Multiple sequence alignment - TraesCS7A01G146000

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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 TraesCS7A01G146000 chr7A 100.000 3026 0 0 1 3026 97754499 97757524 0.000000e+00 5589
1 TraesCS7A01G146000 chr7B 91.400 2314 139 31 316 2593 48338837 48341126 0.000000e+00 3116
2 TraesCS7A01G146000 chr7B 93.069 303 18 3 1 301 48337239 48337540 9.960000e-120 440
3 TraesCS7A01G146000 chr7D 95.350 1570 54 10 700 2263 94421780 94423336 0.000000e+00 2477
4 TraesCS7A01G146000 chr7D 92.739 303 17 4 1 301 94408446 94408745 1.670000e-117 433
5 TraesCS7A01G146000 chr7D 88.571 280 26 4 2753 3026 94425811 94426090 4.830000e-88 335
6 TraesCS7A01G146000 chr6A 96.970 165 4 1 2590 2754 346598038 346598201 2.970000e-70 276
7 TraesCS7A01G146000 chr5A 96.875 160 5 0 2594 2753 640096191 640096032 4.970000e-68 268
8 TraesCS7A01G146000 chr4B 94.410 161 9 0 2594 2754 63688144 63688304 6.480000e-62 248
9 TraesCS7A01G146000 chr4B 93.789 161 10 0 2594 2754 63655345 63655505 3.010000e-60 243
10 TraesCS7A01G146000 chr4B 93.168 161 11 0 2594 2754 117556358 117556518 1.400000e-58 237
11 TraesCS7A01G146000 chr4B 93.168 161 11 0 2594 2754 384739015 384739175 1.400000e-58 237
12 TraesCS7A01G146000 chr6B 93.789 161 10 0 2594 2754 154540887 154541047 3.010000e-60 243
13 TraesCS7A01G146000 chr6B 93.750 160 10 0 2594 2753 668768446 668768287 1.080000e-59 241
14 TraesCS7A01G146000 chrUn 93.168 161 11 0 2594 2754 220187187 220187027 1.400000e-58 237


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 TraesCS7A01G146000 chr7A 97754499 97757524 3025 False 5589 5589 100.0000 1 3026 1 chr7A.!!$F1 3025
1 TraesCS7A01G146000 chr7B 48337239 48341126 3887 False 1778 3116 92.2345 1 2593 2 chr7B.!!$F1 2592
2 TraesCS7A01G146000 chr7D 94421780 94426090 4310 False 1406 2477 91.9605 700 3026 2 chr7D.!!$F2 2326

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
556 1844 0.465705 CCTGTCGCCTCATGTACCAT 59.534 55.0 0.00 0.00 0.0 3.55 F
560 1848 0.752658 TCGCCTCATGTACCATGGAG 59.247 55.0 21.47 3.49 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1996 3284 0.108424 CTCCGCTTCTTCCAGAGGTG 60.108 60.0 0.0 0.0 35.34 4.00 R
2439 5876 0.334676 GGGGTGGGTTGGATTGATGA 59.665 55.0 0.0 0.0 0.00 2.92 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
37 38 6.338214 TGAGACTTATGGATATCAGCTCAC 57.662 41.667 4.83 0.00 0.00 3.51
41 42 5.655394 ACTTATGGATATCAGCTCACCCTA 58.345 41.667 4.83 0.00 0.00 3.53
73 74 7.259290 TGAAGAGACCACAAATCTACAAAAC 57.741 36.000 0.00 0.00 0.00 2.43
79 80 5.127491 ACCACAAATCTACAAAACGAGGAA 58.873 37.500 0.00 0.00 0.00 3.36
81 82 5.334879 CCACAAATCTACAAAACGAGGAAGG 60.335 44.000 0.00 0.00 0.00 3.46
82 83 4.760204 ACAAATCTACAAAACGAGGAAGGG 59.240 41.667 0.00 0.00 0.00 3.95
146 148 7.470935 TTGTTATACTAGTAGGAGTTGCACA 57.529 36.000 8.85 0.15 0.00 4.57
177 180 5.841957 ACCATGGATGAGCTTGAATAAAC 57.158 39.130 21.47 0.00 0.00 2.01
183 186 7.945033 TGGATGAGCTTGAATAAACAAAAAC 57.055 32.000 0.00 0.00 0.00 2.43
222 225 3.500680 ACATGTGGTGTTTCGGTGAATAC 59.499 43.478 0.00 0.00 38.01 1.89
253 256 8.478775 ACTAGAATTTTTAGTGCCCTTTTTCT 57.521 30.769 0.00 0.00 30.46 2.52
309 312 9.936329 ATGGTTTTTATCATTATGACTAACCCT 57.064 29.630 18.30 11.21 30.88 4.34
325 1610 2.355309 ACCCTAAACCCTAGCAAAGGT 58.645 47.619 4.59 0.00 44.90 3.50
343 1628 8.652810 GCAAAGGTATGCAAAAGATAAATGAT 57.347 30.769 0.00 0.00 45.70 2.45
349 1634 9.403110 GGTATGCAAAAGATAAATGATGATGAC 57.597 33.333 0.00 0.00 0.00 3.06
352 1637 9.878667 ATGCAAAAGATAAATGATGATGACAAA 57.121 25.926 0.00 0.00 0.00 2.83
353 1638 9.878667 TGCAAAAGATAAATGATGATGACAAAT 57.121 25.926 0.00 0.00 0.00 2.32
369 1654 7.611079 TGATGACAAATGTGATGAAACCTATGA 59.389 33.333 0.00 0.00 0.00 2.15
374 1659 8.420222 ACAAATGTGATGAAACCTATGACAAAA 58.580 29.630 0.00 0.00 0.00 2.44
375 1660 9.426837 CAAATGTGATGAAACCTATGACAAAAT 57.573 29.630 0.00 0.00 0.00 1.82
376 1661 8.991243 AATGTGATGAAACCTATGACAAAATG 57.009 30.769 0.00 0.00 0.00 2.32
377 1662 7.757941 TGTGATGAAACCTATGACAAAATGA 57.242 32.000 0.00 0.00 0.00 2.57
378 1663 8.352137 TGTGATGAAACCTATGACAAAATGAT 57.648 30.769 0.00 0.00 0.00 2.45
379 1664 8.461222 TGTGATGAAACCTATGACAAAATGATC 58.539 33.333 0.00 0.00 0.00 2.92
