Multiple sequence alignment - TraesCS5B01G164400

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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 TraesCS5B01G164400 chr5B 100.000 3168 0 0 1 3168 304607689 304604522 0.000000e+00 5851.0
1 TraesCS5B01G164400 chr5D 91.292 1711 94 26 669 2356 268884325 268882647 0.000000e+00 2283.0
2 TraesCS5B01G164400 chr5D 92.061 655 32 12 1 636 268884976 268884323 0.000000e+00 904.0
3 TraesCS5B01G164400 chr5D 89.579 499 23 8 2691 3168 268882211 268881721 9.720000e-170 606.0
4 TraesCS5B01G164400 chr5D 89.933 149 11 2 2424 2569 268882367 268882220 4.170000e-44 189.0
5 TraesCS5B01G164400 chr5D 95.714 70 3 0 2354 2423 268882624 268882555 2.580000e-21 113.0
6 TraesCS5B01G164400 chr5A 92.867 1416 59 15 1 1405 356479544 356478160 0.000000e+00 2017.0
7 TraesCS5B01G164400 chr5A 92.880 941 45 8 1426 2351 356476849 356475916 0.000000e+00 1347.0
8 TraesCS5B01G164400 chr5A 94.093 237 14 0 2668 2904 356475488 356475252 8.350000e-96 361.0
9 TraesCS5B01G164400 chr5A 92.593 243 10 1 2910 3152 356475213 356474979 3.030000e-90 342.0
10 TraesCS5B01G164400 chr1B 82.075 212 35 3 2958 3168 384230963 384230754 9.030000e-41 178.0
11 TraesCS5B01G164400 chr1D 80.628 191 35 2 2979 3168 444867467 444867278 2.550000e-31 147.0
12 TraesCS5B01G164400 chr4A 78.344 157 32 2 1103 1258 599467651 599467806 2.010000e-17 100.0
13 TraesCS5B01G164400 chr4A 75.949 158 34 4 1103 1258 606397645 606397800 9.420000e-11 78.7
14 TraesCS5B01G164400 chr7B 83.333 84 10 4 2423 2503 612395952 612395870 1.220000e-09 75.0
15 TraesCS5B01G164400 chr3A 97.059 34 1 0 2276 2309 446672490 446672457 1.230000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G164400 chr5B 304604522 304607689 3167 True 5851.00 5851 100.00000 1 3168 1 chr5B.!!$R1 3167
1 TraesCS5B01G164400 chr5D 268881721 268884976 3255 True 819.00 2283 91.71580 1 3168 5 chr5D.!!$R1 3167
2 TraesCS5B01G164400 chr5A 356474979 356479544 4565 True 1016.75 2017 93.10825 1 3152 4 chr5A.!!$R1 3151

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
633 659 0.10741 TCGGGATTGTTTCGGATGGG 60.107 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2620 4210 0.038618 GTTGGTTTGGATTGACGGCC 60.039 55.0 0.0 0.0 0.0 6.13 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
100 101 0.243907 AGCAGCTGCAGCAATTCTTG 59.756 50.000 38.24 26.81 45.16 3.02
223 224 4.310740 AGATGGTGGGACTATCAAAGGAT 58.689 43.478 3.32 0.00 38.39 3.24
346 347 1.653094 GCGATGATTTTGTCCGGGCA 61.653 55.000 3.51 3.51 0.00 5.36
371 372 2.071262 CAGGCTGGGAGGAGCTGAT 61.071 63.158 6.61 0.00 39.11 2.90
373 374 2.068821 GGCTGGGAGGAGCTGATCA 61.069 63.158 0.00 0.00 39.11 2.92
477 496 4.448060 GTGTAAACAGTCTAGCACTTGGAC 59.552 45.833 0.00 0.00 30.26 4.02
565 584 2.534298 CTCCTGCTGTCATCTGTTACG 58.466 52.381 0.00 0.00 0.00 3.18
569 588 3.067106 CTGCTGTCATCTGTTACGGTTT 58.933 45.455 0.00 0.00 0.00 3.27
570 589 3.472652 TGCTGTCATCTGTTACGGTTTT 58.527 40.909 0.00 0.00 0.00 2.43
571 590 3.880490 TGCTGTCATCTGTTACGGTTTTT 59.120 39.130 0.00 0.00 0.00 1.94
610 636 2.429739 GCGCTGGTTTTCTGCTGC 60.430 61.111 0.00 0.00 38.06 5.25
633 659 0.107410 TCGGGATTGTTTCGGATGGG 60.107 55.000 0.00 0.00 0.00 4.00
634 660 0.393808 CGGGATTGTTTCGGATGGGT 60.394 55.000 0.00 0.00 0.00 4.51
635 661 1.847328 GGGATTGTTTCGGATGGGTT 58.153 50.000 0.00 0.00 0.00 4.11
636 662 1.749063 GGGATTGTTTCGGATGGGTTC 59.251 52.381 0.00 0.00 0.00 3.62
637 663 2.620627 GGGATTGTTTCGGATGGGTTCT 60.621 50.000 0.00 0.00 0.00 3.01
638 664 2.683362 GGATTGTTTCGGATGGGTTCTC 59.317 50.000 0.00 0.00 0.00 2.87
639 665 3.610911 GATTGTTTCGGATGGGTTCTCT 58.389 45.455 0.00 0.00 0.00 3.10
640 666 3.502123 TTGTTTCGGATGGGTTCTCTT 57.498 42.857 0.00 0.00 0.00 2.85
641 667 3.053831 TGTTTCGGATGGGTTCTCTTC 57.946 47.619 0.00 0.00 0.00 2.87
720 749 1.135803 CGGGTTGCACGTATTGAAAGG 60.136 52.381 0.00 0.00 0.00 3.11
