Multiple sequence alignment - TraesCS5D01G389300

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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 TraesCS5D01G389300 chr5D 100.000 3093 0 0 1 3093 458678971 458682063 0.000000e+00 5712.0
1 TraesCS5D01G389300 chr5B 86.603 1993 141 62 598 2548 562225358 562227266 0.000000e+00 2085.0
2 TraesCS5D01G389300 chr5B 89.169 397 27 6 2 383 562222896 562223291 6.000000e-132 481.0
3 TraesCS5D01G389300 chr5B 88.235 119 13 1 2957 3074 170633052 170633170 1.160000e-29 141.0
4 TraesCS5D01G389300 chr5B 81.875 160 11 11 443 601 562223337 562223479 5.420000e-23 119.0
5 TraesCS5D01G389300 chr5A 88.748 1102 74 28 599 1672 577707932 577709011 0.000000e+00 1303.0
6 TraesCS5D01G389300 chr5A 91.682 541 31 9 1756 2294 577709106 577709634 0.000000e+00 737.0
7 TraesCS5D01G389300 chr5A 86.020 608 42 15 2 603 577707329 577707899 2.040000e-171 612.0
8 TraesCS5D01G389300 chr5A 90.441 272 21 2 2288 2558 577709663 577709930 1.360000e-93 353.0
9 TraesCS5D01G389300 chr6B 91.389 511 18 8 2596 3093 705391693 705392190 0.000000e+00 676.0
10 TraesCS5D01G389300 chr2D 83.977 518 50 19 2600 3093 537004507 537005015 1.680000e-127 466.0
11 TraesCS5D01G389300 chr7A 82.386 528 56 22 2588 3093 651976240 651975728 2.850000e-115 425.0
12 TraesCS5D01G389300 chr7A 82.143 196 27 5 1 194 578250503 578250314 8.880000e-36 161.0
13 TraesCS5D01G389300 chr4A 79.767 514 59 15 3 482 197981010 197980508 6.390000e-87 331.0
14 TraesCS5D01G389300 chr4A 84.810 79 10 2 2600 2677 640037741 640037818 9.200000e-11 78.7
15 TraesCS5D01G389300 chr6A 79.625 373 66 9 2600 2965 577840173 577840542 3.060000e-65 259.0
16 TraesCS5D01G389300 chrUn 91.333 150 6 2 2843 2992 340647319 340647177 6.770000e-47 198.0
17 TraesCS5D01G389300 chr3A 91.333 150 6 2 2843 2992 738430090 738429948 6.770000e-47 198.0
18 TraesCS5D01G389300 chr3A 91.333 150 6 2 2843 2992 738617476 738617334 6.770000e-47 198.0
19 TraesCS5D01G389300 chr3A 91.579 95 8 0 2843 2937 738519313 738519219 6.960000e-27 132.0


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 TraesCS5D01G389300 chr5D 458678971 458682063 3092 False 5712.00 5712 100.000000 1 3093 1 chr5D.!!$F1 3092
1 TraesCS5D01G389300 chr5B 562222896 562227266 4370 False 895.00 2085 85.882333 2 2548 3 chr5B.!!$F2 2546
2 TraesCS5D01G389300 chr5A 577707329 577709930 2601 False 751.25 1303 89.222750 2 2558 4 chr5A.!!$F1 2556
3 TraesCS5D01G389300 chr2D 537004507 537005015 508 False 466.00 466 83.977000 2600 3093 1 chr2D.!!$F1 493
4 TraesCS5D01G389300 chr7A 651975728 651976240 512 True 425.00 425 82.386000 2588 3093 1 chr7A.!!$R2 505
5 TraesCS5D01G389300 chr4A 197980508 197981010 502 True 331.00 331 79.767000 3 482 1 chr4A.!!$R1 479

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
91 93 0.030638 CCACACACTTGCCCGAAAAG 59.969 55.0 0.0 0.0 0.0 2.27 F
502 571 0.250513 CCTTTCCTCCTTCCTCCACG 59.749 60.0 0.0 0.0 0.0 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1686 3712 0.185901 AGGGTGCCTTGTGTGTGATT 59.814 50.0 0.0 0.0 0.0 2.57 R
2420 4523 0.171007 CACGCCTTTGCCATCGAAAT 59.829 50.0 0.0 0.0 0.0 2.17 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
72 74 5.511088 AGAATGACAAATGTACGAACGAC 57.489 39.130 0.14 0.00 0.00 4.34
91 93 0.030638 CCACACACTTGCCCGAAAAG 59.969 55.000 0.00 0.00 0.00 2.27
135 138 2.660802 CACCCGTACCTTTCGGCT 59.339 61.111 0.00 0.00 45.71 5.52
318 345 3.267860 CTTCCGCTGCCATCTCGC 61.268 66.667 0.00 0.00 0.00 5.03
430 478 3.063743 GCCCGGCGAAAAATCCCTG 62.064 63.158 9.30 0.00 0.00 4.45
439 487 3.696548 GCGAAAAATCCCTGGATCTTTCT 59.303 43.478 18.21 6.12 38.64 2.52
462 531 1.285950 GGAAGGAAGTTTGCGCACC 59.714 57.895 11.12 7.96 0.00 5.01
472 541 3.771568 TTGCGCACCAAGTTGCAGC 62.772 57.895 11.12 2.54 43.15 5.25
