Multiple sequence alignment - TraesCS2B01G170000

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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 TraesCS2B01G170000 chr2B 100.000 3675 0 0 1 3675 143001898 142998224 0.000000e+00 6787.0
1 TraesCS2B01G170000 chr2B 89.229 1142 86 16 989 2117 170937712 170938829 0.000000e+00 1393.0
2 TraesCS2B01G170000 chr2B 91.282 952 62 6 1186 2117 143133239 143132289 0.000000e+00 1279.0
3 TraesCS2B01G170000 chr2B 85.082 610 48 23 2968 3555 143129084 143128496 1.900000e-162 582.0
4 TraesCS2B01G170000 chr2B 80.000 485 34 26 2403 2871 143132101 143131664 2.150000e-77 300.0
5 TraesCS2B01G170000 chr2B 86.697 218 14 8 407 612 143136101 143135887 1.030000e-55 228.0
6 TraesCS2B01G170000 chr2B 89.744 78 6 1 598 675 170936855 170936930 8.400000e-17 99.0
7 TraesCS2B01G170000 chr2B 81.395 129 10 3 2182 2310 143132255 143132141 3.910000e-15 93.5
8 TraesCS2B01G170000 chr2B 100.000 35 0 0 948 982 170937654 170937688 8.520000e-07 65.8
9 TraesCS2B01G170000 chr2D 91.298 2126 108 29 313 2401 90322818 90320733 0.000000e+00 2830.0
10 TraesCS2B01G170000 chr2D 91.223 1128 79 8 1006 2117 118845141 118846264 0.000000e+00 1517.0
11 TraesCS2B01G170000 chr2D 89.022 583 35 18 2959 3522 90312983 90312411 0.000000e+00 695.0
12 TraesCS2B01G170000 chr2D 90.221 317 21 5 1 308 90323221 90322906 4.420000e-109 405.0
13 TraesCS2B01G170000 chr2D 83.918 342 21 5 2522 2860 90320507 90320197 2.770000e-76 296.0
14 TraesCS2B01G170000 chr2D 83.696 276 23 14 407 676 118844532 118844791 1.320000e-59 241.0
15 TraesCS2B01G170000 chr2D 91.209 91 5 2 2870 2959 90313461 90313373 1.790000e-23 121.0
16 TraesCS2B01G170000 chr2A 92.366 1585 83 22 837 2401 90069322 90067756 0.000000e+00 2222.0
17 TraesCS2B01G170000 chr2A 90.218 1145 72 21 989 2117 120737544 120738664 0.000000e+00 1458.0
18 TraesCS2B01G170000 chr2A 88.024 1144 80 22 989 2117 120753440 120754541 0.000000e+00 1301.0
19 TraesCS2B01G170000 chr2A 90.441 952 70 7 1186 2117 90218617 90217667 0.000000e+00 1234.0
20 TraesCS2B01G170000 chr2A 89.323 768 50 17 989 1744 120721841 120722588 0.000000e+00 935.0
21 TraesCS2B01G170000 chr2A 89.845 581 43 7 1 568 90208795 90208218 0.000000e+00 732.0
22 TraesCS2B01G170000 chr2A 82.578 861 87 32 2699 3526 90217163 90216333 0.000000e+00 701.0
23 TraesCS2B01G170000 chr2A 83.784 407 45 12 1 404 339000775 339001163 2.090000e-97 366.0
24 TraesCS2B01G170000 chr2A 82.314 458 44 19 2519 2959 90067503 90067066 2.700000e-96 363.0
25 TraesCS2B01G170000 chr2A 86.420 324 35 7 88 403 169238075 169238397 2.720000e-91 346.0
26 TraesCS2B01G170000 chr2A 86.466 266 19 6 598 847 90070740 90070476 3.620000e-70 276.0
27 TraesCS2B01G170000 chr2A 85.000 280 21 9 407 682 90219460 90219198 7.830000e-67 265.0
28 TraesCS2B01G170000 chr2A 91.463 164 9 4 3082 3243 90061960 90061800 1.720000e-53 220.0
29 TraesCS2B01G170000 chr2A 94.574 129 7 0 2959 3087 90065474 90065346 2.240000e-47 200.0
30 TraesCS2B01G170000 chr2A 90.780 141 9 3 409 549 120715951 120716087 6.270000e-43 185.0
31 TraesCS2B01G170000 chr2A 91.129 124 7 2 2404 2523 90217463 90217340 8.160000e-37 165.0
32 TraesCS2B01G170000 chr2A 90.244 123 9 3 2528 2650 90217281 90217162 1.370000e-34 158.0
33 TraesCS2B01G170000 chr2A 83.146 89 9 1 2222 2310 90217604 90217522 3.940000e-10 76.8
34 TraesCS2B01G170000 chr3D 88.627 976 78 17 1273 2238 442397509 442398461 0.000000e+00 1157.0
35 TraesCS2B01G170000 chr3D 88.938 452 21 9 939 1379 442397080 442397513 6.990000e-147 531.0
36 TraesCS2B01G170000 chr1D 83.130 409 54 11 2 403 221271560 221271960 3.490000e-95 359.0
37 TraesCS2B01G170000 chr5B 82.725 411 59 7 1 403 348884336 348884742 4.510000e-94 355.0
38 TraesCS2B01G170000 chr5B 87.324 71 9 0 3566 3636 67018010 67017940 8.460000e-12 82.4
39 TraesCS2B01G170000 chr1B 82.544 401 56 8 10 403 317995164 317994771 1.260000e-89 340.0
40 TraesCS2B01G170000 chr1B 91.026 78 7 0 3566 3643 636680972 636681049 5.020000e-19 106.0
41 TraesCS2B01G170000 chr1B 89.744 78 8 0 3566 3643 636665448 636665525 2.340000e-17 100.0
42 TraesCS2B01G170000 chr5D 82.195 410 49 12 1 403 511818714 511818322 7.610000e-87 331.0
43 TraesCS2B01G170000 chr7D 82.238 411 46 12 1 404 637489602 637489212 2.740000e-86 329.0
