Multiple sequence alignment - TraesCS1A01G214200

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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 TraesCS1A01G214200 chr1A 100.000 3956 0 0 1 3956 377229575 377225620 0.000000e+00 7306.0
1 TraesCS1A01G214200 chr1A 100.000 3394 0 0 4110 7503 377225466 377222073 0.000000e+00 6268.0
2 TraesCS1A01G214200 chr1A 95.918 49 2 0 1671 1719 377227856 377227808 6.240000e-11 80.5
3 TraesCS1A01G214200 chr1A 95.918 49 2 0 1720 1768 377227905 377227857 6.240000e-11 80.5
4 TraesCS1A01G214200 chr1B 95.494 2663 75 16 4126 6756 409619981 409617332 0.000000e+00 4211.0
5 TraesCS1A01G214200 chr1B 95.189 2245 86 13 1721 3950 409622379 409620142 0.000000e+00 3528.0
6 TraesCS1A01G214200 chr1B 91.732 1669 102 17 20 1665 409624057 409622402 0.000000e+00 2285.0
7 TraesCS1A01G214200 chr1B 92.987 713 46 3 6765 7476 409611963 409611254 0.000000e+00 1037.0
8 TraesCS1A01G214200 chr1B 86.420 243 26 3 4910 5152 163659064 163658829 7.470000e-65 259.0
9 TraesCS1A01G214200 chr1B 85.597 243 28 2 4910 5152 133707301 133707536 1.620000e-61 248.0
10 TraesCS1A01G214200 chr1B 89.730 185 15 4 5202 5383 133707544 133707727 4.530000e-57 233.0
11 TraesCS1A01G214200 chr1B 88.649 185 17 4 5202 5383 163658821 163658638 9.800000e-54 222.0
12 TraesCS1A01G214200 chr1B 91.964 112 8 1 5202 5312 102623051 102622940 1.010000e-33 156.0
13 TraesCS1A01G214200 chr1D 94.663 2623 93 15 4172 6756 302707425 302704812 0.000000e+00 4024.0
14 TraesCS1A01G214200 chr1D 96.476 2242 69 8 1723 3956 302709964 302707725 0.000000e+00 3694.0
15 TraesCS1A01G214200 chr1D 91.776 912 31 24 773 1664 302710876 302709989 0.000000e+00 1229.0
16 TraesCS1A01G214200 chr1D 75.357 560 115 16 6940 7483 475044799 475045351 1.620000e-61 248.0
17 TraesCS1A01G214200 chr3D 86.831 243 25 2 4910 5152 583137341 583137106 1.610000e-66 265.0
18 TraesCS1A01G214200 chr3D 88.660 194 20 2 5202 5394 552655854 552655662 1.260000e-57 235.0
19 TraesCS1A01G214200 chr3D 85.268 224 23 3 4910 5133 552658111 552657898 9.800000e-54 222.0
20 TraesCS1A01G214200 chr3D 88.235 187 14 4 5202 5383 583137098 583136915 4.560000e-52 217.0
21 TraesCS1A01G214200 chr3D 83.929 224 26 3 4910 5133 552653938 552653725 9.870000e-49 206.0
22 TraesCS1A01G214200 chr3D 77.670 206 34 8 18 215 18484470 18484269 1.710000e-21 115.0
23 TraesCS1A01G214200 chr2D 85.882 255 29 2 4910 5164 512841431 512841678 1.610000e-66 265.0
24 TraesCS1A01G214200 chr2D 90.226 133 9 2 5203 5334 512841683 512841812 3.600000e-38 171.0
25 TraesCS1A01G214200 chr2D 82.069 145 24 2 62 205 511936606 511936749 1.020000e-23 122.0
26 TraesCS1A01G214200 chr2D 95.238 42 1 1 6804 6845 566989045 566989085 1.750000e-06 65.8
27 TraesCS1A01G214200 chr7A 85.098 255 27 6 4910 5164 690945148 690944905 4.490000e-62 250.0
28 TraesCS1A01G214200 chr7A 83.553 152 23 2 62 212 46974338 46974488 2.820000e-29 141.0
29 TraesCS1A01G214200 chr7A 89.286 56 4 2 6804 6858 202995035 202994981 1.350000e-07 69.4
30 TraesCS1A01G214200 chr2B 83.922 255 33 3 4910 5164 603194565 603194811 3.500000e-58 237.0
31 TraesCS1A01G214200 chr2B 95.238 42 1 1 6804 6845 679898293 679898333 1.750000e-06 65.8
32 TraesCS1A01G214200 chr6D 83.529 255 31 3 4910 5164 84287026 84286783 2.110000e-55 228.0
33 TraesCS1A01G214200 chr5B 81.853 259 34 7 4910 5164 92198127 92197878 9.870000e-49 206.0
34 TraesCS1A01G214200 chr5B 78.866 194 31 7 23 208 164394173 164394364 1.020000e-23 122.0
35 TraesCS1A01G214200 chr5B 83.333 126 20 1 80 205 541335093 541334969 1.710000e-21 115.0
36 TraesCS1A01G214200 chr2A 76.989 352 68 11 7078 7418 24209529 24209878 9.940000e-44 189.0
37 TraesCS1A01G214200 chr2A 95.238 42 1 1 6804 6845 706752948 706752988 1.750000e-06 65.8
38 TraesCS1A01G214200 chr5A 80.808 198 32 3 21 213 3437375 3437571 4.690000e-32 150.0