500 569 2.108250 CAAACCTTTCCTCCTTCCTCCA 59.892 50.000 0.00 0.00 0.00 3.86
501 570 1.363246 ACCTTTCCTCCTTCCTCCAC 58.637 55.000 0.00 0.00 0.00 4.02
502 571 0.250513 CCTTTCCTCCTTCCTCCACG 59.749 60.000 0.00 0.00 0.00 4.94
503 572 0.391793 CTTTCCTCCTTCCTCCACGC 60.392 60.000 0.00 0.00 0.00 5.34
504 573 2.167398 TTTCCTCCTTCCTCCACGCG 62.167 60.000 3.53 3.53 0.00 6.01
505 574 3.068691 CCTCCTTCCTCCACGCGA 61.069 66.667 15.93 0.00 0.00 5.87
523 592 0.865218 GACATCGCTCTCTCGTGCTG 60.865 60.000 0.00 0.00 0.00 4.41
525 594 2.704808 ATCGCTCTCTCGTGCTGCA 61.705 57.895 0.00 0.00 0.00 4.41
526 595 2.610700 ATCGCTCTCTCGTGCTGCAG 62.611 60.000 10.11 10.11 0.00 4.41
528 597 2.572812 CTCTCTCGTGCTGCAGCT 59.427 61.111 36.61 0.00 42.66 4.24
529 598 1.806351 CTCTCTCGTGCTGCAGCTG 60.806 63.158 36.61 28.26 42.66 4.24
531 600 3.936204 CTCTCGTGCTGCAGCTGCT 62.936 63.158 36.61 0.00 42.66 4.24
532 601 3.789858 CTCGTGCTGCAGCTGCTG 61.790 66.667 36.61 35.16 42.66 4.41
550 619 1.355916 GCTACGAGAGCGGTAGGTG 59.644 63.158 0.00 0.00 42.62 4.00
552 621 2.376231 CTACGAGAGCGGTAGGTGCG 62.376 65.000 0.00 0.00 43.17 5.34
557 626 4.308458 AGCGGTAGGTGCGCACAA 62.308 61.111 38.60 24.86 37.44 3.33
609 2562 5.230942 CCAAATGACCATCTACGAGATACC 58.769 45.833 0.00 0.00 32.12 2.73
610 2563 5.221441 CCAAATGACCATCTACGAGATACCA 60.221 44.000 0.00 0.00 32.12 3.25
611 2564 5.713792 AATGACCATCTACGAGATACCAG 57.286 43.478 0.00 0.00 32.12 4.00
858 2842 2.430465 CCTTCTAGTTGCTGCACATGT 58.570 47.619 0.00 0.00 0.00 3.21
859 2843 2.816087 CCTTCTAGTTGCTGCACATGTT 59.184 45.455 0.00 0.00 0.00 2.71
860 2844 3.120060 CCTTCTAGTTGCTGCACATGTTC 60.120 47.826 0.00 0.00 0.00 3.18
861 2845 2.426522 TCTAGTTGCTGCACATGTTCC 58.573 47.619 0.00 0.00 0.00 3.62
938 2923 3.931468 CCTCTGCACAGTCAATACTTCAG 59.069 47.826 0.00 0.00 31.97 3.02
949 2934 3.433274 TCAATACTTCAGCTTCAACGCAG 59.567 43.478 0.00 0.00 0.00 5.18
1032 3017 3.467226 GCAGGTACCGGCAGGCTA 61.467 66.667 29.23 0.00 42.76 3.93
1042 3027 2.105930 GCAGGCTACTCAGAGCGG 59.894 66.667 0.00 0.00 43.83 5.52
1077 3077 4.086178 CGTCTGCCGTCGTCGTCT 62.086 66.667 0.71 0.00 35.01 4.18
1136 3136 2.033602 GTTCCCGTTCCTGTGGGG 59.966 66.667 0.00 0.00 46.03 4.96
1194 3194 3.916544 CAGAGGGCGGCGCTGATA 61.917 66.667 32.30 0.00 0.00 2.15
1206 3206 1.227674 GCTGATAACCCTGGGAGCG 60.228 63.158 22.23 2.43 0.00 5.03
1207 3207 1.686325 GCTGATAACCCTGGGAGCGA 61.686 60.000 22.23 1.09 0.00 4.93
1281 3281 0.262876 TGGATCTCCTGCTGCCTCTA 59.737 55.000 0.00 0.00 36.82 2.43
1469 3469 2.235402 TCCCATGTTTCCTCGAGGTAAC 59.765 50.000 34.62 34.62 43.24 2.50
1470 3470 2.629051 CCATGTTTCCTCGAGGTAACC 58.371 52.381 36.43 24.52 42.57 2.85
1494 3505 0.908198 AAGCGCTTCTTCATCCTCCT 59.092 50.000 18.98 0.00 0.00 3.69
1495 3506 1.781786 AGCGCTTCTTCATCCTCCTA 58.218 50.000 2.64 0.00 0.00 2.94
1498 3509 4.093011 AGCGCTTCTTCATCCTCCTATAT 58.907 43.478 2.64 0.00 0.00 0.86
1504 3515 6.425210 TTCTTCATCCTCCTATATGTGTGG 57.575 41.667 0.00 0.00 0.00 4.17
1509 3520 4.140575 TCCTCCTATATGTGTGGCCATA 57.859 45.455 9.72 1.91 0.00 2.74
1514 3525 5.928976 TCCTATATGTGTGGCCATATATGC 58.071 41.667 19.91 1.84 38.78 3.14
1520 3545 2.030540 GTGTGGCCATATATGCTGCAAG 60.031 50.000 9.72 0.00 0.00 4.01
1528 3553 5.061853 CCATATATGCTGCAAGTCAAGTCT 58.938 41.667 6.36 0.00 35.30 3.24
1550 3575 7.264373 TCTTCAAAGACTGATCAAACCTTTC 57.736 36.000 11.46 0.00 32.78 2.62
1648 3674 2.057316 GATCACGCCGAGATCATCAAG 58.943 52.381 17.75 0.00 41.16 3.02
1672 3698 2.726760 GCTCATCGAAGCATTAGGTACG 59.273 50.000 4.21 0.00 42.05 3.67
1676 3702 3.698029 TCGAAGCATTAGGTACGTACC 57.302 47.619 33.16 33.16 46.82 3.34
1702 3728 4.932146 ACTTTTAATCACACACAAGGCAC 58.068 39.130 0.00 0.00 0.00 5.01
1706 3732 0.538057 ATCACACACAAGGCACCCTG 60.538 55.000 0.00 0.00 32.13 4.45