44 TraesCS2B01G170000 chr7D 82.134 403 45 16 1 396 637402610 637402228 1.650000e-83 320.0
45 TraesCS2B01G170000 chr7D 82.552 384 41 11 28 404 637459583 637459219 7.660000e-82 315.0
46 TraesCS2B01G170000 chr7D 90.062 161 8 5 451 607 89021336 89021180 6.220000e-48 202.0
47 TraesCS2B01G170000 chrUn 82.552 384 41 11 28 404 422893048 422892684 7.660000e-82 315.0
48 TraesCS2B01G170000 chr7A 80.815 417 47 16 1 404 728181907 728181511 2.770000e-76 296.0
49 TraesCS2B01G170000 chr7A 80.815 417 47 16 1 404 728212870 728212474 2.770000e-76 296.0
50 TraesCS2B01G170000 chr7A 90.090 111 9 2 3566 3675 669494533 669494642 3.830000e-30 143.0
51 TraesCS2B01G170000 chr7A 76.000 250 27 18 1 240 728152679 728152453 8.400000e-17 99.0
52 TraesCS2B01G170000 chr3A 96.552 145 5 0 939 1083 583702734 583702878 1.320000e-59 241.0
53 TraesCS2B01G170000 chr6D 82.673 202 22 7 2169 2362 10517400 10517596 2.270000e-37 167.0
54 TraesCS2B01G170000 chr1A 89.744 78 8 0 3566 3643 553907440 553907517 2.340000e-17 100.0
55 TraesCS2B01G170000 chr1A 92.000 50 4 0 3566 3615 553933304 553933353 1.830000e-08 71.3


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 TraesCS2B01G170000 chr2B 142998224 143001898 3674 True 6787.000000 6787 100.000000 1 3675 1 chr2B.!!$R1 3674
1 TraesCS2B01G170000 chr2B 170936855 170938829 1974 False 519.266667 1393 92.991000 598 2117 3 chr2B.!!$F1 1519
2 TraesCS2B01G170000 chr2B 143128496 143136101 7605 True 496.500000 1279 84.891200 407 3555 5 chr2B.!!$R2 3148
3 TraesCS2B01G170000 chr2D 90320197 90323221 3024 True 1177.000000 2830 88.479000 1 2860 3 chr2D.!!$R2 2859
4 TraesCS2B01G170000 chr2D 118844532 118846264 1732 False 879.000000 1517 87.459500 407 2117 2 chr2D.!!$F1 1710
5 TraesCS2B01G170000 chr2D 90312411 90313461 1050 True 408.000000 695 90.115500 2870 3522 2 chr2D.!!$R1 652
6 TraesCS2B01G170000 chr2A 120737544 120738664 1120 False 1458.000000 1458 90.218000 989 2117 1 chr2A.!!$F3 1128
7 TraesCS2B01G170000 chr2A 120753440 120754541 1101 False 1301.000000 1301 88.024000 989 2117 1 chr2A.!!$F4 1128
8 TraesCS2B01G170000 chr2A 120721841 120722588 747 False 935.000000 935 89.323000 989 1744 1 chr2A.!!$F2 755
9 TraesCS2B01G170000 chr2A 90208218 90208795 577 True 732.000000 732 89.845000 1 568 1 chr2A.!!$R1 567
10 TraesCS2B01G170000 chr2A 90061800 90070740 8940 True 656.200000 2222 89.436600 598 3243 5 chr2A.!!$R2 2645
11 TraesCS2B01G170000 chr2A 90216333 90219460 3127 True 433.300000 1234 87.089667 407 3526 6 chr2A.!!$R3 3119
12 TraesCS2B01G170000 chr3D 442397080 442398461 1381 False 844.000000 1157 88.782500 939 2238 2 chr3D.!!$F1 1299


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
920 4395 0.250727 TCTCCCCCACTGCTTTTTCG 60.251 55.0 0.0 0.0 0.0 3.46 F
1250 4861 0.467290 CTTCCTCCTCCTCCTCCTCG 60.467 65.0 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2120 5872 0.033228 GAGACAGTGCAGTGTGCTCT 59.967 55.0 31.24 21.24 46.71 4.09 R
2681 6621 0.108329 GCTCGTTCCTGGATTCCGAA 60.108 55.0 12.60 0.00 0.00 4.30 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
21 22 1.176527 CATCACCATCCACCACAACC 58.823 55.000 0.00 0.00 0.00 3.77
26 27 2.530661 ATCCACCACAACCCCGGA 60.531 61.111 0.73 0.00 0.00 5.14
27 28 2.902457 ATCCACCACAACCCCGGAC 61.902 63.158 0.73 0.00 0.00 4.79
28 29 3.879885 CCACCACAACCCCGGACA 61.880 66.667 0.73 0.00 0.00 4.02
29 30 2.281484 CACCACAACCCCGGACAG 60.281 66.667 0.73 0.00 0.00 3.51
74 75 1.613630 GAGGCCTCTCCCTCCACAA 60.614 63.158 26.25 0.00 44.60 3.33
169 178 3.133464 CGTGCCGATGCCCATGTT 61.133 61.111 0.00 0.00 36.33 2.71
181 190 1.202746 GCCCATGTTCATCTCCCTCTC 60.203 57.143 0.00 0.00 0.00 3.20
183 192 2.121948 CCATGTTCATCTCCCTCTCCA 58.878 52.381 0.00 0.00 0.00 3.86
200 209 3.207549 TCTCCATCTCCATCCTCACCTAA 59.792 47.826 0.00 0.00 0.00 2.69
255 265 8.294577 TCAATGAATCATTCTTCTTTGTGTCAG 58.705 33.333 5.36 0.00 39.47 3.51
280 290 9.458727 AGTTCATCTATGTTTGAGTGATTGATT 57.541 29.630 0.00 0.00 0.00 2.57
328 421 6.882610 ACTATGCAAAATCAGTCTTTGTGA 57.117 33.333 0.00 0.00 36.38 3.58
356 449 4.735985 TCTAGTATTTACTCGCGTTGCAA 58.264 39.130 5.77 0.00 37.73 4.08
362 455 6.753279 AGTATTTACTCGCGTTGCAAGTAATA 59.247 34.615 15.43 8.98 0.00 0.98
367 460 3.263261 TCGCGTTGCAAGTAATATTGGA 58.737 40.909 5.77 0.00 0.00 3.53