388 1673 7.396907 ACCTATGACAAAATGATCAATTCCACA 59.603 33.333 0.00 0.00 0.00 4.17
389 1674 8.418662 CCTATGACAAAATGATCAATTCCACAT 58.581 33.333 0.00 6.94 0.00 3.21
391 1676 8.712285 ATGACAAAATGATCAATTCCACATTC 57.288 30.769 0.00 0.00 32.84 2.67
397 1682 7.997107 AATGATCAATTCCACATTCATTTCG 57.003 32.000 0.00 0.00 31.62 3.46
408 1693 5.570206 CCACATTCATTTCGACATTCACAAG 59.430 40.000 0.00 0.00 0.00 3.16
416 1701 4.817063 CATTCACAAGCGGCGCCG 62.817 66.667 43.13 43.13 43.09 6.46
420 1705 3.496131 CACAAGCGGCGCCGTTAT 61.496 61.111 45.02 30.14 42.09 1.89
422 1707 2.277247 CAAGCGGCGCCGTTATTG 60.277 61.111 45.02 37.96 42.09 1.90
429 1714 2.398036 CGCCGTTATTGCGTCACC 59.602 61.111 0.00 0.00 46.59 4.02
455 1740 3.966543 CCGCCCTCACCCAAACCT 61.967 66.667 0.00 0.00 0.00 3.50
456 1741 2.359975 CGCCCTCACCCAAACCTC 60.360 66.667 0.00 0.00 0.00 3.85
480 1765 1.793258 GATCATGTCGATGCCCTCAG 58.207 55.000 0.00 0.00 33.17 3.35
503 1788 2.267961 CCTCTAACCCCGCCACAC 59.732 66.667 0.00 0.00 0.00 3.82
505 1790 3.659089 CTCTAACCCCGCCACACCG 62.659 68.421 0.00 0.00 0.00 4.94
517 1802 2.047274 ACACCGTGCAATCTCCCG 60.047 61.111 0.00 0.00 0.00 5.14
520 1805 4.812476 CCGTGCAATCTCCCGCGA 62.812 66.667 8.23 0.00 37.14 5.87
522 1807 2.434185 GTGCAATCTCCCGCGACA 60.434 61.111 8.23 0.00 0.00 4.35
527 1812 1.086696 CAATCTCCCGCGACACATTT 58.913 50.000 8.23 0.00 0.00 2.32
543 1828 0.905357 ATTTGTCCTCTCCCCTGTCG 59.095 55.000 0.00 0.00 0.00 4.35
556 1844 0.465705 CCTGTCGCCTCATGTACCAT 59.534 55.000 0.00 0.00 0.00 3.55
560 1848 0.752658 TCGCCTCATGTACCATGGAG 59.247 55.000 21.47 3.49 0.00 3.86
568 1856 2.672961 TGTACCATGGAGCTTCTTCG 57.327 50.000 21.47 0.00 0.00 3.79
578 1866 1.517475 GCTTCTTCGTCTCCTCCGC 60.517 63.158 0.00 0.00 0.00 5.54
604 1892 4.212913 GCTCTCCGCTCCGCATCA 62.213 66.667 0.00 0.00 35.14 3.07
618 1906 1.063027 CGCATCATCGCAAATCACACT 59.937 47.619 0.00 0.00 0.00 3.55
630 1918 1.911057 ATCACACTGTCGAGAGGTCA 58.089 50.000 14.79 0.00 0.00 4.02
971 2259 2.014033 AAACCCAATCCCACCACCGT 62.014 55.000 0.00 0.00 0.00 4.83
973 2261 2.045340 CCAATCCCACCACCGTCC 60.045 66.667 0.00 0.00 0.00 4.79
974 2262 2.435938 CAATCCCACCACCGTCCG 60.436 66.667 0.00 0.00 0.00 4.79
975 2263 2.926242 AATCCCACCACCGTCCGT 60.926 61.111 0.00 0.00 0.00 4.69
976 2264 2.951101 AATCCCACCACCGTCCGTC 61.951 63.158 0.00 0.00 0.00 4.79
1148 2436 2.579787 CCTCACCGTCGACATCGC 60.580 66.667 17.16 0.00 39.60 4.58
1194 2482 2.095252 GTTCGTTCTCCTGCCGCTC 61.095 63.158 0.00 0.00 0.00 5.03
1530 2818 3.792736 GAGGCGGCCATGTGGGTA 61.793 66.667 23.09 0.00 39.65 3.69
1736 3024 1.005512 TGGACGACAACGACATGGG 60.006 57.895 0.00 0.00 42.66 4.00
1824 3112 1.886585 CGAGAGCGATATGAGGGGG 59.113 63.158 0.00 0.00 40.82 5.40
1827 3115 0.896019 AGAGCGATATGAGGGGGTCG 60.896 60.000 0.00 0.00 37.17 4.79
1996 3284 2.289133 GGCGGGTTCTCTCTGATAATCC 60.289 54.545 0.00 0.00 0.00 3.01
2107 3395 3.506108 GCCTCGTGCATGCAGAAT 58.494 55.556 23.41 0.00 40.77 2.40
2108 3396 1.805254 GCCTCGTGCATGCAGAATT 59.195 52.632 23.41 0.00 40.77 2.17
2278 5707 4.776795 ACAGAAAACAGGTGAAAAACGT 57.223 36.364 0.00 0.00 0.00 3.99
2291 5720 4.973663 GTGAAAAACGTCACAATAGGTTGG 59.026 41.667 0.00 0.00 46.00 3.77
2293 5722 3.495434 AAACGTCACAATAGGTTGGGA 57.505 42.857 0.00 0.00 45.23 4.37
2307 5742 0.397941 TTGGGAGGCACACAGAAGAG 59.602 55.000 0.00 0.00 31.65 2.85
2308 5743 0.764369 TGGGAGGCACACAGAAGAGT 60.764 55.000 0.00 0.00 0.00 3.24
2309 5744 0.036858 GGGAGGCACACAGAAGAGTC 60.037 60.000 0.00 0.00 0.00 3.36
2311 5746 2.171840 GGAGGCACACAGAAGAGTCTA 58.828 52.381 0.00 0.00 30.85 2.59
2312 5747 2.763448 GGAGGCACACAGAAGAGTCTAT 59.237 50.000 0.00 0.00 30.85 1.98
2314 5749 4.202070 GGAGGCACACAGAAGAGTCTATAC 60.202 50.000 0.00 0.00 30.85 1.47
2339 5775 9.574516 ACAAAACAGTATAAAGAAGGTCTCATT 57.425 29.630 0.00 0.00 0.00 2.57
2403 5840 1.580942 CGTTACCGTCGTCCCTTCA 59.419 57.895 0.00 0.00 0.00 3.02
2409 5846 1.019278 CCGTCGTCCCTTCACCATTG 61.019 60.000 0.00 0.00 0.00 2.82
2416 5853 1.186917 CCCTTCACCATTGGCAAGCA 61.187 55.000 5.96 0.00 0.00 3.91
2428 5865 1.493311 GCAAGCAACTCCGACTTCG 59.507 57.895 0.00 0.00 39.44 3.79
2430 5867 0.946221 CAAGCAACTCCGACTTCGCT 60.946 55.000 0.00 0.00 38.18 4.93