39 TraesCS1A01G214200 chr7B 91.509 106 7 2 5203 5306 677702950 677702845 2.180000e-30 145.0
40 TraesCS1A01G214200 chr7B 93.333 45 2 1 6804 6848 156958851 156958808 1.750000e-06 65.8
41 TraesCS1A01G214200 chr7B 80.682 88 14 3 6758 6845 245993838 245993922 1.750000e-06 65.8
42 TraesCS1A01G214200 chr6B 84.962 133 16 4 62 192 577192342 577192472 1.700000e-26 132.0
43 TraesCS1A01G214200 chr6B 81.818 154 25 3 62 215 716919623 716919473 7.900000e-25 126.0
44 TraesCS1A01G214200 chr5D 93.333 45 2 1 6804 6848 533641679 533641636 1.750000e-06 65.8
45 TraesCS1A01G214200 chrUn 86.207 58 6 2 6804 6860 48473176 48473120 2.260000e-05 62.1


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 TraesCS1A01G214200 chr1A 377222073 377229575 7502 True 3433.750000 7306 97.959000 1 7503 4 chr1A.!!$R1 7502
1 TraesCS1A01G214200 chr1B 409617332 409624057 6725 True 3341.333333 4211 94.138333 20 6756 3 chr1B.!!$R4 6736
2 TraesCS1A01G214200 chr1B 409611254 409611963 709 True 1037.000000 1037 92.987000 6765 7476 1 chr1B.!!$R2 711
3 TraesCS1A01G214200 chr1D 302704812 302710876 6064 True 2982.333333 4024 94.305000 773 6756 3 chr1D.!!$R1 5983
4 TraesCS1A01G214200 chr1D 475044799 475045351 552 False 248.000000 248 75.357000 6940 7483 1 chr1D.!!$F1 543
5 TraesCS1A01G214200 chr3D 552653725 552658111 4386 True 221.000000 235 85.952333 4910 5394 3 chr3D.!!$R2 484

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
725 731 0.259938 AACTGAATGGATGGGAGGGC 59.740 55.000 0.00 0.00 0.00 5.19 F
1368 1396 0.035820 GCTTATGGTTGTCCCGTGGA 60.036 55.000 0.00 0.00 35.15 4.02 F
1605 1641 0.178990 AAACAACCCTGAGCACCTCC 60.179 55.000 0.00 0.00 0.00 4.30 F
2037 2084 0.326264 ATCTGTGTGAGAGGTTGGCC 59.674 55.000 0.00 0.00 32.80 5.36 F
2959 3010 1.068541 GGAAACAATGGCAAGGTCGAC 60.069 52.381 7.13 7.13 0.00 4.20 F
4317 4458 1.134250 TGGATTTGCGCAGGTGCTATA 60.134 47.619 11.31 0.00 39.32 1.31 F
5761 8754 0.107993 CAGAGGAAGCCGAGAATGCA 60.108 55.000 0.00 0.00 0.00 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2044 2091 0.603065 TACTGCTCAGTGTGCGACAT 59.397 50.000 12.43 1.03 42.52 3.06 R
2800 2851 0.318120 GACATGGGGGCACAGTTTTG 59.682 55.000 0.00 0.00 0.00 2.44 R
3017 3068 1.406614 GCTAAGCTGCATCACCTCTGT 60.407 52.381 1.02 0.00 0.00 3.41 R
3611 3668 1.404181 GCTCCATTGTCAGCGTAGACA 60.404 52.381 7.79 7.79 46.12 3.41 R
4667 4809 1.739466 GCTTTGCCATCACGATCAAGA 59.261 47.619 0.00 0.00 0.00 3.02 R
6168 9197 0.179045 GTAGGCGATCAACCCTGCAT 60.179 55.000 6.79 0.00 34.44 3.96 R
6863 9915 1.281287 AGTGATGGCTGTCTGCTCAAT 59.719 47.619 1.44 0.00 42.39 2.57 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
26 27 3.880490 ACTTAACGCACTTTCATGAACCA 59.120 39.130 7.89 0.00 0.00 3.67
28 29 3.354089 AACGCACTTTCATGAACCAAG 57.646 42.857 7.89 5.85 0.00 3.61
36 37 7.147976 GCACTTTCATGAACCAAGTCTAAAAT 58.852 34.615 7.89 0.00 0.00 1.82
37 38 7.653311 GCACTTTCATGAACCAAGTCTAAAATT 59.347 33.333 7.89 0.00 0.00 1.82
38 39 8.971321 CACTTTCATGAACCAAGTCTAAAATTG 58.029 33.333 7.89 0.00 0.00 2.32
46 48 9.515226 TGAACCAAGTCTAAAATTGTATAGCTT 57.485 29.630 0.00 0.00 0.00 3.74
60 62 6.598753 TGTATAGCTTAATCAAACGGAAGC 57.401 37.500 0.00 0.00 43.73 3.86
71 73 6.817765 ATCAAACGGAAGCAAATTAGAGAA 57.182 33.333 0.00 0.00 0.00 2.87
76 78 6.663944 ACGGAAGCAAATTAGAGAACATAC 57.336 37.500 0.00 0.00 0.00 2.39
117 119 7.765695 AATGACAAAGCTCCTTGAGAAATTA 57.234 32.000 5.15 0.00 0.00 1.40
123 125 6.765915 AAGCTCCTTGAGAAATTATTGACC 57.234 37.500 0.00 0.00 0.00 4.02
164 166 5.602145 ACCCAATTTCAAATTGAAGACCTCA 59.398 36.000 22.25 0.00 37.70 3.86
196 198 2.755103 AGCCCTTGAAAATTAGGAAGCG 59.245 45.455 0.00 0.00 33.13 4.68
198 200 3.673323 GCCCTTGAAAATTAGGAAGCGTG 60.673 47.826 0.00 0.00 33.13 5.34
217 219 5.932303 AGCGTGGTGTATGTAATATGATTCC 59.068 40.000 0.00 0.00 0.00 3.01
218 220 5.163992 GCGTGGTGTATGTAATATGATTCCG 60.164 44.000 0.00 0.00 0.00 4.30