390 483 4.310769 AGACGTCCTTTCTTGTGATCTTG 58.689 43.478 13.01 0.00 0.00 3.02
418 511 7.354751 TCACATGCACTAACATAGGTGTATA 57.645 36.000 0.00 0.00 37.67 1.47
635 750 1.055849 AAGGGTTGGGTCAATTTGGC 58.944 50.000 0.00 0.00 0.00 4.52
637 752 1.374125 GGTTGGGTCAATTTGGCGC 60.374 57.895 10.81 10.81 35.31 6.53
692 814 6.031751 TGGTTCGGGGAAATTAAAATTCTG 57.968 37.500 4.86 0.00 0.00 3.02
754 2635 4.132336 TGCTCATGATGCAGTAGATTTCC 58.868 43.478 13.62 0.00 35.31 3.13
782 2663 7.761651 AATCTTCAGTGTTTTTCTTTTCTGC 57.238 32.000 0.00 0.00 0.00 4.26
849 3908 5.335127 CAAAATGCATGTAGTAGTTGGCTC 58.665 41.667 0.00 0.00 0.00 4.70
909 4384 2.596851 GCAGCAAGTCTCTCCCCCA 61.597 63.158 0.00 0.00 0.00 4.96
920 4395 0.250727 TCTCCCCCACTGCTTTTTCG 60.251 55.000 0.00 0.00 0.00 3.46
1106 4686 2.650778 GCCTTGCCTTTGGGAACG 59.349 61.111 0.00 0.00 33.58 3.95
1107 4687 2.650778 CCTTGCCTTTGGGAACGC 59.349 61.111 0.00 0.00 33.58 4.84
1250 4861 0.467290 CTTCCTCCTCCTCCTCCTCG 60.467 65.000 0.00 0.00 0.00 4.63
1253 4864 1.525077 CTCCTCCTCCTCCTCGTCG 60.525 68.421 0.00 0.00 0.00 5.12
1313 5047 2.877691 GCGTCATCCCCACTTTGC 59.122 61.111 0.00 0.00 0.00 3.68
1705 5439 2.810887 GCAGACGCGCTCATCACA 60.811 61.111 5.73 0.00 0.00 3.58
2122 5874 4.074526 GGTGAGCAGAGCGCCAGA 62.075 66.667 2.29 0.00 44.04 3.86
2123 5875 2.508887 GTGAGCAGAGCGCCAGAG 60.509 66.667 2.29 0.00 44.04 3.35
2124 5876 4.447989 TGAGCAGAGCGCCAGAGC 62.448 66.667 2.29 3.27 44.04 4.09
2167 5931 5.254901 TCCTCTTCTTCTTCGCTAAGTACT 58.745 41.667 0.00 0.00 34.13 2.73
2170 5934 6.093771 CCTCTTCTTCTTCGCTAAGTACTGTA 59.906 42.308 0.00 0.00 34.13 2.74
2176 5940 6.754702 TCTTCGCTAAGTACTGTAGAACAT 57.245 37.500 13.17 0.00 34.13 2.71
2180 5944 7.621428 TCGCTAAGTACTGTAGAACATAGTT 57.379 36.000 13.17 0.00 30.25 2.24
2208 5972 9.123902 TGGAAAATATTTTGATCTGATCACGAT 57.876 29.630 19.41 16.90 39.39 3.73
2209 5973 9.390795 GGAAAATATTTTGATCTGATCACGATG 57.609 33.333 19.41 0.00 39.39 3.84
2210 5974 9.390795 GAAAATATTTTGATCTGATCACGATGG 57.609 33.333 19.41 0.00 39.39 3.51
2211 5975 8.681486 AAATATTTTGATCTGATCACGATGGA 57.319 30.769 19.41 1.70 39.39 3.41
2212 5976 8.681486 AATATTTTGATCTGATCACGATGGAA 57.319 30.769 19.41 7.83 39.39 3.53
2238 6002 0.529378 CAATGGCTGCAGGGAAGTTC 59.471 55.000 17.12 0.00 0.00 3.01
2255 6019 3.338249 AGTTCATGAACGATCACCCTTG 58.662 45.455 28.18 0.00 45.50 3.61
2257 6021 1.278985 TCATGAACGATCACCCTTGCT 59.721 47.619 0.00 0.00 38.69 3.91
2259 6023 1.522668 TGAACGATCACCCTTGCTTG 58.477 50.000 0.00 0.00 0.00 4.01
2328 6092 0.620556 ACGTGCTGATTGAGGGGATT 59.379 50.000 0.00 0.00 0.00 3.01
2401 6165 3.067180 GCCAGTAGCAGGTACGTACAATA 59.933 47.826 26.02 10.46 42.97 1.90
2445 6295 3.870274 TGTGCCAAGAGATGATCTGAAG 58.130 45.455 0.00 0.00 38.67 3.02
2455 6305 5.840149 AGAGATGATCTGAAGCTCCTATGTT 59.160 40.000 0.00 0.00 36.69 2.71
2458 6309 6.766944 AGATGATCTGAAGCTCCTATGTTTTG 59.233 38.462 0.00 0.00 0.00 2.44
2516 6370 0.601046 TTGCTCGTCTCCTTGCAGTG 60.601 55.000 0.00 0.00 36.75 3.66
2540 6477 3.054434 CAGGGTGATGGACTGATGGTTTA 60.054 47.826 0.00 0.00 34.21 2.01
2542 6479 3.947834 GGGTGATGGACTGATGGTTTAAG 59.052 47.826 0.00 0.00 0.00 1.85
2648 6588 2.415491 CGTGCACTAAGTAGTAGCAGCA 60.415 50.000 16.19 6.51 40.12 4.41
2649 6589 3.182967 GTGCACTAAGTAGTAGCAGCAG 58.817 50.000 10.32 0.00 41.89 4.24
2650 6590 2.826128 TGCACTAAGTAGTAGCAGCAGT 59.174 45.455 0.00 0.00 38.52 4.40
2651 6591 4.014406 TGCACTAAGTAGTAGCAGCAGTA 58.986 43.478 0.00 0.00 38.52 2.74
2652 6592 4.142447 TGCACTAAGTAGTAGCAGCAGTAC 60.142 45.833 0.00 0.00 38.52 2.73
2653 6593 4.734108 GCACTAAGTAGTAGCAGCAGTACC 60.734 50.000 0.00 0.00 35.36 3.34
2654 6594 3.626670 ACTAAGTAGTAGCAGCAGTACCG 59.373 47.826 0.00 0.00 34.13 4.02
2655 6595 2.414994 AGTAGTAGCAGCAGTACCGA 57.585 50.000 0.00 0.00 0.00 4.69
2656 6596 2.015587 AGTAGTAGCAGCAGTACCGAC 58.984 52.381 0.00 0.00 0.00 4.79
2657 6597 2.015587 GTAGTAGCAGCAGTACCGACT 58.984 52.381 0.00 0.00 35.80 4.18
2658 6598 1.096416 AGTAGCAGCAGTACCGACTC 58.904 55.000 0.00 0.00 31.73 3.36
2659 6599 1.096416 GTAGCAGCAGTACCGACTCT 58.904 55.000 0.00 0.00 31.73 3.24
2660 6600 1.064357 GTAGCAGCAGTACCGACTCTC 59.936 57.143 0.00 0.00 31.73 3.20
2661 6601 1.139947 GCAGCAGTACCGACTCTCC 59.860 63.158 0.00 0.00 31.73 3.71
2662 6602 1.595993 GCAGCAGTACCGACTCTCCA 61.596 60.000 0.00 0.00 31.73 3.86