742 771 4.004982 GGCCACCGAAACTTGATTAACTA 58.995 43.478 0.00 0.00 0.00 2.24
777 808 1.482182 TGTAGTACGAGCTCGGTCCTA 59.518 52.381 36.93 27.68 44.95 2.94
890 936 0.452987 CCTTCACCAATCACCATGCG 59.547 55.000 0.00 0.00 0.00 4.73
1008 1054 6.419484 TTGAACTAGAGAAACATGTCCTCA 57.581 37.500 22.44 12.19 0.00 3.86
1010 1056 4.442375 ACTAGAGAAACATGTCCTCACG 57.558 45.455 22.44 16.65 0.00 4.35
1056 1102 2.202932 CTAGCGCATGCCGTCCTT 60.203 61.111 13.15 0.00 44.31 3.36
1129 1175 2.915659 TGTTCGGCGACTCCACCT 60.916 61.111 10.16 0.00 34.01 4.00
1137 1183 1.972223 CGACTCCACCTCGGACACT 60.972 63.158 0.00 0.00 39.64 3.55
1233 1279 4.699522 ACCGGCCGCTTCTCCAAC 62.700 66.667 22.85 0.00 0.00 3.77
1405 1451 1.140052 TCCCGGTAACCATGCATACTG 59.860 52.381 0.00 0.00 0.00 2.74
1406 1452 1.134220 CCCGGTAACCATGCATACTGT 60.134 52.381 0.00 0.00 0.00 3.55
1407 1453 2.103432 CCCGGTAACCATGCATACTGTA 59.897 50.000 0.00 0.00 0.00 2.74
1408 1454 3.390135 CCGGTAACCATGCATACTGTAG 58.610 50.000 0.00 0.00 0.00 2.74
1409 1455 3.181469 CCGGTAACCATGCATACTGTAGT 60.181 47.826 0.00 0.00 0.00 2.73
1414 1460 7.144000 GGTAACCATGCATACTGTAGTAGTAC 58.856 42.308 0.00 0.37 44.30 2.73
1415 1461 6.785337 AACCATGCATACTGTAGTAGTACA 57.215 37.500 10.01 10.01 44.30 2.90
1416 1462 6.785337 ACCATGCATACTGTAGTAGTACAA 57.215 37.500 11.49 0.00 44.30 2.41
1417 1463 6.806751 ACCATGCATACTGTAGTAGTACAAG 58.193 40.000 11.49 8.30 44.30 3.16
1419 1465 7.093465 ACCATGCATACTGTAGTAGTACAAGTT 60.093 37.037 11.49 2.41 44.30 2.66
1420 1466 7.435488 CCATGCATACTGTAGTAGTACAAGTTC 59.565 40.741 11.49 1.97 44.30 3.01
1421 1467 7.457024 TGCATACTGTAGTAGTACAAGTTCA 57.543 36.000 11.49 4.20 44.30 3.18
1422 1468 7.888424 TGCATACTGTAGTAGTACAAGTTCAA 58.112 34.615 11.49 0.00 44.30 2.69
1514 2849 0.888619 CTTCAGGCAGTACACGGAGA 59.111 55.000 0.00 0.00 0.00 3.71
1615 2950 3.182967 CGACTTCATGCAGAACTACCTC 58.817 50.000 0.00 0.00 31.61 3.85
1789 3124 2.741092 GCCGTCAACCTCCACAGA 59.259 61.111 0.00 0.00 0.00 3.41
1792 3127 1.372997 CGTCAACCTCCACAGACCG 60.373 63.158 0.00 0.00 0.00 4.79
1807 3142 4.760047 CCGGGGGACTGCAACGAG 62.760 72.222 0.00 0.00 34.42 4.18
1820 3155 1.424403 CAACGAGGCGTACAACATGA 58.576 50.000 0.00 0.00 39.99 3.07
1821 3156 1.999735 CAACGAGGCGTACAACATGAT 59.000 47.619 0.00 0.00 39.99 2.45
1826 3161 1.029408 GGCGTACAACATGATGGCCA 61.029 55.000 8.56 8.56 38.88 5.36
1962 3297 1.815003 GTGGGAGCATGGTTTTGAGAG 59.185 52.381 0.00 0.00 0.00 3.20
2089 3427 3.823330 GACGCCGTCCATCCGTCT 61.823 66.667 5.81 0.00 45.56 4.18
2095 3433 0.748367 CCGTCCATCCGTCTGAGAGA 60.748 60.000 0.00 0.00 0.00 3.10
2108 3446 1.336440 CTGAGAGAGCGTACAGGATGG 59.664 57.143 0.00 0.00 43.62 3.51
2131 3469 1.447317 CCGGCGCAATCCTAAATGCT 61.447 55.000 10.83 0.00 40.39 3.79
2132 3470 1.225855 CGGCGCAATCCTAAATGCTA 58.774 50.000 10.83 0.00 40.39 3.49
2133 3471 1.195448 CGGCGCAATCCTAAATGCTAG 59.805 52.381 10.83 0.00 40.39 3.42
2134 3472 2.222027 GGCGCAATCCTAAATGCTAGT 58.778 47.619 10.83 0.00 40.39 2.57
2216 3554 5.350504 ACACAGTTCCTAGAATGATGGAG 57.649 43.478 0.00 0.00 0.00 3.86
2312 3656 3.432782 CAACGTCCGGTCTGATTAGTAC 58.567 50.000 0.00 0.00 0.00 2.73
2313 3657 2.996631 ACGTCCGGTCTGATTAGTACT 58.003 47.619 0.00 0.00 0.00 2.73
2314 3658 2.941720 ACGTCCGGTCTGATTAGTACTC 59.058 50.000 0.00 0.00 0.00 2.59
2396 3773 1.575419 TTATACCCGTGCAAGTCCCT 58.425 50.000 0.00 0.00 0.00 4.20
2411 3788 2.092267 AGTCCCTTGTAAACCAAACCGT 60.092 45.455 0.00 0.00 31.20 4.83
2447 4031 1.332178 CTTCGTCGAGTTCAGTCAGC 58.668 55.000 0.00 0.00 0.00 4.26
2461 4045 0.596600 GTCAGCGAGTTGGTTCGTCA 60.597 55.000 0.00 0.00 42.38 4.35
2467 4054 1.347320 GAGTTGGTTCGTCATCGGTC 58.653 55.000 0.00 0.00 37.69 4.79
2476 4063 1.266446 TCGTCATCGGTCGTTGTTGTA 59.734 47.619 2.09 0.00 37.69 2.41
2485 4072 3.062042 GGTCGTTGTTGTAGTCGGAAAT 58.938 45.455 0.00 0.00 0.00 2.17
2504 4094 3.610619 TACTCGGCGTCGGGACTGA 62.611 63.158 20.13 0.00 39.73 3.41
