593 711 2.415512 CGACGAGCGATGATGGATACTA 59.584 50.000 0.00 0.00 44.57 1.82
594 712 3.725305 CGACGAGCGATGATGGATACTAC 60.725 52.174 0.00 0.00 44.57 2.73
596 714 4.576879 ACGAGCGATGATGGATACTACTA 58.423 43.478 0.00 0.00 37.61 1.82
598 716 6.346896 ACGAGCGATGATGGATACTACTATA 58.653 40.000 0.00 0.00 37.61 1.31
599 717 6.258287 ACGAGCGATGATGGATACTACTATAC 59.742 42.308 0.00 0.00 37.61 1.47
600 718 6.480651 CGAGCGATGATGGATACTACTATACT 59.519 42.308 0.00 0.00 37.61 2.12
604 728 8.552865 GCGATGATGGATACTACTATACTACAG 58.447 40.741 0.00 0.00 37.61 2.74
628 752 9.632807 CAGATCCAAATAGAGCAGTAATACTAC 57.367 37.037 0.00 0.00 0.00 2.73
630 754 7.578310 TCCAAATAGAGCAGTAATACTACGT 57.422 36.000 0.00 0.00 32.87 3.57
676 800 1.576421 GCTTTGCCACTTCGAGGTG 59.424 57.895 19.96 19.96 37.00 4.00
696 820 2.620112 CCGCCTGCTGTTGGAACTG 61.620 63.158 0.00 0.00 0.00 3.16
699 823 0.746659 GCCTGCTGTTGGAACTGTTT 59.253 50.000 0.00 0.00 0.00 2.83
707 831 4.504097 GCTGTTGGAACTGTTTCATTTCAC 59.496 41.667 1.66 0.00 32.80 3.18
726 850 4.584874 TCACAAGACTTTTGGTTCTGTCA 58.415 39.130 1.62 0.00 32.41 3.58
745 869 2.684192 ATCGCTCCTCCGTCGATCCT 62.684 60.000 0.00 0.00 38.40 3.24
803 939 2.442212 TTTCCGTGCAGATACGACAA 57.558 45.000 0.00 0.00 46.46 3.18
828 964 4.662961 CTGACGGTGAGTGCGGCA 62.663 66.667 0.00 0.00 0.00 5.69
829 965 4.662961 TGACGGTGAGTGCGGCAG 62.663 66.667 1.18 0.00 0.00 4.85
903 1054 4.388499 TTCGCCTCACCGAAGCCC 62.388 66.667 0.00 0.00 41.75 5.19
1059 1228 2.122954 ACGCCCCTCTCCTTCCTT 59.877 61.111 0.00 0.00 0.00 3.36
1221 1390 3.782046 CCACGTGGTAAGTAAGATCCAG 58.218 50.000 26.95 0.00 0.00 3.86
1225 1394 4.158025 ACGTGGTAAGTAAGATCCAGACAG 59.842 45.833 0.00 0.00 0.00 3.51
1227 1396 5.652518 GTGGTAAGTAAGATCCAGACAGAC 58.347 45.833 0.00 0.00 0.00 3.51
1228 1397 4.710375 TGGTAAGTAAGATCCAGACAGACC 59.290 45.833 0.00 0.00 0.00 3.85
1229 1398 4.710375 GGTAAGTAAGATCCAGACAGACCA 59.290 45.833 0.00 0.00 0.00 4.02
1232 1401 4.020543 AGTAAGATCCAGACAGACCAGAC 58.979 47.826 0.00 0.00 0.00 3.51
1233 1402 2.612285 AGATCCAGACAGACCAGACA 57.388 50.000 0.00 0.00 0.00 3.41
1236 1405 1.179174 TCCAGACAGACCAGACACCG 61.179 60.000 0.00 0.00 0.00 4.94
1237 1406 1.373497 CAGACAGACCAGACACCGC 60.373 63.158 0.00 0.00 0.00 5.68
1238 1407 2.048127 GACAGACCAGACACCGCC 60.048 66.667 0.00 0.00 0.00 6.13
1239 1408 3.916392 GACAGACCAGACACCGCCG 62.916 68.421 0.00 0.00 0.00 6.46
1260 1429 3.987404 GCAATCAGCCAACTCCGT 58.013 55.556 0.00 0.00 37.23 4.69
1261 1430 2.257353 GCAATCAGCCAACTCCGTT 58.743 52.632 0.00 0.00 37.23 4.44
1262 1431 0.109597 GCAATCAGCCAACTCCGTTG 60.110 55.000 0.00 0.00 42.49 4.10