2663 6603 0.453793 CAGCAGTACCGACTCTCCAG 59.546 60.000 0.00 0.00 31.73 3.86
2664 6604 0.038455 AGCAGTACCGACTCTCCAGT 59.962 55.000 0.00 0.00 31.73 4.00
2665 6605 0.452585 GCAGTACCGACTCTCCAGTC 59.547 60.000 0.00 0.00 45.19 3.51
2666 6606 1.951424 GCAGTACCGACTCTCCAGTCT 60.951 57.143 0.90 0.00 46.31 3.24
2667 6607 2.438411 CAGTACCGACTCTCCAGTCTT 58.562 52.381 0.90 0.00 46.31 3.01
2668 6608 2.162608 CAGTACCGACTCTCCAGTCTTG 59.837 54.545 0.90 0.00 46.31 3.02
2669 6609 2.040012 AGTACCGACTCTCCAGTCTTGA 59.960 50.000 0.90 0.00 46.31 3.02
2670 6610 2.223803 ACCGACTCTCCAGTCTTGAT 57.776 50.000 0.90 0.00 46.31 2.57
2671 6611 1.821753 ACCGACTCTCCAGTCTTGATG 59.178 52.381 0.90 0.00 46.31 3.07
2672 6612 1.470632 CCGACTCTCCAGTCTTGATGC 60.471 57.143 0.90 0.00 46.31 3.91
2673 6613 1.476085 CGACTCTCCAGTCTTGATGCT 59.524 52.381 0.90 0.00 46.31 3.79
2674 6614 2.734809 CGACTCTCCAGTCTTGATGCTG 60.735 54.545 0.90 0.00 46.31 4.41
2675 6615 1.066286 ACTCTCCAGTCTTGATGCTGC 60.066 52.381 0.00 0.00 0.00 5.25
2676 6616 0.251354 TCTCCAGTCTTGATGCTGCC 59.749 55.000 0.00 0.00 0.00 4.85
2677 6617 1.078918 TCCAGTCTTGATGCTGCCG 60.079 57.895 0.00 0.00 0.00 5.69
2678 6618 2.110967 CCAGTCTTGATGCTGCCGG 61.111 63.158 0.00 0.00 0.00 6.13
2679 6619 1.376424 CAGTCTTGATGCTGCCGGT 60.376 57.895 1.90 0.00 0.00 5.28
2680 6620 0.957395 CAGTCTTGATGCTGCCGGTT 60.957 55.000 1.90 0.00 0.00 4.44
2681 6621 0.250901 AGTCTTGATGCTGCCGGTTT 60.251 50.000 1.90 0.00 0.00 3.27
2682 6622 0.598065 GTCTTGATGCTGCCGGTTTT 59.402 50.000 1.90 0.00 0.00 2.43
2683 6623 0.881118 TCTTGATGCTGCCGGTTTTC 59.119 50.000 1.90 0.00 0.00 2.29
2684 6624 0.454957 CTTGATGCTGCCGGTTTTCG 60.455 55.000 1.90 0.00 38.88 3.46
2694 6634 3.543884 CGGTTTTCGGAATCCAGGA 57.456 52.632 0.00 0.00 34.75 3.86
2695 6635 1.816074 CGGTTTTCGGAATCCAGGAA 58.184 50.000 0.00 0.00 34.75 3.36
2696 6636 1.467342 CGGTTTTCGGAATCCAGGAAC 59.533 52.381 0.00 0.25 34.75 3.62
2697 6637 1.467342 GGTTTTCGGAATCCAGGAACG 59.533 52.381 0.00 0.00 0.00 3.95
2702 6704 1.084370 CGGAATCCAGGAACGAGCAC 61.084 60.000 0.00 0.00 0.00 4.40
2704 6706 0.744771 GAATCCAGGAACGAGCACCC 60.745 60.000 0.00 0.00 0.00 4.61
2740 6742 1.718396 TTCGTGCTTGCAGATCTCTG 58.282 50.000 2.75 2.75 46.40 3.35
2742 6744 1.479730 TCGTGCTTGCAGATCTCTGAT 59.520 47.619 11.34 0.00 46.59 2.90
2743 6745 1.859703 CGTGCTTGCAGATCTCTGATC 59.140 52.381 11.34 0.00 46.59 2.92
2744 6746 2.481622 CGTGCTTGCAGATCTCTGATCT 60.482 50.000 11.34 0.69 46.59 2.75
2745 6747 3.125316 GTGCTTGCAGATCTCTGATCTC 58.875 50.000 11.34 0.10 46.59 2.75
2746 6748 3.032459 TGCTTGCAGATCTCTGATCTCT 58.968 45.455 11.34 0.00 46.59 3.10
2897 6937 4.953579 TGTTATGGGCTCCAAAACTTATCC 59.046 41.667 0.00 0.00 36.95 2.59
3002 11148 7.594015 GCTATTCACAGGCAATTATGATGAAAG 59.406 37.037 0.00 0.00 0.00 2.62
3109 14648 5.241949 TCACATGTTACCGGCTTTAAAACAT 59.758 36.000 0.00 5.74 40.44 2.71
3110 14649 6.430308 TCACATGTTACCGGCTTTAAAACATA 59.570 34.615 0.00 0.00 38.39 2.29
3111 14650 7.040617 TCACATGTTACCGGCTTTAAAACATAA 60.041 33.333 0.00 0.00 38.39 1.90
3146 14686 1.885560 TACGCCAGCTTGTTTTAGCA 58.114 45.000 0.00 0.00 43.68 3.49
3246 14786 5.277058 GCCGTATGACATGTCTCAAATCTTC 60.277 44.000 25.55 4.48 0.00 2.87
3271 14818 8.455682 TCTTTTGTTCAGATTGTTAACTCGTTT 58.544 29.630 7.22 0.00 0.00 3.60
3293 14840 9.337091 CGTTTGTCTTGGAAATTTATAATTCGT 57.663 29.630 0.00 0.00 0.00 3.85
3385 14943 3.138468 AGCCAAAACCCTCTCTGTTTAGT 59.862 43.478 0.00 0.00 34.97 2.24
3466 15034 3.557207 CAGTCCAGCACTGCAAAAC 57.443 52.632 3.30 0.00 46.30 2.43
3471 15039 1.364901 CAGCACTGCAAAACCCCAG 59.635 57.895 3.30 0.00 35.26 4.45
3479 15047 0.758734 GCAAAACCCCAGCCTTTTCT 59.241 50.000 0.00 0.00 0.00 2.52
3499 15067 3.141488 CCCGTCCACTCTCCTCCG 61.141 72.222 0.00 0.00 0.00 4.63
3500 15068 2.045242 CCGTCCACTCTCCTCCGA 60.045 66.667 0.00 0.00 0.00 4.55
3526 15097 1.001764 CCAATCCTGCAGCTCCACA 60.002 57.895 8.66 0.00 0.00 4.17
3527 15098 0.609957 CCAATCCTGCAGCTCCACAA 60.610 55.000 8.66 0.00 0.00 3.33
3528 15099 0.524862 CAATCCTGCAGCTCCACAAC 59.475 55.000 8.66 0.00 0.00 3.32
3530 15101 0.035630 ATCCTGCAGCTCCACAACTC 60.036 55.000 8.66 0.00 0.00 3.01
3531 15102 1.071987 CCTGCAGCTCCACAACTCA 59.928 57.895 8.66 0.00 0.00 3.41