2511 4101 2.019951 CGTCGGGACTGAACCAACG 61.020 63.158 0.00 0.00 35.54 4.10
2522 4112 0.509499 GAACCAACGCACGATCGAAA 59.491 50.000 24.34 0.00 0.00 3.46
2551 4141 0.955428 TAGCGAGCAACTGGGCTTTG 60.955 55.000 0.00 0.00 45.99 2.77
2569 4159 2.408271 TGTAGATGCAGCCCAGAAAG 57.592 50.000 0.00 0.00 0.00 2.62
2570 4160 1.908619 TGTAGATGCAGCCCAGAAAGA 59.091 47.619 0.00 0.00 0.00 2.52
2571 4161 2.305635 TGTAGATGCAGCCCAGAAAGAA 59.694 45.455 0.00 0.00 0.00 2.52
2572 4162 2.125773 AGATGCAGCCCAGAAAGAAG 57.874 50.000 0.00 0.00 0.00 2.85
2573 4163 0.455005 GATGCAGCCCAGAAAGAAGC 59.545 55.000 0.00 0.00 0.00 3.86
2574 4164 0.039326 ATGCAGCCCAGAAAGAAGCT 59.961 50.000 0.00 0.00 35.52 3.74
2575 4165 0.692476 TGCAGCCCAGAAAGAAGCTA 59.308 50.000 0.00 0.00 33.33 3.32
2576 4166 1.090728 GCAGCCCAGAAAGAAGCTAC 58.909 55.000 0.00 0.00 33.33 3.58
2577 4167 1.363744 CAGCCCAGAAAGAAGCTACG 58.636 55.000 0.00 0.00 33.33 3.51
2578 4168 0.977395 AGCCCAGAAAGAAGCTACGT 59.023 50.000 0.00 0.00 32.73 3.57
2579 4169 2.094182 CAGCCCAGAAAGAAGCTACGTA 60.094 50.000 0.00 0.00 33.33 3.57
2580 4170 2.166664 AGCCCAGAAAGAAGCTACGTAG 59.833 50.000 18.47 18.47 32.73 3.51
2581 4171 2.738964 GCCCAGAAAGAAGCTACGTAGG 60.739 54.545 23.47 4.82 0.00 3.18
2582 4172 2.541556 CCAGAAAGAAGCTACGTAGGC 58.458 52.381 23.47 15.33 0.00 3.93
2583 4173 2.186076 CAGAAAGAAGCTACGTAGGCG 58.814 52.381 23.47 0.01 44.93 5.52
2584 4174 0.922032 GAAAGAAGCTACGTAGGCGC 59.078 55.000 23.47 10.79 42.83 6.53
2585 4175 0.459759 AAAGAAGCTACGTAGGCGCC 60.460 55.000 21.89 21.89 42.83 6.53
2586 4176 1.601419 AAGAAGCTACGTAGGCGCCA 61.601 55.000 31.54 12.31 42.83 5.69
2587 4177 1.589196 GAAGCTACGTAGGCGCCAG 60.589 63.158 31.54 21.56 42.83 4.85
2588 4178 2.001361 GAAGCTACGTAGGCGCCAGA 62.001 60.000 31.54 13.96 42.83 3.86
2589 4179 1.392710 AAGCTACGTAGGCGCCAGAT 61.393 55.000 31.54 13.14 42.83 2.90
2590 4180 1.371881 GCTACGTAGGCGCCAGATC 60.372 63.158 31.54 14.27 42.83 2.75
2591 4181 1.797211 GCTACGTAGGCGCCAGATCT 61.797 60.000 31.54 10.27 42.83 2.75
2592 4182 0.238817 CTACGTAGGCGCCAGATCTC 59.761 60.000 31.54 10.58 42.83 2.75
2593 4183 1.170919 TACGTAGGCGCCAGATCTCC 61.171 60.000 31.54 6.55 42.83 3.71
2594 4184 2.196925 CGTAGGCGCCAGATCTCCT 61.197 63.158 31.54 7.63 0.00 3.69
2595 4185 0.889638 CGTAGGCGCCAGATCTCCTA 60.890 60.000 31.54 6.42 0.00 2.94
2596 4186 1.329256 GTAGGCGCCAGATCTCCTAA 58.671 55.000 31.54 0.00 33.42 2.69
2597 4187 1.896465 GTAGGCGCCAGATCTCCTAAT 59.104 52.381 31.54 5.27 33.42 1.73
2598 4188 1.428869 AGGCGCCAGATCTCCTAATT 58.571 50.000 31.54 0.00 0.00 1.40
2599 4189 1.346068 AGGCGCCAGATCTCCTAATTC 59.654 52.381 31.54 0.00 0.00 2.17
2600 4190 1.070758 GGCGCCAGATCTCCTAATTCA 59.929 52.381 24.80 0.00 0.00 2.57
2601 4191 2.485479 GGCGCCAGATCTCCTAATTCAA 60.485 50.000 24.80 0.00 0.00 2.69
2602 4192 3.206150 GCGCCAGATCTCCTAATTCAAA 58.794 45.455 0.00 0.00 0.00 2.69
2603 4193 3.817647 GCGCCAGATCTCCTAATTCAAAT 59.182 43.478 0.00 0.00 0.00 2.32
2604 4194 4.320057 GCGCCAGATCTCCTAATTCAAATG 60.320 45.833 0.00 0.00 0.00 2.32
2605 4195 4.214971 CGCCAGATCTCCTAATTCAAATGG 59.785 45.833 0.00 0.00 0.00 3.16
2606 4196 4.022503 GCCAGATCTCCTAATTCAAATGGC 60.023 45.833 0.00 0.00 42.25 4.40
2607 4197 4.522022 CCAGATCTCCTAATTCAAATGGCC 59.478 45.833 0.00 0.00 0.00 5.36
2608 4198 5.383476 CAGATCTCCTAATTCAAATGGCCT 58.617 41.667 3.32 0.00 0.00 5.19
2609 4199 5.832060 CAGATCTCCTAATTCAAATGGCCTT 59.168 40.000 3.32 0.00 0.00 4.35
2610 4200 6.323225 CAGATCTCCTAATTCAAATGGCCTTT 59.677 38.462 3.32 0.00 0.00 3.11
2611 4201 6.548993 AGATCTCCTAATTCAAATGGCCTTTC 59.451 38.462 3.32 0.00 0.00 2.62
2612 4202 4.956075 TCTCCTAATTCAAATGGCCTTTCC 59.044 41.667 3.32 0.00 0.00 3.13
2613 4203 4.030216 TCCTAATTCAAATGGCCTTTCCC 58.970 43.478 3.32 0.00 0.00 3.97
2614 4204 3.134623 CCTAATTCAAATGGCCTTTCCCC 59.865 47.826 3.32 0.00 0.00 4.81
2615 4205 2.340721 ATTCAAATGGCCTTTCCCCA 57.659 45.000 3.32 0.00 36.66 4.96
