Multiple sequence alignment - TraesCS5D01G202900

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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 TraesCS5D01G202900 chr5D 100.000 6221 0 0 1 6221 308226207 308219987 0.000000e+00 11489.0
1 TraesCS5D01G202900 chr5D 100.000 38 0 0 1559 1596 556999538 556999575 3.110000e-08 71.3
2 TraesCS5D01G202900 chr5D 88.889 54 6 0 3808 3861 12926458 12926511 4.020000e-07 67.6
3 TraesCS5D01G202900 chr5D 97.500 40 0 1 1558 1596 436973086 436973125 4.020000e-07 67.6
4 TraesCS5D01G202900 chr5A 95.526 1788 42 17 4450 6218 389723434 389725202 0.000000e+00 2824.0
5 TraesCS5D01G202900 chr5A 92.227 1621 70 26 2856 4452 389721685 389723273 0.000000e+00 2244.0
6 TraesCS5D01G202900 chr5A 93.472 1011 36 6 557 1564 389718976 389719959 0.000000e+00 1474.0
7 TraesCS5D01G202900 chr5A 86.804 970 81 15 1621 2578 389719960 389720894 0.000000e+00 1038.0
8 TraesCS5D01G202900 chr5A 96.154 468 15 3 1 466 389718010 389718476 0.000000e+00 761.0
9 TraesCS5D01G202900 chr5A 89.655 203 20 1 2598 2799 389721192 389721394 2.230000e-64 257.0
10 TraesCS5D01G202900 chr5A 88.889 54 6 0 3808 3861 9833205 9833258 4.020000e-07 67.6
11 TraesCS5D01G202900 chr5A 87.037 54 7 0 3808 3861 9658026 9658079 1.870000e-05 62.1
12 TraesCS5D01G202900 chr5B 92.690 1628 83 17 2804 4406 353019062 353017446 0.000000e+00 2314.0
13 TraesCS5D01G202900 chr5B 94.465 1355 48 12 674 2010 353021241 353019896 0.000000e+00 2061.0
14 TraesCS5D01G202900 chr5B 94.801 1231 39 11 5007 6219 353016768 353015545 0.000000e+00 1895.0
15 TraesCS5D01G202900 chr5B 88.769 650 45 11 1 642 353036707 353036078 0.000000e+00 771.0
16 TraesCS5D01G202900 chr5B 89.043 575 45 10 2251 2816 353019662 353019097 0.000000e+00 697.0
17 TraesCS5D01G202900 chr5B 88.571 490 38 10 4498 4973 353017264 353016779 4.180000e-161 579.0
18 TraesCS5D01G202900 chr5B 88.333 60 7 0 3808 3867 12262493 12262434 8.650000e-09 73.1
19 TraesCS5D01G202900 chr7D 87.571 531 66 0 5507 6037 45105849 45106379 3.190000e-172 616.0
20 TraesCS5D01G202900 chr7D 83.101 503 72 6 5507 5997 45057668 45058169 4.420000e-121 446.0
21 TraesCS5D01G202900 chr7D 82.524 412 66 2 5507 5912 45028579 45028168 2.130000e-94 357.0
22 TraesCS5D01G202900 chr7D 86.026 229 28 3 5507 5733 45222118 45222344 6.230000e-60 243.0
23 TraesCS5D01G202900 chr4A 79.051 506 80 7 5507 6012 656771639 656772118 2.160000e-84 324.0
24 TraesCS5D01G202900 chrUn 78.854 506 81 7 5507 6012 245139722 245140201 1.010000e-82 318.0
25 TraesCS5D01G202900 chrUn 78.585 509 83 7 5507 6015 371971196 371970714 4.680000e-81 313.0
26 TraesCS5D01G202900 chr3D 76.327 245 50 8 5753 5993 359093194 359092954 2.350000e-24 124.0
27 TraesCS5D01G202900 chr3A 75.820 244 53 6 5753 5993 478666545 478666305 1.100000e-22 119.0
28 TraesCS5D01G202900 chr2D 100.000 38 0 0 1559 1596 440316016 440316053 3.110000e-08 71.3
29 TraesCS5D01G202900 chr2B 100.000 38 0 0 1559 1596 518041442 518041479 3.110000e-08 71.3
30 TraesCS5D01G202900 chr4D 100.000 37 0 0 1560 1596 504343830 504343794 1.120000e-07 69.4
31 TraesCS5D01G202900 chr4D 100.000 37 0 0 1560 1596 505192381 505192417 1.120000e-07 69.4
32 TraesCS5D01G202900 chr4B 100.000 37 0 0 1560 1596 651906310 651906346 1.120000e-07 69.4
33 TraesCS5D01G202900 chr4B 93.182 44 3 0 1562 1605 636033655 636033698 1.450000e-06 65.8
34 TraesCS5D01G202900 chr6D 86.441 59 6 2 3810 3867 283456410 283456353 5.210000e-06 63.9
35 TraesCS5D01G202900 chr6B 86.441 59 6 2 3810 3867 444306060 444306003 5.210000e-06 63.9


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 TraesCS5D01G202900 chr5D 308219987 308226207 6220 True 11489.0 11489 100.000000 1 6221 1 chr5D.!!$R1 6220
1 TraesCS5D01G202900 chr5A 389718010 389725202 7192 False 1433.0 2824 92.306333 1 6218 6 chr5A.!!$F3 6217