2434 5871 1.933500 GCAACTCCGACTTCGCTACAA 60.934 52.381 0.00 0.00 38.18 2.41
2439 5876 1.200716 TCCGACTTCGCTACAAACGAT 59.799 47.619 0.00 0.00 39.65 3.73
2441 5878 2.247637 CGACTTCGCTACAAACGATCA 58.752 47.619 0.00 0.00 39.65 2.92
2458 5895 0.334676 TCATCAATCCAACCCACCCC 59.665 55.000 0.00 0.00 0.00 4.95
2505 5958 4.717629 CGCGACTCACGGCAAGGA 62.718 66.667 0.00 0.00 42.83 3.36
2509 5962 0.670546 CGACTCACGGCAAGGACAAT 60.671 55.000 0.00 0.00 38.46 2.71
2510 5963 0.798776 GACTCACGGCAAGGACAATG 59.201 55.000 0.00 0.00 0.00 2.82
2514 5967 0.244450 CACGGCAAGGACAATGCAAT 59.756 50.000 0.00 0.00 45.60 3.56
2515 5968 1.472082 CACGGCAAGGACAATGCAATA 59.528 47.619 0.00 0.00 45.60 1.90
2516 5969 1.472480 ACGGCAAGGACAATGCAATAC 59.528 47.619 0.00 0.00 45.60 1.89
2517 5970 1.531677 CGGCAAGGACAATGCAATACG 60.532 52.381 0.00 0.00 45.60 3.06
2524 5982 3.704566 AGGACAATGCAATACGGACTCTA 59.295 43.478 0.00 0.00 0.00 2.43
2550 6008 7.354257 ACGAAGAGCTACGAAATAGAACTATC 58.646 38.462 12.97 0.00 31.83 2.08
2560 6018 4.338379 AATAGAACTATCCAAGGCCGAC 57.662 45.455 0.00 0.00 0.00 4.79
2565 6025 0.527817 CTATCCAAGGCCGACGTCAC 60.528 60.000 17.16 6.70 0.00 3.67
2589 6049 1.004200 ATCACCGAACGAACCACCC 60.004 57.895 0.00 0.00 0.00 4.61
2593 6053 1.808390 CCGAACGAACCACCCGATC 60.808 63.158 0.00 0.00 0.00 3.69
2594 6054 1.080366 CGAACGAACCACCCGATCA 60.080 57.895 0.00 0.00 0.00 2.92
2595 6055 1.076533 CGAACGAACCACCCGATCAG 61.077 60.000 0.00 0.00 0.00 2.90
2596 6056 0.037605 GAACGAACCACCCGATCAGT 60.038 55.000 0.00 0.00 0.00 3.41
2597 6057 0.320421 AACGAACCACCCGATCAGTG 60.320 55.000 6.00 6.00 34.91 3.66
2602 6062 2.981302 CACCCGATCAGTGGCAGA 59.019 61.111 5.19 0.00 0.00 4.26
2603 6063 1.153489 CACCCGATCAGTGGCAGAG 60.153 63.158 5.19 0.00 0.00 3.35
2604 6064 2.202987 CCCGATCAGTGGCAGAGC 60.203 66.667 0.00 0.00 0.00 4.09
2605 6065 2.729479 CCCGATCAGTGGCAGAGCT 61.729 63.158 0.00 0.00 0.00 4.09
2606 6066 1.395045 CCCGATCAGTGGCAGAGCTA 61.395 60.000 0.00 0.00 0.00 3.32
2607 6067 0.249238 CCGATCAGTGGCAGAGCTAC 60.249 60.000 0.00 0.00 40.33 3.58
2608 6068 0.593518 CGATCAGTGGCAGAGCTACG 60.594 60.000 0.00 0.00 44.64 3.51
2609 6069 0.457851 GATCAGTGGCAGAGCTACGT 59.542 55.000 0.00 0.00 44.64 3.57
2610 6070 0.174389 ATCAGTGGCAGAGCTACGTG 59.826 55.000 0.00 0.48 44.64 4.49
2611 6071 0.893727 TCAGTGGCAGAGCTACGTGA 60.894 55.000 0.00 2.60 44.64 4.35
2612 6072 0.457509 CAGTGGCAGAGCTACGTGAG 60.458 60.000 0.00 0.00 44.64 3.51
2613 6073 1.153745 GTGGCAGAGCTACGTGAGG 60.154 63.158 0.00 0.00 29.24 3.86
2614 6074 2.351244 TGGCAGAGCTACGTGAGGG 61.351 63.158 0.00 0.00 0.00 4.30
2615 6075 2.202810 GCAGAGCTACGTGAGGGC 60.203 66.667 0.00 0.00 0.00 5.19
2616 6076 3.006756 GCAGAGCTACGTGAGGGCA 62.007 63.158 0.00 0.00 36.64 5.36
2617 6077 1.591703 CAGAGCTACGTGAGGGCAA 59.408 57.895 0.00 0.00 36.64 4.52
2618 6078 0.037326 CAGAGCTACGTGAGGGCAAA 60.037 55.000 0.00 0.00 36.64 3.68
2619 6079 0.685097 AGAGCTACGTGAGGGCAAAA 59.315 50.000 0.00 0.00 36.64 2.44
2620 6080 1.079503 GAGCTACGTGAGGGCAAAAG 58.920 55.000 0.00 0.00 36.64 2.27
2621 6081 0.321653 AGCTACGTGAGGGCAAAAGG 60.322 55.000 0.00 0.00 36.64 3.11
2622 6082 0.605589 GCTACGTGAGGGCAAAAGGT 60.606 55.000 0.00 0.00 34.85 3.50
2623 6083 1.156736 CTACGTGAGGGCAAAAGGTG 58.843 55.000 0.00 0.00 0.00 4.00
2624 6084 0.250553 TACGTGAGGGCAAAAGGTGG 60.251 55.000 0.00 0.00 0.00 4.61
2631 6091 2.046988 GCAAAAGGTGGCCATGGC 60.047 61.111 29.47 29.47 41.06 4.40
2647 6107 3.140814 GCCCGCCCAGCCTAAAAG 61.141 66.667 0.00 0.00 0.00 2.27
2648 6108 3.140814 CCCGCCCAGCCTAAAAGC 61.141 66.667 0.00 0.00 0.00 3.51
2649 6109 2.361104 CCGCCCAGCCTAAAAGCA 60.361 61.111 0.00 0.00 34.23 3.91
2650 6110 1.976474 CCGCCCAGCCTAAAAGCAA 60.976 57.895 0.00 0.00 34.23 3.91
2651 6111 1.531739 CCGCCCAGCCTAAAAGCAAA 61.532 55.000 0.00 0.00 34.23 3.68
2652 6112 0.316841 CGCCCAGCCTAAAAGCAAAA 59.683 50.000 0.00 0.00 34.23 2.44
2653 6113 1.795768 GCCCAGCCTAAAAGCAAAAC 58.204 50.000 0.00 0.00 34.23 2.43
2654 6114 1.069978 GCCCAGCCTAAAAGCAAAACA 59.930 47.619 0.00 0.00 34.23 2.83
2655 6115 2.754472 CCCAGCCTAAAAGCAAAACAC 58.246 47.619 0.00 0.00 34.23 3.32
2656 6116 2.365293 CCCAGCCTAAAAGCAAAACACT 59.635 45.455 0.00 0.00 34.23 3.55