1716 3742 3.142838 GCACCCTGCGCCATCAAT 61.143 61.111 4.18 0.00 31.71 2.57
1717 3743 3.113745 CACCCTGCGCCATCAATC 58.886 61.111 4.18 0.00 0.00 2.67
1718 3744 1.452651 CACCCTGCGCCATCAATCT 60.453 57.895 4.18 0.00 0.00 2.40
1719 3745 1.452651 ACCCTGCGCCATCAATCTG 60.453 57.895 4.18 0.00 0.00 2.90
1720 3746 1.153107 CCCTGCGCCATCAATCTGA 60.153 57.895 4.18 0.00 0.00 3.27
1721 3747 0.536687 CCCTGCGCCATCAATCTGAT 60.537 55.000 4.18 0.00 37.65 2.90
1732 3758 5.737349 GCCATCAATCTGATCGAGTCTGTTA 60.737 44.000 0.00 0.00 34.28 2.41
1733 3759 5.919707 CCATCAATCTGATCGAGTCTGTTAG 59.080 44.000 0.00 0.00 34.28 2.34
1748 3779 9.063739 CGAGTCTGTTAGTAACTATTTTCTGTC 57.936 37.037 14.00 0.00 0.00 3.51
1751 3782 9.356433 GTCTGTTAGTAACTATTTTCTGTCCTC 57.644 37.037 14.00 0.00 0.00 3.71
1753 3784 7.889469 TGTTAGTAACTATTTTCTGTCCTCGT 58.111 34.615 14.00 0.00 0.00 4.18
1754 3785 8.362639 TGTTAGTAACTATTTTCTGTCCTCGTT 58.637 33.333 14.00 0.00 0.00 3.85
1765 3823 2.989840 CTGTCCTCGTTCAGACATGTTC 59.010 50.000 0.00 0.00 41.90 3.18
1825 3883 1.883084 CGGCATGTTCTACGGCTCC 60.883 63.158 0.00 0.00 0.00 4.70
2053 4111 2.125350 CTGTCCAAGCTCTCGGCC 60.125 66.667 0.00 0.00 43.05 6.13
2107 4165 0.511221 CGTGAACGTGTCCAATGTCC 59.489 55.000 0.00 0.00 34.11 4.02
2110 4168 1.156736 GAACGTGTCCAATGTCCCTG 58.843 55.000 0.00 0.00 0.00 4.45
2111 4169 0.889186 AACGTGTCCAATGTCCCTGC 60.889 55.000 0.00 0.00 0.00 4.85
2112 4170 1.003355 CGTGTCCAATGTCCCTGCT 60.003 57.895 0.00 0.00 0.00 4.24
2113 4171 1.300971 CGTGTCCAATGTCCCTGCTG 61.301 60.000 0.00 0.00 0.00 4.41
2114 4172 1.303561 TGTCCAATGTCCCTGCTGC 60.304 57.895 0.00 0.00 0.00 5.25
2115 4173 1.303561 GTCCAATGTCCCTGCTGCA 60.304 57.895 0.88 0.88 0.00 4.41
2116 4174 0.682209 GTCCAATGTCCCTGCTGCAT 60.682 55.000 1.31 0.00 0.00 3.96
2117 4175 0.918258 TCCAATGTCCCTGCTGCATA 59.082 50.000 1.31 0.00 0.00 3.14
2118 4176 1.284491 TCCAATGTCCCTGCTGCATAA 59.716 47.619 1.31 0.00 0.00 1.90
2119 4177 1.679680 CCAATGTCCCTGCTGCATAAG 59.320 52.381 1.31 0.00 0.00 1.73
2174 4232 6.668323 TCATTACAAGTTAGCAAAGCAAGAC 58.332 36.000 0.00 0.00 0.00 3.01
2185 4243 9.099454 GTTAGCAAAGCAAGACATAGTACTTAT 57.901 33.333 0.00 0.00 0.00 1.73
2226 4284 3.930634 ATGAAGCTCTTGTGCCTTTTC 57.069 42.857 0.00 0.00 0.00 2.29
2299 4394 4.328983 TGTCAATAAAGATTTCGGAGCGAC 59.671 41.667 0.00 0.00 34.89 5.19
2300 4395 4.567159 GTCAATAAAGATTTCGGAGCGACT 59.433 41.667 0.00 0.00 34.89 4.18
2301 4396 4.804139 TCAATAAAGATTTCGGAGCGACTC 59.196 41.667 0.00 0.00 34.89 3.36
2302 4397 4.657436 ATAAAGATTTCGGAGCGACTCT 57.343 40.909 6.78 0.00 34.89 3.24
2314 4409 1.719117 CGACTCTCTCTCGTGCTCC 59.281 63.158 0.00 0.00 0.00 4.70
2320 4415 1.542030 TCTCTCTCGTGCTCCTTTGTC 59.458 52.381 0.00 0.00 0.00 3.18
2325 4420 1.998315 CTCGTGCTCCTTTGTCATCAG 59.002 52.381 0.00 0.00 0.00 2.90
2369 4464 1.581934 TCACTTTCACGTTGCCTCAG 58.418 50.000 0.00 0.00 0.00 3.35
2431 4534 1.089481 GCCGAGTGATTTCGATGGCA 61.089 55.000 0.00 0.00 43.03 4.92
2489 4593 1.136500 GGCTCTTCCTTATTCGACCGT 59.864 52.381 0.00 0.00 0.00 4.83
2490 4594 2.418334 GGCTCTTCCTTATTCGACCGTT 60.418 50.000 0.00 0.00 0.00 4.44
2571 4675 4.292178 CGCGAGGAGGCAGGGATC 62.292 72.222 0.00 0.00 0.00 3.36
2572 4676 3.157252 GCGAGGAGGCAGGGATCA 61.157 66.667 0.00 0.00 0.00 2.92
2573 4677 2.818132 CGAGGAGGCAGGGATCAC 59.182 66.667 0.00 0.00 0.00 3.06
2574 4678 2.801631 CGAGGAGGCAGGGATCACC 61.802 68.421 0.00 0.00 40.67 4.02
2575 4679 2.765807 AGGAGGCAGGGATCACCG 60.766 66.667 0.00 0.00 46.96 4.94
2576 4680 3.866582 GGAGGCAGGGATCACCGG 61.867 72.222 0.00 0.00 46.96 5.28
2581 4685 2.503061 CAGGGATCACCGGCTCAG 59.497 66.667 0.00 0.00 46.96 3.35
2582 4686 2.765807 AGGGATCACCGGCTCAGG 60.766 66.667 0.00 0.00 46.96 3.86
2583 4687 4.554036 GGGATCACCGGCTCAGGC 62.554 72.222 0.00 0.00 36.97 4.85