1263 1432 1.238439 CAATCAGCCAACTCCGTTGT 58.762 50.000 6.06 0.00 41.41 3.32
1265 1434 0.321653 ATCAGCCAACTCCGTTGTCC 60.322 55.000 6.06 0.00 41.41 4.02
1266 1435 1.071471 CAGCCAACTCCGTTGTCCT 59.929 57.895 6.06 0.07 41.41 3.85
1268 1437 1.053424 AGCCAACTCCGTTGTCCTTA 58.947 50.000 6.06 0.00 41.41 2.69
1269 1438 1.002087 AGCCAACTCCGTTGTCCTTAG 59.998 52.381 6.06 0.00 41.41 2.18
1271 1440 1.270625 CCAACTCCGTTGTCCTTAGCA 60.271 52.381 6.06 0.00 41.41 3.49
1273 1442 2.386661 ACTCCGTTGTCCTTAGCATG 57.613 50.000 0.00 0.00 0.00 4.06
1274 1443 1.899814 ACTCCGTTGTCCTTAGCATGA 59.100 47.619 0.00 0.00 0.00 3.07
1275 1444 2.301870 ACTCCGTTGTCCTTAGCATGAA 59.698 45.455 0.00 0.00 0.00 2.57
1276 1445 3.244422 ACTCCGTTGTCCTTAGCATGAAA 60.244 43.478 0.00 0.00 0.00 2.69
1277 1446 3.745799 TCCGTTGTCCTTAGCATGAAAA 58.254 40.909 0.00 0.00 0.00 2.29
1278 1447 4.138290 TCCGTTGTCCTTAGCATGAAAAA 58.862 39.130 0.00 0.00 0.00 1.94
1279 1448 4.023536 TCCGTTGTCCTTAGCATGAAAAAC 60.024 41.667 0.00 0.00 0.00 2.43
1280 1449 4.023193 CCGTTGTCCTTAGCATGAAAAACT 60.023 41.667 0.00 0.00 0.00 2.66
1281 1450 5.147162 CGTTGTCCTTAGCATGAAAAACTC 58.853 41.667 0.00 0.00 0.00 3.01
1282 1451 5.049405 CGTTGTCCTTAGCATGAAAAACTCT 60.049 40.000 0.00 0.00 0.00 3.24
1283 1452 6.513393 CGTTGTCCTTAGCATGAAAAACTCTT 60.513 38.462 0.00 0.00 0.00 2.85
1284 1453 6.317789 TGTCCTTAGCATGAAAAACTCTTG 57.682 37.500 0.00 0.00 33.34 3.02
1291 1460 4.171754 GCATGAAAAACTCTTGCTCATCC 58.828 43.478 0.00 0.00 46.66 3.51
1292 1461 4.741342 CATGAAAAACTCTTGCTCATCCC 58.259 43.478 0.00 0.00 0.00 3.85
1295 1498 2.503895 AAACTCTTGCTCATCCCCTG 57.496 50.000 0.00 0.00 0.00 4.45
1323 1526 0.163788 CGTCATCGCAACAGTCAACC 59.836 55.000 0.00 0.00 0.00 3.77
1325 1528 0.249699 TCATCGCAACAGTCAACCGT 60.250 50.000 0.00 0.00 0.00 4.83
1362 1565 4.078363 TCCAAAAATCGTCATCTTTCGC 57.922 40.909 0.00 0.00 0.00 4.70
1363 1566 2.840176 CCAAAAATCGTCATCTTTCGCG 59.160 45.455 0.00 0.00 0.00 5.87
1364 1567 2.159467 AAAATCGTCATCTTTCGCGC 57.841 45.000 0.00 0.00 0.00 6.86
1365 1568 0.025001 AAATCGTCATCTTTCGCGCG 59.975 50.000 26.76 26.76 0.00 6.86
1366 1569 1.076533 AATCGTCATCTTTCGCGCGT 61.077 50.000 30.98 6.92 0.00 6.01
1367 1570 1.742900 ATCGTCATCTTTCGCGCGTG 61.743 55.000 30.98 20.22 0.00 5.34
1368 1571 2.276058 GTCATCTTTCGCGCGTGC 60.276 61.111 30.98 11.84 37.91 5.34
1369 1572 2.432456 TCATCTTTCGCGCGTGCT 60.432 55.556 30.98 10.06 39.65 4.40
1370 1573 2.020559 CATCTTTCGCGCGTGCTC 59.979 61.111 30.98 0.00 39.65 4.26
1371 1574 3.545481 ATCTTTCGCGCGTGCTCG 61.545 61.111 30.98 14.53 39.65 5.03
1386 1589 4.656117 TCGCGCGACCTGCTGAAA 62.656 61.111 31.40 1.45 43.27 2.69