2616 4206 2.109229 TTCAAATGGCCTTTCCCCAA 57.891 45.000 3.32 0.00 35.67 4.12
2617 4207 1.347062 TCAAATGGCCTTTCCCCAAC 58.653 50.000 3.32 0.00 35.67 3.77
2618 4208 0.324614 CAAATGGCCTTTCCCCAACC 59.675 55.000 3.32 0.00 35.67 3.77
2619 4209 0.840288 AAATGGCCTTTCCCCAACCC 60.840 55.000 3.32 0.00 35.67 4.11
2620 4210 3.600410 ATGGCCTTTCCCCAACCCG 62.600 63.158 3.32 0.00 35.67 5.28
2629 4219 4.733542 CCCAACCCGGCCGTCAAT 62.734 66.667 26.12 4.04 0.00 2.57
2630 4220 3.131478 CCAACCCGGCCGTCAATC 61.131 66.667 26.12 0.00 0.00 2.67
2631 4221 3.131478 CAACCCGGCCGTCAATCC 61.131 66.667 26.12 0.00 0.00 3.01
2632 4222 3.642503 AACCCGGCCGTCAATCCA 61.643 61.111 26.12 0.00 0.00 3.41
2633 4223 3.198953 AACCCGGCCGTCAATCCAA 62.199 57.895 26.12 0.00 0.00 3.53
2634 4224 2.360600 CCCGGCCGTCAATCCAAA 60.361 61.111 26.12 0.00 0.00 3.28
2635 4225 2.696759 CCCGGCCGTCAATCCAAAC 61.697 63.158 26.12 0.00 0.00 2.93
2636 4226 2.696759 CCGGCCGTCAATCCAAACC 61.697 63.158 26.12 0.00 0.00 3.27
2637 4227 1.969064 CGGCCGTCAATCCAAACCA 60.969 57.895 19.50 0.00 0.00 3.67
2638 4228 1.519751 CGGCCGTCAATCCAAACCAA 61.520 55.000 19.50 0.00 0.00 3.67
2639 4229 0.038618 GGCCGTCAATCCAAACCAAC 60.039 55.000 0.00 0.00 0.00 3.77
2640 4230 0.038618 GCCGTCAATCCAAACCAACC 60.039 55.000 0.00 0.00 0.00 3.77
2641 4231 0.239879 CCGTCAATCCAAACCAACCG 59.760 55.000 0.00 0.00 0.00 4.44
2642 4232 0.386731 CGTCAATCCAAACCAACCGC 60.387 55.000 0.00 0.00 0.00 5.68
2643 4233 0.958822 GTCAATCCAAACCAACCGCT 59.041 50.000 0.00 0.00 0.00 5.52
2644 4234 1.068541 GTCAATCCAAACCAACCGCTC 60.069 52.381 0.00 0.00 0.00 5.03
2645 4235 0.243636 CAATCCAAACCAACCGCTCC 59.756 55.000 0.00 0.00 0.00 4.70
2646 4236 0.898326 AATCCAAACCAACCGCTCCC 60.898 55.000 0.00 0.00 0.00 4.30
2647 4237 2.781431 ATCCAAACCAACCGCTCCCC 62.781 60.000 0.00 0.00 0.00 4.81
2648 4238 2.115266 CAAACCAACCGCTCCCCT 59.885 61.111 0.00 0.00 0.00 4.79
2649 4239 1.971695 CAAACCAACCGCTCCCCTC 60.972 63.158 0.00 0.00 0.00 4.30
2650 4240 3.205851 AAACCAACCGCTCCCCTCC 62.206 63.158 0.00 0.00 0.00 4.30
2651 4241 4.658786 ACCAACCGCTCCCCTCCT 62.659 66.667 0.00 0.00 0.00 3.69
2652 4242 4.101448 CCAACCGCTCCCCTCCTG 62.101 72.222 0.00 0.00 0.00 3.86
2653 4243 3.003173 CAACCGCTCCCCTCCTGA 61.003 66.667 0.00 0.00 0.00 3.86
2654 4244 2.203938 AACCGCTCCCCTCCTGAA 60.204 61.111 0.00 0.00 0.00 3.02
2655 4245 1.846124 AACCGCTCCCCTCCTGAAA 60.846 57.895 0.00 0.00 0.00 2.69
2656 4246 2.125766 AACCGCTCCCCTCCTGAAAC 62.126 60.000 0.00 0.00 0.00 2.78
2657 4247 2.269241 CGCTCCCCTCCTGAAACC 59.731 66.667 0.00 0.00 0.00 3.27
2658 4248 2.677848 GCTCCCCTCCTGAAACCC 59.322 66.667 0.00 0.00 0.00 4.11
2659 4249 1.925972 GCTCCCCTCCTGAAACCCT 60.926 63.158 0.00 0.00 0.00 4.34
2660 4250 0.620700 GCTCCCCTCCTGAAACCCTA 60.621 60.000 0.00 0.00 0.00 3.53
2661 4251 1.966845 CTCCCCTCCTGAAACCCTAA 58.033 55.000 0.00 0.00 0.00 2.69
2662 4252 1.560146 CTCCCCTCCTGAAACCCTAAC 59.440 57.143 0.00 0.00 0.00 2.34
2663 4253 0.624254 CCCCTCCTGAAACCCTAACC 59.376 60.000 0.00 0.00 0.00 2.85
2664 4254 1.670059 CCCTCCTGAAACCCTAACCT 58.330 55.000 0.00 0.00 0.00 3.50
2665 4255 1.560146 CCCTCCTGAAACCCTAACCTC 59.440 57.143 0.00 0.00 0.00 3.85
2666 4256 2.552367 CCTCCTGAAACCCTAACCTCT 58.448 52.381 0.00 0.00 0.00 3.69
2705 4295 2.819608 TGGTTGCTAGCAATTTCAGTCC 59.180 45.455 31.46 24.48 38.28 3.85
2710 4300 1.927174 CTAGCAATTTCAGTCCGACCG 59.073 52.381 0.00 0.00 0.00 4.79
2772 4362 0.533308 GTGGCACTGACCGGTGTAAA 60.533 55.000 14.63 0.00 39.21 2.01
2782 4372 1.338769 ACCGGTGTAAACTGGCTGATC 60.339 52.381 6.12 0.00 39.75 2.92
2823 4413 2.872858 GGCACTCTTGATTTACGATCCC 59.127 50.000 0.00 0.00 0.00 3.85
2844 4434 2.569404 CAAGAGGAAAGCTGTAGTCCCT 59.431 50.000 0.00 0.00 31.25 4.20
2850 4440 0.324460 AAGCTGTAGTCCCTAGCCGT 60.324 55.000 0.00 0.00 38.18 5.68
2892 4482 3.264947 CAGCTTCGACCATGATGAAGAA 58.735 45.455 19.33 7.11 41.21 2.52