270 272 4.597507 TGTTTCTTTAGATGGTGAGAGGGT 59.402 41.667 0.00 0.00 0.00 4.34
281 283 2.500098 GGTGAGAGGGTGCACAATACTA 59.500 50.000 20.43 0.00 36.76 1.82
320 322 8.121305 AGTGGTTGTTGCTGATTAATTTATGA 57.879 30.769 0.00 0.00 0.00 2.15
329 331 9.492973 TTGCTGATTAATTTATGAGATCATCGA 57.507 29.630 0.00 0.00 37.76 3.59
330 332 9.662947 TGCTGATTAATTTATGAGATCATCGAT 57.337 29.630 0.00 0.00 37.76 3.59
399 402 5.583495 TGAGAGAGCTCGTTAAGAAATAGC 58.417 41.667 8.37 0.00 44.33 2.97
462 465 3.132824 CCTCATTTTAAATGGGTGGGCTC 59.867 47.826 15.40 0.00 0.00 4.70
475 478 3.169908 GGTGGGCTCCAAAATTAGGAAA 58.830 45.455 1.67 0.00 34.18 3.13
478 481 3.576550 TGGGCTCCAAAATTAGGAAACAC 59.423 43.478 1.67 0.00 34.08 3.32
495 498 6.316390 AGGAAACACGGTGAATTAGATGATTC 59.684 38.462 16.29 3.60 36.73 2.52
496 499 5.718649 AACACGGTGAATTAGATGATTCG 57.281 39.130 16.29 0.00 38.57 3.34
531 537 8.408601 AGATGCTATGGTAAATCATGTGTTTTC 58.591 33.333 0.00 0.00 0.00 2.29
533 539 8.800370 TGCTATGGTAAATCATGTGTTTTCTA 57.200 30.769 0.00 0.00 0.00 2.10
543 549 5.630121 TCATGTGTTTTCTAGTGGGTTCAT 58.370 37.500 0.00 0.00 0.00 2.57
546 552 4.141367 TGTGTTTTCTAGTGGGTTCATGGA 60.141 41.667 0.00 0.00 0.00 3.41
568 574 6.374333 TGGAACTGATATGTTTTTACAGGCTC 59.626 38.462 0.00 0.00 33.57 4.70
585 591 4.396166 CAGGCTCGTTCCTGTTGATTAATT 59.604 41.667 14.65 0.00 46.59 1.40
586 592 4.396166 AGGCTCGTTCCTGTTGATTAATTG 59.604 41.667 0.00 0.00 34.56 2.32
593 599 8.664798 TCGTTCCTGTTGATTAATTGTTGATAG 58.335 33.333 0.00 0.00 0.00 2.08
648 654 4.379290 GCACCTCAAATGAAAGAGAGAAGC 60.379 45.833 0.00 0.00 33.74 3.86
650 656 4.042684 ACCTCAAATGAAAGAGAGAAGCCT 59.957 41.667 0.00 0.00 33.74 4.58
653 659 6.656693 CCTCAAATGAAAGAGAGAAGCCTTTA 59.343 38.462 0.00 0.00 33.23 1.85
667 673 7.608376 AGAGAAGCCTTTAAGAAATAGTTGACC 59.392 37.037 0.00 0.00 0.00 4.02
721 727 4.868172 AATCTCAACTGAATGGATGGGA 57.132 40.909 0.00 0.00 0.00 4.37
722 728 3.920231 TCTCAACTGAATGGATGGGAG 57.080 47.619 0.00 0.00 0.00 4.30
725 731 0.259938 AACTGAATGGATGGGAGGGC 59.740 55.000 0.00 0.00 0.00 5.19
726 732 0.625683 ACTGAATGGATGGGAGGGCT 60.626 55.000 0.00 0.00 0.00 5.19
813 821 5.870706 TCTAATCTAGAGCCTTCGAGATGA 58.129 41.667 0.00 0.00 42.66 2.92
882 892 4.082245 CCAAGTTTTCATATCCAACGGCTT 60.082 41.667 0.00 0.00 0.00 4.35
939 959 4.091800 CGAACATACCGTTAACCATTTCGT 59.908 41.667 0.00 0.00 38.19 3.85
1308 1336 0.179124 GCGAAGAGCGGATTCTGTCT 60.179 55.000 0.00 0.00 41.29 3.41
1309 1337 1.737363 GCGAAGAGCGGATTCTGTCTT 60.737 52.381 8.94 8.94 41.29 3.01
1368 1396 0.035820 GCTTATGGTTGTCCCGTGGA 60.036 55.000 0.00 0.00 35.15 4.02
1369 1397 1.408266 GCTTATGGTTGTCCCGTGGAT 60.408 52.381 0.00 0.00 32.73 3.41
1370 1398 2.158871 GCTTATGGTTGTCCCGTGGATA 60.159 50.000 0.00 0.00 32.73 2.59
1371 1399 3.463944 CTTATGGTTGTCCCGTGGATAC 58.536 50.000 0.00 0.00 32.73 2.24
1412 1440 5.022787 AGGTGGTTGGTGCATTTACATTAT 58.977 37.500 0.00 0.00 0.00 1.28
1413 1441 6.191315 AGGTGGTTGGTGCATTTACATTATA 58.809 36.000 0.00 0.00 0.00 0.98
1414 1442 6.096282 AGGTGGTTGGTGCATTTACATTATAC 59.904 38.462 0.00 0.00 0.00 1.47
1483 1517 0.674581 GCACACTGAGCAGTATGGCA 60.675 55.000 10.54 0.00 40.20 4.92
1605 1641 0.178990 AAACAACCCTGAGCACCTCC 60.179 55.000 0.00 0.00 0.00 4.30
1610 1646 3.775654 CCTGAGCACCTCCCGGAC 61.776 72.222 0.73 0.00 0.00 4.79
1639 1675 1.754234 AAACATGGGCGGGCTGATC 60.754 57.895 0.00 0.00 0.00 2.92
1665 1701 2.667199 GCACGCCTTACCAACGGT 60.667 61.111 0.00 0.00 40.16 4.83
1666 1702 2.255881 GCACGCCTTACCAACGGTT 61.256 57.895 0.00 0.00 37.09 4.44
1667 1703 0.950071 GCACGCCTTACCAACGGTTA 60.950 55.000 0.00 0.00 37.09 2.85
1668 1704 1.729284 CACGCCTTACCAACGGTTAT 58.271 50.000 0.00 0.00 37.09 1.89
1669 1705 1.662122 CACGCCTTACCAACGGTTATC 59.338 52.381 0.00 0.00 37.09 1.75
1670 1706 1.275856 ACGCCTTACCAACGGTTATCA 59.724 47.619 0.00 0.00 37.09 2.15
1671 1707 1.662122 CGCCTTACCAACGGTTATCAC 59.338 52.381 0.00 0.00 37.09 3.06