1387 1590 3.711842 CGCGCGACCTGCTGAAAA 61.712 61.111 28.94 0.00 43.27 2.29
1388 1591 2.637025 GCGCGACCTGCTGAAAAA 59.363 55.556 12.10 0.00 43.27 1.94
1389 1592 1.210155 GCGCGACCTGCTGAAAAAT 59.790 52.632 12.10 0.00 43.27 1.82
1390 1593 0.794605 GCGCGACCTGCTGAAAAATC 60.795 55.000 12.10 0.00 43.27 2.17
1391 1594 0.179189 CGCGACCTGCTGAAAAATCC 60.179 55.000 0.00 0.00 43.27 3.01
1392 1595 1.168714 GCGACCTGCTGAAAAATCCT 58.831 50.000 0.00 0.00 41.73 3.24
1393 1596 1.541588 GCGACCTGCTGAAAAATCCTT 59.458 47.619 0.00 0.00 41.73 3.36
1394 1597 2.414691 GCGACCTGCTGAAAAATCCTTC 60.415 50.000 0.00 0.00 41.73 3.46
1395 1598 3.077359 CGACCTGCTGAAAAATCCTTCT 58.923 45.455 0.00 0.00 0.00 2.85
1396 1599 3.503748 CGACCTGCTGAAAAATCCTTCTT 59.496 43.478 0.00 0.00 0.00 2.52
1397 1600 4.614535 CGACCTGCTGAAAAATCCTTCTTG 60.615 45.833 0.00 0.00 0.00 3.02
1398 1601 3.006217 ACCTGCTGAAAAATCCTTCTTGC 59.994 43.478 0.00 0.00 0.00 4.01
1399 1602 3.582780 CTGCTGAAAAATCCTTCTTGCC 58.417 45.455 0.00 0.00 0.00 4.52
1400 1603 2.030007 TGCTGAAAAATCCTTCTTGCCG 60.030 45.455 0.00 0.00 0.00 5.69
1401 1604 2.672195 GCTGAAAAATCCTTCTTGCCGG 60.672 50.000 0.00 0.00 0.00 6.13
1402 1605 1.892474 TGAAAAATCCTTCTTGCCGGG 59.108 47.619 2.18 0.00 0.00 5.73
1403 1606 2.167662 GAAAAATCCTTCTTGCCGGGA 58.832 47.619 2.18 0.00 0.00 5.14
1404 1607 1.545841 AAAATCCTTCTTGCCGGGAC 58.454 50.000 2.18 0.00 31.48 4.46
1405 1608 0.323451 AAATCCTTCTTGCCGGGACC 60.323 55.000 2.18 0.00 31.48 4.46
1406 1609 2.536997 AATCCTTCTTGCCGGGACCG 62.537 60.000 2.18 3.25 39.44 4.79
1407 1610 3.702048 CCTTCTTGCCGGGACCGA 61.702 66.667 13.13 0.00 42.83 4.69
1408 1611 2.584608 CTTCTTGCCGGGACCGAT 59.415 61.111 13.13 0.00 42.83 4.18
1409 1612 1.078426 CTTCTTGCCGGGACCGATT 60.078 57.895 13.13 0.00 42.83 3.34
1410 1613 1.078708 TTCTTGCCGGGACCGATTC 60.079 57.895 13.13 1.70 42.83 2.52
1413 1616 3.652539 TTGCCGGGACCGATTCGTC 62.653 63.158 13.13 3.08 42.83 4.20
1429 1632 2.038329 TCCCGGACCGGTTCTGAT 59.962 61.111 30.60 0.00 46.80 2.90
1728 1948 1.065401 GTCGTCCTCATCAGAGAGCTG 59.935 57.143 0.00 0.00 44.98 4.24
1770 1993 5.182001 CGGATCAACATCTTCTTTTTCTGGT 59.818 40.000 0.00 0.00 0.00 4.00
1771 1994 6.385033 GGATCAACATCTTCTTTTTCTGGTG 58.615 40.000 0.00 0.00 0.00 4.17
1779 2002 1.153127 TTTTTCTGGTGCGACGGGT 60.153 52.632 0.00 0.00 0.00 5.28
1951 2174 1.608717 CTACCTCAACAGCCTCGCCT 61.609 60.000 0.00 0.00 0.00 5.52
2001 2224 1.530013 CGGTGTACCTCTGGACGGTT 61.530 60.000 0.00 0.00 35.98 4.44
2971 3246 1.471684 CCACCAGCAAGCTCTGAATTC 59.528 52.381 4.03 0.00 36.19 2.17