2 TraesCS5D01G202900 chr5B 353015545 353021241 5696 True 1509.2 2314 91.914000 674 6219 5 chr5B.!!$R3 5545
3 TraesCS5D01G202900 chr5B 353036078 353036707 629 True 771.0 771 88.769000 1 642 1 chr5B.!!$R2 641
4 TraesCS5D01G202900 chr7D 45105849 45106379 530 False 616.0 616 87.571000 5507 6037 1 chr7D.!!$F2 530
5 TraesCS5D01G202900 chr7D 45057668 45058169 501 False 446.0 446 83.101000 5507 5997 1 chr7D.!!$F1 490

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
548 559 0.037046 GAACCCATTTGGCAGGCAAG 60.037 55.000 9.70 0.81 37.83 4.01 F
555 566 0.469070 TTTGGCAGGCAAGCATGTTT 59.531 45.000 9.70 0.00 35.83 2.83 F
2001 2456 1.003233 GCCACTGACCAACCCTCTC 60.003 63.158 0.00 0.00 0.00 3.20 F
2591 3209 0.322816 AAGATTGCGCACCTGGTCAT 60.323 50.000 11.12 0.00 0.00 3.06 F
3081 4232 0.394216 CTTGGAATCGGGCATGACCA 60.394 55.000 20.22 5.15 42.05 4.02 F
3978 5161 0.532573 GCCACCTTCTCGATCACTCA 59.467 55.000 0.00 0.00 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1650 2095 0.952010 CGTTTCCCCACCCAACTACG 60.952 60.000 0.00 0.00 0.00 3.51 R
2067 2522 1.006639 GAGCCCTCTCCTCCCCTATAG 59.993 61.905 0.00 0.00 33.19 1.31 R
3081 4232 0.921896 CATGGTTCCCTCCCTCATGT 59.078 55.000 0.00 0.00 32.86 3.21 R
3544 4710 1.555075 AGAGCCTCGGCAAATGAAGTA 59.445 47.619 11.02 0.00 44.88 2.24 R
4829 6278 2.814336 AGCTCCGGTTTTGATCTGAAAC 59.186 45.455 0.00 13.52 36.51 2.78 R
5234 6687 0.105778 CAAAATTTGGGGTGCACCGT 59.894 50.000 29.08 9.92 41.60 4.83 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
93 94 0.456221 ACCGACTCCGCATAACTCAG 59.544 55.000 0.00 0.00 0.00 3.35
94 95 0.738975 CCGACTCCGCATAACTCAGA 59.261 55.000 0.00 0.00 0.00 3.27
147 148 5.815581 TGGTGGCTATATGACAGAAGTTTT 58.184 37.500 0.00 0.00 31.98 2.43
165 166 4.699735 AGTTTTCGGCATTCATGTGTATCA 59.300 37.500 0.00 0.00 0.00 2.15
219 227 2.686915 ACTACCGTGTGTGCTACCTATC 59.313 50.000 0.00 0.00 0.00 2.08
383 393 0.614697 GCAGTGGGCCTATTGGGTTT 60.615 55.000 13.56 0.00 37.43 3.27
395 406 3.845109 ATTGGGTTTGTTCCCCTATGT 57.155 42.857 0.00 0.00 46.48 2.29
474 485 4.097437 TGCATGCTGAATTTTCCTCAGATC 59.903 41.667 20.33 0.00 42.51 2.75
491 502 1.401552 GATCGCTAGCAAAACATGGCA 59.598 47.619 16.45 0.00 0.00 4.92
492 503 1.462616 TCGCTAGCAAAACATGGCAT 58.537 45.000 16.45 0.00 0.00 4.40
511 522 1.686355 TTGTTGCCTGATTCACCGTT 58.314 45.000 0.00 0.00 0.00 4.44
514 525 1.068541 GTTGCCTGATTCACCGTTTCC 60.069 52.381 0.00 0.00 0.00 3.13
529 540 0.878523 TTTCCGTTCGACTGTGCCAG 60.879 55.000 0.00 1.16 37.52 4.85
531 542 1.300620 CCGTTCGACTGTGCCAGAA 60.301 57.895 8.91 0.00 35.18 3.02
532 543 1.557443 CCGTTCGACTGTGCCAGAAC 61.557 60.000 8.91 3.43 39.46 3.01
534 545 1.070786 TTCGACTGTGCCAGAACCC 59.929 57.895 8.91 0.00 35.18 4.11
536 547 1.003355 CGACTGTGCCAGAACCCAT 60.003 57.895 8.91 0.00 35.18 4.00
538 549 1.620822 GACTGTGCCAGAACCCATTT 58.379 50.000 8.91 0.00 35.18 2.32
539 550 1.270550 GACTGTGCCAGAACCCATTTG 59.729 52.381 8.91 0.00 35.18 2.32
540 551 0.604578 CTGTGCCAGAACCCATTTGG 59.395 55.000 0.00 0.00 34.96 3.28
544 555 2.279842 CCAGAACCCATTTGGCAGG 58.720 57.895 0.00 0.00 37.83 4.85
545 556 1.593265 CAGAACCCATTTGGCAGGC 59.407 57.895 0.00 0.00 37.83 4.85
546 557 1.155859 AGAACCCATTTGGCAGGCA 59.844 52.632 0.00 0.00 37.83 4.75
548 559 0.037046 GAACCCATTTGGCAGGCAAG 60.037 55.000 9.70 0.81 37.83 4.01
549 560 2.115734 AACCCATTTGGCAGGCAAGC 62.116 55.000 9.70 0.00 37.83 4.01
551 562 1.600107 CCATTTGGCAGGCAAGCAT 59.400 52.632 9.70 0.00 35.83 3.79
555 566 0.469070 TTTGGCAGGCAAGCATGTTT 59.531 45.000 9.70 0.00 35.83 2.83
559 979 1.355971 GCAGGCAAGCATGTTTCATG 58.644 50.000 8.56 5.49 0.00 3.07
590 1010 5.635280 CGTCACATTTATCTTGTGTCTCACT 59.365 40.000 3.98 0.00 43.86 3.41
591 1011 6.183360 CGTCACATTTATCTTGTGTCTCACTC 60.183 42.308 3.98 0.00 43.86 3.51
592 1012 6.870965 GTCACATTTATCTTGTGTCTCACTCT 59.129 38.462 3.98 0.00 43.86 3.24