3532 15103 0.535780 CCTGCAGCTCCACAACTCAA 60.536 55.000 8.66 0.00 0.00 3.02
3560 15131 4.882671 AAAAACTATGCAGCCTGATACG 57.117 40.909 0.00 0.00 0.00 3.06
3561 15132 2.533266 AACTATGCAGCCTGATACGG 57.467 50.000 0.00 0.00 0.00 4.02
3562 15133 1.414158 ACTATGCAGCCTGATACGGT 58.586 50.000 0.00 0.00 0.00 4.83
3563 15134 2.594131 ACTATGCAGCCTGATACGGTA 58.406 47.619 0.00 0.00 0.00 4.02
3564 15135 2.296471 ACTATGCAGCCTGATACGGTAC 59.704 50.000 0.00 0.00 0.00 3.34
3565 15136 1.414158 ATGCAGCCTGATACGGTACT 58.586 50.000 0.00 0.00 0.00 2.73
3566 15137 0.459899 TGCAGCCTGATACGGTACTG 59.540 55.000 0.00 0.00 0.00 2.74
3567 15138 0.460311 GCAGCCTGATACGGTACTGT 59.540 55.000 12.92 12.92 0.00 3.55
3568 15139 1.134788 GCAGCCTGATACGGTACTGTT 60.135 52.381 13.66 0.79 0.00 3.16
3569 15140 2.810650 CAGCCTGATACGGTACTGTTC 58.189 52.381 13.66 10.73 0.00 3.18
3570 15141 2.427453 CAGCCTGATACGGTACTGTTCT 59.573 50.000 13.66 0.61 0.00 3.01
3571 15142 3.630769 CAGCCTGATACGGTACTGTTCTA 59.369 47.826 13.66 0.00 0.00 2.10
3572 15143 4.097437 CAGCCTGATACGGTACTGTTCTAA 59.903 45.833 13.66 0.00 0.00 2.10
3573 15144 4.708421 AGCCTGATACGGTACTGTTCTAAA 59.292 41.667 13.66 0.00 0.00 1.85
3574 15145 5.041940 GCCTGATACGGTACTGTTCTAAAG 58.958 45.833 13.66 4.46 0.00 1.85
3575 15146 5.393896 GCCTGATACGGTACTGTTCTAAAGT 60.394 44.000 13.66 0.00 0.00 2.66
3576 15147 6.628185 CCTGATACGGTACTGTTCTAAAGTT 58.372 40.000 13.66 0.00 0.00 2.66
3577 15148 6.750963 CCTGATACGGTACTGTTCTAAAGTTC 59.249 42.308 13.66 0.00 0.00 3.01
3578 15149 7.218228 TGATACGGTACTGTTCTAAAGTTCA 57.782 36.000 13.66 1.83 0.00 3.18
3579 15150 7.833786 TGATACGGTACTGTTCTAAAGTTCAT 58.166 34.615 13.66 0.00 0.00 2.57
3580 15151 8.308931 TGATACGGTACTGTTCTAAAGTTCATT 58.691 33.333 13.66 0.00 0.00 2.57
3581 15152 8.699283 ATACGGTACTGTTCTAAAGTTCATTC 57.301 34.615 13.66 0.00 0.00 2.67
3582 15153 5.632347 ACGGTACTGTTCTAAAGTTCATTCG 59.368 40.000 0.04 0.00 0.00 3.34
3583 15154 5.860182 CGGTACTGTTCTAAAGTTCATTCGA 59.140 40.000 0.00 0.00 0.00 3.71
3584 15155 6.364165 CGGTACTGTTCTAAAGTTCATTCGAA 59.636 38.462 0.00 0.00 0.00 3.71
3585 15156 7.063074 CGGTACTGTTCTAAAGTTCATTCGAAT 59.937 37.037 4.39 4.39 32.61 3.34
3586 15157 8.169268 GGTACTGTTCTAAAGTTCATTCGAATG 58.831 37.037 28.48 28.48 37.75 2.67
3587 15158 7.133891 ACTGTTCTAAAGTTCATTCGAATGG 57.866 36.000 32.03 17.41 37.03 3.16
3588 15159 6.934645 ACTGTTCTAAAGTTCATTCGAATGGA 59.065 34.615 32.03 24.76 37.03 3.41
3589 15160 7.095187 ACTGTTCTAAAGTTCATTCGAATGGAC 60.095 37.037 33.38 33.38 43.80 4.02
3596 15167 5.957910 GTTCATTCGAATGGACTGACTAG 57.042 43.478 33.17 9.80 40.92 2.57
3597 15168 4.046938 TCATTCGAATGGACTGACTAGC 57.953 45.455 32.03 0.00 37.03 3.42
3598 15169 3.701542 TCATTCGAATGGACTGACTAGCT 59.298 43.478 32.03 0.00 37.03 3.32
3599 15170 4.887655 TCATTCGAATGGACTGACTAGCTA 59.112 41.667 32.03 10.19 37.03 3.32
3600 15171 5.359860 TCATTCGAATGGACTGACTAGCTAA 59.640 40.000 32.03 9.79 37.03 3.09
3601 15172 4.902443 TCGAATGGACTGACTAGCTAAG 57.098 45.455 0.00 0.00 0.00 2.18
3602 15173 3.066900 TCGAATGGACTGACTAGCTAAGC 59.933 47.826 0.00 0.00 0.00 3.09
3603 15174 3.181486 CGAATGGACTGACTAGCTAAGCA 60.181 47.826 0.00 0.00 0.00 3.91
3604 15175 4.500545 CGAATGGACTGACTAGCTAAGCAT 60.501 45.833 0.00 0.00 0.00 3.79
3605 15176 5.363939 GAATGGACTGACTAGCTAAGCATT 58.636 41.667 0.00 0.00 0.00 3.56
3606 15177 4.392921 TGGACTGACTAGCTAAGCATTC 57.607 45.455 0.00 0.06 0.00 2.67
3607 15178 3.769300 TGGACTGACTAGCTAAGCATTCA 59.231 43.478 12.09 3.28 0.00 2.57
3608 15179 4.116238 GGACTGACTAGCTAAGCATTCAC 58.884 47.826 12.09 2.70 0.00 3.18
3609 15180 4.142049 GGACTGACTAGCTAAGCATTCACT 60.142 45.833 12.09 0.00 0.00 3.41
3610 15181 5.067936 GGACTGACTAGCTAAGCATTCACTA 59.932 44.000 12.09 0.00 0.00 2.74
3611 15182 5.897050 ACTGACTAGCTAAGCATTCACTAC 58.103 41.667 0.00 0.00 0.00 2.73
3612 15183 5.419155 ACTGACTAGCTAAGCATTCACTACA 59.581 40.000 0.00 0.00 0.00 2.74
3613 15184 6.071334 ACTGACTAGCTAAGCATTCACTACAA 60.071 38.462 0.00 0.00 0.00 2.41
3614 15185 6.100004 TGACTAGCTAAGCATTCACTACAAC 58.900 40.000 0.00 0.00 0.00 3.32
3615 15186 6.037786 ACTAGCTAAGCATTCACTACAACA 57.962 37.500 0.00 0.00 0.00 3.33
3616 15187 6.102663 ACTAGCTAAGCATTCACTACAACAG 58.897 40.000 0.00 0.00 0.00 3.16
3617 15188 5.152623 AGCTAAGCATTCACTACAACAGA 57.847 39.130 0.00 0.00 0.00 3.41