3172 3569 5.871465 TGAGTGCTAGAGCTATTATCTCG 57.129 43.478 2.72 0.00 42.66 4.04
3173 3570 4.155099 TGAGTGCTAGAGCTATTATCTCGC 59.845 45.833 2.72 0.00 42.66 5.03
3174 3571 4.331968 AGTGCTAGAGCTATTATCTCGCT 58.668 43.478 2.72 0.00 42.66 4.93
3175 3572 5.492895 AGTGCTAGAGCTATTATCTCGCTA 58.507 41.667 2.72 0.00 42.66 4.26
3176 3573 6.119536 AGTGCTAGAGCTATTATCTCGCTAT 58.880 40.000 2.72 0.00 42.66 2.97
3177 3574 7.276658 AGTGCTAGAGCTATTATCTCGCTATA 58.723 38.462 2.72 0.00 42.66 1.31
3178 3575 7.936847 AGTGCTAGAGCTATTATCTCGCTATAT 59.063 37.037 2.72 0.00 42.66 0.86
3179 3576 8.015087 GTGCTAGAGCTATTATCTCGCTATATG 58.985 40.741 2.72 0.00 42.66 1.78
3180 3577 7.717436 TGCTAGAGCTATTATCTCGCTATATGT 59.283 37.037 2.72 0.00 42.66 2.29
3181 3578 8.015087 GCTAGAGCTATTATCTCGCTATATGTG 58.985 40.741 0.00 0.00 33.84 3.21
3182 3579 7.873719 AGAGCTATTATCTCGCTATATGTGT 57.126 36.000 0.00 0.00 35.79 3.72
3183 3580 8.966069 AGAGCTATTATCTCGCTATATGTGTA 57.034 34.615 0.00 0.00 35.79 2.90
3184 3581 9.051679 AGAGCTATTATCTCGCTATATGTGTAG 57.948 37.037 0.00 0.00 35.79 2.74
3185 3582 8.160521 AGCTATTATCTCGCTATATGTGTAGG 57.839 38.462 0.00 0.00 31.12 3.18
3186 3583 7.229707 AGCTATTATCTCGCTATATGTGTAGGG 59.770 40.741 0.00 0.00 36.33 3.53
3189 3586 2.377531 TCTCGCTATATGTGTAGGGGGA 59.622 50.000 0.33 0.33 40.55 4.81
3192 3589 2.188817 GCTATATGTGTAGGGGGAGGG 58.811 57.143 0.00 0.00 0.00 4.30
3215 3612 7.138054 GGGGGTTATCACTTCTATATATGGG 57.862 44.000 0.00 0.00 0.00 4.00
3216 3613 6.677076 GGGGGTTATCACTTCTATATATGGGT 59.323 42.308 0.00 0.00 0.00 4.51
3217 3614 7.847848 GGGGGTTATCACTTCTATATATGGGTA 59.152 40.741 0.00 0.00 0.00 3.69
3218 3615 9.275572 GGGGTTATCACTTCTATATATGGGTAA 57.724 37.037 0.00 0.00 0.00 2.85
3260 3657 4.760715 CCATTTTCAAATTGTGGGCATGAA 59.239 37.500 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 1.152881 GCACCTGGGGGATCATGAC 60.153 63.158 0.00 0.00 36.25 3.06
54 55 2.276740 GGATTCAGGCACCTGGGG 59.723 66.667 16.52 0.00 43.75 4.96
105 141 5.613795 CGAAATTACGCTCAACAGTTAGCAA 60.614 40.000 12.43 4.10 38.70 3.91
166 204 1.062880 ACGCCGTGTGTAAACAAACAG 59.937 47.619 4.39 0.00 33.72 3.16
174 212 1.666054 AAGGAAAACGCCGTGTGTAA 58.334 45.000 0.00 0.00 0.00 2.41
176 214 0.812549 AAAAGGAAAACGCCGTGTGT 59.187 45.000 0.00 0.00 0.00 3.72
178 216 0.526739 GCAAAAGGAAAACGCCGTGT 60.527 50.000 0.00 0.00 0.00 4.49
180 218 0.387565 ATGCAAAAGGAAAACGCCGT 59.612 45.000 0.00 0.00 0.00 5.68
181 219 1.455408 GAATGCAAAAGGAAAACGCCG 59.545 47.619 0.00 0.00 0.00 6.46
182 220 2.478831 TGAATGCAAAAGGAAAACGCC 58.521 42.857 0.00 0.00 0.00 5.68
185 223 7.818930 TCTGGAATATGAATGCAAAAGGAAAAC 59.181 33.333 0.00 0.00 0.00 2.43