2904 4494 7.271511 ACCATGATGAAGAAAGTGAGTATCTC 58.728 38.462 0.00 0.00 34.92 2.75
2905 4495 6.420306 CCATGATGAAGAAAGTGAGTATCTCG 59.580 42.308 0.00 0.00 34.92 4.04
2907 4497 6.556212 TGATGAAGAAAGTGAGTATCTCGAC 58.444 40.000 0.00 0.00 34.92 4.20
2908 4498 5.312120 TGAAGAAAGTGAGTATCTCGACC 57.688 43.478 0.00 0.00 34.92 4.79
2950 4573 1.009829 AATCGGAAGCGTTCATGCTC 58.990 50.000 0.00 0.00 46.60 4.26
2951 4574 0.176680 ATCGGAAGCGTTCATGCTCT 59.823 50.000 0.00 0.00 46.60 4.09
2952 4575 0.037326 TCGGAAGCGTTCATGCTCTT 60.037 50.000 0.00 0.00 46.60 2.85
2953 4576 0.095935 CGGAAGCGTTCATGCTCTTG 59.904 55.000 0.00 0.00 46.60 3.02
2954 4577 1.160137 GGAAGCGTTCATGCTCTTGT 58.840 50.000 0.00 0.00 46.60 3.16
2955 4578 2.346803 GGAAGCGTTCATGCTCTTGTA 58.653 47.619 0.00 0.00 46.60 2.41
2956 4579 2.349886 GGAAGCGTTCATGCTCTTGTAG 59.650 50.000 0.00 0.00 46.60 2.74
2990 4613 9.304731 TGTTCTGATTTGTTTCTTTGATCTTTG 57.695 29.630 0.00 0.00 0.00 2.77
3114 4737 1.153369 CCCTGAGCACACATACCCG 60.153 63.158 0.00 0.00 0.00 5.28
3129 4752 0.906282 ACCCGGTCGAGGTTTATGGT 60.906 55.000 0.00 0.00 32.05 3.55
3164 4787 5.104259 AGGGATGAGGTTGACTACAAATC 57.896 43.478 0.00 0.00 37.77 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.683790 CGTCGTCGTTTGGATCAGCC 61.684 60.000 0.00 0.00 37.10 4.85
100 101 2.692041 CCCAGATGATTTGCCCTTCTTC 59.308 50.000 0.00 0.00 0.00 2.87
133 134 2.688507 CTTGCTTCGTCTTTCTGGCTA 58.311 47.619 0.00 0.00 0.00 3.93
223 224 1.812525 GTCGAGCCATGAGAGCAGA 59.187 57.895 0.00 0.00 0.00 4.26
328 329 0.378257 CTGCCCGGACAAAATCATCG 59.622 55.000 0.73 0.00 0.00 3.84
371 372 0.471780 TGGAGAGGAGTTGTGGCTGA 60.472 55.000 0.00 0.00 0.00 4.26
373 374 0.472734 AGTGGAGAGGAGTTGTGGCT 60.473 55.000 0.00 0.00 0.00 4.75
442 454 4.133820 ACTGTTTACACACATAAGCTGCA 58.866 39.130 1.02 0.00 0.00 4.41
477 496 6.741992 TTATACAAGTTCAACCAGCTGATG 57.258 37.500 17.39 14.05 0.00 3.07
514 533 1.106285 GAGAATGAAGGCCGGCAATT 58.894 50.000 30.85 22.48 0.00 2.32
572 591 3.243401 GCAAGCGAAAAGGGAGAGAAAAA 60.243 43.478 0.00 0.00 0.00 1.94
573 592 2.293399 GCAAGCGAAAAGGGAGAGAAAA 59.707 45.455 0.00 0.00 0.00 2.29
577 596 1.790387 CGCAAGCGAAAAGGGAGAG 59.210 57.895 9.11 0.00 42.83 3.20
610 636 2.461110 CCGAAACAATCCCGAGCCG 61.461 63.158 0.00 0.00 0.00 5.52
633 659 5.688176 GCCAGACTCGTATATTGAAGAGAAC 59.312 44.000 0.00 0.00 34.98 3.01
634 660 5.359860 TGCCAGACTCGTATATTGAAGAGAA 59.640 40.000 0.00 0.00 34.98 2.87
635 661 4.887655 TGCCAGACTCGTATATTGAAGAGA 59.112 41.667 0.00 0.00 34.98 3.10
636 662 5.188327 TGCCAGACTCGTATATTGAAGAG 57.812 43.478 0.00 0.00 36.83 2.85
637 663 5.069119 ACATGCCAGACTCGTATATTGAAGA 59.931 40.000 0.00 0.00 0.00 2.87
638 664 5.292765 ACATGCCAGACTCGTATATTGAAG 58.707 41.667 0.00 0.00 0.00 3.02
639 665 5.276461 ACATGCCAGACTCGTATATTGAA 57.724 39.130 0.00 0.00 0.00 2.69
640 666 4.937201 ACATGCCAGACTCGTATATTGA 57.063 40.909 0.00 0.00 0.00 2.57
641 667 5.991328 AAACATGCCAGACTCGTATATTG 57.009 39.130 0.00 0.00 0.00 1.90
720 749 2.817844 AGTTAATCAAGTTTCGGTGGCC 59.182 45.455 0.00 0.00 0.00 5.36
742 771 4.560108 CGTACTACAAGCCAACAACTAGGT 60.560 45.833 0.00 0.00 0.00 3.08
909 955 4.027621 CGTAAGATTTATATAGCGCTGCCG 60.028 45.833 22.90 0.29 43.02 5.69
911 957 4.812293 GCGTAAGATTTATATAGCGCTGC 58.188 43.478 22.90 5.39 40.37 5.25
914 960 4.204573 CCGAGCGTAAGATTTATATAGCGC 59.795 45.833 0.00 0.00 43.29 5.92
915 961 5.227391 CACCGAGCGTAAGATTTATATAGCG 59.773 44.000 0.00 0.00 43.02 4.26
916 962 6.091437 ACACCGAGCGTAAGATTTATATAGC 58.909 40.000 0.00 0.00 43.02 2.97
917 963 8.232513 TGTACACCGAGCGTAAGATTTATATAG 58.767 37.037 0.00 0.00 43.02 1.31
918 964 8.098220 TGTACACCGAGCGTAAGATTTATATA 57.902 34.615 0.00 0.00 43.02 0.86
919 965 6.973843 TGTACACCGAGCGTAAGATTTATAT 58.026 36.000 0.00 0.00 43.02 0.86
966 1012 3.596066 ATTCTCGCGTGCTGTGCCT 62.596 57.895 5.77 0.00 0.00 4.75
967 1013 2.187599 AAATTCTCGCGTGCTGTGCC 62.188 55.000 5.77 0.00 0.00 5.01