3618 15189 5.738909 AGCTAAGCATTCACTACAACAGAT 58.261 37.500 0.00 0.00 0.00 2.90
3619 15190 5.583854 AGCTAAGCATTCACTACAACAGATG 59.416 40.000 0.00 0.00 0.00 2.90
3620 15191 5.582269 GCTAAGCATTCACTACAACAGATGA 59.418 40.000 0.00 0.00 0.00 2.92
3621 15192 6.092670 GCTAAGCATTCACTACAACAGATGAA 59.907 38.462 0.00 0.00 35.64 2.57
3622 15193 6.882610 AAGCATTCACTACAACAGATGAAA 57.117 33.333 0.00 0.00 34.88 2.69
3623 15194 7.458409 AAGCATTCACTACAACAGATGAAAT 57.542 32.000 0.00 0.00 34.88 2.17
3624 15195 7.081526 AGCATTCACTACAACAGATGAAATC 57.918 36.000 0.00 0.00 46.04 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.361104 CGGGGTTGTGGTGGATGG 60.361 66.667 0.00 0.00 0.00 3.51
26 27 4.400961 GAGCTTCCTGGCGGCTGT 62.401 66.667 11.43 0.00 36.37 4.40
27 28 4.093291 AGAGCTTCCTGGCGGCTG 62.093 66.667 11.43 10.13 36.37 4.85
28 29 3.780173 GAGAGCTTCCTGGCGGCT 61.780 66.667 11.43 11.81 39.16 5.52
29 30 4.847444 GGAGAGCTTCCTGGCGGC 62.847 72.222 0.00 0.00 43.16 6.53
31 32 4.168291 GGGGAGAGCTTCCTGGCG 62.168 72.222 12.71 0.00 45.98 5.69
32 33 3.803162 GGGGGAGAGCTTCCTGGC 61.803 72.222 12.71 0.00 45.98 4.85
34 35 1.606531 CAAGGGGGAGAGCTTCCTG 59.393 63.158 12.71 2.65 45.98 3.86
35 36 1.617839 CCAAGGGGGAGAGCTTCCT 60.618 63.158 12.71 0.00 45.98 3.36
56 57 1.613630 TTGTGGAGGGAGAGGCCTC 60.614 63.158 26.22 26.22 38.70 4.70
162 171 1.419387 GGAGAGGGAGATGAACATGGG 59.581 57.143 0.00 0.00 0.00 4.00
169 178 1.862242 TGGAGATGGAGAGGGAGATGA 59.138 52.381 0.00 0.00 0.00 2.92
181 190 4.778213 TTTTAGGTGAGGATGGAGATGG 57.222 45.455 0.00 0.00 0.00 3.51
223 233 9.803315 CAAAGAAGAATGATTCATTGATGTCAT 57.197 29.630 16.41 8.47 39.20 3.06
243 253 8.344831 CAAACATAGATGAACTGACACAAAGAA 58.655 33.333 0.00 0.00 0.00 2.52
255 265 9.713740 GAATCAATCACTCAAACATAGATGAAC 57.286 33.333 0.00 0.00 0.00 3.18
280 290 6.307776 AGATCATATCTCAACCTAGAACCGA 58.692 40.000 0.00 0.00 33.42 4.69
321 414 8.709386 AGTAAATACTAGAGCATGTCACAAAG 57.291 34.615 0.00 0.00 34.13 2.77
328 421 4.036498 ACGCGAGTAAATACTAGAGCATGT 59.964 41.667 15.93 0.00 46.88 3.21
367 460 4.608948 AGATCACAAGAAAGGACGTCTT 57.391 40.909 16.46 4.52 35.69 3.01
390 483 6.538742 ACACCTATGTTAGTGCATGTGATAAC 59.461 38.462 0.00 2.21 34.46 1.89
418 511 7.309377 GCACCACATTCATAGGCATACATATTT 60.309 37.037 0.00 0.00 0.00 1.40
602 708 3.191371 CCAACCCTTGTTTAGCTGCTTAG 59.809 47.826 7.79 0.00 30.42 2.18
692 814 3.928375 CAGGCTATGAAAATTGTTGCCAC 59.072 43.478 0.00 0.00 41.12 5.01
849 3908 7.872993 TGACTAGTGTTCACAGGAAATTTCTAG 59.127 37.037 17.42 12.33 34.13 2.43
1224 4829 2.770475 GGAGGAGGAAGGGAGGCC 60.770 72.222 0.00 0.00 0.00 5.19
1309 5043 2.203480 GGGTGGCACTGGAGCAAA 60.203 61.111 18.45 0.00 35.83 3.68
1690 5424 2.097038 GCTTGTGATGAGCGCGTCT 61.097 57.895 8.43 5.17 0.00 4.18
1825 5559 2.249309 CGCACCGTGCTGTTCTTG 59.751 61.111 20.87 0.02 42.25 3.02
2117 5869 2.281345 AGTGCAGTGTGCTCTGGC 60.281 61.111 2.82 0.00 44.42 4.85
2120 5872 0.033228 GAGACAGTGCAGTGTGCTCT 59.967 55.000 31.24 21.24 46.71 4.09
2121 5873 0.948141 GGAGACAGTGCAGTGTGCTC 60.948 60.000 31.24 29.23 45.31 4.26
2122 5874 1.070445 GGAGACAGTGCAGTGTGCT 59.930 57.895 31.24 24.55 45.31 4.40
2123 5875 0.948141 GAGGAGACAGTGCAGTGTGC 60.948 60.000 31.24 21.01 45.29 4.57
2124 5876 0.320247 GGAGGAGACAGTGCAGTGTG 60.320 60.000 31.24 10.49 0.00 3.82
2134 5886 2.652348 AGAAGAAGAGGAGGAGGAGACA 59.348 50.000 0.00 0.00 0.00 3.41
2135 5887 3.382083 AGAAGAAGAGGAGGAGGAGAC 57.618 52.381 0.00 0.00 0.00 3.36
2180 5944 8.183536 CGTGATCAGATCAAAATATTTTCCACA 58.816 33.333 15.02 0.00 41.69 4.17
2208 5972 1.548081 CAGCCATTGTGTCCATTCCA 58.452 50.000 0.00 0.00 0.00 3.53
2209 5973 0.174162 GCAGCCATTGTGTCCATTCC 59.826 55.000 0.00 0.00 0.00 3.01
2210 5974 0.889994 TGCAGCCATTGTGTCCATTC 59.110 50.000 0.00 0.00 0.00 2.67
2211 5975 0.892755 CTGCAGCCATTGTGTCCATT 59.107 50.000 0.00 0.00 0.00 3.16
2212 5976 0.968901 CCTGCAGCCATTGTGTCCAT 60.969 55.000 8.66 0.00 0.00 3.41
2238 6002 1.742761 AGCAAGGGTGATCGTTCATG 58.257 50.000 0.00 0.00 33.56 3.07
2255 6019 4.072088 CGAACACCGCGGTCAAGC 62.072 66.667 31.80 16.95 0.00 4.01
2302 6066 2.932614 CCTCAATCAGCACGTAGAAAGG 59.067 50.000 0.00 0.00 0.00 3.11
2328 6092 2.586245 CTCTCCATCCAGCGGCAA 59.414 61.111 1.45 0.00 0.00 4.52