186 224 7.905265 TCTGGAATATGAATGCAAAAGGAAAA 58.095 30.769 0.00 0.00 0.00 2.29
202 250 8.733092 TCACTTCTCCTCAATATCTGGAATAT 57.267 34.615 0.00 0.00 0.00 1.28
203 251 8.591940 CATCACTTCTCCTCAATATCTGGAATA 58.408 37.037 0.00 0.00 0.00 1.75
204 252 7.451732 CATCACTTCTCCTCAATATCTGGAAT 58.548 38.462 0.00 0.00 0.00 3.01
221 269 2.483877 TGGTTCATTCACGCATCACTTC 59.516 45.455 0.00 0.00 0.00 3.01
251 299 2.156504 CGATATGAAGCTCGAATGGCAC 59.843 50.000 0.00 0.00 37.05 5.01
254 304 2.665537 GCTCGATATGAAGCTCGAATGG 59.334 50.000 0.00 0.00 42.73 3.16
267 317 4.650754 ACTTACACGGAAAGCTCGATAT 57.349 40.909 0.00 0.00 0.00 1.63
277 327 6.044046 ACGCATGATAAATACTTACACGGAA 58.956 36.000 0.00 0.00 0.00 4.30
280 330 6.948228 GCATACGCATGATAAATACTTACACG 59.052 38.462 0.00 0.00 38.36 4.49
281 331 8.018677 AGCATACGCATGATAAATACTTACAC 57.981 34.615 0.00 0.00 42.27 2.90
282 332 8.495148 CAAGCATACGCATGATAAATACTTACA 58.505 33.333 0.00 0.00 39.19 2.41
286 336 5.469760 TGCAAGCATACGCATGATAAATACT 59.530 36.000 0.00 0.00 39.19 2.12
293 360 1.332686 CACTGCAAGCATACGCATGAT 59.667 47.619 0.00 0.00 39.19 2.45
300 367 1.138247 GGCTGCACTGCAAGCATAC 59.862 57.895 20.16 9.03 41.82 2.39
303 370 3.292159 CAGGCTGCACTGCAAGCA 61.292 61.111 20.16 12.35 38.41 3.91
319 386 0.322816 GGTGCCTTCTGAATCCAGCA 60.323 55.000 12.01 7.32 40.20 4.41
336 403 3.626924 AGCGAAGGAAGGCGTGGT 61.627 61.111 0.00 0.00 0.00 4.16
337 404 3.121030 CAGCGAAGGAAGGCGTGG 61.121 66.667 0.00 0.00 0.00 4.94
338 405 3.793144 GCAGCGAAGGAAGGCGTG 61.793 66.667 0.00 0.00 0.00 5.34
339 406 3.537206 AAGCAGCGAAGGAAGGCGT 62.537 57.895 0.00 0.00 0.00 5.68
340 407 2.743928 AAGCAGCGAAGGAAGGCG 60.744 61.111 0.00 0.00 0.00 5.52
341 408 0.957888 AAGAAGCAGCGAAGGAAGGC 60.958 55.000 0.00 0.00 0.00 4.35
342 409 1.466558 GAAAGAAGCAGCGAAGGAAGG 59.533 52.381 0.00 0.00 0.00 3.46
343 410 1.127582 CGAAAGAAGCAGCGAAGGAAG 59.872 52.381 0.00 0.00 0.00 3.46
344 411 1.148310 CGAAAGAAGCAGCGAAGGAA 58.852 50.000 0.00 0.00 0.00 3.36
345 412 0.033504 ACGAAAGAAGCAGCGAAGGA 59.966 50.000 0.00 0.00 0.00 3.36
366 433 2.716828 CTGTACAGCGGCGACAACG 61.717 63.158 12.98 0.00 42.93 4.10
367 434 2.380410 CCTGTACAGCGGCGACAAC 61.380 63.158 17.86 2.84 0.00 3.32
368 435 2.048597 CCTGTACAGCGGCGACAA 60.049 61.111 17.86 0.00 0.00 3.18
377 444 1.517257 CGGCTCGCTTCCTGTACAG 60.517 63.158 16.34 16.34 0.00 2.74
394 477 3.055045 CGCGTTTTGCTTGATGCG 58.945 55.556 0.00 6.11 46.63 4.73
449 532 4.102649 CAACTTCCAACCAACGAGAAAAC 58.897 43.478 0.00 0.00 0.00 2.43
478 565 1.772819 ATCATCCATCTGACCCGGCC 61.773 60.000 0.00 0.00 0.00 6.13