2657 6117 3.552890 CCCAGCCTAAAAGCAAAACACTC 60.553 47.826 0.00 0.00 34.23 3.51
2658 6118 3.068024 CCAGCCTAAAAGCAAAACACTCA 59.932 43.478 0.00 0.00 34.23 3.41
2659 6119 4.044426 CAGCCTAAAAGCAAAACACTCAC 58.956 43.478 0.00 0.00 34.23 3.51
2660 6120 3.699038 AGCCTAAAAGCAAAACACTCACA 59.301 39.130 0.00 0.00 34.23 3.58
2661 6121 3.796717 GCCTAAAAGCAAAACACTCACAC 59.203 43.478 0.00 0.00 0.00 3.82
2662 6122 4.440112 GCCTAAAAGCAAAACACTCACACT 60.440 41.667 0.00 0.00 0.00 3.55
2663 6123 5.220970 GCCTAAAAGCAAAACACTCACACTA 60.221 40.000 0.00 0.00 0.00 2.74
2664 6124 6.515035 GCCTAAAAGCAAAACACTCACACTAT 60.515 38.462 0.00 0.00 0.00 2.12
2665 6125 6.857964 CCTAAAAGCAAAACACTCACACTATG 59.142 38.462 0.00 0.00 0.00 2.23
2666 6126 3.904136 AGCAAAACACTCACACTATGC 57.096 42.857 0.00 0.00 0.00 3.14
2667 6127 3.213506 AGCAAAACACTCACACTATGCA 58.786 40.909 0.00 0.00 35.11 3.96
2668 6128 3.822735 AGCAAAACACTCACACTATGCAT 59.177 39.130 3.79 3.79 35.11 3.96
2669 6129 3.916172 GCAAAACACTCACACTATGCATG 59.084 43.478 10.16 1.82 33.00 4.06
2670 6130 4.320421 GCAAAACACTCACACTATGCATGA 60.320 41.667 10.16 0.00 33.00 3.07
2671 6131 5.761003 CAAAACACTCACACTATGCATGAA 58.239 37.500 10.16 0.00 0.00 2.57
2672 6132 5.618056 AAACACTCACACTATGCATGAAG 57.382 39.130 10.16 1.59 0.00 3.02
2673 6133 4.277515 ACACTCACACTATGCATGAAGT 57.722 40.909 10.16 2.34 0.00 3.01
2674 6134 3.999001 ACACTCACACTATGCATGAAGTG 59.001 43.478 22.50 22.50 46.84 3.16
2675 6135 4.248058 CACTCACACTATGCATGAAGTGA 58.752 43.478 28.31 24.40 44.79 3.41
2676 6136 4.874396 CACTCACACTATGCATGAAGTGAT 59.126 41.667 28.31 14.47 44.79 3.06
2677 6137 4.874396 ACTCACACTATGCATGAAGTGATG 59.126 41.667 28.31 22.08 44.79 3.07
2678 6138 4.193865 TCACACTATGCATGAAGTGATGG 58.806 43.478 28.31 18.89 44.79 3.51
2679 6139 2.947652 ACACTATGCATGAAGTGATGGC 59.052 45.455 28.31 0.00 44.79 4.40
2680 6140 2.292569 CACTATGCATGAAGTGATGGCC 59.707 50.000 20.47 0.00 44.79 5.36
2681 6141 2.092267 ACTATGCATGAAGTGATGGCCA 60.092 45.455 8.56 8.56 0.00 5.36
2682 6142 1.399714 ATGCATGAAGTGATGGCCAG 58.600 50.000 13.05 0.00 0.00 4.85
2683 6143 1.317431 TGCATGAAGTGATGGCCAGC 61.317 55.000 15.83 15.83 0.00 4.85
2684 6144 1.035932 GCATGAAGTGATGGCCAGCT 61.036 55.000 23.69 11.94 0.00 4.24
2685 6145 1.022735 CATGAAGTGATGGCCAGCTC 58.977 55.000 23.69 19.27 0.00 4.09
2686 6146 0.622136 ATGAAGTGATGGCCAGCTCA 59.378 50.000 23.69 17.92 0.00 4.26
2687 6147 0.401356 TGAAGTGATGGCCAGCTCAA 59.599 50.000 23.69 5.80 0.00 3.02
2688 6148 1.093159 GAAGTGATGGCCAGCTCAAG 58.907 55.000 23.69 0.00 0.00 3.02
2689 6149 0.694771 AAGTGATGGCCAGCTCAAGA 59.305 50.000 23.69 0.00 0.00 3.02
2690 6150 0.252479 AGTGATGGCCAGCTCAAGAG 59.748 55.000 23.69 0.00 0.00 2.85
2706 6166 6.512342 CTCAAGAGCAATTTCCTTCAGATT 57.488 37.500 0.00 0.00 0.00 2.40
2707 6167 7.621428 CTCAAGAGCAATTTCCTTCAGATTA 57.379 36.000 0.00 0.00 0.00 1.75
2708 6168 7.621428 TCAAGAGCAATTTCCTTCAGATTAG 57.379 36.000 0.00 0.00 0.00 1.73
2709 6169 6.094603 TCAAGAGCAATTTCCTTCAGATTAGC 59.905 38.462 0.00 0.00 0.00 3.09
2710 6170 4.886489 AGAGCAATTTCCTTCAGATTAGCC 59.114 41.667 0.00 0.00 0.00 3.93
2711 6171 4.864726 AGCAATTTCCTTCAGATTAGCCT 58.135 39.130 0.00 0.00 0.00 4.58
2712 6172 4.643784 AGCAATTTCCTTCAGATTAGCCTG 59.356 41.667 0.00 0.00 35.55 4.85
2713 6173 4.735873 GCAATTTCCTTCAGATTAGCCTGC 60.736 45.833 0.00 0.00 34.28 4.85
2714 6174 2.717639 TTCCTTCAGATTAGCCTGCC 57.282 50.000 0.00 0.00 34.28 4.85
2715 6175 0.839946 TCCTTCAGATTAGCCTGCCC 59.160 55.000 0.00 0.00 34.28 5.36
2716 6176 0.548031 CCTTCAGATTAGCCTGCCCA 59.452 55.000 0.00 0.00 34.28 5.36
2717 6177 1.476471 CCTTCAGATTAGCCTGCCCAG 60.476 57.143 0.00 0.00 34.28 4.45
2718 6178 0.107017 TTCAGATTAGCCTGCCCAGC 60.107 55.000 0.00 0.00 34.28 4.85
2719 6179 1.527844 CAGATTAGCCTGCCCAGCC 60.528 63.158 0.00 0.00 0.00 4.85
2720 6180 2.203408 GATTAGCCTGCCCAGCCC 60.203 66.667 0.00 0.00 0.00 5.19
2721 6181 4.195334 ATTAGCCTGCCCAGCCCG 62.195 66.667 0.00 0.00 0.00 6.13
2730 6190 4.994756 CCCAGCCCGCCCAGTTTT 62.995 66.667 0.00 0.00 0.00 2.43
2731 6191 2.917227 CCAGCCCGCCCAGTTTTT 60.917 61.111 0.00 0.00 0.00 1.94
2747 6207 2.217429 TTTTTGTTTCAAGCTCCGCC 57.783 45.000 0.00 0.00 0.00 6.13
2748 6208 1.107114 TTTTGTTTCAAGCTCCGCCA 58.893 45.000 0.00 0.00 0.00 5.69