1672 1708 2.702261 GCCTTACCAACGGTTATCACA 58.298 47.619 0.00 0.00 37.09 3.58
1673 1709 3.275999 GCCTTACCAACGGTTATCACAT 58.724 45.455 0.00 0.00 37.09 3.21
1676 1712 4.809426 CCTTACCAACGGTTATCACATCTC 59.191 45.833 0.00 0.00 37.09 2.75
1679 1715 4.906618 ACCAACGGTTATCACATCTCTTT 58.093 39.130 0.00 0.00 27.29 2.52
1698 1734 3.612472 TTTTTACCGCTGGAAGTTTCG 57.388 42.857 1.50 0.00 35.30 3.46
1699 1735 2.243602 TTTACCGCTGGAAGTTTCGT 57.756 45.000 1.50 0.00 35.30 3.85
1700 1736 3.383620 TTTACCGCTGGAAGTTTCGTA 57.616 42.857 1.50 0.00 35.30 3.43
1701 1737 2.642139 TACCGCTGGAAGTTTCGTAG 57.358 50.000 1.50 0.00 35.30 3.51
1702 1738 0.677842 ACCGCTGGAAGTTTCGTAGT 59.322 50.000 1.50 0.00 35.30 2.73
1703 1739 1.888512 ACCGCTGGAAGTTTCGTAGTA 59.111 47.619 1.50 0.00 35.30 1.82
1704 1740 2.297033 ACCGCTGGAAGTTTCGTAGTAA 59.703 45.455 1.50 0.00 35.30 2.24
1705 1741 3.056322 ACCGCTGGAAGTTTCGTAGTAAT 60.056 43.478 1.50 0.00 35.30 1.89
1706 1742 3.930848 CCGCTGGAAGTTTCGTAGTAATT 59.069 43.478 0.00 0.00 35.30 1.40
1707 1743 4.390909 CCGCTGGAAGTTTCGTAGTAATTT 59.609 41.667 0.00 0.00 35.30 1.82
1708 1744 5.577945 CCGCTGGAAGTTTCGTAGTAATTTA 59.422 40.000 0.00 0.00 35.30 1.40
1709 1745 6.257193 CCGCTGGAAGTTTCGTAGTAATTTAT 59.743 38.462 0.00 0.00 35.30 1.40
1710 1746 7.201582 CCGCTGGAAGTTTCGTAGTAATTTATT 60.202 37.037 0.00 0.00 35.30 1.40
1711 1747 8.173130 CGCTGGAAGTTTCGTAGTAATTTATTT 58.827 33.333 0.00 0.00 35.30 1.40
1752 1789 0.456653 GCGCGGGAAGTTTCGTAGTA 60.457 55.000 8.83 0.00 0.00 1.82
1771 1808 7.658575 TCGTAGTAATTTATTTAGGATGGGTGC 59.341 37.037 0.00 0.00 0.00 5.01
1774 1811 8.782137 AGTAATTTATTTAGGATGGGTGCAAT 57.218 30.769 0.00 0.00 0.00 3.56
1834 1871 3.906720 TCCTAGGTTTCCATGTGTAGC 57.093 47.619 9.08 0.00 0.00 3.58
1856 1901 3.191371 CCTGCCAAGACTTGTATTGAACC 59.809 47.826 14.03 0.00 0.00 3.62
1891 1938 1.738099 GTGATTGCGCACGAGGAGT 60.738 57.895 11.12 0.00 0.00 3.85
2037 2084 0.326264 ATCTGTGTGAGAGGTTGGCC 59.674 55.000 0.00 0.00 32.80 5.36
2041 2088 4.410400 GTGAGAGGTTGGCCCCCG 62.410 72.222 0.00 0.00 34.57 5.73
2044 2091 2.204029 AGAGGTTGGCCCCCGTTA 60.204 61.111 0.00 0.00 34.57 3.18
2048 2095 1.751544 GGTTGGCCCCCGTTATGTC 60.752 63.158 0.00 0.00 0.00 3.06
2124 2171 9.360093 CTACATCTCTTTTTAATCGAGACAAGT 57.640 33.333 0.00 0.00 36.70 3.16
2215 2262 4.974721 CTTGGGCGGGCTGGTTGT 62.975 66.667 0.26 0.00 0.00 3.32
2244 2291 2.436646 CCTTGCCAACGGAGCGAT 60.437 61.111 0.00 0.00 0.00 4.58
2291 2338 7.610580 TTTTTGGATGGGTGTAAGAAGATTT 57.389 32.000 0.00 0.00 0.00 2.17
2348 2395 6.282199 TCTAGGTTTCCATGTGTACTTCTC 57.718 41.667 0.00 0.00 0.00 2.87
2473 2520 2.617532 GCTTCTCTTCCCATTGCTGAGT 60.618 50.000 0.00 0.00 0.00 3.41
2632 2683 2.223876 ACATGCCTTTTGTGTTGCTGAG 60.224 45.455 0.00 0.00 0.00 3.35
2701 2752 5.843019 TCCACACTTCCTATTTTTCTCCT 57.157 39.130 0.00 0.00 0.00 3.69
2718 2769 9.691362 TTTTTCTCCTGCATATACTTGTTTTTC 57.309 29.630 0.00 0.00 0.00 2.29
2776 2827 5.854866 GCAATCTTCCTTTACGTTTACAACC 59.145 40.000 0.00 0.00 0.00 3.77
2811 2862 5.671742 AATATGTTTTGCAAAACTGTGCC 57.328 34.783 39.89 22.90 46.37 5.01
2901 2952 4.467795 TCTTTGTTCACTATCTAGCCAGCT 59.532 41.667 0.00 0.00 0.00 4.24
2959 3010 1.068541 GGAAACAATGGCAAGGTCGAC 60.069 52.381 7.13 7.13 0.00 4.20
2999 3050 4.769488 TCCAAGTGCTATCTATGCTAGGAG 59.231 45.833 0.00 0.00 0.00 3.69
3017 3068 2.104792 GGAGCCATACAGGAGCAATACA 59.895 50.000 0.00 0.00 41.22 2.29
3205 3256 3.353557 GTGGGAAGGTAGACCAAATTCC 58.646 50.000 8.91 8.91 37.22 3.01
3476 3531 7.507672 CTTCATGTTGGAAGTAGTACTAACG 57.492 40.000 3.61 0.00 39.51 3.18
3536 3593 9.546428 CAGGTTTTTGATTATCTTCTTTTTGGT 57.454 29.630 0.00 0.00 0.00 3.67
3611 3668 5.406780 CGTCTTCTAGATTGTTGCTTCACTT 59.593 40.000 0.00 0.00 0.00 3.16
3617 3674 5.931441 AGATTGTTGCTTCACTTGTCTAC 57.069 39.130 0.00 0.00 0.00 2.59
4317 4458 1.134250 TGGATTTGCGCAGGTGCTATA 60.134 47.619 11.31 0.00 39.32 1.31