2592 4696 3.702048 GGCTCAGGCGTGGTGGTA 61.702 66.667 6.56 0.00 39.81 3.25
2597 4701 2.159382 CTCAGGCGTGGTGGTAATTTT 58.841 47.619 6.56 0.00 0.00 1.82
2615 4720 8.749354 GGTAATTTTTGGGACTGTCTATTTGAT 58.251 33.333 7.85 0.00 0.00 2.57
2622 4727 8.506168 TTGGGACTGTCTATTTGATATTTGAC 57.494 34.615 7.85 0.00 0.00 3.18
2667 4772 8.995220 CATTCAAAAATCCTGACAAATGAACAT 58.005 29.630 0.00 0.00 0.00 2.71
2683 4788 5.738619 TGAACATATGACACCTGTACAGT 57.261 39.130 21.18 3.92 0.00 3.55
2697 4802 4.496341 CCTGTACAGTCACAAAAACAGCTG 60.496 45.833 21.18 13.48 34.41 4.24
2702 4807 3.374988 CAGTCACAAAAACAGCTGACAGA 59.625 43.478 23.35 5.26 36.31 3.41
2703 4808 3.375299 AGTCACAAAAACAGCTGACAGAC 59.625 43.478 23.35 16.30 36.31 3.51
2704 4809 3.126858 GTCACAAAAACAGCTGACAGACA 59.873 43.478 23.35 0.00 34.38 3.41
2705 4810 3.947196 TCACAAAAACAGCTGACAGACAT 59.053 39.130 23.35 0.00 0.00 3.06
2709 4814 6.415867 CACAAAAACAGCTGACAGACATAAAG 59.584 38.462 23.35 0.57 0.00 1.85
2712 4817 3.931578 ACAGCTGACAGACATAAAGGAC 58.068 45.455 23.35 0.00 0.00 3.85
2713 4818 2.926200 CAGCTGACAGACATAAAGGACG 59.074 50.000 8.42 0.00 0.00 4.79
2714 4819 2.563179 AGCTGACAGACATAAAGGACGT 59.437 45.455 6.65 0.00 0.00 4.34
2733 4840 2.221055 CGTCAAAACGGGTCAGAGAAAG 59.779 50.000 0.00 0.00 45.21 2.62
2736 4843 4.448060 GTCAAAACGGGTCAGAGAAAGTAG 59.552 45.833 0.00 0.00 0.00 2.57
2737 4844 2.745515 AACGGGTCAGAGAAAGTAGC 57.254 50.000 0.00 0.00 0.00 3.58
2753 4860 0.974010 TAGCTGACCCGGTAACCCTG 60.974 60.000 0.00 0.00 0.00 4.45
2762 4869 1.477195 CCGGTAACCCTGGACAACAAA 60.477 52.381 0.00 0.00 0.00 2.83
2765 4872 1.605232 GTAACCCTGGACAACAAACCG 59.395 52.381 0.00 0.00 0.00 4.44
2779 4886 2.031157 ACAAACCGCTCCAGAAAAATCG 60.031 45.455 0.00 0.00 0.00 3.34
2781 4888 1.305930 ACCGCTCCAGAAAAATCGGC 61.306 55.000 0.00 0.00 40.41 5.54
2792 4899 1.269703 AAAATCGGCGACCTACCCCT 61.270 55.000 13.76 0.00 0.00 4.79
2793 4900 1.683418 AAATCGGCGACCTACCCCTC 61.683 60.000 13.76 0.00 0.00 4.30
2794 4901 2.584873 AATCGGCGACCTACCCCTCT 62.585 60.000 13.76 0.00 0.00 3.69
2797 4904 1.381463 GGCGACCTACCCCTCTCTT 60.381 63.158 0.00 0.00 0.00 2.85
2798 4905 1.677637 GGCGACCTACCCCTCTCTTG 61.678 65.000 0.00 0.00 0.00 3.02
2799 4906 0.683504 GCGACCTACCCCTCTCTTGA 60.684 60.000 0.00 0.00 0.00 3.02
2802 4909 2.423660 CGACCTACCCCTCTCTTGATCT 60.424 54.545 0.00 0.00 0.00 2.75
2803 4910 3.648739 GACCTACCCCTCTCTTGATCTT 58.351 50.000 0.00 0.00 0.00 2.40
2805 4912 3.012959 ACCTACCCCTCTCTTGATCTTCA 59.987 47.826 0.00 0.00 0.00 3.02
2806 4913 3.640967 CCTACCCCTCTCTTGATCTTCAG 59.359 52.174 0.00 0.00 0.00 3.02
2807 4914 2.476199 ACCCCTCTCTTGATCTTCAGG 58.524 52.381 0.00 0.00 0.00 3.86
2808 4915 1.767681 CCCCTCTCTTGATCTTCAGGG 59.232 57.143 8.18 8.18 35.24 4.45
2809 4916 2.476199 CCCTCTCTTGATCTTCAGGGT 58.524 52.381 0.00 0.00 0.00 4.34
2810 4917 2.433970 CCCTCTCTTGATCTTCAGGGTC 59.566 54.545 0.00 0.00 0.00 4.46
2811 4918 3.102972 CCTCTCTTGATCTTCAGGGTCA 58.897 50.000 0.00 0.00 0.00 4.02
2813 4920 3.510459 TCTCTTGATCTTCAGGGTCACA 58.490 45.455 0.00 0.00 0.00 3.58
2815 4922 2.972021 TCTTGATCTTCAGGGTCACACA 59.028 45.455 0.00 0.00 0.00 3.72
2816 4923 3.007290 TCTTGATCTTCAGGGTCACACAG 59.993 47.826 0.00 0.00 0.00 3.66
2817 4924 1.625315 TGATCTTCAGGGTCACACAGG 59.375 52.381 0.00 0.00 0.00 4.00
2847 4968 1.145819 GCCCAGCTTGCAACCAAAA 59.854 52.632 0.00 0.00 0.00 2.44
2876 4997 2.341257 CAAACCACTGGACAGATCTCG 58.659 52.381 6.29 0.00 0.00 4.04
2884 5005 1.751351 TGGACAGATCTCGCCTAACAG 59.249 52.381 10.80 0.00 0.00 3.16
2890 5012 2.028112 AGATCTCGCCTAACAGCACAAA 60.028 45.455 0.00 0.00 0.00 2.83
2909 5031 1.839424 AAAGCGAATCAGAAAGGGGG 58.161 50.000 0.00 0.00 0.00 5.40
2938 5061 0.462759 GAAGGGAGAACATGGAGGCG 60.463 60.000 0.00 0.00 0.00 5.52
2971 5095 0.254462 GGGCAGAAGAAGAAGGAGGG 59.746 60.000 0.00 0.00 0.00 4.30