2749 6209 0.383949 TTTGTTTCAAGCTCCGCCAC 59.616 50.000 0.00 0.00 0.00 5.01
2750 6210 0.465460 TTGTTTCAAGCTCCGCCACT 60.465 50.000 0.00 0.00 0.00 4.00
2751 6211 1.165907 TGTTTCAAGCTCCGCCACTG 61.166 55.000 0.00 0.00 0.00 3.66
2752 6212 2.260869 TTTCAAGCTCCGCCACTGC 61.261 57.895 0.00 0.00 0.00 4.40
2753 6213 2.956799 TTTCAAGCTCCGCCACTGCA 62.957 55.000 0.00 0.00 37.32 4.41
2754 6214 3.730761 CAAGCTCCGCCACTGCAC 61.731 66.667 0.00 0.00 37.32 4.57
2781 6241 4.335647 ATCATCATCCCCGCCGCC 62.336 66.667 0.00 0.00 0.00 6.13
2814 6278 4.468643 TCGACTTCACAACAACAAACAAC 58.531 39.130 0.00 0.00 0.00 3.32
2815 6279 4.214545 TCGACTTCACAACAACAAACAACT 59.785 37.500 0.00 0.00 0.00 3.16
2820 6284 1.187715 CAACAACAAACAACTCGCGG 58.812 50.000 6.13 0.00 0.00 6.46
2862 6326 2.603110 CCGACTACATCAACCATTGTCG 59.397 50.000 0.00 0.00 43.31 4.35
2863 6327 3.250744 CGACTACATCAACCATTGTCGT 58.749 45.455 0.00 0.00 40.24 4.34
2864 6328 3.060761 CGACTACATCAACCATTGTCGTG 59.939 47.826 0.00 0.00 40.24 4.35
2865 6329 2.742053 ACTACATCAACCATTGTCGTGC 59.258 45.455 0.00 0.00 0.00 5.34
2881 6345 2.279120 GCCTCCGACATCGCTCAG 60.279 66.667 0.00 0.00 38.18 3.35
2885 6349 2.107750 CCGACATCGCTCAGCCAT 59.892 61.111 0.00 0.00 38.18 4.40
2900 6364 1.134128 AGCCATATCGTCATTGCCACA 60.134 47.619 0.00 0.00 0.00 4.17
2908 6373 0.895100 GTCATTGCCACAGAAGCCCA 60.895 55.000 0.00 0.00 0.00 5.36
2919 6384 2.521708 AAGCCCAACACCAGCACC 60.522 61.111 0.00 0.00 0.00 5.01
2920 6385 3.372422 AAGCCCAACACCAGCACCA 62.372 57.895 0.00 0.00 0.00 4.17
2945 6411 4.496670 CGGTGGAAGTCCGTCATC 57.503 61.111 0.00 0.00 42.62 2.92
2949 6415 2.100916 CGGTGGAAGTCCGTCATCTATT 59.899 50.000 0.00 0.00 42.62 1.73
2953 6419 5.360591 GTGGAAGTCCGTCATCTATTCATT 58.639 41.667 0.00 0.00 39.43 2.57
2954 6420 5.817816 GTGGAAGTCCGTCATCTATTCATTT 59.182 40.000 0.00 0.00 39.43 2.32
3005 6471 3.063997 CCATTGTTAATCCACGAGTGAGC 59.936 47.826 4.59 0.00 0.00 4.26
3015 6481 3.749064 GAGTGAGCGGCGGTGAGA 61.749 66.667 19.47 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 7.938140 TGTGGTCTCTTCAATTATTTTAGGG 57.062 36.000 0.00 0.00 0.00 3.53
73 74 1.618837 TCAAAGTGAGTCCCTTCCTCG 59.381 52.381 0.00 0.00 0.00 4.63
79 80 2.127708 ACTGGTTCAAAGTGAGTCCCT 58.872 47.619 0.00 0.00 0.00 4.20
81 82 3.194005 TCACTGGTTCAAAGTGAGTCC 57.806 47.619 2.24 0.00 46.96 3.85
137 139 4.782019 TGGTTTTCCATATGTGCAACTC 57.218 40.909 1.24 0.00 46.22 3.01
192 195 3.059868 CGAAACACCACATGTCACACTAC 60.060 47.826 0.00 0.00 42.31 2.73
193 196 3.127589 CGAAACACCACATGTCACACTA 58.872 45.455 0.00 0.00 42.31 2.74
204 207 3.185797 GTGAGTATTCACCGAAACACCAC 59.814 47.826 7.11 0.00 46.47 4.16
222 225 6.431234 AGGGCACTAAAAATTCTAGTTGTGAG 59.569 38.462 0.00 0.00 0.00 3.51
264 267 8.608185 AAACCATTCATATTGGTCCAGTTTAT 57.392 30.769 0.00 0.00 46.75 1.40
301 304 4.018688 CCTTTGCTAGGGTTTAGGGTTAGT 60.019 45.833 0.00 0.00 40.67 2.24
302 305 4.524053 CCTTTGCTAGGGTTTAGGGTTAG 58.476 47.826 0.00 0.00 40.67 2.34
304 307 3.451402 CCTTTGCTAGGGTTTAGGGTT 57.549 47.619 0.00 0.00 40.67 4.11
343 1628 7.611079 TCATAGGTTTCATCACATTTGTCATCA 59.389 33.333 0.00 0.00 0.00 3.07
349 1634 8.815141 TTTTGTCATAGGTTTCATCACATTTG 57.185 30.769 0.00 0.00 0.00 2.32
352 1637 8.352137 TCATTTTGTCATAGGTTTCATCACAT 57.648 30.769 0.00 0.00 0.00 3.21
353 1638 7.757941 TCATTTTGTCATAGGTTTCATCACA 57.242 32.000 0.00 0.00 0.00 3.58
358 1643 9.859427 GAATTGATCATTTTGTCATAGGTTTCA 57.141 29.630 0.00 0.00 0.00 2.69
369 1654 9.509956 AAATGAATGTGGAATTGATCATTTTGT 57.490 25.926 0.00 0.00 41.94 2.83
374 1659 7.148035 TGTCGAAATGAATGTGGAATTGATCAT 60.148 33.333 0.00 0.00 0.00 2.45
375 1660 6.150809 TGTCGAAATGAATGTGGAATTGATCA 59.849 34.615 0.00 0.00 0.00 2.92
376 1661 6.554419 TGTCGAAATGAATGTGGAATTGATC 58.446 36.000 0.00 0.00 0.00 2.92
377 1662 6.513806 TGTCGAAATGAATGTGGAATTGAT 57.486 33.333 0.00 0.00 0.00 2.57
378 1663 5.956068 TGTCGAAATGAATGTGGAATTGA 57.044 34.783 0.00 0.00 0.00 2.57
379 1664 6.807720 TGAATGTCGAAATGAATGTGGAATTG 59.192 34.615 0.00 0.00 0.00 2.32
383 1668 4.759183 TGTGAATGTCGAAATGAATGTGGA 59.241 37.500 0.00 0.00 0.00 4.02
388 1673 4.406069 CGCTTGTGAATGTCGAAATGAAT 58.594 39.130 0.00 0.00 0.00 2.57
389 1674 3.364864 CCGCTTGTGAATGTCGAAATGAA 60.365 43.478 0.00 0.00 0.00 2.57