593 1013 7.062839 GTCACATTTATCTTGTGTCTCACTCTC 59.937 40.741 3.98 0.00 43.86 3.20
594 1014 6.870439 CACATTTATCTTGTGTCTCACTCTCA 59.130 38.462 1.72 0.00 39.66 3.27
595 1015 6.870965 ACATTTATCTTGTGTCTCACTCTCAC 59.129 38.462 1.72 0.00 35.11 3.51
672 1094 2.820037 GCTGCCGCTGGTAGGTTC 60.820 66.667 12.81 0.00 35.94 3.62
907 1341 4.379243 CTGCCACCTCCGCTTCGT 62.379 66.667 0.00 0.00 0.00 3.85
1053 1497 2.995258 GCGCGATATAATAAAACCCGGA 59.005 45.455 12.10 0.00 0.00 5.14
1265 1709 2.887568 CAGATCGTGGACAGCCGC 60.888 66.667 0.00 0.00 41.39 6.53
1571 2016 3.005155 CCGGTAGTTATTTACTCCCTCCG 59.995 52.174 0.00 0.00 38.33 4.63
1576 2021 2.767960 GTTATTTACTCCCTCCGTCCCA 59.232 50.000 0.00 0.00 0.00 4.37
1581 2026 4.474303 TTACTCCCTCCGTCCCATAATA 57.526 45.455 0.00 0.00 0.00 0.98
1582 2027 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1587 2032 5.850278 TCCCTCCGTCCCATAATATAAGAT 58.150 41.667 0.00 0.00 0.00 2.40
1650 2095 5.009210 TGTTTGTTTGAGTAATGTGGCTACC 59.991 40.000 0.00 0.00 0.00 3.18
1689 2134 1.021202 TGGTGTTGTGCACTTGCTAC 58.979 50.000 19.41 9.66 46.86 3.58
1694 2139 2.549329 TGTTGTGCACTTGCTACAGATG 59.451 45.455 19.41 0.00 42.66 2.90
1803 2249 1.270907 AGTGAGAATCGGGTTGCTCT 58.729 50.000 0.00 0.00 38.61 4.09
1924 2379 7.566760 TCTGACTGTTGTTCATGTTTATTGT 57.433 32.000 0.00 0.00 0.00 2.71
1972 2427 9.599322 GCTAGTTATGATATTTGGTTCAAATCG 57.401 33.333 8.87 0.00 42.19 3.34
1993 2448 1.526686 CTGCTGTTGCCACTGACCA 60.527 57.895 0.00 0.00 38.71 4.02
1997 2452 1.454847 TGTTGCCACTGACCAACCC 60.455 57.895 8.93 0.00 40.34 4.11
2001 2456 1.003233 GCCACTGACCAACCCTCTC 60.003 63.158 0.00 0.00 0.00 3.20
2005 2460 1.625315 CACTGACCAACCCTCTCATCA 59.375 52.381 0.00 0.00 0.00 3.07
2011 2466 4.536090 TGACCAACCCTCTCATCATAAACT 59.464 41.667 0.00 0.00 0.00 2.66
2012 2467 5.104259 ACCAACCCTCTCATCATAAACTC 57.896 43.478 0.00 0.00 0.00 3.01
2014 2469 4.080356 CCAACCCTCTCATCATAAACTCCA 60.080 45.833 0.00 0.00 0.00 3.86
2031 2486 4.973168 ACTCCATGTTTGCTCTGTTTAGA 58.027 39.130 0.00 0.00 0.00 2.10
2089 2544 1.660019 TAGGGGAGGAGAGGGCTCTG 61.660 65.000 0.00 0.00 40.61 3.35
2090 2545 3.160748 GGGAGGAGAGGGCTCTGC 61.161 72.222 0.00 0.00 46.68 4.26
2095 2550 1.986413 GGAGAGGGCTCTGCTGAAA 59.014 57.895 0.00 0.00 43.56 2.69
2102 2557 3.438183 AGGGCTCTGCTGAAAATTCATT 58.562 40.909 0.00 0.00 36.46 2.57
2106 2561 6.155737 AGGGCTCTGCTGAAAATTCATTTTAT 59.844 34.615 0.00 0.00 39.86 1.40
2107 2562 6.478016 GGGCTCTGCTGAAAATTCATTTTATC 59.522 38.462 0.00 0.00 39.86 1.75
2123 2578 9.554395 TTCATTTTATCTCCCCAAAAAGAAAAC 57.446 29.630 0.00 0.00 31.90 2.43
2124 2579 8.709308 TCATTTTATCTCCCCAAAAAGAAAACA 58.291 29.630 0.00 0.00 0.00 2.83
2125 2580 9.336171 CATTTTATCTCCCCAAAAAGAAAACAA 57.664 29.630 0.00 0.00 0.00 2.83
2126 2581 9.913310 ATTTTATCTCCCCAAAAAGAAAACAAA 57.087 25.926 0.00 0.00 0.00 2.83
2157 2612 9.507280 AAATATGTATGTCAAGAAGAAAATGCG 57.493 29.630 0.00 0.00 0.00 4.73
2161 2616 4.383774 TGTCAAGAAGAAAATGCGTACG 57.616 40.909 11.84 11.84 0.00 3.67
2180 2635 7.278203 TGCGTACGAAATGATAAAATCCTGTAA 59.722 33.333 21.65 0.00 0.00 2.41
2234 2690 1.620822 AGCTCCTGGCAAACGAAAAT 58.379 45.000 0.00 0.00 44.79 1.82
2384 2991 7.883229 GCTCTCTTTAAGCTAGTTGATATCC 57.117 40.000 0.00 0.00 36.80 2.59
2404 3011 4.006989 TCCGTAATGATGTTGACCTTTGG 58.993 43.478 0.00 0.00 0.00 3.28
2419 3026 8.682710 GTTGACCTTTGGTAAGCATATCAATTA 58.317 33.333 0.00 0.00 35.25 1.40
2427 3034 6.486657 TGGTAAGCATATCAATTAAGTGGCTC 59.513 38.462 2.65 0.00 0.00 4.70
2453 3060 7.197017 CGTAGATTTGTACTGATCTAGCTGTT 58.803 38.462 14.90 0.00 35.99 3.16
2474 3081 7.817962 GCTGTTATTACTGAAGTTTCCACTCTA 59.182 37.037 0.00 0.00 30.45 2.43
2519 3135 8.015185 TGAAGTGGAGTTTGTAAGTACTAAGT 57.985 34.615 0.00 0.00 0.00 2.24
2520 3136 9.135189 TGAAGTGGAGTTTGTAAGTACTAAGTA 57.865 33.333 0.00 0.00 0.00 2.24
2532 3148 9.305555 TGTAAGTACTAAGTATTTCTGGACAGT 57.694 33.333 0.00 0.00 0.00 3.55