488 579 2.363680 AGACGGTCAGTGATCATCCATC 59.636 50.000 11.27 0.00 0.00 3.51
503 594 2.169978 GGGCTTAAATAGGACAGACGGT 59.830 50.000 0.00 0.00 0.00 4.83
593 711 8.941995 TGCTCTATTTGGATCTGTAGTATAGT 57.058 34.615 0.00 0.00 0.00 2.12
594 712 9.019656 ACTGCTCTATTTGGATCTGTAGTATAG 57.980 37.037 0.00 0.00 0.00 1.31
596 714 7.847711 ACTGCTCTATTTGGATCTGTAGTAT 57.152 36.000 0.00 0.00 0.00 2.12
598 716 7.661536 TTACTGCTCTATTTGGATCTGTAGT 57.338 36.000 0.00 0.00 0.00 2.73
599 717 9.632807 GTATTACTGCTCTATTTGGATCTGTAG 57.367 37.037 0.00 0.00 0.00 2.74
600 718 9.368416 AGTATTACTGCTCTATTTGGATCTGTA 57.632 33.333 0.00 0.00 0.00 2.74
604 728 8.298140 ACGTAGTATTACTGCTCTATTTGGATC 58.702 37.037 6.60 0.00 41.94 3.36
628 752 3.057734 AGACGCAACTCTAAAAGGAACG 58.942 45.455 0.00 0.00 0.00 3.95
630 754 4.056050 GTCAGACGCAACTCTAAAAGGAA 58.944 43.478 0.00 0.00 0.00 3.36
677 801 4.043200 GTTCCAACAGCAGGCGGC 62.043 66.667 0.00 0.00 45.30 6.53
678 802 2.281761 AGTTCCAACAGCAGGCGG 60.282 61.111 0.00 0.00 0.00 6.13
682 806 3.996150 ATGAAACAGTTCCAACAGCAG 57.004 42.857 0.00 0.00 32.28 4.24
691 815 8.375465 CAAAAGTCTTGTGAAATGAAACAGTTC 58.625 33.333 0.00 5.23 38.66 3.01
696 820 7.545615 AGAACCAAAAGTCTTGTGAAATGAAAC 59.454 33.333 4.16 0.00 0.00 2.78
699 823 6.152661 ACAGAACCAAAAGTCTTGTGAAATGA 59.847 34.615 4.16 0.00 0.00 2.57
707 831 4.776743 CGATGACAGAACCAAAAGTCTTG 58.223 43.478 0.00 0.00 32.41 3.02
726 850 2.262303 GGATCGACGGAGGAGCGAT 61.262 63.158 0.00 0.00 46.22 4.58
803 939 1.244697 ACTCACCGTCAGCGTCATCT 61.245 55.000 0.00 0.00 36.15 2.90
843 991 0.748367 TATCGAGTGGAGCAGAGCGT 60.748 55.000 0.00 0.00 0.00 5.07
903 1054 3.821033 TGGTGGGTTTGTTTTTGGTTTTG 59.179 39.130 0.00 0.00 0.00 2.44
1221 1390 2.048127 GGCGGTGTCTGGTCTGTC 60.048 66.667 0.00 0.00 0.00 3.51
1243 1412 3.987404 ACGGAGTTGGCTGATTGC 58.013 55.556 0.00 0.00 37.78 3.56
1256 1425 3.410631 TTTCATGCTAAGGACAACGGA 57.589 42.857 0.00 0.00 0.00 4.69
1257 1426 4.023193 AGTTTTTCATGCTAAGGACAACGG 60.023 41.667 0.00 0.00 0.00 4.44
1258 1427 5.049405 AGAGTTTTTCATGCTAAGGACAACG 60.049 40.000 0.00 0.00 0.00 4.10
1259 1428 6.319141 AGAGTTTTTCATGCTAAGGACAAC 57.681 37.500 0.00 0.00 0.00 3.32
1260 1429 6.735694 GCAAGAGTTTTTCATGCTAAGGACAA 60.736 38.462 0.00 0.00 44.86 3.18
1261 1430 5.278463 GCAAGAGTTTTTCATGCTAAGGACA 60.278 40.000 0.00 0.00 44.86 4.02
1262 1431 5.157067 GCAAGAGTTTTTCATGCTAAGGAC 58.843 41.667 0.00 0.00 44.86 3.85
1263 1432 5.376854 GCAAGAGTTTTTCATGCTAAGGA 57.623 39.130 0.00 0.00 44.86 3.36
1271 1440 3.766051 GGGGATGAGCAAGAGTTTTTCAT 59.234 43.478 0.00 0.00 0.00 2.57
1273 1442 3.192212 CAGGGGATGAGCAAGAGTTTTTC 59.808 47.826 0.00 0.00 0.00 2.29