391 1676 2.508867 CCGCTTGTGAATGTCGAAATG 58.491 47.619 0.00 0.00 0.00 2.32
397 1682 2.202349 GCGCCGCTTGTGAATGTC 60.202 61.111 0.00 0.00 0.00 3.06
416 1701 2.095372 GGCAACTAGGTGACGCAATAAC 59.905 50.000 13.29 0.00 0.00 1.89
420 1705 1.302192 GGGCAACTAGGTGACGCAA 60.302 57.895 13.29 0.00 0.00 4.85
422 1707 2.436115 GGGGCAACTAGGTGACGC 60.436 66.667 15.79 15.79 31.60 5.19
429 1714 3.399181 TGAGGGCGGGGCAACTAG 61.399 66.667 0.00 0.00 0.00 2.57
476 1761 0.761802 GGGTTAGAGGGATGGCTGAG 59.238 60.000 0.00 0.00 0.00 3.35
480 1765 2.829592 CGGGGTTAGAGGGATGGC 59.170 66.667 0.00 0.00 0.00 4.40
503 1788 4.812476 TCGCGGGAGATTGCACGG 62.812 66.667 6.13 0.00 0.00 4.94
505 1790 2.434185 TGTCGCGGGAGATTGCAC 60.434 61.111 6.13 0.00 0.00 4.57
520 1805 1.352352 CAGGGGAGAGGACAAATGTGT 59.648 52.381 0.00 0.00 42.10 3.72
522 1807 1.630878 GACAGGGGAGAGGACAAATGT 59.369 52.381 0.00 0.00 0.00 2.71
527 1812 2.680352 GCGACAGGGGAGAGGACA 60.680 66.667 0.00 0.00 0.00 4.02
560 1848 1.517475 GCGGAGGAGACGAAGAAGC 60.517 63.158 0.00 0.00 0.00 3.86
568 1856 3.519930 GGAGACGGCGGAGGAGAC 61.520 72.222 13.24 0.00 0.00 3.36
604 1892 1.995484 CTCGACAGTGTGATTTGCGAT 59.005 47.619 0.00 0.00 0.00 4.58
618 1906 1.578206 CGCACTCTGACCTCTCGACA 61.578 60.000 0.00 0.00 0.00 4.35
645 1933 2.424705 TTCTACCGCTTTGCCGTCGT 62.425 55.000 0.00 0.00 0.00 4.34
649 1937 1.327764 GAATCTTCTACCGCTTTGCCG 59.672 52.381 0.00 0.00 0.00 5.69
873 2161 0.322546 GGCGACTTGATGGGAAAGGT 60.323 55.000 0.00 0.00 0.00 3.50
955 2243 2.045340 GACGGTGGTGGGATTGGG 60.045 66.667 0.00 0.00 0.00 4.12
994 2282 0.107800 CAGGAGAGTGGCATCTGGTG 60.108 60.000 0.00 0.00 0.00 4.17
1736 3024 2.797278 ATGCCGACGTCTCCATCCC 61.797 63.158 14.70 0.00 0.00 3.85
1996 3284 0.108424 CTCCGCTTCTTCCAGAGGTG 60.108 60.000 0.00 0.00 35.34 4.00
2106 3394 9.211485 GGAAAGAAATCACATCAACAATTCAAT 57.789 29.630 0.00 0.00 0.00 2.57
2107 3395 8.423349 AGGAAAGAAATCACATCAACAATTCAA 58.577 29.630 0.00 0.00 0.00 2.69
2108 3396 7.954835 AGGAAAGAAATCACATCAACAATTCA 58.045 30.769 0.00 0.00 0.00 2.57
2248 3552 7.925043 TTCACCTGTTTTCTGTTAACTAACA 57.075 32.000 7.22 10.49 43.32 2.41
2278 5707 1.004277 GTGCCTCCCAACCTATTGTGA 59.996 52.381 0.00 0.00 33.60 3.58
2286 5715 0.890996 CTTCTGTGTGCCTCCCAACC 60.891 60.000 0.00 0.00 0.00 3.77
2291 5720 0.972883 AGACTCTTCTGTGTGCCTCC 59.027 55.000 0.00 0.00 0.00 4.30
2293 5722 4.344978 TGTATAGACTCTTCTGTGTGCCT 58.655 43.478 0.00 0.00 32.75 4.75
2314 5749 9.831737 CAATGAGACCTTCTTTATACTGTTTTG 57.168 33.333 0.00 0.00 0.00 2.44
2390 5827 1.019278 CAATGGTGAAGGGACGACGG 61.019 60.000 0.00 0.00 0.00 4.79
2403 5840 1.526575 CGGAGTTGCTTGCCAATGGT 61.527 55.000 0.00 0.00 35.55 3.55
2409 5846 1.869690 GAAGTCGGAGTTGCTTGCC 59.130 57.895 2.13 0.00 0.00 4.52
2416 5853 2.401351 GTTTGTAGCGAAGTCGGAGTT 58.599 47.619 2.47 0.00 40.23 3.01
2428 5865 5.266242 GTTGGATTGATGATCGTTTGTAGC 58.734 41.667 0.00 0.00 35.49 3.58
2430 5867 4.638421 GGGTTGGATTGATGATCGTTTGTA 59.362 41.667 0.00 0.00 35.49 2.41
2434 5871 3.016736 GTGGGTTGGATTGATGATCGTT 58.983 45.455 0.00 0.00 35.49 3.85
2439 5876 0.334676 GGGGTGGGTTGGATTGATGA 59.665 55.000 0.00 0.00 0.00 2.92
2441 5878 1.306296 CGGGGTGGGTTGGATTGAT 59.694 57.895 0.00 0.00 0.00 2.57
2458 5895 4.143333 CCCCACGCACCCTCTACG 62.143 72.222 0.00 0.00 0.00 3.51
2488 5941 4.717629 TCCTTGCCGTGAGTCGCG 62.718 66.667 19.03 19.03 38.35 5.87
2491 5944 0.798776 CATTGTCCTTGCCGTGAGTC 59.201 55.000 0.00 0.00 0.00 3.36
2496 5949 1.472480 GTATTGCATTGTCCTTGCCGT 59.528 47.619 0.00 0.00 39.39 5.68
2499 5952 1.742831 TCCGTATTGCATTGTCCTTGC 59.257 47.619 0.00 0.00 40.55 4.01
2505 5958 3.863424 CGTTAGAGTCCGTATTGCATTGT 59.137 43.478 0.00 0.00 0.00 2.71
2509 5962 3.441222 TCTTCGTTAGAGTCCGTATTGCA 59.559 43.478 0.00 0.00 0.00 4.08
2510 5963 4.025015 TCTTCGTTAGAGTCCGTATTGC 57.975 45.455 0.00 0.00 0.00 3.56
2524 5982 5.952033 AGTTCTATTTCGTAGCTCTTCGTT 58.048 37.500 0.00 0.00 0.00 3.85
2540 5998 2.296471 CGTCGGCCTTGGATAGTTCTAT 59.704 50.000 0.00 0.00 0.00 1.98
2565 6025 0.989890 GTTCGTTCGGTGATCTTCGG 59.010 55.000 8.05 0.59 0.00 4.30
2589 6049 0.593518 CGTAGCTCTGCCACTGATCG 60.594 60.000 0.00 0.00 0.00 3.69
2593 6053 0.457509 CTCACGTAGCTCTGCCACTG 60.458 60.000 0.00 0.00 0.00 3.66