2540 3156 9.877178 CTAAGTATTTCTGGACAGTTTGTATCT 57.123 33.333 0.00 0.00 0.00 1.98
2584 3202 1.668419 ACTATCCAAGATTGCGCACC 58.332 50.000 11.12 4.97 0.00 5.01
2591 3209 0.322816 AAGATTGCGCACCTGGTCAT 60.323 50.000 11.12 0.00 0.00 3.06
2620 3516 4.523083 TCTAACTGCTTTTCTGGTTGTGT 58.477 39.130 0.00 0.00 0.00 3.72
2623 3519 1.002468 CTGCTTTTCTGGTTGTGTCGG 60.002 52.381 0.00 0.00 0.00 4.79
2656 3553 3.568430 GGCTCTGCATGATGATGAATTGA 59.432 43.478 0.00 0.00 0.00 2.57
2658 3555 5.414765 GGCTCTGCATGATGATGAATTGATA 59.585 40.000 0.00 0.00 0.00 2.15
2673 3570 9.582431 GATGAATTGATAATCAATATGCAAGGG 57.418 33.333 0.00 0.00 45.57 3.95
2674 3571 7.380536 TGAATTGATAATCAATATGCAAGGGC 58.619 34.615 0.00 0.00 45.57 5.19
2687 3584 3.988379 GCAAGGGCATCAAATCGATTA 57.012 42.857 11.83 0.00 40.72 1.75
2833 3789 3.202818 TGGATGGCATGGTAGTTCTCAAT 59.797 43.478 3.81 0.00 0.00 2.57
2839 3795 5.304101 TGGCATGGTAGTTCTCAATTTTGTT 59.696 36.000 0.00 0.00 0.00 2.83
2894 4041 1.129917 ATAGAGCATGCCTCAGCTGT 58.870 50.000 15.66 0.00 43.31 4.40
2916 4067 7.406031 TGTAGGGACAGAAGAACTACATTAG 57.594 40.000 0.00 0.00 39.09 1.73
2917 4068 5.941555 AGGGACAGAAGAACTACATTAGG 57.058 43.478 0.00 0.00 0.00 2.69
2918 4069 4.162509 AGGGACAGAAGAACTACATTAGGC 59.837 45.833 0.00 0.00 0.00 3.93
2919 4070 4.081087 GGGACAGAAGAACTACATTAGGCA 60.081 45.833 0.00 0.00 0.00 4.75
2923 4074 6.109359 ACAGAAGAACTACATTAGGCACATC 58.891 40.000 0.00 0.00 0.00 3.06
3014 4165 8.612486 TTGGATATACCTAACCACAGTTTCTA 57.388 34.615 0.00 0.00 39.86 2.10
3017 4168 7.015389 GGATATACCTAACCACAGTTTCTAGCT 59.985 40.741 0.00 0.00 37.42 3.32
3038 4189 4.081476 GCTGGCTTGATTCCCTAAATTTGT 60.081 41.667 0.00 0.00 0.00 2.83
3042 4193 6.042552 TGGCTTGATTCCCTAAATTTGTGAAA 59.957 34.615 0.00 0.00 0.00 2.69
3081 4232 0.394216 CTTGGAATCGGGCATGACCA 60.394 55.000 20.22 5.15 42.05 4.02
3117 4268 1.860950 CATGCGATTCCACTACTTCCG 59.139 52.381 0.00 0.00 0.00 4.30
3129 4280 4.315803 CACTACTTCCGAAGTGACCAAAT 58.684 43.478 21.78 0.00 44.79 2.32
3203 4354 3.381272 TGTTAGCTTGCATCCAAATAGCC 59.619 43.478 0.00 0.00 0.00 3.93
3209 4360 1.230324 GCATCCAAATAGCCGAGGTC 58.770 55.000 0.00 0.00 0.00 3.85
3224 4375 3.522553 CGAGGTCCTGTCAATTTACTCC 58.477 50.000 0.00 0.00 0.00 3.85
3229 4395 2.301870 TCCTGTCAATTTACTCCGTGCT 59.698 45.455 0.00 0.00 0.00 4.40
3249 4415 5.750067 GTGCTTGGCATCTAATTTGTAATGG 59.250 40.000 0.00 0.00 41.91 3.16
3406 4572 1.956477 GCTTCTGCAAAAGGAGTTCCA 59.044 47.619 1.19 0.00 37.57 3.53
3481 4647 7.147846 CCTGTCCCAGCTTTCAATGTAATAAAT 60.148 37.037 0.00 0.00 0.00 1.40
3544 4710 1.076727 GCTTTTACCTGTGGGGGCT 59.923 57.895 0.00 0.00 40.03 5.19
3618 4784 7.754851 ATTTTCTTCACCTACACCGTTTTAT 57.245 32.000 0.00 0.00 0.00 1.40
3624 4805 5.717119 TCACCTACACCGTTTTATCTCTTC 58.283 41.667 0.00 0.00 0.00 2.87
3627 4808 4.561606 CCTACACCGTTTTATCTCTTCGTG 59.438 45.833 0.00 0.00 0.00 4.35
3628 4809 2.735134 ACACCGTTTTATCTCTTCGTGC 59.265 45.455 0.00 0.00 0.00 5.34
3629 4810 2.734606 CACCGTTTTATCTCTTCGTGCA 59.265 45.455 0.00 0.00 0.00 4.57
3630 4811 3.370978 CACCGTTTTATCTCTTCGTGCAT 59.629 43.478 0.00 0.00 0.00 3.96
3631 4812 4.000988 ACCGTTTTATCTCTTCGTGCATT 58.999 39.130 0.00 0.00 0.00 3.56
3632 4813 4.454504 ACCGTTTTATCTCTTCGTGCATTT 59.545 37.500 0.00 0.00 0.00 2.32
3634 4815 6.148150 ACCGTTTTATCTCTTCGTGCATTTTA 59.852 34.615 0.00 0.00 0.00 1.52
3635 4816 7.148306 ACCGTTTTATCTCTTCGTGCATTTTAT 60.148 33.333 0.00 0.00 0.00 1.40
3636 4817 7.373441 CCGTTTTATCTCTTCGTGCATTTTATC 59.627 37.037 0.00 0.00 0.00 1.75
3637 4818 8.116753 CGTTTTATCTCTTCGTGCATTTTATCT 58.883 33.333 0.00 0.00 0.00 1.98
3638 4819 9.774742 GTTTTATCTCTTCGTGCATTTTATCTT 57.225 29.630 0.00 0.00 0.00 2.40
3639 4820 9.773328 TTTTATCTCTTCGTGCATTTTATCTTG 57.227 29.630 0.00 0.00 0.00 3.02
3640 4821 5.801350 TCTCTTCGTGCATTTTATCTTGG 57.199 39.130 0.00 0.00 0.00 3.61