2978 5102 2.575805 AGAAGAAGGAGGGCAAACAG 57.424 50.000 0.00 0.00 0.00 3.16
2982 5106 2.587522 AGAAGGAGGGCAAACAGAAAC 58.412 47.619 0.00 0.00 0.00 2.78
2988 5112 2.294512 GAGGGCAAACAGAAACCAGAAG 59.705 50.000 0.00 0.00 0.00 2.85
2991 5115 2.287849 GGCAAACAGAAACCAGAAGAGC 60.288 50.000 0.00 0.00 0.00 4.09
2992 5116 2.620585 GCAAACAGAAACCAGAAGAGCT 59.379 45.455 0.00 0.00 0.00 4.09
2994 5118 4.791088 GCAAACAGAAACCAGAAGAGCTTC 60.791 45.833 2.03 2.03 39.78 3.86
3033 5157 1.462670 GACGAGCAGCAAGAAAGAAGG 59.537 52.381 0.00 0.00 0.00 3.46
3034 5158 1.070758 ACGAGCAGCAAGAAAGAAGGA 59.929 47.619 0.00 0.00 0.00 3.36
3043 5167 3.688673 GCAAGAAAGAAGGACATCAGAGG 59.311 47.826 0.00 0.00 0.00 3.69
3045 5169 3.796111 AGAAAGAAGGACATCAGAGGGA 58.204 45.455 0.00 0.00 0.00 4.20
3050 5174 3.133721 AGAAGGACATCAGAGGGAAATCG 59.866 47.826 0.00 0.00 0.00 3.34
3054 5178 1.492176 ACATCAGAGGGAAATCGGCAT 59.508 47.619 0.00 0.00 0.00 4.40
3057 5181 1.770658 TCAGAGGGAAATCGGCATCAT 59.229 47.619 0.00 0.00 0.00 2.45
3078 5202 2.622942 TGATCCACAGGTCAGCAAAAAC 59.377 45.455 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 3.124921 CATTCGGGGTCGGTGCAC 61.125 66.667 8.80 8.80 36.95 4.57
18 19 2.819595 CTGCATTCGGGGTCGGTG 60.820 66.667 0.00 0.00 36.95 4.94
42 43 1.705337 ATTTGTCATTCTCGCGGGCG 61.705 55.000 6.13 6.74 41.35 6.13
43 44 0.248215 CATTTGTCATTCTCGCGGGC 60.248 55.000 6.13 0.00 0.00 6.13
44 45 1.086696 ACATTTGTCATTCTCGCGGG 58.913 50.000 6.13 1.01 0.00 6.13
72 74 0.030638 CTTTTCGGGCAAGTGTGTGG 59.969 55.000 0.00 0.00 0.00 4.17
135 138 2.203139 CACACTCCGTGGTGGCAA 60.203 61.111 9.27 0.00 42.34 4.52
318 345 1.136984 GTCACGGCAGGTACGAGAG 59.863 63.158 0.00 0.00 31.98 3.20
363 399 1.439679 GCCGTCTGTTAGGAAAGGTG 58.560 55.000 0.00 0.00 0.00 4.00
367 403 0.323629 CCTGGCCGTCTGTTAGGAAA 59.676 55.000 0.00 0.00 0.00 3.13
430 478 0.464554 CCTTCCGGCCAGAAAGATCC 60.465 60.000 2.24 0.00 0.00 3.36
439 487 1.901464 GCAAACTTCCTTCCGGCCA 60.901 57.895 2.24 0.00 0.00 5.36
462 531 0.386476 TTGCCTGAAGCTGCAACTTG 59.614 50.000 7.18 0.00 42.19 3.16
472 541 1.889170 GGAGGAAAGGTTTGCCTGAAG 59.111 52.381 0.00 0.00 46.33 3.02
482 551 1.363246 GTGGAGGAAGGAGGAAAGGT 58.637 55.000 0.00 0.00 0.00 3.50
503 572 1.936880 GCACGAGAGAGCGATGTCG 60.937 63.158 8.78 8.78 41.37 4.35
504 573 3.990141 GCACGAGAGAGCGATGTC 58.010 61.111 0.00 0.00 38.08 3.06
533 602 1.355916 GCACCTACCGCTCTCGTAG 59.644 63.158 0.00 0.00 0.00 3.51
534 603 2.466982 CGCACCTACCGCTCTCGTA 61.467 63.158 0.00 0.00 0.00 3.43
535 604 3.812019 CGCACCTACCGCTCTCGT 61.812 66.667 0.00 0.00 0.00 4.18
550 619 2.465920 CGAAGAGTCGTTGTGCGC 59.534 61.111 0.00 0.00 42.53 6.09
656 2610 2.735478 TTGACGTGTTAGCGCCCG 60.735 61.111 2.29 1.14 34.88 6.13
657 2611 2.858158 GTTGACGTGTTAGCGCCC 59.142 61.111 2.29 0.00 34.88 6.13
661 2615 0.509929 GGTTCCGTTGACGTGTTAGC 59.490 55.000 0.00 0.00 37.74 3.09
766 2724 0.742281 CTGGGCGTGTGGAAGATCAG 60.742 60.000 0.00 0.00 0.00 2.90
911 2895 1.131638 TTGACTGTGCAGAGGACCTT 58.868 50.000 16.19 0.00 0.00 3.50
974 2959 1.115930 ACTCGGTCAGCTCCTTGTGT 61.116 55.000 0.00 0.00 0.00 3.72
975 2960 0.389166 GACTCGGTCAGCTCCTTGTG 60.389 60.000 0.00 0.00 32.09 3.33
1008 2993 4.473520 CCGGTACCTGCAGCCCTG 62.474 72.222 8.66 2.77 0.00 4.45
1018 3003 2.017559 CTGAGTAGCCTGCCGGTACC 62.018 65.000 1.90 0.16 44.95 3.34
1194 3194 3.637273 GTGGTCGCTCCCAGGGTT 61.637 66.667 5.01 0.00 34.43 4.11
1221 3221 2.095252 GCGTTGCTTCTCCTCCGTC 61.095 63.158 0.00 0.00 0.00 4.79
1378 3378 1.976132 CTGACGATGCCCTGGTGGAT 61.976 60.000 0.00 0.00 35.39 3.41
1469 3469 2.352960 GGATGAAGAAGCGCTTAGTTGG 59.647 50.000 25.11 0.00 36.83 3.77
1470 3470 3.265791 AGGATGAAGAAGCGCTTAGTTG 58.734 45.455 25.11 0.00 36.83 3.16
1494 3505 5.125356 GCAGCATATATGGCCACACATATA 58.875 41.667 8.16 6.95 45.35 0.86