2594 6054 1.599606 CCTCACGTAGCTCTGCCACT 61.600 60.000 0.00 0.00 0.00 4.00
2595 6055 1.153745 CCTCACGTAGCTCTGCCAC 60.154 63.158 0.00 0.00 0.00 5.01
2596 6056 2.351244 CCCTCACGTAGCTCTGCCA 61.351 63.158 0.00 0.00 0.00 4.92
2597 6057 2.496817 CCCTCACGTAGCTCTGCC 59.503 66.667 0.00 0.00 0.00 4.85
2598 6058 2.202810 GCCCTCACGTAGCTCTGC 60.203 66.667 0.00 0.00 0.00 4.26
2599 6059 0.037326 TTTGCCCTCACGTAGCTCTG 60.037 55.000 0.00 0.00 0.00 3.35
2600 6060 0.685097 TTTTGCCCTCACGTAGCTCT 59.315 50.000 0.00 0.00 0.00 4.09
2601 6061 1.079503 CTTTTGCCCTCACGTAGCTC 58.920 55.000 0.00 0.00 0.00 4.09
2602 6062 0.321653 CCTTTTGCCCTCACGTAGCT 60.322 55.000 0.00 0.00 0.00 3.32
2603 6063 0.605589 ACCTTTTGCCCTCACGTAGC 60.606 55.000 0.00 0.00 0.00 3.58
2604 6064 1.156736 CACCTTTTGCCCTCACGTAG 58.843 55.000 0.00 0.00 0.00 3.51
2605 6065 0.250553 CCACCTTTTGCCCTCACGTA 60.251 55.000 0.00 0.00 0.00 3.57
2606 6066 1.528309 CCACCTTTTGCCCTCACGT 60.528 57.895 0.00 0.00 0.00 4.49
2607 6067 2.919494 GCCACCTTTTGCCCTCACG 61.919 63.158 0.00 0.00 0.00 4.35
2608 6068 2.574018 GGCCACCTTTTGCCCTCAC 61.574 63.158 0.00 0.00 41.97 3.51
2609 6069 2.203625 GGCCACCTTTTGCCCTCA 60.204 61.111 0.00 0.00 41.97 3.86
2614 6074 2.046988 GCCATGGCCACCTTTTGC 60.047 61.111 27.24 0.15 34.56 3.68
2630 6090 3.140814 CTTTTAGGCTGGGCGGGC 61.141 66.667 0.00 0.00 0.00 6.13
2631 6091 3.140814 GCTTTTAGGCTGGGCGGG 61.141 66.667 0.00 0.00 0.00 6.13
2632 6092 1.531739 TTTGCTTTTAGGCTGGGCGG 61.532 55.000 0.00 0.00 0.00 6.13
2633 6093 0.316841 TTTTGCTTTTAGGCTGGGCG 59.683 50.000 0.00 0.00 0.00 6.13
2634 6094 1.069978 TGTTTTGCTTTTAGGCTGGGC 59.930 47.619 0.00 0.00 0.00 5.36
2635 6095 2.365293 AGTGTTTTGCTTTTAGGCTGGG 59.635 45.455 0.00 0.00 0.00 4.45
2636 6096 3.068024 TGAGTGTTTTGCTTTTAGGCTGG 59.932 43.478 0.00 0.00 0.00 4.85
2637 6097 4.044426 GTGAGTGTTTTGCTTTTAGGCTG 58.956 43.478 0.00 0.00 0.00 4.85
2638 6098 3.699038 TGTGAGTGTTTTGCTTTTAGGCT 59.301 39.130 0.00 0.00 0.00 4.58
2639 6099 3.796717 GTGTGAGTGTTTTGCTTTTAGGC 59.203 43.478 0.00 0.00 0.00 3.93
2640 6100 5.248870 AGTGTGAGTGTTTTGCTTTTAGG 57.751 39.130 0.00 0.00 0.00 2.69
2641 6101 6.360681 GCATAGTGTGAGTGTTTTGCTTTTAG 59.639 38.462 0.00 0.00 0.00 1.85
2642 6102 6.183360 TGCATAGTGTGAGTGTTTTGCTTTTA 60.183 34.615 0.00 0.00 0.00 1.52
2643 6103 5.043248 GCATAGTGTGAGTGTTTTGCTTTT 58.957 37.500 0.00 0.00 0.00 2.27
2644 6104 4.097741 TGCATAGTGTGAGTGTTTTGCTTT 59.902 37.500 0.00 0.00 0.00 3.51
2645 6105 3.631686 TGCATAGTGTGAGTGTTTTGCTT 59.368 39.130 0.00 0.00 0.00 3.91
2646 6106 3.213506 TGCATAGTGTGAGTGTTTTGCT 58.786 40.909 0.00 0.00 0.00 3.91
2647 6107 3.624326 TGCATAGTGTGAGTGTTTTGC 57.376 42.857 0.00 0.00 0.00 3.68
2648 6108 5.361135 TCATGCATAGTGTGAGTGTTTTG 57.639 39.130 0.00 0.00 0.00 2.44
2649 6109 5.532406 ACTTCATGCATAGTGTGAGTGTTTT 59.468 36.000 0.00 0.00 0.00 2.43
2650 6110 5.049198 CACTTCATGCATAGTGTGAGTGTTT 60.049 40.000 17.88 0.00 37.56 2.83
2651 6111 4.453478 CACTTCATGCATAGTGTGAGTGTT 59.547 41.667 17.88 0.00 37.56 3.32
2652 6112 3.999001 CACTTCATGCATAGTGTGAGTGT 59.001 43.478 17.88 5.61 37.56 3.55
2653 6113 4.248058 TCACTTCATGCATAGTGTGAGTG 58.752 43.478 22.86 17.92 41.87 3.51
2654 6114 4.541973 TCACTTCATGCATAGTGTGAGT 57.458 40.909 22.86 9.54 41.87 3.41
2655 6115 4.272748 CCATCACTTCATGCATAGTGTGAG 59.727 45.833 22.86 15.61 41.87 3.51
2656 6116 4.193865 CCATCACTTCATGCATAGTGTGA 58.806 43.478 22.86 22.23 41.87 3.58
2657 6117 3.242969 GCCATCACTTCATGCATAGTGTG 60.243 47.826 22.86 19.49 41.87 3.82
2658 6118 2.947652 GCCATCACTTCATGCATAGTGT 59.052 45.455 22.86 11.91 41.87 3.55
2659 6119 2.292569 GGCCATCACTTCATGCATAGTG 59.707 50.000 19.45 19.45 42.41 2.74
2660 6120 2.092267 TGGCCATCACTTCATGCATAGT 60.092 45.455 0.00 0.00 0.00 2.12
2661 6121 2.552743 CTGGCCATCACTTCATGCATAG 59.447 50.000 5.51 0.00 0.00 2.23
2662 6122 2.578786 CTGGCCATCACTTCATGCATA 58.421 47.619 5.51 0.00 0.00 3.14
2663 6123 1.399714 CTGGCCATCACTTCATGCAT 58.600 50.000 5.51 0.00 0.00 3.96
2664 6124 1.317431 GCTGGCCATCACTTCATGCA 61.317 55.000 5.51 0.00 0.00 3.96
2665 6125 1.035932 AGCTGGCCATCACTTCATGC 61.036 55.000 5.51 2.03 0.00 4.06
2666 6126 1.022735 GAGCTGGCCATCACTTCATG 58.977 55.000 5.51 0.00 0.00 3.07