968 1014 1.061799 CAAATTCTCGCGTGCTGTGC 61.062 55.000 5.77 0.00 0.00 4.57
969 1015 0.512518 TCAAATTCTCGCGTGCTGTG 59.487 50.000 5.77 0.12 0.00 3.66
970 1016 1.069906 GTTCAAATTCTCGCGTGCTGT 60.070 47.619 5.77 0.00 0.00 4.40
971 1017 1.195448 AGTTCAAATTCTCGCGTGCTG 59.805 47.619 5.77 0.00 0.00 4.41
1101 1147 2.612567 GCCGAACACAATCACCGCA 61.613 57.895 0.00 0.00 0.00 5.69
1129 1175 0.393132 TTGTTGTTGCCAGTGTCCGA 60.393 50.000 0.00 0.00 0.00 4.55
1137 1183 2.361757 CTGGATGAAGTTGTTGTTGCCA 59.638 45.455 0.00 0.00 0.00 4.92
1601 2936 2.353803 GGAACACGAGGTAGTTCTGCAT 60.354 50.000 0.00 0.00 42.76 3.96
1806 3141 0.748005 GGCCATCATGTTGTACGCCT 60.748 55.000 12.65 0.00 32.09 5.52
1807 3142 1.029408 TGGCCATCATGTTGTACGCC 61.029 55.000 0.00 12.91 35.44 5.68
1820 3155 1.033746 CGGTTGAAGCTCATGGCCAT 61.034 55.000 14.09 14.09 43.05 4.40
1821 3156 1.675310 CGGTTGAAGCTCATGGCCA 60.675 57.895 8.56 8.56 43.05 5.36
1826 3161 2.042831 GCCTGCGGTTGAAGCTCAT 61.043 57.895 0.00 0.00 35.28 2.90
1949 3284 0.449388 GCCGAGCTCTCAAAACCATG 59.551 55.000 12.85 0.00 0.00 3.66
1954 3289 0.606401 CTTGGGCCGAGCTCTCAAAA 60.606 55.000 12.85 0.00 0.00 2.44
1962 3297 4.496336 AGCATCCTTGGGCCGAGC 62.496 66.667 15.92 4.85 0.00 5.03
2089 3427 1.341089 ACCATCCTGTACGCTCTCTCA 60.341 52.381 0.00 0.00 0.00 3.27
2095 3433 1.735376 CGGCTACCATCCTGTACGCT 61.735 60.000 0.00 0.00 0.00 5.07
2108 3446 0.812412 TTTAGGATTGCGCCGGCTAC 60.812 55.000 26.68 17.34 40.82 3.58
2119 3457 4.652421 TGGGACGTACTAGCATTTAGGATT 59.348 41.667 0.00 0.00 0.00 3.01
2131 3469 2.753966 GCGCGAGTGGGACGTACTA 61.754 63.158 12.10 0.00 0.00 1.82
2132 3470 4.112341 GCGCGAGTGGGACGTACT 62.112 66.667 12.10 0.00 0.00 2.73
2133 3471 4.112341 AGCGCGAGTGGGACGTAC 62.112 66.667 12.10 0.00 0.00 3.67
2134 3472 3.807538 GAGCGCGAGTGGGACGTA 61.808 66.667 12.10 0.00 0.00 3.57
2158 3496 1.009389 CGGAGAAGCGTCAGTGGAAC 61.009 60.000 1.61 0.00 0.00 3.62
2216 3554 6.449635 TGTTTTACATGTATGGAATCTGCC 57.550 37.500 6.36 0.00 29.18 4.85
2258 3596 0.238289 CATCGTGTTGCAGTTGGTCC 59.762 55.000 0.00 0.00 0.00 4.46
2312 3656 5.531659 ACTCATATACTAGTTGGACACGGAG 59.468 44.000 0.00 1.11 0.00 4.63
2313 3657 5.443283 ACTCATATACTAGTTGGACACGGA 58.557 41.667 0.00 0.00 0.00 4.69
2314 3658 5.769484 ACTCATATACTAGTTGGACACGG 57.231 43.478 0.00 0.00 0.00 4.94
2396 3773 4.008330 TCAACTCACGGTTTGGTTTACAA 58.992 39.130 0.00 0.00 35.74 2.41
2411 3788 3.938963 ACGAAGTGCTTCTTTTCAACTCA 59.061 39.130 9.84 0.00 42.51 3.41
2447 4031 0.388134 ACCGATGACGAACCAACTCG 60.388 55.000 0.00 0.00 44.50 4.18
2461 4045 1.401931 CCGACTACAACAACGACCGAT 60.402 52.381 0.00 0.00 0.00 4.18
2467 4054 5.442390 CGAGTAATTTCCGACTACAACAACG 60.442 44.000 0.00 0.00 0.00 4.10
2476 4063 0.529378 ACGCCGAGTAATTTCCGACT 59.471 50.000 0.00 0.00 0.00 4.18
2485 4072 2.360350 AGTCCCGACGCCGAGTAA 60.360 61.111 0.00 0.00 38.22 2.24
2504 4094 0.511221 CTTTCGATCGTGCGTTGGTT 59.489 50.000 15.94 0.00 0.00 3.67
2511 4101 2.221055 ACACTGTTTCTTTCGATCGTGC 59.779 45.455 15.94 0.00 0.00 5.34
2522 4112 2.135933 GTTGCTCGCTACACTGTTTCT 58.864 47.619 0.00 0.00 0.00 2.52
2551 4141 2.698855 TCTTTCTGGGCTGCATCTAC 57.301 50.000 0.50 0.00 0.00 2.59
2569 4159 1.589196 CTGGCGCCTACGTAGCTTC 60.589 63.158 29.70 7.28 42.83 3.86
2570 4160 1.392710 ATCTGGCGCCTACGTAGCTT 61.393 55.000 29.70 4.14 42.83 3.74
2571 4161 1.797211 GATCTGGCGCCTACGTAGCT 61.797 60.000 29.70 7.47 42.83 3.32
2572 4162 1.371881 GATCTGGCGCCTACGTAGC 60.372 63.158 29.70 11.41 42.83 3.58
2573 4163 0.238817 GAGATCTGGCGCCTACGTAG 59.761 60.000 29.70 16.58 42.83 3.51
2574 4164 1.170919 GGAGATCTGGCGCCTACGTA 61.171 60.000 29.70 5.44 42.83 3.57
2575 4165 2.491022 GGAGATCTGGCGCCTACGT 61.491 63.158 29.70 11.11 42.83 3.57
2576 4166 0.889638 TAGGAGATCTGGCGCCTACG 60.890 60.000 29.70 16.05 39.00 3.51
2577 4167 1.329256 TTAGGAGATCTGGCGCCTAC 58.671 55.000 29.70 15.55 39.57 3.18