4352 4493 5.971763 AGTGAAGGCTTATACTGTCAGAAG 58.028 41.667 13.86 1.05 0.00 2.85
4459 4601 5.244755 TCTTCGTTCATGACATTTGATCCA 58.755 37.500 0.00 0.00 0.00 3.41
4646 4788 4.696877 TCTGCAACAGTCGATGAAATTCAT 59.303 37.500 8.39 8.39 34.73 2.57
4650 4792 5.630680 GCAACAGTCGATGAAATTCATTTGT 59.369 36.000 10.09 9.49 37.20 2.83
4667 4809 7.118496 TCATTTGTTTAACAATGGACAAGGT 57.882 32.000 11.50 0.00 38.00 3.50
4692 4834 3.056678 TGATCGTGATGGCAAAGCAAATT 60.057 39.130 0.00 0.00 0.00 1.82
5070 5212 5.759506 TGAGCGGTCAACATTTCTTAAAA 57.240 34.783 16.20 0.00 0.00 1.52
5072 5214 4.546570 AGCGGTCAACATTTCTTAAAAGC 58.453 39.130 0.00 0.00 0.00 3.51
5163 5305 4.833380 GCTCCCATCACAGGTAGTCTTATA 59.167 45.833 0.00 0.00 0.00 0.98
5386 7555 4.657055 TGTCAAAATTTATGGACATCGCG 58.343 39.130 13.25 0.00 35.51 5.87
5761 8754 0.107993 CAGAGGAAGCCGAGAATGCA 60.108 55.000 0.00 0.00 0.00 3.96
5905 8898 5.808366 ACTCAATTCACCACAGACTTCTA 57.192 39.130 0.00 0.00 0.00 2.10
5935 8928 1.593750 CAGGTGCGCTCCTATCAGC 60.594 63.158 29.17 6.72 35.87 4.26
5971 8964 8.553153 TGGTGATACTTTTTATCCCATACTCAA 58.447 33.333 0.00 0.00 0.00 3.02
5999 9028 5.299949 GGTTGCTGAAAGTGAAATCCATTT 58.700 37.500 0.00 0.00 35.30 2.32
6099 9128 1.656441 CAGGCAAGCACACTGAACC 59.344 57.895 0.00 0.00 34.21 3.62
6157 9186 3.070018 GCTATCACCATTCTCATTCCGG 58.930 50.000 0.00 0.00 0.00 5.14
6168 9197 2.038426 TCTCATTCCGGCTCAACTTGAA 59.962 45.455 0.00 0.00 0.00 2.69
6209 9238 6.317789 ACCGACTGCCATGAAATATTAATG 57.682 37.500 0.00 0.00 0.00 1.90
6416 9455 4.530710 AGACATTACGCTAGTCAAACCA 57.469 40.909 0.00 0.00 34.80 3.67
6561 9608 4.871933 AAAGTAGAAAAATGCCCTGTGG 57.128 40.909 0.00 0.00 0.00 4.17
6649 9701 3.126343 CGTGCTGGTAAAACATAGGGTTC 59.874 47.826 0.00 0.00 39.29 3.62
6675 9727 0.515127 TTTGTTGCGTACAGATGCCG 59.485 50.000 0.00 0.00 38.19 5.69
6688 9740 0.103208 GATGCCGAGAGTACACCCTG 59.897 60.000 0.00 0.00 0.00 4.45
6737 9789 6.620877 TTCCATGACAACTATACTGGACTT 57.379 37.500 0.00 0.00 32.74 3.01
6740 9792 5.812642 CCATGACAACTATACTGGACTTGAC 59.187 44.000 0.00 0.00 0.00 3.18
6749 9801 5.762179 ATACTGGACTTGACTGGATTTGA 57.238 39.130 0.00 0.00 0.00 2.69
6756 9808 6.831353 TGGACTTGACTGGATTTGAAAGTTAA 59.169 34.615 0.00 0.00 0.00 2.01
6757 9809 7.505585 TGGACTTGACTGGATTTGAAAGTTAAT 59.494 33.333 0.00 0.00 0.00 1.40
6758 9810 8.023706 GGACTTGACTGGATTTGAAAGTTAATC 58.976 37.037 0.00 0.00 0.00 1.75
6759 9811 7.886338 ACTTGACTGGATTTGAAAGTTAATCC 58.114 34.615 8.42 8.42 46.51 3.01
6760 9812 7.725844 ACTTGACTGGATTTGAAAGTTAATCCT 59.274 33.333 14.28 0.00 46.48 3.24
6761 9813 8.477419 TTGACTGGATTTGAAAGTTAATCCTT 57.523 30.769 14.28 4.65 46.48 3.36
6762 9814 8.110860 TGACTGGATTTGAAAGTTAATCCTTC 57.889 34.615 14.28 11.48 46.48 3.46
6763 9815 7.944554 TGACTGGATTTGAAAGTTAATCCTTCT 59.055 33.333 14.28 1.07 46.48 2.85
6813 9865 8.542497 TGGTACAACTTTATGCTTTAGTACTG 57.458 34.615 5.39 0.00 31.92 2.74
6848 9900 9.502145 CTAAAGCTGCGACAATTAATTTGAATA 57.498 29.630 0.00 0.00 38.76 1.75
6850 9902 7.088589 AGCTGCGACAATTAATTTGAATAGT 57.911 32.000 0.00 0.00 38.76 2.12
6854 9906 5.977129 GCGACAATTAATTTGAATAGTGGGG 59.023 40.000 0.00 0.00 38.76 4.96
6863 9915 5.586155 TTTGAATAGTGGGGGTACTTGAA 57.414 39.130 0.00 0.00 32.19 2.69
6874 9926 3.559171 GGGGTACTTGAATTGAGCAGACA 60.559 47.826 0.00 0.00 0.00 3.41
6938 9990 7.296628 TGGTAGTTAAAGCCATTGACATTTT 57.703 32.000 0.00 0.00 30.22 1.82
7076 10267 6.174720 TGATATACCATCACAAAGTCCCTC 57.825 41.667 0.00 0.00 0.00 4.30
7110 10301 2.765135 CTGGATGAGATCTGTCAGGTGT 59.235 50.000 0.00 0.00 0.00 4.16
7199 10391 5.572896 GCACAAGCAACCACAGAAATTATAC 59.427 40.000 0.00 0.00 41.58 1.47
7220 10412 9.772973 TTATACTACAACAACACCATATGATCC 57.227 33.333 3.65 0.00 0.00 3.36
7265 10458 2.354303 CGAGTTACCCTAATGTGCCACA 60.354 50.000 0.00 0.00 0.00 4.17
7476 10981 2.462723 TGCCACATAGCTACTACCACA 58.537 47.619 0.00 0.00 0.00 4.17