3641 4822 5.245531 TCTCTTCGTGCATTTTATCTTGGT 58.754 37.500 0.00 0.00 0.00 3.67
3642 4823 5.705441 TCTCTTCGTGCATTTTATCTTGGTT 59.295 36.000 0.00 0.00 0.00 3.67
3643 4824 5.698832 TCTTCGTGCATTTTATCTTGGTTG 58.301 37.500 0.00 0.00 0.00 3.77
3644 4825 5.240623 TCTTCGTGCATTTTATCTTGGTTGT 59.759 36.000 0.00 0.00 0.00 3.32
3645 4826 4.793071 TCGTGCATTTTATCTTGGTTGTG 58.207 39.130 0.00 0.00 0.00 3.33
3646 4827 4.517075 TCGTGCATTTTATCTTGGTTGTGA 59.483 37.500 0.00 0.00 0.00 3.58
3647 4828 4.616802 CGTGCATTTTATCTTGGTTGTGAC 59.383 41.667 0.00 0.00 0.00 3.67
3648 4829 5.562696 CGTGCATTTTATCTTGGTTGTGACT 60.563 40.000 0.00 0.00 0.00 3.41
3677 4858 4.335400 TCACGATTATCCAGCAAGCATA 57.665 40.909 0.00 0.00 0.00 3.14
3711 4893 6.161855 TGTTTCTTCTAGACTTCTGCTCAA 57.838 37.500 0.00 0.00 0.00 3.02
3780 4963 7.284489 TGCTTCACTTGTCCTTTTACAGTTTAT 59.716 33.333 0.00 0.00 0.00 1.40
3978 5161 0.532573 GCCACCTTCTCGATCACTCA 59.467 55.000 0.00 0.00 0.00 3.41
4084 5268 6.896021 ATGAAGGATGGAAGCTATGATTTG 57.104 37.500 0.00 0.00 0.00 2.32
4377 5561 2.831685 TTTCAGGCGTGCTCTTCTAA 57.168 45.000 0.35 0.00 0.00 2.10
4629 6076 1.758936 ATCAGATCGGTACCGTCACA 58.241 50.000 32.16 15.05 40.74 3.58
4829 6278 3.618594 CAGGTGACATCTCATTTGGTACG 59.381 47.826 0.00 0.00 0.00 3.67
5003 6455 8.623310 TCATTTAGTTTGTTTTTCGTTTCCTC 57.377 30.769 0.00 0.00 0.00 3.71
5114 6567 3.653344 TGAGAAACCAGAATCACAGACG 58.347 45.455 0.00 0.00 0.00 4.18
5342 6795 1.606350 CCTTGACGAACGACAGCGAC 61.606 60.000 0.14 0.00 41.64 5.19
5355 6808 3.059800 CGACAGCGACGATCAGATTAGTA 60.060 47.826 0.00 0.00 40.82 1.82
5419 6874 0.389426 ACAGGACGCACGATTGTACC 60.389 55.000 0.00 0.00 0.00 3.34
5476 6934 2.604462 TCAGACGACATGAATTGCGATG 59.396 45.455 0.00 1.16 0.00 3.84
5477 6935 1.328680 AGACGACATGAATTGCGATGC 59.671 47.619 0.00 0.00 0.00 3.91
5478 6936 1.062440 GACGACATGAATTGCGATGCA 59.938 47.619 0.00 0.00 36.47 3.96
5479 6937 1.672363 ACGACATGAATTGCGATGCAT 59.328 42.857 0.00 0.00 38.76 3.96
5495 6953 1.643292 CATGCGATGCTTACCCACG 59.357 57.895 0.00 0.00 0.00 4.94
5502 6960 0.034574 ATGCTTACCCACGGCATTGA 60.035 50.000 0.00 0.00 43.02 2.57
5676 7143 4.148825 ACCCTGACGGCGCTCATC 62.149 66.667 6.90 3.00 33.26 2.92
5972 7451 1.043673 GGGTCGTACCTCATCAGCCT 61.044 60.000 4.41 0.00 38.64 4.58
6039 7523 5.614308 CAGGCACAACCATATGATTAGAGA 58.386 41.667 3.65 0.00 43.14 3.10
6065 7554 1.167851 GAAGCTGCATGCACCACTTA 58.832 50.000 18.46 0.00 45.94 2.24
6068 7563 1.278985 AGCTGCATGCACCACTTAGTA 59.721 47.619 18.46 0.00 45.94 1.82
6115 7614 1.969923 GCTCATCTACTGCTCCTCCAT 59.030 52.381 0.00 0.00 0.00 3.41
6220 7719 3.054276 CAGTAGTGCAGTACTAGCGAC 57.946 52.381 29.26 7.05 42.37 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 74 0.454600 TGAGTTATGCGGAGTCGGTC 59.545 55.000 0.00 0.00 36.79 4.79
74 75 0.456221 CTGAGTTATGCGGAGTCGGT 59.544 55.000 0.00 0.00 36.79 4.69
93 94 3.567478 ACCCAATCTCTTGCCTACATC 57.433 47.619 0.00 0.00 0.00 3.06
94 95 4.040755 ACTACCCAATCTCTTGCCTACAT 58.959 43.478 0.00 0.00 0.00 2.29
147 148 3.817709 TCTGATACACATGAATGCCGA 57.182 42.857 0.00 0.00 0.00 5.54
165 166 3.982730 TGGTCCATGGGAATACATCATCT 59.017 43.478 13.02 0.00 31.38 2.90
383 393 6.778069 TCACACAAAAATTACATAGGGGAACA 59.222 34.615 0.00 0.00 0.00 3.18
474 485 1.921887 CAATGCCATGTTTTGCTAGCG 59.078 47.619 10.77 0.00 0.00 4.26
491 502 1.909700 ACGGTGAATCAGGCAACAAT 58.090 45.000 0.00 0.00 41.41 2.71
492 503 1.686355 AACGGTGAATCAGGCAACAA 58.314 45.000 0.00 0.00 41.41 2.83
511 522 2.816012 TGGCACAGTCGAACGGAA 59.184 55.556 0.00 0.00 0.00 4.30
529 540 0.037046 CTTGCCTGCCAAATGGGTTC 60.037 55.000 0.90 0.00 39.65 3.62
531 542 2.586293 GCTTGCCTGCCAAATGGGT 61.586 57.895 0.90 0.00 39.65 4.51
532 543 1.906105 ATGCTTGCCTGCCAAATGGG 61.906 55.000 0.90 0.00 40.85 4.00
534 545 0.036765 ACATGCTTGCCTGCCAAATG 60.037 50.000 0.00 0.00 31.94 2.32