1495 3506 3.949754 GCAGCATATATGGCCACACATAT 59.050 43.478 8.16 9.08 44.11 1.78
1498 3509 1.133853 TGCAGCATATATGGCCACACA 60.134 47.619 8.16 0.00 0.00 3.72
1504 3515 3.567164 ACTTGACTTGCAGCATATATGGC 59.433 43.478 14.51 10.39 0.00 4.40
1509 3520 4.582869 TGAAGACTTGACTTGCAGCATAT 58.417 39.130 0.00 0.00 0.00 1.78
1528 3553 7.339212 TGAAGAAAGGTTTGATCAGTCTTTGAA 59.661 33.333 18.33 0.00 39.77 2.69
1546 3571 3.369147 CCTACAGACACGCATGAAGAAAG 59.631 47.826 0.00 0.00 0.00 2.62
1548 3573 2.353704 CCCTACAGACACGCATGAAGAA 60.354 50.000 0.00 0.00 0.00 2.52
1549 3574 1.204704 CCCTACAGACACGCATGAAGA 59.795 52.381 0.00 0.00 0.00 2.87
1550 3575 1.066858 ACCCTACAGACACGCATGAAG 60.067 52.381 0.00 0.00 0.00 3.02
1672 3698 5.695816 TGTGTGTGATTAAAAGTACGGGTAC 59.304 40.000 0.70 0.70 36.35 3.34
1676 3702 5.685841 CCTTGTGTGTGATTAAAAGTACGG 58.314 41.667 0.00 0.00 0.00 4.02
1680 3706 4.202111 GGTGCCTTGTGTGTGATTAAAAGT 60.202 41.667 0.00 0.00 0.00 2.66
1681 3707 4.298332 GGTGCCTTGTGTGTGATTAAAAG 58.702 43.478 0.00 0.00 0.00 2.27
1683 3709 2.625790 GGGTGCCTTGTGTGTGATTAAA 59.374 45.455 0.00 0.00 0.00 1.52
1685 3711 1.423541 AGGGTGCCTTGTGTGTGATTA 59.576 47.619 0.00 0.00 0.00 1.75
1686 3712 0.185901 AGGGTGCCTTGTGTGTGATT 59.814 50.000 0.00 0.00 0.00 2.57
1687 3713 0.538057 CAGGGTGCCTTGTGTGTGAT 60.538 55.000 0.00 0.00 0.00 3.06
1688 3714 1.152984 CAGGGTGCCTTGTGTGTGA 60.153 57.895 0.00 0.00 0.00 3.58
1689 3715 2.848858 GCAGGGTGCCTTGTGTGTG 61.849 63.158 2.35 0.00 37.42 3.82
1690 3716 2.519302 GCAGGGTGCCTTGTGTGT 60.519 61.111 2.35 0.00 37.42 3.72
1691 3717 3.663176 CGCAGGGTGCCTTGTGTG 61.663 66.667 5.83 0.00 41.12 3.82
1702 3728 0.536687 ATCAGATTGATGGCGCAGGG 60.537 55.000 10.83 0.00 35.43 4.45
1706 3732 0.788995 CTCGATCAGATTGATGGCGC 59.211 55.000 0.00 0.00 37.20 6.53
1710 3736 6.502652 ACTAACAGACTCGATCAGATTGATG 58.497 40.000 0.34 0.07 37.20 3.07
1711 3737 6.707440 ACTAACAGACTCGATCAGATTGAT 57.293 37.500 0.34 0.00 40.34 2.57
1712 3738 7.337184 AGTTACTAACAGACTCGATCAGATTGA 59.663 37.037 0.06 0.06 0.00 2.57
1713 3739 7.476667 AGTTACTAACAGACTCGATCAGATTG 58.523 38.462 1.79 0.00 0.00 2.67
1715 3741 8.911918 ATAGTTACTAACAGACTCGATCAGAT 57.088 34.615 0.00 0.00 0.00 2.90
1716 3742 8.734218 AATAGTTACTAACAGACTCGATCAGA 57.266 34.615 0.00 0.00 0.00 3.27
1717 3743 9.790389 AAAATAGTTACTAACAGACTCGATCAG 57.210 33.333 0.00 0.00 0.00 2.90
1718 3744 9.784680 GAAAATAGTTACTAACAGACTCGATCA 57.215 33.333 0.00 0.00 0.00 2.92
1720 3746 9.790389 CAGAAAATAGTTACTAACAGACTCGAT 57.210 33.333 0.00 0.00 0.00 3.59
1721 3747 8.790718 ACAGAAAATAGTTACTAACAGACTCGA 58.209 33.333 0.00 0.00 0.00 4.04
1732 3758 6.989659 TGAACGAGGACAGAAAATAGTTACT 58.010 36.000 0.00 0.00 0.00 2.24
1733 3759 7.062022 GTCTGAACGAGGACAGAAAATAGTTAC 59.938 40.741 0.00 0.00 43.29 2.50
1748 3779 2.029020 TCAGGAACATGTCTGAACGAGG 60.029 50.000 13.35 0.00 37.11 4.63
1751 3782 2.600420 CGATCAGGAACATGTCTGAACG 59.400 50.000 23.28 23.28 44.91 3.95
1753 3784 2.677902 GCCGATCAGGAACATGTCTGAA 60.678 50.000 18.14 5.58 45.00 3.02
1754 3785 1.134699 GCCGATCAGGAACATGTCTGA 60.135 52.381 16.94 16.94 45.00 3.27
1918 3976 2.516460 GCCTGGAGCAGCAGGATG 60.516 66.667 0.00 0.00 42.97 3.51
1936 3994 0.894184 TGAACTTCTCGAGGACGCCT 60.894 55.000 13.56 0.00 39.58 5.52
2053 4111 2.741985 TTGCGTGTCTGCGGATGG 60.742 61.111 0.00 0.00 37.81 3.51
2063 4121 2.063541 GAGGCTTGCTTGTTGCGTGT 62.064 55.000 0.00 0.00 46.63 4.49
2066 4124 1.799258 AAGGAGGCTTGCTTGTTGCG 61.799 55.000 0.65 0.00 46.63 4.85
2155 4213 5.765182 ACTATGTCTTGCTTTGCTAACTTGT 59.235 36.000 0.00 0.00 0.00 3.16
2196 4254 3.437049 ACAAGAGCTTCATAGGTTTTCGC 59.563 43.478 0.00 0.00 30.79 4.70
2198 4256 4.379918 GGCACAAGAGCTTCATAGGTTTTC 60.380 45.833 0.00 0.00 30.79 2.29
2206 4264 2.560105 GGAAAAGGCACAAGAGCTTCAT 59.440 45.455 0.00 0.00 34.17 2.57