2578 4168 2.310779 ATTAGGAGATCTGGCGCCTA 57.689 50.000 29.70 16.70 39.00 3.93
2579 4169 1.346068 GAATTAGGAGATCTGGCGCCT 59.654 52.381 29.70 7.33 41.22 5.52
2580 4170 1.070758 TGAATTAGGAGATCTGGCGCC 59.929 52.381 22.73 22.73 0.00 6.53
2581 4171 2.533266 TGAATTAGGAGATCTGGCGC 57.467 50.000 0.00 0.00 0.00 6.53
2582 4172 4.214971 CCATTTGAATTAGGAGATCTGGCG 59.785 45.833 0.00 0.00 0.00 5.69
2583 4173 4.022503 GCCATTTGAATTAGGAGATCTGGC 60.023 45.833 0.00 0.00 38.70 4.85
2584 4174 4.522022 GGCCATTTGAATTAGGAGATCTGG 59.478 45.833 0.00 0.00 0.00 3.86
2585 4175 5.383476 AGGCCATTTGAATTAGGAGATCTG 58.617 41.667 5.01 0.00 0.00 2.90
2586 4176 5.659849 AGGCCATTTGAATTAGGAGATCT 57.340 39.130 5.01 0.00 0.00 2.75
2587 4177 6.239148 GGAAAGGCCATTTGAATTAGGAGATC 60.239 42.308 5.01 0.00 36.34 2.75
2588 4178 5.600069 GGAAAGGCCATTTGAATTAGGAGAT 59.400 40.000 5.01 0.00 36.34 2.75
2589 4179 4.956075 GGAAAGGCCATTTGAATTAGGAGA 59.044 41.667 5.01 0.00 36.34 3.71
2590 4180 4.100035 GGGAAAGGCCATTTGAATTAGGAG 59.900 45.833 5.01 0.00 38.95 3.69
2591 4181 4.030216 GGGAAAGGCCATTTGAATTAGGA 58.970 43.478 5.01 0.00 38.95 2.94
2592 4182 3.134623 GGGGAAAGGCCATTTGAATTAGG 59.865 47.826 5.01 0.00 38.95 2.69
2593 4183 3.774216 TGGGGAAAGGCCATTTGAATTAG 59.226 43.478 5.01 0.00 38.95 1.73
2594 4184 3.796111 TGGGGAAAGGCCATTTGAATTA 58.204 40.909 5.01 0.00 38.95 1.40
2595 4185 2.630232 TGGGGAAAGGCCATTTGAATT 58.370 42.857 5.01 0.00 38.95 2.17
2596 4186 2.305635 GTTGGGGAAAGGCCATTTGAAT 59.694 45.455 5.01 0.00 38.95 2.57
2597 4187 1.696884 GTTGGGGAAAGGCCATTTGAA 59.303 47.619 5.01 0.00 38.95 2.69
2598 4188 1.347062 GTTGGGGAAAGGCCATTTGA 58.653 50.000 5.01 0.00 38.95 2.69
2599 4189 0.324614 GGTTGGGGAAAGGCCATTTG 59.675 55.000 5.01 0.00 38.95 2.32
2600 4190 0.840288 GGGTTGGGGAAAGGCCATTT 60.840 55.000 5.01 2.21 38.95 2.32
2601 4191 1.229496 GGGTTGGGGAAAGGCCATT 60.229 57.895 5.01 0.00 38.95 3.16
2602 4192 2.449777 GGGTTGGGGAAAGGCCAT 59.550 61.111 5.01 0.00 38.95 4.40
2603 4193 4.293671 CGGGTTGGGGAAAGGCCA 62.294 66.667 5.01 0.00 38.95 5.36
2612 4202 4.733542 ATTGACGGCCGGGTTGGG 62.734 66.667 31.76 0.00 38.63 4.12
2613 4203 3.131478 GATTGACGGCCGGGTTGG 61.131 66.667 31.76 0.00 42.50 3.77
2614 4204 3.131478 GGATTGACGGCCGGGTTG 61.131 66.667 31.76 0.43 0.00 3.77
2615 4205 2.700407 TTTGGATTGACGGCCGGGTT 62.700 55.000 31.76 8.67 0.00 4.11
2616 4206 3.198953 TTTGGATTGACGGCCGGGT 62.199 57.895 31.76 9.62 0.00 5.28
2617 4207 2.360600 TTTGGATTGACGGCCGGG 60.361 61.111 31.76 2.28 0.00 5.73
2618 4208 2.696759 GGTTTGGATTGACGGCCGG 61.697 63.158 31.76 11.88 0.00 6.13
2619 4209 1.519751 TTGGTTTGGATTGACGGCCG 61.520 55.000 26.86 26.86 0.00 6.13
2620 4210 0.038618 GTTGGTTTGGATTGACGGCC 60.039 55.000 0.00 0.00 0.00 6.13
2621 4211 0.038618 GGTTGGTTTGGATTGACGGC 60.039 55.000 0.00 0.00 0.00 5.68
2622 4212 0.239879 CGGTTGGTTTGGATTGACGG 59.760 55.000 0.00 0.00 0.00 4.79
2623 4213 0.386731 GCGGTTGGTTTGGATTGACG 60.387 55.000 0.00 0.00 0.00 4.35
2624 4214 0.958822 AGCGGTTGGTTTGGATTGAC 59.041 50.000 0.00 0.00 0.00 3.18
2625 4215 1.243902 GAGCGGTTGGTTTGGATTGA 58.756 50.000 0.00 0.00 0.00 2.57
2626 4216 0.243636 GGAGCGGTTGGTTTGGATTG 59.756 55.000 0.00 0.00 0.00 2.67
2627 4217 0.898326 GGGAGCGGTTGGTTTGGATT 60.898 55.000 0.00 0.00 0.00 3.01
2628 4218 1.304134 GGGAGCGGTTGGTTTGGAT 60.304 57.895 0.00 0.00 0.00 3.41
2629 4219 2.114411 GGGAGCGGTTGGTTTGGA 59.886 61.111 0.00 0.00 0.00 3.53
2630 4220 2.989253 GGGGAGCGGTTGGTTTGG 60.989 66.667 0.00 0.00 0.00 3.28
2631 4221 1.971695 GAGGGGAGCGGTTGGTTTG 60.972 63.158 0.00 0.00 0.00 2.93
2632 4222 2.434774 GAGGGGAGCGGTTGGTTT 59.565 61.111 0.00 0.00 0.00 3.27
2633 4223 3.647771 GGAGGGGAGCGGTTGGTT 61.648 66.667 0.00 0.00 0.00 3.67
2634 4224 4.658786 AGGAGGGGAGCGGTTGGT 62.659 66.667 0.00 0.00 0.00 3.67
2635 4225 4.101448 CAGGAGGGGAGCGGTTGG 62.101 72.222 0.00 0.00 0.00 3.77
2636 4226 2.124507 TTTCAGGAGGGGAGCGGTTG 62.125 60.000 0.00 0.00 0.00 3.77