7483 10988 4.161754 ACATAGCTACTACCACAAACCCTC 59.838 45.833 0.00 0.00 0.00 4.30
7484 10989 2.616524 AGCTACTACCACAAACCCTCA 58.383 47.619 0.00 0.00 0.00 3.86
7485 10990 2.976882 AGCTACTACCACAAACCCTCAA 59.023 45.455 0.00 0.00 0.00 3.02
7486 10991 3.072211 GCTACTACCACAAACCCTCAAC 58.928 50.000 0.00 0.00 0.00 3.18
7487 10992 2.651382 ACTACCACAAACCCTCAACC 57.349 50.000 0.00 0.00 0.00 3.77
7488 10993 2.132686 ACTACCACAAACCCTCAACCT 58.867 47.619 0.00 0.00 0.00 3.50
7489 10994 2.105993 ACTACCACAAACCCTCAACCTC 59.894 50.000 0.00 0.00 0.00 3.85
7490 10995 0.179029 ACCACAAACCCTCAACCTCG 60.179 55.000 0.00 0.00 0.00 4.63
7492 10997 1.476110 CCACAAACCCTCAACCTCGAA 60.476 52.381 0.00 0.00 0.00 3.71
7493 10998 1.873591 CACAAACCCTCAACCTCGAAG 59.126 52.381 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.427528 TCATGAAAGTGCGTTAAGTCGAC 59.572 43.478 7.70 7.70 0.00 4.20
3 4 4.024387 TGGTTCATGAAAGTGCGTTAAGTC 60.024 41.667 10.35 0.00 0.00 3.01
5 6 4.481930 TGGTTCATGAAAGTGCGTTAAG 57.518 40.909 10.35 0.00 0.00 1.85
6 7 4.336993 ACTTGGTTCATGAAAGTGCGTTAA 59.663 37.500 10.35 0.00 33.01 2.01
9 10 2.290641 GACTTGGTTCATGAAAGTGCGT 59.709 45.455 14.50 7.07 34.37 5.24
10 11 2.549754 AGACTTGGTTCATGAAAGTGCG 59.450 45.455 14.50 4.27 34.37 5.34
12 13 8.971321 CAATTTTAGACTTGGTTCATGAAAGTG 58.029 33.333 14.50 6.70 34.37 3.16
13 14 8.695456 ACAATTTTAGACTTGGTTCATGAAAGT 58.305 29.630 10.35 10.36 36.87 2.66
18 19 9.722056 GCTATACAATTTTAGACTTGGTTCATG 57.278 33.333 0.00 0.00 0.00 3.07
36 37 6.596106 TGCTTCCGTTTGATTAAGCTATACAA 59.404 34.615 7.35 0.00 43.69 2.41
37 38 6.110033 TGCTTCCGTTTGATTAAGCTATACA 58.890 36.000 7.35 0.00 43.69 2.29
38 39 6.598753 TGCTTCCGTTTGATTAAGCTATAC 57.401 37.500 7.35 0.00 43.69 1.47
46 48 7.915293 TCTCTAATTTGCTTCCGTTTGATTA 57.085 32.000 0.00 0.00 0.00 1.75
51 53 6.575162 ATGTTCTCTAATTTGCTTCCGTTT 57.425 33.333 0.00 0.00 0.00 3.60
92 94 6.661304 ATTTCTCAAGGAGCTTTGTCATTT 57.339 33.333 0.00 0.00 0.00 2.32
117 119 6.070824 GGTCATCCAATTTTAACTGGGTCAAT 60.071 38.462 0.00 0.00 33.19 2.57
196 198 7.375834 TCTCGGAATCATATTACATACACCAC 58.624 38.462 0.00 0.00 0.00 4.16
198 200 8.827177 TTTCTCGGAATCATATTACATACACC 57.173 34.615 0.00 0.00 0.00 4.16
243 245 7.365117 CCCTCTCACCATCTAAAGAAACATACT 60.365 40.741 0.00 0.00 0.00 2.12
244 246 6.763610 CCCTCTCACCATCTAAAGAAACATAC 59.236 42.308 0.00 0.00 0.00 2.39
251 253 2.501723 GCACCCTCTCACCATCTAAAGA 59.498 50.000 0.00 0.00 0.00 2.52
270 272 9.457110 CTTTGTAAAACACATTAGTATTGTGCA 57.543 29.630 20.07 10.21 46.65 4.57
294 296 8.584157 TCATAAATTAATCAGCAACAACCACTT 58.416 29.630 0.00 0.00 0.00 3.16
298 300 9.455847 GATCTCATAAATTAATCAGCAACAACC 57.544 33.333 0.00 0.00 0.00 3.77
325 327 9.551734 TTTGATCATGATTTTGACTAGATCGAT 57.448 29.630 10.14 0.00 34.63 3.59
327 329 9.808808 GATTTGATCATGATTTTGACTAGATCG 57.191 33.333 10.14 0.00 34.63 3.69
373 376 7.223777 GCTATTTCTTAACGAGCTCTCTCATTT 59.776 37.037 12.85 0.00 39.30 2.32
379 382 5.583495 TCAGCTATTTCTTAACGAGCTCTC 58.417 41.667 12.85 0.00 41.48 3.20
435 438 5.478407 CCACCCATTTAAAATGAGGTGTTC 58.522 41.667 19.81 0.00 38.01 3.18
440 443 3.106827 AGCCCACCCATTTAAAATGAGG 58.893 45.455 0.00 0.00 0.00 3.86
445 448 2.704190 TGGAGCCCACCCATTTAAAA 57.296 45.000 0.00 0.00 0.00 1.52
462 465 4.839668 TCACCGTGTTTCCTAATTTTGG 57.160 40.909 0.00 0.00 0.00 3.28
475 478 5.006153 TCGAATCATCTAATTCACCGTGT 57.994 39.130 0.00 0.00 35.75 4.49
515 521 7.448748 ACCCACTAGAAAACACATGATTTAC 57.551 36.000 0.00 0.00 0.00 2.01
516 522 7.721842 TGAACCCACTAGAAAACACATGATTTA 59.278 33.333 0.00 0.00 0.00 1.40
531 537 3.981071 TCAGTTCCATGAACCCACTAG 57.019 47.619 0.00 0.00 42.85 2.57
533 539 4.228210 ACATATCAGTTCCATGAACCCACT 59.772 41.667 0.00 0.00 42.85 4.00
536 542 6.530019 AAAACATATCAGTTCCATGAACCC 57.470 37.500 0.00 0.00 42.85 4.11