2226 4284 1.674221 CGGGCAGTGAGAGAAAAGAGG 60.674 57.143 0.00 0.00 0.00 3.69
2299 4394 1.543802 ACAAAGGAGCACGAGAGAGAG 59.456 52.381 0.00 0.00 0.00 3.20
2300 4395 1.542030 GACAAAGGAGCACGAGAGAGA 59.458 52.381 0.00 0.00 0.00 3.10
2301 4396 1.270826 TGACAAAGGAGCACGAGAGAG 59.729 52.381 0.00 0.00 0.00 3.20
2302 4397 1.328279 TGACAAAGGAGCACGAGAGA 58.672 50.000 0.00 0.00 0.00 3.10
2314 4409 4.481930 TTTTACGTGGCTGATGACAAAG 57.518 40.909 0.00 0.00 29.94 2.77
2320 4415 2.478894 ACGAGTTTTTACGTGGCTGATG 59.521 45.455 0.00 0.00 41.17 3.07
2369 4464 2.885113 GCGGCCACTGGAATTTCC 59.115 61.111 8.59 8.59 36.96 3.13
2420 4523 0.171007 CACGCCTTTGCCATCGAAAT 59.829 50.000 0.00 0.00 0.00 2.17
2532 4636 1.078848 CACCGCCTCTTCCCTCTTG 60.079 63.158 0.00 0.00 0.00 3.02
2533 4637 1.536662 ACACCGCCTCTTCCCTCTT 60.537 57.895 0.00 0.00 0.00 2.85
2558 4662 2.765807 CGGTGATCCCTGCCTCCT 60.766 66.667 0.00 0.00 0.00 3.69
2559 4663 3.866582 CCGGTGATCCCTGCCTCC 61.867 72.222 0.00 0.00 0.00 4.30
2560 4664 4.554036 GCCGGTGATCCCTGCCTC 62.554 72.222 1.90 0.00 37.47 4.70
2562 4666 4.554036 GAGCCGGTGATCCCTGCC 62.554 72.222 1.90 0.00 44.05 4.85
2563 4667 3.746949 CTGAGCCGGTGATCCCTGC 62.747 68.421 1.90 8.07 43.37 4.85
2564 4668 2.503061 CTGAGCCGGTGATCCCTG 59.497 66.667 1.90 0.00 0.00 4.45
2565 4669 2.765807 CCTGAGCCGGTGATCCCT 60.766 66.667 1.90 0.00 0.00 4.20
2566 4670 4.554036 GCCTGAGCCGGTGATCCC 62.554 72.222 1.90 0.00 0.00 3.85
2567 4671 4.899239 CGCCTGAGCCGGTGATCC 62.899 72.222 1.90 0.00 36.68 3.36
2568 4672 4.148825 ACGCCTGAGCCGGTGATC 62.149 66.667 1.90 0.00 37.96 2.92
2569 4673 4.457496 CACGCCTGAGCCGGTGAT 62.457 66.667 1.90 0.00 37.96 3.06
2575 4679 2.536997 ATTACCACCACGCCTGAGCC 62.537 60.000 0.00 0.00 34.57 4.70
2576 4680 0.676782 AATTACCACCACGCCTGAGC 60.677 55.000 0.00 0.00 0.00 4.26
2577 4681 1.821216 AAATTACCACCACGCCTGAG 58.179 50.000 0.00 0.00 0.00 3.35
2578 4682 2.279935 AAAATTACCACCACGCCTGA 57.720 45.000 0.00 0.00 0.00 3.86
2579 4683 2.609244 CCAAAAATTACCACCACGCCTG 60.609 50.000 0.00 0.00 0.00 4.85
2580 4684 1.616374 CCAAAAATTACCACCACGCCT 59.384 47.619 0.00 0.00 0.00 5.52
2581 4685 1.337354 CCCAAAAATTACCACCACGCC 60.337 52.381 0.00 0.00 0.00 5.68
2582 4686 1.614413 TCCCAAAAATTACCACCACGC 59.386 47.619 0.00 0.00 0.00 5.34
2583 4687 2.888414 AGTCCCAAAAATTACCACCACG 59.112 45.455 0.00 0.00 0.00 4.94
2584 4688 3.639561 ACAGTCCCAAAAATTACCACCAC 59.360 43.478 0.00 0.00 0.00 4.16
2585 4689 3.892588 GACAGTCCCAAAAATTACCACCA 59.107 43.478 0.00 0.00 0.00 4.17
2586 4690 4.149598 AGACAGTCCCAAAAATTACCACC 58.850 43.478 0.00 0.00 0.00 4.61
2597 4701 8.328758 AGTCAAATATCAAATAGACAGTCCCAA 58.671 33.333 0.00 0.00 0.00 4.12
2629 4734 9.048446 CAGGATTTTTGAATGTTCTCAAATTGT 57.952 29.630 0.00 0.00 43.12 2.71
2635 4740 6.957920 TGTCAGGATTTTTGAATGTTCTCA 57.042 33.333 0.00 0.00 0.00 3.27
2636 4741 8.706035 CATTTGTCAGGATTTTTGAATGTTCTC 58.294 33.333 0.00 0.00 0.00 2.87
2638 4743 8.592105 TCATTTGTCAGGATTTTTGAATGTTC 57.408 30.769 0.00 0.00 0.00 3.18
2651 4756 5.647658 GGTGTCATATGTTCATTTGTCAGGA 59.352 40.000 1.90 0.00 0.00 3.86
2667 4772 5.538849 TTTGTGACTGTACAGGTGTCATA 57.461 39.130 26.12 16.47 41.78 2.15
2683 4788 3.342719 TGTCTGTCAGCTGTTTTTGTGA 58.657 40.909 14.67 1.34 0.00 3.58
2697 4802 5.611844 CGTTTTGACGTCCTTTATGTCTGTC 60.612 44.000 14.12 0.00 43.47 3.51
2702 4807 2.809696 CCCGTTTTGACGTCCTTTATGT 59.190 45.455 14.12 0.00 0.00 2.29
2703 4808 2.809696 ACCCGTTTTGACGTCCTTTATG 59.190 45.455 14.12 1.49 0.00 1.90
2704 4809 3.069289 GACCCGTTTTGACGTCCTTTAT 58.931 45.455 14.12 0.00 0.00 1.40
2705 4810 2.158986 TGACCCGTTTTGACGTCCTTTA 60.159 45.455 14.12 0.00 0.00 1.85
2709 4814 0.249573 TCTGACCCGTTTTGACGTCC 60.250 55.000 14.12 0.00 0.00 4.79
2712 4817 1.860676 TTCTCTGACCCGTTTTGACG 58.139 50.000 0.00 0.00 0.00 4.35