536 547 0.469070 AAACATGCTTGCCTGCCAAA 59.531 45.000 0.00 0.00 31.94 3.28
538 549 1.114119 TGAAACATGCTTGCCTGCCA 61.114 50.000 0.00 0.00 0.00 4.92
539 550 0.248289 ATGAAACATGCTTGCCTGCC 59.752 50.000 0.00 0.00 0.00 4.85
540 551 1.337447 ACATGAAACATGCTTGCCTGC 60.337 47.619 0.00 0.00 0.00 4.85
542 553 3.156293 TGTACATGAAACATGCTTGCCT 58.844 40.909 0.00 0.00 0.00 4.75
543 554 3.574284 TGTACATGAAACATGCTTGCC 57.426 42.857 0.00 0.00 0.00 4.52
544 555 3.365820 GCTTGTACATGAAACATGCTTGC 59.634 43.478 23.50 13.10 41.96 4.01
545 556 3.605056 CGCTTGTACATGAAACATGCTTG 59.395 43.478 25.63 15.86 42.63 4.01
546 557 3.253188 ACGCTTGTACATGAAACATGCTT 59.747 39.130 25.63 19.70 42.63 3.91
548 559 3.163594 GACGCTTGTACATGAAACATGC 58.836 45.455 22.14 22.14 41.86 4.06
549 560 4.151070 GTGACGCTTGTACATGAAACATG 58.849 43.478 12.65 9.72 0.00 3.21
551 562 3.198872 TGTGACGCTTGTACATGAAACA 58.801 40.909 12.65 0.00 0.00 2.83
555 566 6.106003 AGATAAATGTGACGCTTGTACATGA 58.894 36.000 12.65 0.00 35.39 3.07
559 979 6.165659 ACAAGATAAATGTGACGCTTGTAC 57.834 37.500 0.00 0.00 42.69 2.90
590 1010 3.935828 CTCATACAGTCAGACTCGTGAGA 59.064 47.826 21.46 14.33 33.42 3.27
591 1011 3.486708 GCTCATACAGTCAGACTCGTGAG 60.487 52.174 21.58 21.58 34.12 3.51
592 1012 2.420372 GCTCATACAGTCAGACTCGTGA 59.580 50.000 0.00 4.68 0.00 4.35
593 1013 2.789436 CGCTCATACAGTCAGACTCGTG 60.789 54.545 0.00 0.17 0.00 4.35
594 1014 1.398739 CGCTCATACAGTCAGACTCGT 59.601 52.381 0.00 5.57 0.00 4.18
595 1015 1.858000 GCGCTCATACAGTCAGACTCG 60.858 57.143 0.00 0.45 0.00 4.18
623 1043 1.201414 CATGTTCGGGCAAGGGTTTAC 59.799 52.381 0.00 0.00 0.00 2.01
624 1044 1.540267 CATGTTCGGGCAAGGGTTTA 58.460 50.000 0.00 0.00 0.00 2.01
660 1080 2.202756 GAGCGGAACCTACCAGCG 60.203 66.667 0.00 0.00 35.71 5.18
661 1081 2.202756 CGAGCGGAACCTACCAGC 60.203 66.667 0.00 0.00 0.00 4.85
663 1083 3.766691 GGCGAGCGGAACCTACCA 61.767 66.667 0.00 0.00 0.00 3.25
828 1262 3.365220 TCGTCTTTTGCGGTTTTGTTTTG 59.635 39.130 0.00 0.00 0.00 2.44
829 1263 3.576648 TCGTCTTTTGCGGTTTTGTTTT 58.423 36.364 0.00 0.00 0.00 2.43
830 1264 3.175929 CTCGTCTTTTGCGGTTTTGTTT 58.824 40.909 0.00 0.00 0.00 2.83
831 1265 2.792749 CTCGTCTTTTGCGGTTTTGTT 58.207 42.857 0.00 0.00 0.00 2.83
832 1266 1.533129 GCTCGTCTTTTGCGGTTTTGT 60.533 47.619 0.00 0.00 0.00 2.83
988 1422 2.735857 GTCGTCGGGTTCGTTGGG 60.736 66.667 0.00 0.00 37.69 4.12
989 1423 2.735857 GGTCGTCGGGTTCGTTGG 60.736 66.667 0.00 0.00 37.69 3.77
990 1424 1.731969 GAGGTCGTCGGGTTCGTTG 60.732 63.158 0.00 0.00 37.69 4.10
991 1425 2.647297 GAGGTCGTCGGGTTCGTT 59.353 61.111 0.00 0.00 37.69 3.85
992 1426 3.368571 GGAGGTCGTCGGGTTCGT 61.369 66.667 0.00 0.00 37.69 3.85
993 1427 3.048941 GAGGAGGTCGTCGGGTTCG 62.049 68.421 0.00 0.00 37.82 3.95
994 1428 2.708865 GGAGGAGGTCGTCGGGTTC 61.709 68.421 0.00 0.00 0.00 3.62
995 1429 2.679287 GGAGGAGGTCGTCGGGTT 60.679 66.667 0.00 0.00 0.00 4.11
996 1430 3.975591 TGGAGGAGGTCGTCGGGT 61.976 66.667 0.00 0.00 0.00 5.28
1247 1691 2.202797 CGGCTGTCCACGATCTGG 60.203 66.667 0.00 5.18 42.29 3.86
1594 2039 7.400915 TCCCTGTGTATATTGGTTGTAACTAGT 59.599 37.037 0.00 0.00 0.00 2.57
1596 2041 7.400915 ACTCCCTGTGTATATTGGTTGTAACTA 59.599 37.037 0.00 0.00 0.00 2.24
1598 2043 6.412214 ACTCCCTGTGTATATTGGTTGTAAC 58.588 40.000 0.00 0.00 0.00 2.50
1616 2061 8.576442 CATTACTCAAACAAACAAATACTCCCT 58.424 33.333 0.00 0.00 0.00 4.20
1650 2095 0.952010 CGTTTCCCCACCCAACTACG 60.952 60.000 0.00 0.00 0.00 3.51
1689 2134 1.880675 GGCCAGAAGATCATGCATCTG 59.119 52.381 0.00 0.23 41.47 2.90
1694 2139 1.442526 CCACGGCCAGAAGATCATGC 61.443 60.000 2.24 0.00 0.00 4.06
1803 2249 8.591072 ACTACTTCACCAGTATTAAGCACTAAA 58.409 33.333 0.00 0.00 37.36 1.85
1924 2379 1.683943 AGCAAGAACAGCAAGCTCAA 58.316 45.000 0.00 0.00 0.00 3.02
1993 2448 5.192522 ACATGGAGTTTATGATGAGAGGGTT 59.807 40.000 0.00 0.00 0.00 4.11