543 549 6.245408 AGCCTGTAAAAACATATCAGTTCCA 58.755 36.000 0.00 0.00 0.00 3.53
546 552 5.938125 ACGAGCCTGTAAAAACATATCAGTT 59.062 36.000 0.00 0.00 0.00 3.16
568 574 8.664798 TCTATCAACAATTAATCAACAGGAACG 58.335 33.333 0.00 0.00 0.00 3.95
626 632 4.155644 GGCTTCTCTCTTTCATTTGAGGTG 59.844 45.833 0.00 0.00 0.00 4.00
648 654 8.726870 TTATCGGGTCAACTATTTCTTAAAGG 57.273 34.615 0.00 0.00 0.00 3.11
653 659 9.238368 TGATTTTTATCGGGTCAACTATTTCTT 57.762 29.630 0.00 0.00 0.00 2.52
667 673 8.700722 TGAATTTGGTTCATGATTTTTATCGG 57.299 30.769 0.00 0.00 41.79 4.18
708 714 0.554792 AAGCCCTCCCATCCATTCAG 59.445 55.000 0.00 0.00 0.00 3.02
718 724 2.807676 TCTTGATTTTGAAGCCCTCCC 58.192 47.619 0.00 0.00 0.00 4.30
725 731 9.635520 AATTCACTATGCTTCTTGATTTTGAAG 57.364 29.630 0.00 0.00 41.67 3.02
791 797 6.567687 TTCATCTCGAAGGCTCTAGATTAG 57.432 41.667 0.00 0.00 33.05 1.73
882 892 3.501349 GGAGTGGGATACTGCTATCTGA 58.499 50.000 0.00 0.00 43.69 3.27
922 932 3.178267 CGCTACGAAATGGTTAACGGTA 58.822 45.455 0.00 0.00 0.00 4.02
939 959 1.044231 TATTGGTCCCGCTTCCGCTA 61.044 55.000 0.00 0.00 0.00 4.26
1309 1337 0.945760 AAACTCCCCTCCCCCAAAAA 59.054 50.000 0.00 0.00 0.00 1.94
1368 1396 5.369699 ACCTACCAATTGCAGGATGTAGTAT 59.630 40.000 23.83 7.85 39.31 2.12
1369 1397 4.719773 ACCTACCAATTGCAGGATGTAGTA 59.280 41.667 23.83 7.88 39.31 1.82
1370 1398 3.523564 ACCTACCAATTGCAGGATGTAGT 59.476 43.478 23.83 7.22 39.31 2.73
1371 1399 3.879295 CACCTACCAATTGCAGGATGTAG 59.121 47.826 23.83 16.53 39.31 2.74
1412 1440 4.142790 GGACCGACTGATGAATCCTAGTA 58.857 47.826 0.00 0.00 0.00 1.82
1413 1441 2.959707 GGACCGACTGATGAATCCTAGT 59.040 50.000 0.00 0.00 0.00 2.57
1414 1442 2.959030 TGGACCGACTGATGAATCCTAG 59.041 50.000 0.00 0.00 0.00 3.02
1579 1615 4.499188 GGTGCTCAGGGTTGTTTCTTTTAC 60.499 45.833 0.00 0.00 0.00 2.01
1605 1641 2.592993 TTTGAGCCCTGGAGTCCGG 61.593 63.158 11.47 11.47 0.00 5.14
1610 1646 0.682209 CCCATGTTTGAGCCCTGGAG 60.682 60.000 0.00 0.00 0.00 3.86
1621 1657 1.754234 GATCAGCCCGCCCATGTTT 60.754 57.895 0.00 0.00 0.00 2.83
1657 1693 4.553330 AAGAGATGTGATAACCGTTGGT 57.447 40.909 0.00 0.00 37.65 3.67
1679 1715 2.563702 ACGAAACTTCCAGCGGTAAAA 58.436 42.857 0.00 0.00 0.00 1.52
1682 1718 1.888512 ACTACGAAACTTCCAGCGGTA 59.111 47.619 0.00 0.00 0.00 4.02
1683 1719 0.677842 ACTACGAAACTTCCAGCGGT 59.322 50.000 0.00 0.00 0.00 5.68
1685 1721 5.526010 AAATTACTACGAAACTTCCAGCG 57.474 39.130 0.00 0.00 0.00 5.18
1752 1789 9.432982 TCTTATTGCACCCATCCTAAATAAATT 57.567 29.630 0.00 0.00 0.00 1.82
1834 1871 3.191371 GGTTCAATACAAGTCTTGGCAGG 59.809 47.826 16.85 4.24 34.12 4.85
1856 1901 7.541243 CGCAATCACAAAATCAAATTCTATCG 58.459 34.615 0.00 0.00 0.00 2.92
1891 1938 9.699106 AAACTCCCCTCCCTAAGATATAATTTA 57.301 33.333 0.00 0.00 0.00 1.40
2037 2084 1.079405 AGTGTGCGACATAACGGGG 60.079 57.895 0.00 0.00 0.00 5.73
2041 2088 1.391485 CTGCTCAGTGTGCGACATAAC 59.609 52.381 12.21 0.00 0.00 1.89
2044 2091 0.603065 TACTGCTCAGTGTGCGACAT 59.397 50.000 12.43 1.03 42.52 3.06
2124 2171 3.727387 GCCAAGGGCTAGTCCTGA 58.273 61.111 18.80 0.00 46.69 3.86
2244 2291 4.580868 AGAGATGTGACGAGAACAGAGTA 58.419 43.478 0.00 0.00 0.00 2.59
2305 2352 9.384764 ACCTAGAATTGCAGTTTAGTTCTTATC 57.615 33.333 0.00 0.00 32.02 1.75
2315 2362 5.539955 ACATGGAAACCTAGAATTGCAGTTT 59.460 36.000 0.00 0.00 33.55 2.66
2348 2395 6.406177 CCCATCAGTTCAATACAAATCTTGGG 60.406 42.308 0.00 0.00 34.12 4.12
2632 2683 4.843728 TGACTCAACCAATCCAAGGATAC 58.156 43.478 1.29 0.00 33.97 2.24
2800 2851 0.318120 GACATGGGGGCACAGTTTTG 59.682 55.000 0.00 0.00 0.00 2.44
2901 2952 6.829849 TGGTATGCATCATCTTGATTGTCTA 58.170 36.000 0.19 0.00 34.28 2.59
2959 3010 3.452755 TGGACATTGTAGACATAGCCG 57.547 47.619 0.00 0.00 0.00 5.52
2999 3050 2.874701 CTGTGTATTGCTCCTGTATGGC 59.125 50.000 0.00 0.00 35.26 4.40
3017 3068 1.406614 GCTAAGCTGCATCACCTCTGT 60.407 52.381 1.02 0.00 0.00 3.41
3205 3256 2.386661 ATAGTTTGTGCCAGGAGACG 57.613 50.000 0.00 0.00 0.00 4.18