2401 6165 7.603404 CACAGATCAGTGAAGAAGAAGAAGATT 59.397 37.037 12.62 0.00 42.05 2.40
2445 6295 3.338249 TCAGAGCACAAAACATAGGAGC 58.662 45.455 0.00 0.00 0.00 4.70
2455 6305 6.936335 TCTGTATTCAGATTTCAGAGCACAAA 59.064 34.615 0.00 0.00 44.58 2.83
2516 6370 0.465097 CATCAGTCCATCACCCTGCC 60.465 60.000 0.00 0.00 0.00 4.85
2590 6530 2.225293 ACAGACTTGGCCTACTGGAGTA 60.225 50.000 3.32 0.00 35.08 2.59
2591 6531 1.270907 CAGACTTGGCCTACTGGAGT 58.729 55.000 3.32 0.00 34.57 3.85
2592 6532 1.270907 ACAGACTTGGCCTACTGGAG 58.729 55.000 3.32 0.00 35.08 3.86
2593 6533 2.615986 TACAGACTTGGCCTACTGGA 57.384 50.000 3.32 1.93 35.08 3.86
2655 6595 1.066286 GCAGCATCAAGACTGGAGAGT 60.066 52.381 0.00 0.00 34.38 3.24
2656 6596 1.654317 GCAGCATCAAGACTGGAGAG 58.346 55.000 0.00 0.00 34.38 3.20
2657 6597 0.251354 GGCAGCATCAAGACTGGAGA 59.749 55.000 0.00 0.00 34.38 3.71
2658 6598 1.088340 CGGCAGCATCAAGACTGGAG 61.088 60.000 0.00 0.00 34.38 3.86
2659 6599 1.078918 CGGCAGCATCAAGACTGGA 60.079 57.895 0.00 0.00 34.38 3.86
2660 6600 2.110967 CCGGCAGCATCAAGACTGG 61.111 63.158 0.00 0.00 34.38 4.00
2661 6601 0.957395 AACCGGCAGCATCAAGACTG 60.957 55.000 0.00 0.00 36.96 3.51
2662 6602 0.250901 AAACCGGCAGCATCAAGACT 60.251 50.000 0.00 0.00 0.00 3.24
2663 6603 0.598065 AAAACCGGCAGCATCAAGAC 59.402 50.000 0.00 0.00 0.00 3.01
2664 6604 0.881118 GAAAACCGGCAGCATCAAGA 59.119 50.000 0.00 0.00 0.00 3.02
2665 6605 0.454957 CGAAAACCGGCAGCATCAAG 60.455 55.000 0.00 0.00 33.91 3.02
2666 6606 1.578926 CGAAAACCGGCAGCATCAA 59.421 52.632 0.00 0.00 33.91 2.57
2667 6607 3.262936 CGAAAACCGGCAGCATCA 58.737 55.556 0.00 0.00 33.91 3.07
2676 6616 1.467342 GTTCCTGGATTCCGAAAACCG 59.533 52.381 0.00 0.00 38.18 4.44
2677 6617 1.467342 CGTTCCTGGATTCCGAAAACC 59.533 52.381 0.00 2.04 0.00 3.27
2678 6618 2.415512 CTCGTTCCTGGATTCCGAAAAC 59.584 50.000 12.60 1.61 0.00 2.43
2679 6619 2.695359 CTCGTTCCTGGATTCCGAAAA 58.305 47.619 12.60 0.00 0.00 2.29
2680 6620 1.674817 GCTCGTTCCTGGATTCCGAAA 60.675 52.381 12.60 0.00 0.00 3.46
2681 6621 0.108329 GCTCGTTCCTGGATTCCGAA 60.108 55.000 12.60 0.00 0.00 4.30
2682 6622 1.254975 TGCTCGTTCCTGGATTCCGA 61.255 55.000 0.00 5.39 0.00 4.55
2683 6623 1.084370 GTGCTCGTTCCTGGATTCCG 61.084 60.000 0.00 0.71 0.00 4.30
2684 6624 0.744771 GGTGCTCGTTCCTGGATTCC 60.745 60.000 0.00 0.00 0.00 3.01
2685 6625 0.744771 GGGTGCTCGTTCCTGGATTC 60.745 60.000 0.00 0.00 0.00 2.52
2686 6626 1.299976 GGGTGCTCGTTCCTGGATT 59.700 57.895 0.00 0.00 0.00 3.01
2687 6627 2.990479 GGGTGCTCGTTCCTGGAT 59.010 61.111 0.00 0.00 0.00 3.41
2688 6628 3.691342 CGGGTGCTCGTTCCTGGA 61.691 66.667 0.00 0.00 0.00 3.86
2693 6633 4.719369 AGTCGCGGGTGCTCGTTC 62.719 66.667 6.13 0.00 39.65 3.95
2694 6634 4.295119 AAGTCGCGGGTGCTCGTT 62.295 61.111 6.13 0.00 39.65 3.85
2695 6635 4.719369 GAAGTCGCGGGTGCTCGT 62.719 66.667 6.13 0.00 39.65 4.18
2696 6636 4.717629 TGAAGTCGCGGGTGCTCG 62.718 66.667 6.13 0.00 39.65 5.03
2697 6637 1.959226 TTTGAAGTCGCGGGTGCTC 60.959 57.895 6.13 0.00 39.65 4.26
2702 6704 3.723835 CGAATTAAGTTTGAAGTCGCGGG 60.724 47.826 6.13 0.00 37.54 6.13
2704 6706 3.833061 CACGAATTAAGTTTGAAGTCGCG 59.167 43.478 0.00 0.00 45.46 5.87
2753 6761 9.495572 AAAGGTTCAATACTTAAGTCTCTCTTG 57.504 33.333 12.39 9.35 37.56 3.02
2856 6878 7.182361 CATAACAGTATGGCAACTCACATAG 57.818 40.000 0.00 0.00 43.62 2.23
3002 11148 5.515797 AAACAGTCCAAAGGAGTTTTAGC 57.484 39.130 0.00 0.00 32.26 3.09
3109 14648 4.453751 GCGTAAAACCCACCAGGATATTA 58.546 43.478 0.00 0.00 39.89 0.98
3110 14649 3.284617 GCGTAAAACCCACCAGGATATT 58.715 45.455 0.00 0.00 39.89 1.28
3111 14650 2.422377 GGCGTAAAACCCACCAGGATAT 60.422 50.000 0.00 0.00 39.89 1.63
3160 14700 5.804639 TGGCTACACATCTCTAAACACATT 58.195 37.500 0.00 0.00 0.00 2.71
3246 14786 8.523464 CAAACGAGTTAACAATCTGAACAAAAG 58.477 33.333 8.61 0.00 0.00 2.27
3271 14818 9.004717 TGACACGAATTATAAATTTCCAAGACA 57.995 29.630 0.00 0.00 0.00 3.41
3348 14899 6.459923 GGTTTTGGCTGTATTTTGTCCATAA 58.540 36.000 0.00 0.00 0.00 1.90
3352 14903 3.323691 AGGGTTTTGGCTGTATTTTGTCC 59.676 43.478 0.00 0.00 0.00 4.02
3462 15030 2.248248 GCTAGAAAAGGCTGGGGTTTT 58.752 47.619 0.00 0.00 0.00 2.43
3464 15032 3.672066 GCTAGAAAAGGCTGGGGTT 57.328 52.632 0.00 0.00 0.00 4.11
3479 15047 1.076923 GAGGAGAGTGGACGGGCTA 60.077 63.158 0.00 0.00 0.00 3.93