2713 4818 3.203716 ACTTTCTCTGACCCGTTTTGAC 58.796 45.455 0.00 0.00 0.00 3.18
2714 4819 3.553828 ACTTTCTCTGACCCGTTTTGA 57.446 42.857 0.00 0.00 0.00 2.69
2726 4833 1.187087 CCGGGTCAGCTACTTTCTCT 58.813 55.000 0.00 0.00 0.00 3.10
2728 4835 2.226962 TACCGGGTCAGCTACTTTCT 57.773 50.000 6.32 0.00 0.00 2.52
2733 4840 0.974525 AGGGTTACCGGGTCAGCTAC 60.975 60.000 6.32 0.00 43.47 3.58
2736 4843 2.267961 CAGGGTTACCGGGTCAGC 59.732 66.667 6.32 1.60 43.47 4.26
2737 4844 2.987125 CCAGGGTTACCGGGTCAG 59.013 66.667 6.32 0.00 45.94 3.51
2753 4860 0.534203 TCTGGAGCGGTTTGTTGTCC 60.534 55.000 0.00 0.00 0.00 4.02
2762 4869 1.305930 GCCGATTTTTCTGGAGCGGT 61.306 55.000 0.00 0.00 40.74 5.68
2765 4872 0.097150 GTCGCCGATTTTTCTGGAGC 59.903 55.000 0.00 0.00 0.00 4.70
2781 4888 1.957877 GATCAAGAGAGGGGTAGGTCG 59.042 57.143 0.00 0.00 0.00 4.79
2792 4899 3.259374 GTGTGACCCTGAAGATCAAGAGA 59.741 47.826 0.00 0.00 0.00 3.10
2793 4900 3.007290 TGTGTGACCCTGAAGATCAAGAG 59.993 47.826 0.00 0.00 0.00 2.85
2794 4901 2.972021 TGTGTGACCCTGAAGATCAAGA 59.028 45.455 0.00 0.00 0.00 3.02
2797 4904 1.625315 CCTGTGTGACCCTGAAGATCA 59.375 52.381 0.00 0.00 0.00 2.92
2798 4905 1.902508 TCCTGTGTGACCCTGAAGATC 59.097 52.381 0.00 0.00 0.00 2.75
2799 4906 1.625818 GTCCTGTGTGACCCTGAAGAT 59.374 52.381 0.00 0.00 0.00 2.40
2802 4909 0.468226 GTGTCCTGTGTGACCCTGAA 59.532 55.000 0.00 0.00 34.25 3.02
2803 4910 0.689412 TGTGTCCTGTGTGACCCTGA 60.689 55.000 0.00 0.00 34.25 3.86
2805 4912 2.044806 GCTGTGTCCTGTGTGACCCT 62.045 60.000 0.00 0.00 34.25 4.34
2806 4913 1.598130 GCTGTGTCCTGTGTGACCC 60.598 63.158 0.00 0.00 34.25 4.46
2807 4914 0.250467 ATGCTGTGTCCTGTGTGACC 60.250 55.000 0.00 0.00 34.25 4.02
2808 4915 0.870393 CATGCTGTGTCCTGTGTGAC 59.130 55.000 0.00 0.00 35.77 3.67
2809 4916 0.469494 ACATGCTGTGTCCTGTGTGA 59.531 50.000 0.00 0.00 35.77 3.58
2810 4917 0.589708 CACATGCTGTGTCCTGTGTG 59.410 55.000 7.80 0.00 43.08 3.82
2811 4918 3.011085 CACATGCTGTGTCCTGTGT 57.989 52.632 7.80 0.00 43.08 3.72
2813 4920 1.601759 GGCACATGCTGTGTCCTGT 60.602 57.895 14.87 0.00 46.55 4.00
2834 4941 0.249868 GGAGGGTTTTGGTTGCAAGC 60.250 55.000 21.51 21.51 0.00 4.01
2847 4968 3.175710 AGTGGTTTGCGGGAGGGT 61.176 61.111 0.00 0.00 0.00 4.34
2876 4997 1.001815 TCGCTTTTTGTGCTGTTAGGC 60.002 47.619 0.00 0.00 0.00 3.93
2884 5005 3.426525 CCTTTCTGATTCGCTTTTTGTGC 59.573 43.478 0.00 0.00 0.00 4.57
2890 5012 1.354368 TCCCCCTTTCTGATTCGCTTT 59.646 47.619 0.00 0.00 0.00 3.51
2909 5031 5.414144 CCATGTTCTCCCTTCTTTTCTTCTC 59.586 44.000 0.00 0.00 0.00 2.87
2955 5078 2.816672 GTTTGCCCTCCTTCTTCTTCTG 59.183 50.000 0.00 0.00 0.00 3.02
2971 5095 2.620585 AGCTCTTCTGGTTTCTGTTTGC 59.379 45.455 0.00 0.00 0.00 3.68
2978 5102 3.654414 TCTTCGAAGCTCTTCTGGTTTC 58.346 45.455 20.56 0.00 37.44 2.78
2982 5106 3.584406 TCTTCTTCGAAGCTCTTCTGG 57.416 47.619 20.56 4.22 37.44 3.86
2988 5112 4.327627 GGTACAACATCTTCTTCGAAGCTC 59.672 45.833 20.56 0.16 0.00 4.09
2991 5115 5.346281 GTCAGGTACAACATCTTCTTCGAAG 59.654 44.000 19.35 19.35 0.00 3.79
2992 5116 5.227908 GTCAGGTACAACATCTTCTTCGAA 58.772 41.667 0.00 0.00 0.00 3.71
2994 5118 3.608506 CGTCAGGTACAACATCTTCTTCG 59.391 47.826 0.00 0.00 0.00 3.79
3033 5157 1.134401 TGCCGATTTCCCTCTGATGTC 60.134 52.381 0.00 0.00 0.00 3.06
3034 5158 0.911769 TGCCGATTTCCCTCTGATGT 59.088 50.000 0.00 0.00 0.00 3.06
3043 5167 2.227388 GTGGATCATGATGCCGATTTCC 59.773 50.000 22.72 12.04 0.00 3.13
3045 5169 2.882761 CTGTGGATCATGATGCCGATTT 59.117 45.455 22.72 0.00 0.00 2.17
3050 5174 1.134007 TGACCTGTGGATCATGATGCC 60.134 52.381 22.72 17.86 0.00 4.40
3054 5178 1.278537 TGCTGACCTGTGGATCATGA 58.721 50.000 0.00 0.00 0.00 3.07
3057 5181 2.622942 GTTTTTGCTGACCTGTGGATCA 59.377 45.455 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.