1274 1443 3.160269 CAGGGGATGAGCAAGAGTTTTT 58.840 45.455 0.00 0.00 0.00 1.94
1275 1444 2.800250 CAGGGGATGAGCAAGAGTTTT 58.200 47.619 0.00 0.00 0.00 2.43
1276 1445 1.615384 GCAGGGGATGAGCAAGAGTTT 60.615 52.381 0.00 0.00 0.00 2.66
1277 1446 0.034670 GCAGGGGATGAGCAAGAGTT 60.035 55.000 0.00 0.00 0.00 3.01
1278 1447 0.913451 AGCAGGGGATGAGCAAGAGT 60.913 55.000 0.00 0.00 0.00 3.24
1279 1448 0.179051 GAGCAGGGGATGAGCAAGAG 60.179 60.000 0.00 0.00 0.00 2.85
1280 1449 0.619832 AGAGCAGGGGATGAGCAAGA 60.620 55.000 0.00 0.00 0.00 3.02
1281 1450 0.179051 GAGAGCAGGGGATGAGCAAG 60.179 60.000 0.00 0.00 0.00 4.01
1282 1451 1.630126 GGAGAGCAGGGGATGAGCAA 61.630 60.000 0.00 0.00 0.00 3.91
1283 1452 2.068821 GGAGAGCAGGGGATGAGCA 61.069 63.158 0.00 0.00 0.00 4.26
1284 1453 2.828145 GGAGAGCAGGGGATGAGC 59.172 66.667 0.00 0.00 0.00 4.26
1285 1454 1.743321 GACGGAGAGCAGGGGATGAG 61.743 65.000 0.00 0.00 0.00 2.90
1289 1458 4.361971 ACGACGGAGAGCAGGGGA 62.362 66.667 0.00 0.00 0.00 4.81
1290 1459 3.827898 GACGACGGAGAGCAGGGG 61.828 72.222 0.00 0.00 0.00 4.79
1291 1460 2.343163 GATGACGACGGAGAGCAGGG 62.343 65.000 0.00 0.00 0.00 4.45
1292 1461 1.064946 GATGACGACGGAGAGCAGG 59.935 63.158 0.00 0.00 0.00 4.85
1295 1498 2.652496 GCGATGACGACGGAGAGC 60.652 66.667 0.00 0.00 42.66 4.09
1352 1555 2.432456 AGCACGCGCGAAAGATGA 60.432 55.556 39.36 0.00 45.49 2.92
1373 1576 1.168714 AGGATTTTTCAGCAGGTCGC 58.831 50.000 0.00 0.00 42.91 5.19
1374 1577 3.077359 AGAAGGATTTTTCAGCAGGTCG 58.923 45.455 0.00 0.00 0.00 4.79
1375 1578 4.802999 CAAGAAGGATTTTTCAGCAGGTC 58.197 43.478 0.00 0.00 0.00 3.85
1376 1579 3.006217 GCAAGAAGGATTTTTCAGCAGGT 59.994 43.478 0.00 0.00 33.40 4.00
1377 1580 3.582780 GCAAGAAGGATTTTTCAGCAGG 58.417 45.455 0.00 0.00 33.40 4.85
1378 1581 3.582780 GGCAAGAAGGATTTTTCAGCAG 58.417 45.455 0.00 0.00 34.25 4.24
1379 1582 2.030007 CGGCAAGAAGGATTTTTCAGCA 60.030 45.455 0.00 0.00 34.25 4.41
1380 1583 2.599659 CGGCAAGAAGGATTTTTCAGC 58.400 47.619 0.00 0.00 32.81 4.26
1381 1584 2.094545 CCCGGCAAGAAGGATTTTTCAG 60.095 50.000 0.00 0.00 0.00 3.02
1382 1585 1.892474 CCCGGCAAGAAGGATTTTTCA 59.108 47.619 0.00 0.00 0.00 2.69
1383 1586 2.094700 GTCCCGGCAAGAAGGATTTTTC 60.095 50.000 0.00 0.00 30.92 2.29
1384 1587 1.893137 GTCCCGGCAAGAAGGATTTTT 59.107 47.619 0.00 0.00 30.92 1.94
1385 1588 1.545841 GTCCCGGCAAGAAGGATTTT 58.454 50.000 0.00 0.00 30.92 1.82
1386 1589 0.323451 GGTCCCGGCAAGAAGGATTT 60.323 55.000 0.00 0.00 30.92 2.17
1387 1590 1.303282 GGTCCCGGCAAGAAGGATT 59.697 57.895 0.00 0.00 30.92 3.01
1388 1591 2.998949 GGTCCCGGCAAGAAGGAT 59.001 61.111 0.00 0.00 30.92 3.24