2011 2466 5.376625 AGTTCTAAACAGAGCAAACATGGA 58.623 37.500 0.00 0.00 0.00 3.41
2012 2467 5.695851 AGTTCTAAACAGAGCAAACATGG 57.304 39.130 0.00 0.00 0.00 3.66
2014 2469 8.451908 ACTAAAGTTCTAAACAGAGCAAACAT 57.548 30.769 0.00 0.00 0.00 2.71
2028 2483 8.566260 GGATCGCTATCACTTACTAAAGTTCTA 58.434 37.037 0.17 0.00 43.60 2.10
2031 2486 7.349412 AGGATCGCTATCACTTACTAAAGTT 57.651 36.000 0.17 0.00 43.60 2.66
2064 2519 2.428038 GCCCTCTCCTCCCCTATAGTTT 60.428 54.545 0.00 0.00 0.00 2.66
2067 2522 1.006639 GAGCCCTCTCCTCCCCTATAG 59.993 61.905 0.00 0.00 33.19 1.31
2068 2523 1.085715 GAGCCCTCTCCTCCCCTATA 58.914 60.000 0.00 0.00 33.19 1.31
2071 2526 2.623431 AGAGCCCTCTCCTCCCCT 60.623 66.667 0.00 0.00 40.22 4.79
2074 2529 2.042025 AGCAGAGCCCTCTCCTCC 60.042 66.667 0.00 0.00 40.22 4.30
2078 2533 2.416680 ATTTTCAGCAGAGCCCTCTC 57.583 50.000 0.00 0.00 37.98 3.20
2089 2544 6.877236 TGGGGAGATAAAATGAATTTTCAGC 58.123 36.000 4.34 0.00 41.08 4.26
2090 2545 9.723601 TTTTGGGGAGATAAAATGAATTTTCAG 57.276 29.630 4.34 0.00 41.08 3.02
2102 2557 9.740710 TTTTTGTTTTCTTTTTGGGGAGATAAA 57.259 25.926 0.00 0.00 0.00 1.40
2106 2561 6.013293 TCCTTTTTGTTTTCTTTTTGGGGAGA 60.013 34.615 0.00 0.00 0.00 3.71
2107 2562 6.176896 TCCTTTTTGTTTTCTTTTTGGGGAG 58.823 36.000 0.00 0.00 0.00 4.30
2137 2592 5.952064 CGTACGCATTTTCTTCTTGACATAC 59.048 40.000 0.52 0.00 0.00 2.39
2148 2603 9.221775 GATTTTATCATTTCGTACGCATTTTCT 57.778 29.630 11.24 0.00 0.00 2.52
2180 2635 9.832445 TGTCTACTTTTGACAGTTCTATTTCTT 57.168 29.630 0.00 0.00 39.23 2.52
2249 2851 4.982241 TCTTGACTCTTGGAGGTTTGAT 57.018 40.909 0.00 0.00 33.35 2.57
2322 2927 2.754552 GCCATGCTAAACAACTGGATGA 59.245 45.455 0.00 0.00 31.01 2.92
2325 2930 1.202989 TGGCCATGCTAAACAACTGGA 60.203 47.619 0.00 0.00 31.01 3.86
2384 2991 6.489127 TTACCAAAGGTCAACATCATTACG 57.511 37.500 0.00 0.00 37.09 3.18
2404 3011 6.347725 CGGAGCCACTTAATTGATATGCTTAC 60.348 42.308 0.00 0.00 0.00 2.34
2419 3026 3.514309 AGTACAAATCTACGGAGCCACTT 59.486 43.478 0.00 0.00 0.00 3.16
2427 3034 6.146216 CAGCTAGATCAGTACAAATCTACGG 58.854 44.000 11.26 6.39 34.21 4.02
2453 3060 9.085645 TGTTCTAGAGTGGAAACTTCAGTAATA 57.914 33.333 0.00 0.00 0.00 0.98
2516 3132 9.574516 AAAGATACAAACTGTCCAGAAATACTT 57.425 29.630 0.40 0.00 0.00 2.24
2517 3133 9.574516 AAAAGATACAAACTGTCCAGAAATACT 57.425 29.630 0.40 0.00 0.00 2.12
2520 3136 8.695456 ACAAAAAGATACAAACTGTCCAGAAAT 58.305 29.630 0.40 0.00 0.00 2.17
2521 3137 7.973388 CACAAAAAGATACAAACTGTCCAGAAA 59.027 33.333 0.40 0.00 0.00 2.52
2522 3138 7.122055 ACACAAAAAGATACAAACTGTCCAGAA 59.878 33.333 0.40 0.00 0.00 3.02
2523 3139 6.601613 ACACAAAAAGATACAAACTGTCCAGA 59.398 34.615 0.40 0.00 0.00 3.86
2570 3186 1.926511 GACCAGGTGCGCAATCTTGG 61.927 60.000 22.58 22.58 36.95 3.61
2584 3202 6.095432 AGCAGTTAGAGCTTATATGACCAG 57.905 41.667 0.00 0.00 39.87 4.00
2620 3516 0.330604 AGAGCCTACTACCACACCGA 59.669 55.000 0.00 0.00 0.00 4.69
2623 3519 0.895530 TGCAGAGCCTACTACCACAC 59.104 55.000 0.00 0.00 0.00 3.82
2673 3570 4.674211 GCAAGAGCTTAATCGATTTGATGC 59.326 41.667 17.19 12.60 36.00 3.91
2687 3584 5.874261 GTAGATTCTTCTTGAGCAAGAGCTT 59.126 40.000 12.19 1.16 46.80 3.74
2720 3617 2.224090 TGCAGTGGCTACTACGACAAAA 60.224 45.455 0.95 0.00 41.91 2.44
2894 4041 5.363005 GCCTAATGTAGTTCTTCTGTCCCTA 59.637 44.000 0.00 0.00 0.00 3.53
2947 4098 6.435904 AGCACTAGAAGTCTAGAACTGAATGT 59.564 38.462 19.82 0.00 46.80 2.71
2951 4102 5.561679 TCAGCACTAGAAGTCTAGAACTGA 58.438 41.667 24.84 24.84 46.80 3.41
3014 4165 3.677156 ATTTAGGGAATCAAGCCAGCT 57.323 42.857 0.00 0.00 0.00 4.24
3017 4168 5.083122 TCACAAATTTAGGGAATCAAGCCA 58.917 37.500 0.00 0.00 0.00 4.75
3042 4193 9.699410 TTCCAAGTAATCCATGTAATTTCATCT 57.301 29.630 0.00 0.00 0.00 2.90
3081 4232 0.921896 CATGGTTCCCTCCCTCATGT 59.078 55.000 0.00 0.00 32.86 3.21
3086 4237 1.281925 AATCGCATGGTTCCCTCCCT 61.282 55.000 0.00 0.00 0.00 4.20