2637 4227 1.846124 TTTCAGGAGGGGAGCGGTT 60.846 57.895 0.00 0.00 0.00 4.44
2638 4228 2.203938 TTTCAGGAGGGGAGCGGT 60.204 61.111 0.00 0.00 0.00 5.68
2639 4229 2.269241 GTTTCAGGAGGGGAGCGG 59.731 66.667 0.00 0.00 0.00 5.52
2640 4230 2.269241 GGTTTCAGGAGGGGAGCG 59.731 66.667 0.00 0.00 0.00 5.03
2641 4231 0.620700 TAGGGTTTCAGGAGGGGAGC 60.621 60.000 0.00 0.00 0.00 4.70
2642 4232 1.560146 GTTAGGGTTTCAGGAGGGGAG 59.440 57.143 0.00 0.00 0.00 4.30
2643 4233 1.665137 GTTAGGGTTTCAGGAGGGGA 58.335 55.000 0.00 0.00 0.00 4.81
2644 4234 0.624254 GGTTAGGGTTTCAGGAGGGG 59.376 60.000 0.00 0.00 0.00 4.79
2645 4235 1.560146 GAGGTTAGGGTTTCAGGAGGG 59.440 57.143 0.00 0.00 0.00 4.30
2646 4236 2.552367 AGAGGTTAGGGTTTCAGGAGG 58.448 52.381 0.00 0.00 0.00 4.30
2647 4237 3.841255 AGAAGAGGTTAGGGTTTCAGGAG 59.159 47.826 0.00 0.00 0.00 3.69
2648 4238 3.870559 AGAAGAGGTTAGGGTTTCAGGA 58.129 45.455 0.00 0.00 0.00 3.86
2649 4239 4.287326 AGAAGAAGAGGTTAGGGTTTCAGG 59.713 45.833 0.00 0.00 0.00 3.86
2650 4240 5.247337 AGAGAAGAAGAGGTTAGGGTTTCAG 59.753 44.000 0.00 0.00 0.00 3.02
2651 4241 5.155905 AGAGAAGAAGAGGTTAGGGTTTCA 58.844 41.667 0.00 0.00 0.00 2.69
2652 4242 5.482526 AGAGAGAAGAAGAGGTTAGGGTTTC 59.517 44.000 0.00 0.00 0.00 2.78
2653 4243 5.247337 CAGAGAGAAGAAGAGGTTAGGGTTT 59.753 44.000 0.00 0.00 0.00 3.27
2654 4244 4.775253 CAGAGAGAAGAAGAGGTTAGGGTT 59.225 45.833 0.00 0.00 0.00 4.11
2655 4245 4.349365 CAGAGAGAAGAAGAGGTTAGGGT 58.651 47.826 0.00 0.00 0.00 4.34
2656 4246 3.132111 GCAGAGAGAAGAAGAGGTTAGGG 59.868 52.174 0.00 0.00 0.00 3.53
2657 4247 3.181491 CGCAGAGAGAAGAAGAGGTTAGG 60.181 52.174 0.00 0.00 0.00 2.69
2658 4248 3.181491 CCGCAGAGAGAAGAAGAGGTTAG 60.181 52.174 0.00 0.00 0.00 2.34
2659 4249 2.755655 CCGCAGAGAGAAGAAGAGGTTA 59.244 50.000 0.00 0.00 0.00 2.85
2660 4250 1.548269 CCGCAGAGAGAAGAAGAGGTT 59.452 52.381 0.00 0.00 0.00 3.50
2661 4251 1.181786 CCGCAGAGAGAAGAAGAGGT 58.818 55.000 0.00 0.00 0.00 3.85
2662 4252 0.179113 GCCGCAGAGAGAAGAAGAGG 60.179 60.000 0.00 0.00 0.00 3.69
2663 4253 0.525242 CGCCGCAGAGAGAAGAAGAG 60.525 60.000 0.00 0.00 0.00 2.85
2664 4254 0.960861 TCGCCGCAGAGAGAAGAAGA 60.961 55.000 0.00 0.00 0.00 2.87
2665 4255 0.102120 ATCGCCGCAGAGAGAAGAAG 59.898 55.000 0.00 0.00 0.00 2.85
2666 4256 0.179127 CATCGCCGCAGAGAGAAGAA 60.179 55.000 0.00 0.00 0.00 2.52
2705 4295 1.148157 ATCGATTTGCTGCTCGGTCG 61.148 55.000 9.44 9.58 35.64 4.79
2710 4300 2.601741 GCTGCTTATCGATTTGCTGCTC 60.602 50.000 28.82 13.95 43.59 4.26
2772 4362 1.375140 CGTGTGCAGATCAGCCAGT 60.375 57.895 7.72 0.00 0.00 4.00
2782 4372 3.628017 CCTTAACTTTTTCCGTGTGCAG 58.372 45.455 0.00 0.00 0.00 4.41
2823 4413 2.569404 AGGGACTACAGCTTTCCTCTTG 59.431 50.000 0.00 0.00 36.02 3.02
2838 4428 1.192146 TGCAGAAACGGCTAGGGACT 61.192 55.000 0.00 0.00 46.37 3.85
2892 4482 3.655615 AGGAGGTCGAGATACTCACTT 57.344 47.619 8.15 0.00 32.98 3.16
2904 4494 1.877443 GCTAGAGCTAGAAGGAGGTCG 59.123 57.143 8.65 0.00 46.39 4.79
2949 4572 8.397906 CAAATCAGAACAAACAAGACTACAAGA 58.602 33.333 0.00 0.00 0.00 3.02
2950 4573 8.184192 ACAAATCAGAACAAACAAGACTACAAG 58.816 33.333 0.00 0.00 0.00 3.16
2951 4574 8.050778 ACAAATCAGAACAAACAAGACTACAA 57.949 30.769 0.00 0.00 0.00 2.41
2952 4575 7.624360 ACAAATCAGAACAAACAAGACTACA 57.376 32.000 0.00 0.00 0.00 2.74
2953 4576 8.911247 AAACAAATCAGAACAAACAAGACTAC 57.089 30.769 0.00 0.00 0.00 2.73
2954 4577 8.956426 AGAAACAAATCAGAACAAACAAGACTA 58.044 29.630 0.00 0.00 0.00 2.59
2955 4578 7.830739 AGAAACAAATCAGAACAAACAAGACT 58.169 30.769 0.00 0.00 0.00 3.24
2956 4579 8.466086 AAGAAACAAATCAGAACAAACAAGAC 57.534 30.769 0.00 0.00 0.00 3.01
2990 4613 5.737353 GTGGAACTTTTGCTGCAAATTAAC 58.263 37.500 26.48 17.65 33.19 2.01
3114 4737 4.732672 AACTCTACCATAAACCTCGACC 57.267 45.455 0.00 0.00 0.00 4.79
3129 4752 3.574396 CCTCATCCCTCGCAATAACTCTA 59.426 47.826 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.