2667 6127 0.622136 TGAGCTGGCCATCACTTCAT 59.378 50.000 5.51 0.00 0.00 2.57
2668 6128 0.401356 TTGAGCTGGCCATCACTTCA 59.599 50.000 5.51 0.00 0.00 3.02
2669 6129 1.093159 CTTGAGCTGGCCATCACTTC 58.907 55.000 5.51 0.00 0.00 3.01
2670 6130 0.694771 TCTTGAGCTGGCCATCACTT 59.305 50.000 5.51 0.00 0.00 3.16
2671 6131 0.252479 CTCTTGAGCTGGCCATCACT 59.748 55.000 5.51 3.90 0.00 3.41
2672 6132 1.375098 GCTCTTGAGCTGGCCATCAC 61.375 60.000 5.51 0.04 0.00 3.06
2673 6133 1.077930 GCTCTTGAGCTGGCCATCA 60.078 57.895 5.51 5.13 0.00 3.07
2674 6134 0.679002 TTGCTCTTGAGCTGGCCATC 60.679 55.000 21.17 0.31 35.49 3.51
2675 6135 0.033405 ATTGCTCTTGAGCTGGCCAT 60.033 50.000 21.17 0.00 35.49 4.40
2676 6136 0.251474 AATTGCTCTTGAGCTGGCCA 60.251 50.000 21.17 4.71 35.49 5.36
2677 6137 0.893447 AAATTGCTCTTGAGCTGGCC 59.107 50.000 21.17 0.00 35.49 5.36
2678 6138 1.135170 GGAAATTGCTCTTGAGCTGGC 60.135 52.381 21.17 8.10 35.49 4.85
2679 6139 2.444421 AGGAAATTGCTCTTGAGCTGG 58.556 47.619 21.17 0.00 35.49 4.85
2680 6140 3.504906 TGAAGGAAATTGCTCTTGAGCTG 59.495 43.478 21.17 0.00 35.49 4.24
2681 6141 3.757493 CTGAAGGAAATTGCTCTTGAGCT 59.243 43.478 21.17 3.26 35.49 4.09
2682 6142 3.755378 TCTGAAGGAAATTGCTCTTGAGC 59.245 43.478 15.01 15.01 0.00 4.26
2683 6143 6.512342 AATCTGAAGGAAATTGCTCTTGAG 57.488 37.500 0.00 0.00 0.00 3.02
2684 6144 6.094603 GCTAATCTGAAGGAAATTGCTCTTGA 59.905 38.462 0.00 0.00 0.00 3.02
2685 6145 6.264088 GCTAATCTGAAGGAAATTGCTCTTG 58.736 40.000 0.00 0.00 0.00 3.02
2686 6146 5.359292 GGCTAATCTGAAGGAAATTGCTCTT 59.641 40.000 0.00 0.00 0.00 2.85
2687 6147 4.886489 GGCTAATCTGAAGGAAATTGCTCT 59.114 41.667 0.00 0.00 0.00 4.09
2688 6148 4.886489 AGGCTAATCTGAAGGAAATTGCTC 59.114 41.667 0.00 0.00 0.00 4.26
2689 6149 4.643784 CAGGCTAATCTGAAGGAAATTGCT 59.356 41.667 0.00 0.00 36.93 3.91
2690 6150 4.735873 GCAGGCTAATCTGAAGGAAATTGC 60.736 45.833 0.00 0.00 36.93 3.56
2691 6151 4.202090 GGCAGGCTAATCTGAAGGAAATTG 60.202 45.833 0.00 0.00 36.93 2.32
2692 6152 3.956848 GGCAGGCTAATCTGAAGGAAATT 59.043 43.478 0.00 0.00 36.93 1.82
2693 6153 3.560105 GGCAGGCTAATCTGAAGGAAAT 58.440 45.455 0.00 0.00 36.93 2.17
2694 6154 2.357154 GGGCAGGCTAATCTGAAGGAAA 60.357 50.000 0.00 0.00 36.93 3.13
2695 6155 1.212935 GGGCAGGCTAATCTGAAGGAA 59.787 52.381 0.00 0.00 36.93 3.36
2696 6156 0.839946 GGGCAGGCTAATCTGAAGGA 59.160 55.000 0.00 0.00 36.93 3.36
2697 6157 0.548031 TGGGCAGGCTAATCTGAAGG 59.452 55.000 0.00 0.00 36.93 3.46
2698 6158 1.964552 CTGGGCAGGCTAATCTGAAG 58.035 55.000 0.00 0.00 36.93 3.02
2699 6159 0.107017 GCTGGGCAGGCTAATCTGAA 60.107 55.000 0.00 0.00 36.93 3.02
2700 6160 1.528824 GCTGGGCAGGCTAATCTGA 59.471 57.895 0.00 0.00 36.93 3.27
2701 6161 4.154296 GCTGGGCAGGCTAATCTG 57.846 61.111 0.00 0.00 37.79 2.90
2713 6173 4.994756 AAAACTGGGCGGGCTGGG 62.995 66.667 0.26 0.00 0.00 4.45
2714 6174 2.917227 AAAAACTGGGCGGGCTGG 60.917 61.111 0.26 0.00 0.00 4.85
2752 6212 4.069869 GATGATGGGCATCGGGTG 57.930 61.111 0.00 0.00 43.57 4.61
2764 6224 4.335647 GGCGGCGGGGATGATGAT 62.336 66.667 9.78 0.00 0.00 2.45
2781 6241 2.806856 GAAGTCGAGGCTGCATGCG 61.807 63.158 14.09 9.16 44.05 4.73
2820 6284 0.313043 TCGGTCTTCTTCGGTGTGTC 59.687 55.000 0.00 0.00 0.00 3.67
2828 6292 1.132073 GTAGTCGGGTCGGTCTTCTTC 59.868 57.143 0.00 0.00 0.00 2.87
2864 6328 2.279120 CTGAGCGATGTCGGAGGC 60.279 66.667 4.44 0.00 40.23 4.70
2865 6329 2.279120 GCTGAGCGATGTCGGAGG 60.279 66.667 4.44 0.00 40.23 4.30
2881 6345 1.265095 CTGTGGCAATGACGATATGGC 59.735 52.381 0.00 0.00 39.81 4.40
2885 6349 2.279741 GCTTCTGTGGCAATGACGATA 58.720 47.619 0.00 0.00 0.00 2.92
2900 6364 1.529244 GTGCTGGTGTTGGGCTTCT 60.529 57.895 0.00 0.00 0.00 2.85
2908 6373 4.579384 CCCGGTGGTGCTGGTGTT 62.579 66.667 0.00 0.00 42.20 3.32
2938 6404 5.004440 CGCGGTATAAATGAATAGATGACGG 59.996 44.000 0.00 0.00 0.00 4.79
2945 6411 6.519761 GCAATTCACGCGGTATAAATGAATAG 59.480 38.462 12.47 0.00 38.69 1.73
2949 6415 3.874543 AGCAATTCACGCGGTATAAATGA 59.125 39.130 12.47 0.00 0.00 2.57
2953 6419 4.295870 CTCTAGCAATTCACGCGGTATAA 58.704 43.478 12.47 0.00 0.00 0.98
2954 6420 3.855895 GCTCTAGCAATTCACGCGGTATA 60.856 47.826 12.47 0.00 41.59 1.47
3005 6471 1.519455 GTCTTGGATCTCACCGCCG 60.519 63.158 0.00 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.