3117 4268 6.051179 ACCCTAGTAAGATTTGGTCACTTC 57.949 41.667 0.00 0.00 0.00 3.01
3129 4280 4.843728 CATGCCTTTCAACCCTAGTAAGA 58.156 43.478 0.00 0.00 0.00 2.10
3203 4354 3.522553 GGAGTAAATTGACAGGACCTCG 58.477 50.000 0.00 0.00 0.00 4.63
3209 4360 2.699954 AGCACGGAGTAAATTGACAGG 58.300 47.619 0.00 0.00 41.61 4.00
3224 4375 3.492421 ACAAATTAGATGCCAAGCACG 57.508 42.857 0.00 0.00 43.04 5.34
3229 4395 8.133024 AGTTTCCATTACAAATTAGATGCCAA 57.867 30.769 0.00 0.00 0.00 4.52
3249 4415 7.706179 TCCTGACAAAATGACAAATGAAGTTTC 59.294 33.333 0.00 0.00 0.00 2.78
3406 4572 7.796054 ACAGCTCCTGAATATGTTTATACAGT 58.204 34.615 0.00 0.00 34.94 3.55
3544 4710 1.555075 AGAGCCTCGGCAAATGAAGTA 59.445 47.619 11.02 0.00 44.88 2.24
3618 4784 5.245531 ACCAAGATAAAATGCACGAAGAGA 58.754 37.500 0.00 0.00 0.00 3.10
3624 4805 4.616802 GTCACAACCAAGATAAAATGCACG 59.383 41.667 0.00 0.00 0.00 5.34
3627 4808 8.810652 TTTAAGTCACAACCAAGATAAAATGC 57.189 30.769 0.00 0.00 0.00 3.56
3634 4815 8.450964 CGTGATAATTTAAGTCACAACCAAGAT 58.549 33.333 9.62 0.00 41.69 2.40
3635 4816 7.658167 TCGTGATAATTTAAGTCACAACCAAGA 59.342 33.333 9.62 0.00 41.69 3.02
3636 4817 7.802738 TCGTGATAATTTAAGTCACAACCAAG 58.197 34.615 9.62 0.00 41.69 3.61
3637 4818 7.731882 TCGTGATAATTTAAGTCACAACCAA 57.268 32.000 9.62 0.00 41.69 3.67
3638 4819 7.915293 ATCGTGATAATTTAAGTCACAACCA 57.085 32.000 9.62 0.00 41.69 3.67
3642 4823 9.825109 TGGATAATCGTGATAATTTAAGTCACA 57.175 29.630 9.62 0.72 41.69 3.58
3644 4825 8.988934 GCTGGATAATCGTGATAATTTAAGTCA 58.011 33.333 0.00 0.00 0.00 3.41
3645 4826 8.988934 TGCTGGATAATCGTGATAATTTAAGTC 58.011 33.333 0.00 0.00 0.00 3.01
3646 4827 8.902540 TGCTGGATAATCGTGATAATTTAAGT 57.097 30.769 0.00 0.00 0.00 2.24
3647 4828 9.817365 CTTGCTGGATAATCGTGATAATTTAAG 57.183 33.333 0.00 0.00 0.00 1.85
3648 4829 8.289618 GCTTGCTGGATAATCGTGATAATTTAA 58.710 33.333 0.00 0.00 0.00 1.52
3677 4858 3.532641 AGAAGAAACAGCCCCAAAGAT 57.467 42.857 0.00 0.00 0.00 2.40
3719 4901 4.396478 GTGAGAATTAAAGAGGGAACAGCC 59.604 45.833 0.00 0.00 0.00 4.85
3720 4902 5.123027 CAGTGAGAATTAAAGAGGGAACAGC 59.877 44.000 0.00 0.00 0.00 4.40
3721 4903 6.467677 TCAGTGAGAATTAAAGAGGGAACAG 58.532 40.000 0.00 0.00 0.00 3.16
3725 4907 6.019748 ACTCTCAGTGAGAATTAAAGAGGGA 58.980 40.000 22.83 0.00 45.39 4.20
3727 4909 7.158021 ACAACTCTCAGTGAGAATTAAAGAGG 58.842 38.462 22.83 10.82 45.39 3.69
3728 4910 8.087750 AGACAACTCTCAGTGAGAATTAAAGAG 58.912 37.037 22.83 11.48 45.39 2.85
3780 4963 6.547141 CCTTAATGATGCCCTTAAGAACATGA 59.453 38.462 13.05 7.00 37.19 3.07
4084 5268 8.406297 CCATTATTAGGCTGGTTCTTAAAGTTC 58.594 37.037 0.00 0.00 0.00 3.01
4629 6076 4.408270 TCCAGAGCAGCTTGAATAGATTCT 59.592 41.667 0.00 0.00 37.67 2.40
4829 6278 2.814336 AGCTCCGGTTTTGATCTGAAAC 59.186 45.455 0.00 13.52 36.51 2.78
5114 6567 5.349824 CTTTTACTGCTCCAGTCAAAGTC 57.650 43.478 17.51 0.00 44.18 3.01
5234 6687 0.105778 CAAAATTTGGGGTGCACCGT 59.894 50.000 29.08 9.92 41.60 4.83
5342 6795 6.347240 GCCAGAAGCAATTACTAATCTGATCG 60.347 42.308 8.41 0.00 42.97 3.69
5419 6874 2.668457 GCTCCGTTCAACTCATGTAGTG 59.332 50.000 0.00 0.00 38.88 2.74
5477 6935 1.643292 CGTGGGTAAGCATCGCATG 59.357 57.895 0.00 0.00 0.00 4.06
5478 6936 1.523711 CCGTGGGTAAGCATCGCAT 60.524 57.895 0.00 0.00 0.00 4.73
5479 6937 2.125310 CCGTGGGTAAGCATCGCA 60.125 61.111 0.00 0.00 0.00 5.10
5495 6953 1.069204 TCGCATCTCTACCTCAATGCC 59.931 52.381 0.00 0.00 41.08 4.40
5502 6960 1.769026 TCAAGCTCGCATCTCTACCT 58.231 50.000 0.00 0.00 0.00 3.08
5853 7324 4.034258 GTCGTGGCCGAGACGTCA 62.034 66.667 19.50 0.00 45.26 4.35
6044 7528 0.538977 AGTGGTGCATGCAGCTTCTT 60.539 50.000 40.09 24.31 45.94 2.52
6065 7554 5.878332 TGAATTCACGTGCATTCATTACT 57.122 34.783 31.02 2.96 33.86 2.24
6115 7614 1.536418 ACAGTAGCCAGCCCTCACA 60.536 57.895 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.