1389 1592 3.702048 CGGTCCCGGCAAGAAGGA 61.702 66.667 0.00 0.00 35.56 3.36
1390 1593 2.536997 AATCGGTCCCGGCAAGAAGG 62.537 60.000 5.80 0.00 40.25 3.46
1391 1594 1.078426 AATCGGTCCCGGCAAGAAG 60.078 57.895 5.80 0.00 40.25 2.85
1392 1595 1.078708 GAATCGGTCCCGGCAAGAA 60.079 57.895 5.80 0.00 40.25 2.52
1393 1596 2.582436 GAATCGGTCCCGGCAAGA 59.418 61.111 5.80 0.00 40.25 3.02
1394 1597 2.890474 CGAATCGGTCCCGGCAAG 60.890 66.667 5.80 0.00 40.25 4.01
1395 1598 3.652539 GACGAATCGGTCCCGGCAA 62.653 63.158 7.80 0.00 40.25 4.52
1396 1599 4.137872 GACGAATCGGTCCCGGCA 62.138 66.667 7.80 0.00 40.25 5.69
1419 1622 2.802667 CGCAGCGAATCAGAACCGG 61.803 63.158 9.98 0.00 0.00 5.28
1443 1646 1.003355 CACAGCCGGTCAGAACCAT 60.003 57.895 1.90 0.00 46.86 3.55
1779 2002 1.640428 CCTCGTACTCGTACACGGTA 58.360 55.000 7.86 1.06 38.66 4.02
1784 2007 1.366679 CAGAGCCTCGTACTCGTACA 58.633 55.000 7.86 0.00 39.23 2.90
1786 2009 0.251354 ACCAGAGCCTCGTACTCGTA 59.749 55.000 0.00 0.00 39.23 3.43
1951 2174 2.355837 GTCGTTGAGCAGCACCGA 60.356 61.111 0.00 0.00 39.20 4.69
2001 2224 0.888736 CGTTGCAGTGGAACATGGGA 60.889 55.000 24.74 0.00 44.52 4.37
2971 3246 6.015010 CCATAGAACAGATTAGGGGAGTAGTG 60.015 46.154 0.00 0.00 0.00 2.74
3172 3569 2.188817 CCCTCCCCCTACACATATAGC 58.811 57.143 0.00 0.00 0.00 2.97
3173 3570 2.562214 CCCCCTCCCCCTACACATATAG 60.562 59.091 0.00 0.00 0.00 1.31
3174 3571 1.439543 CCCCCTCCCCCTACACATATA 59.560 57.143 0.00 0.00 0.00 0.86
3175 3572 0.196118 CCCCCTCCCCCTACACATAT 59.804 60.000 0.00 0.00 0.00 1.78
3176 3573 1.635631 CCCCCTCCCCCTACACATA 59.364 63.158 0.00 0.00 0.00 2.29
3177 3574 2.376842 CCCCCTCCCCCTACACAT 59.623 66.667 0.00 0.00 0.00 3.21
3192 3589 7.750947 ACCCATATATAGAAGTGATAACCCC 57.249 40.000 0.00 0.00 0.00 4.95
3211 3608 7.766736 AGGACTATCCTTTACTTTTACCCAT 57.233 36.000 0.00 0.00 46.91 4.00
3212 3609 7.126268 GGTAGGACTATCCTTTACTTTTACCCA 59.874 40.741 1.99 0.00 46.91 4.51
3213 3610 7.126268 TGGTAGGACTATCCTTTACTTTTACCC 59.874 40.741 1.99 0.00 46.91 3.69
3214 3611 8.082672 TGGTAGGACTATCCTTTACTTTTACC 57.917 38.462 1.99 2.76 46.91 2.85
3218 3615 9.682465 GAAAATGGTAGGACTATCCTTTACTTT 57.318 33.333 1.99 0.00 46.91 2.66
3219 3616 8.832735 TGAAAATGGTAGGACTATCCTTTACTT 58.167 33.333 1.99 0.00 46.91 2.24
3220 3617 8.388656 TGAAAATGGTAGGACTATCCTTTACT 57.611 34.615 1.99 0.00 46.91 2.24
3223 3620 9.547279 AATTTGAAAATGGTAGGACTATCCTTT 57.453 29.630 1.99 0.00 46.91 3.11
3260 3657 7.403312 AATGTCGAGATAATAGCTCTAGCAT 57.597 36.000 3.95 3.01 45.16 3.79


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

AutoCloner maintained by Alex Coulton.