3395 3448 4.513692 CGACCATTAAAACAACAGTCAGGA 59.486 41.667 0.00 0.00 0.00 3.86
3476 3531 5.041951 TCATATGTTCACCAAAAGCGTTC 57.958 39.130 1.90 0.00 0.00 3.95
3611 3668 1.404181 GCTCCATTGTCAGCGTAGACA 60.404 52.381 7.79 7.79 46.12 3.41
3617 3674 2.283298 ACTAATGCTCCATTGTCAGCG 58.717 47.619 0.94 0.00 38.59 5.18
4352 4493 5.473504 AGGTTCATTGAGACAAACATGGTAC 59.526 40.000 0.00 0.00 0.00 3.34
4459 4601 6.208204 ACATTTAGAAGAGAGCTGCAACAATT 59.792 34.615 1.02 0.00 0.00 2.32
4646 4788 6.783708 AGACCTTGTCCATTGTTAAACAAA 57.216 33.333 0.00 0.00 35.98 2.83
4650 4792 6.072728 CGATCAAGACCTTGTCCATTGTTAAA 60.073 38.462 9.31 0.00 41.16 1.52
4667 4809 1.739466 GCTTTGCCATCACGATCAAGA 59.261 47.619 0.00 0.00 0.00 3.02
4692 4834 3.512724 TGATCATGAGACAGTGAGCAAGA 59.487 43.478 0.09 0.00 37.76 3.02
5070 5212 0.107312 ATGATGGAAGAAGCTGCGCT 60.107 50.000 9.73 0.00 42.56 5.92
5072 5214 1.741706 ACAATGATGGAAGAAGCTGCG 59.258 47.619 0.00 0.00 0.00 5.18
5089 5231 3.738982 AGTGTGATCAAATCGTCCACAA 58.261 40.909 11.54 0.00 39.13 3.33
5383 7552 1.061131 CCTCTGTTTGTAGAATGCGCG 59.939 52.381 0.00 0.00 0.00 6.86
5761 8754 2.569404 CAGTTCCCTGGAGCTTCTTAGT 59.431 50.000 0.00 0.00 33.44 2.24
5935 8928 2.649331 AGTATCACCAAACGAGGTCG 57.351 50.000 0.00 0.00 40.77 4.79
5971 8964 2.325583 TCACTTTCAGCAACCGAACT 57.674 45.000 0.00 0.00 0.00 3.01
6099 9128 1.740025 GAAAGGGTTCGCTGAATGGAG 59.260 52.381 0.00 0.00 0.00 3.86
6157 9186 1.251251 ACCCTGCATTCAAGTTGAGC 58.749 50.000 5.56 7.84 0.00 4.26
6168 9197 0.179045 GTAGGCGATCAACCCTGCAT 60.179 55.000 6.79 0.00 34.44 3.96
6209 9238 2.315925 TGCCTCTTATAGCACACTGC 57.684 50.000 0.00 0.00 45.46 4.40
6401 9440 1.200716 CCGTCTGGTTTGACTAGCGTA 59.799 52.381 0.00 0.00 35.00 4.42
6416 9455 1.485066 ACTGAACAAAGTGGACCGTCT 59.515 47.619 0.00 0.00 0.00 4.18
6557 9604 2.676121 CATTTCCGCTGCCCCACA 60.676 61.111 0.00 0.00 0.00 4.17
6561 9608 1.459450 TTAGAACATTTCCGCTGCCC 58.541 50.000 0.00 0.00 0.00 5.36
6675 9727 3.071167 AGTTGGTTTCAGGGTGTACTCTC 59.929 47.826 0.00 0.00 0.00 3.20
6757 9809 9.631257 TGCATCAATTAATTTAGATCAGAAGGA 57.369 29.630 0.00 0.00 0.00 3.36
6779 9831 6.603201 AGCATAAAGTTGTACCATAGTTGCAT 59.397 34.615 0.00 0.00 0.00 3.96
6813 9865 3.739300 TGTCGCAGCTTTAGTACAACTTC 59.261 43.478 0.00 0.00 0.00 3.01
6848 9900 2.290960 GCTCAATTCAAGTACCCCCACT 60.291 50.000 0.00 0.00 0.00 4.00
6850 9902 1.707989 TGCTCAATTCAAGTACCCCCA 59.292 47.619 0.00 0.00 0.00 4.96
6854 9906 3.126000 GCTGTCTGCTCAATTCAAGTACC 59.874 47.826 0.00 0.00 38.95 3.34
6863 9915 1.281287 AGTGATGGCTGTCTGCTCAAT 59.719 47.619 1.44 0.00 42.39 2.57
6874 9926 2.854522 GCCGTTTGTAGTGATGGCT 58.145 52.632 0.00 0.00 43.17 4.75
6913 9965 7.480760 AAATGTCAATGGCTTTAACTACCAT 57.519 32.000 0.00 0.00 46.15 3.55
6995 10047 7.344612 TGACACTAGTGAACCTATGAACCATAT 59.655 37.037 29.30 0.00 0.00 1.78
6998 10050 4.836175 TGACACTAGTGAACCTATGAACCA 59.164 41.667 29.30 6.36 0.00 3.67
7076 10267 4.529897 TCTCATCCAGGTTTGATCCAATG 58.470 43.478 0.00 0.00 0.00 2.82
7158 10350 2.025981 TGTGCTGATATTGGAGTGGCTT 60.026 45.455 0.00 0.00 0.00 4.35
7165 10357 2.754552 GGTTGCTTGTGCTGATATTGGA 59.245 45.455 0.00 0.00 40.48 3.53
7175 10367 2.514205 ATTTCTGTGGTTGCTTGTGC 57.486 45.000 0.00 0.00 40.20 4.57
7199 10391 8.908786 ATAAGGATCATATGGTGTTGTTGTAG 57.091 34.615 2.13 0.00 0.00 2.74
7243 10435 2.093869 GTGGCACATTAGGGTAACTCGA 60.094 50.000 13.86 0.00 44.52 4.04
7254 10446 2.039613 TGGAGACACATGTGGCACATTA 59.960 45.455 32.65 14.14 42.32 1.90
7340 10537 8.228206 TGATGAGTACCTCTATGGACTAAATCT 58.772 37.037 0.00 0.00 39.71 2.40
7354 10551 4.705507 TGTACCTCTTGTGATGAGTACCTC 59.294 45.833 0.00 0.00 0.00 3.85
7391 10896 6.301486 TGTGATCTAGGGAATTGATGATTGG 58.699 40.000 0.00 0.00 0.00 3.16
7392 10897 7.812690 TTGTGATCTAGGGAATTGATGATTG 57.187 36.000 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.