3499 15067 0.112995 TGCAGGATTGGGCCCATATC 59.887 55.000 29.23 27.44 0.00 1.63
3500 15068 0.113776 CTGCAGGATTGGGCCCATAT 59.886 55.000 29.23 21.54 0.00 1.78
3542 15113 1.762957 ACCGTATCAGGCTGCATAGTT 59.237 47.619 10.34 0.00 33.69 2.24
3550 15121 2.736347 AGAACAGTACCGTATCAGGCT 58.264 47.619 0.00 0.00 33.69 4.58
3555 15126 8.699283 AATGAACTTTAGAACAGTACCGTATC 57.301 34.615 0.00 0.00 0.00 2.24
3556 15127 7.487189 CGAATGAACTTTAGAACAGTACCGTAT 59.513 37.037 0.00 0.00 0.00 3.06
3557 15128 6.803320 CGAATGAACTTTAGAACAGTACCGTA 59.197 38.462 0.00 0.00 0.00 4.02
3558 15129 5.632347 CGAATGAACTTTAGAACAGTACCGT 59.368 40.000 0.00 0.00 0.00 4.83
3559 15130 5.860182 TCGAATGAACTTTAGAACAGTACCG 59.140 40.000 0.00 0.00 0.00 4.02
3560 15131 7.647907 TTCGAATGAACTTTAGAACAGTACC 57.352 36.000 0.00 0.00 0.00 3.34
3561 15132 8.169268 CCATTCGAATGAACTTTAGAACAGTAC 58.831 37.037 34.21 0.00 38.70 2.73
3562 15133 8.092068 TCCATTCGAATGAACTTTAGAACAGTA 58.908 33.333 34.21 5.37 38.70 2.74
3563 15134 6.934645 TCCATTCGAATGAACTTTAGAACAGT 59.065 34.615 34.21 0.00 38.70 3.55
3564 15135 7.118390 AGTCCATTCGAATGAACTTTAGAACAG 59.882 37.037 34.21 15.62 28.88 3.16
3565 15136 6.934645 AGTCCATTCGAATGAACTTTAGAACA 59.065 34.615 34.21 2.58 28.88 3.18
3566 15137 7.117812 TCAGTCCATTCGAATGAACTTTAGAAC 59.882 37.037 34.21 17.90 42.38 3.01
3567 15138 7.117812 GTCAGTCCATTCGAATGAACTTTAGAA 59.882 37.037 34.21 12.84 46.48 2.10
3568 15139 6.590292 GTCAGTCCATTCGAATGAACTTTAGA 59.410 38.462 34.21 21.87 46.48 2.10
3569 15140 6.591834 AGTCAGTCCATTCGAATGAACTTTAG 59.408 38.462 34.21 20.14 46.48 1.85
3570 15141 6.464222 AGTCAGTCCATTCGAATGAACTTTA 58.536 36.000 34.21 19.51 46.48 1.85
3571 15142 5.308825 AGTCAGTCCATTCGAATGAACTTT 58.691 37.500 34.21 17.27 46.48 2.66
3572 15143 4.899502 AGTCAGTCCATTCGAATGAACTT 58.100 39.130 34.21 15.82 46.48 2.66
3573 15144 4.543590 AGTCAGTCCATTCGAATGAACT 57.456 40.909 34.21 28.72 46.48 3.01
3574 15145 4.268884 GCTAGTCAGTCCATTCGAATGAAC 59.731 45.833 34.21 26.98 46.48 3.18
3575 15146 4.160439 AGCTAGTCAGTCCATTCGAATGAA 59.840 41.667 34.21 16.78 46.48 2.57
3576 15147 3.701542 AGCTAGTCAGTCCATTCGAATGA 59.298 43.478 34.21 19.66 43.07 2.57
3577 15148 4.052159 AGCTAGTCAGTCCATTCGAATG 57.948 45.455 27.66 27.66 37.93 2.67
3578 15149 5.737635 GCTTAGCTAGTCAGTCCATTCGAAT 60.738 44.000 4.39 4.39 0.00 3.34
3579 15150 4.440250 GCTTAGCTAGTCAGTCCATTCGAA 60.440 45.833 0.00 0.00 0.00 3.71
3580 15151 3.066900 GCTTAGCTAGTCAGTCCATTCGA 59.933 47.826 0.00 0.00 0.00 3.71
3581 15152 3.181486 TGCTTAGCTAGTCAGTCCATTCG 60.181 47.826 5.60 0.00 0.00 3.34
3582 15153 4.392921 TGCTTAGCTAGTCAGTCCATTC 57.607 45.455 5.60 0.00 0.00 2.67
3583 15154 5.104776 TGAATGCTTAGCTAGTCAGTCCATT 60.105 40.000 16.66 8.47 29.75 3.16
3584 15155 4.406972 TGAATGCTTAGCTAGTCAGTCCAT 59.593 41.667 16.66 2.03 29.75 3.41
3585 15156 3.769300 TGAATGCTTAGCTAGTCAGTCCA 59.231 43.478 16.66 7.20 29.75 4.02
3586 15157 4.116238 GTGAATGCTTAGCTAGTCAGTCC 58.884 47.826 16.66 8.65 29.75 3.85
3587 15158 5.004922 AGTGAATGCTTAGCTAGTCAGTC 57.995 43.478 5.60 14.09 0.00 3.51
3588 15159 5.419155 TGTAGTGAATGCTTAGCTAGTCAGT 59.581 40.000 5.60 11.61 0.00 3.41
3589 15160 5.895928 TGTAGTGAATGCTTAGCTAGTCAG 58.104 41.667 5.60 0.00 0.00 3.51
3590 15161 5.914898 TGTAGTGAATGCTTAGCTAGTCA 57.085 39.130 5.60 4.36 0.00 3.41
3591 15162 6.100004 TGTTGTAGTGAATGCTTAGCTAGTC 58.900 40.000 5.60 1.67 0.00 2.59
3592 15163 6.037786 TGTTGTAGTGAATGCTTAGCTAGT 57.962 37.500 5.60 0.00 0.00 2.57
3593 15164 6.333416 TCTGTTGTAGTGAATGCTTAGCTAG 58.667 40.000 5.60 0.00 0.00 3.42
3594 15165 6.280855 TCTGTTGTAGTGAATGCTTAGCTA 57.719 37.500 5.60 0.00 0.00 3.32
3595 15166 5.152623 TCTGTTGTAGTGAATGCTTAGCT 57.847 39.130 5.60 0.00 0.00 3.32
3596 15167 5.582269 TCATCTGTTGTAGTGAATGCTTAGC 59.418 40.000 0.00 0.00 0.00 3.09
3597 15168 7.601073 TTCATCTGTTGTAGTGAATGCTTAG 57.399 36.000 0.00 0.00 0.00 2.18
3598 15169 7.977789 TTTCATCTGTTGTAGTGAATGCTTA 57.022 32.000 0.00 0.00 31.34 3.09
3599 15170 6.882610 TTTCATCTGTTGTAGTGAATGCTT 57.117 33.333 0.00 0.00 31.34 3.91
3600 15171 6.656270 TGATTTCATCTGTTGTAGTGAATGCT 59.344 34.615 0.00 0.00 31.34 3.79
3601 15172 6.845302 TGATTTCATCTGTTGTAGTGAATGC 58.155 36.000 0.00 0.00 31.34 3.56



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

AutoCloner maintained by Alex Coulton.