Multiple sequence alignment - TraesCS4B01G306100

Loading Multiple Alignment...

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 TraesCS4B01G306100 chr4B 100.000 4835 0 0 1 4835 594876639 594871805 0.000000e+00 8929.0
1 TraesCS4B01G306100 chr4D 92.706 3455 151 48 801 4215 472522795 472519402 0.000000e+00 4891.0
2 TraesCS4B01G306100 chr4D 93.258 623 27 8 4218 4835 472519364 472518752 0.000000e+00 904.0
3 TraesCS4B01G306100 chr4D 89.815 432 40 3 3 432 472529898 472529469 7.070000e-153 551.0
4 TraesCS4B01G306100 chr4D 93.590 156 7 2 514 667 472529299 472529145 3.760000e-56 230.0
5 TraesCS4B01G306100 chr4D 97.297 37 1 0 719 755 472522824 472522788 4.040000e-06 63.9
6 TraesCS4B01G306100 chr4D 96.875 32 1 0 692 723 472529137 472529106 2.000000e-03 54.7
7 TraesCS4B01G306100 chr7D 92.430 3329 139 44 944 4212 78505022 78501747 0.000000e+00 4647.0
8 TraesCS4B01G306100 chr7D 88.248 451 38 8 4370 4812 511194450 511194007 4.290000e-145 525.0
9 TraesCS4B01G306100 chr7D 90.859 361 28 3 4218 4575 78501704 78501346 3.390000e-131 479.0
10 TraesCS4B01G306100 chr7D 90.795 239 12 7 4578 4815 78501112 78500883 1.310000e-80 311.0
11 TraesCS4B01G306100 chr7D 82.422 256 3 16 667 908 78505254 78505027 8.260000e-43 185.0
12 TraesCS4B01G306100 chr7D 90.000 80 4 2 4220 4297 407792775 407792698 3.080000e-17 100.0
13 TraesCS4B01G306100 chr4A 90.778 3524 180 73 773 4215 679277421 679273962 0.000000e+00 4573.0
14 TraesCS4B01G306100 chr4A 88.633 607 52 10 4218 4817 679273924 679273328 0.000000e+00 723.0
15 TraesCS4B01G306100 chr4A 88.046 435 48 2 1 432 679311116 679310683 3.340000e-141 512.0
16 TraesCS4B01G306100 chr4A 81.235 405 42 19 34 432 679278177 679277801 3.660000e-76 296.0
17 TraesCS4B01G306100 chr4A 90.323 155 8 4 519 667 679277685 679277532 3.820000e-46 196.0
18 TraesCS4B01G306100 chr2B 88.711 939 59 17 833 1752 70753527 70754437 0.000000e+00 1103.0
19 TraesCS4B01G306100 chr2B 86.290 124 15 2 997 1119 482740236 482740114 3.040000e-27 134.0
20 TraesCS4B01G306100 chr3D 88.274 452 37 9 4370 4812 581945332 581944888 1.190000e-145 527.0
21 TraesCS4B01G306100 chr3D 93.506 77 3 1 4220 4296 464061348 464061274 3.960000e-21 113.0
22 TraesCS4B01G306100 chr6A 85.945 434 57 4 1 432 54413538 54413969 1.230000e-125 460.0
23 TraesCS4B01G306100 chr5D 84.314 153 19 4 2358 2510 190271502 190271355 1.400000e-30 145.0
24 TraesCS4B01G306100 chr5D 93.506 77 3 1 4220 4296 367591955 367591881 3.960000e-21 113.0
25 TraesCS4B01G306100 chr2D 87.097 124 14 2 997 1119 406959626 406959504 6.530000e-29 139.0
26 TraesCS4B01G306100 chr2D 93.506 77 3 1 4220 4296 538390940 538391014 3.960000e-21 113.0
27 TraesCS4B01G306100 chr2A 86.290 124 15 2 997 1119 574980457 574980335 3.040000e-27 134.0
28 TraesCS4B01G306100 chr5A 82.353 153 22 4 2358 2510 229524116 229524263 1.410000e-25 128.0
29 TraesCS4B01G306100 chr5A 92.308 39 1 2 465 501 214076147 214076185 2.000000e-03 54.7
30 TraesCS4B01G306100 chrUn 93.506 77 3 1 4220 4296 477284150 477284224 3.960000e-21 113.0
31 TraesCS4B01G306100 chr5B 92.208 77 4 1 4220 4296 434924045 434923971 1.840000e-19 108.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G306100 chr4B 594871805 594876639 4834 True 8929.000000 8929 100.000000 1 4835 1 chr4B.!!$R1 4834
1 TraesCS4B01G306100 chr4D 472518752 472522824 4072 True 1952.966667 4891 94.420333 719 4835 3 chr4D.!!$R1 4116
2 TraesCS4B01G306100 chr4D 472529106 472529898 792 True 278.566667 551 93.426667 3 723 3 chr4D.!!$R2 720
3 TraesCS4B01G306100 chr7D 78500883 78505254 4371 True 1405.500000 4647 89.126500 667 4815 4 chr7D.!!$R3 4148
4 TraesCS4B01G306100 chr4A 679273328 679278177 4849 True 1447.000000 4573 87.742250 34 4817 4 chr4A.!!$R2 4783
5 TraesCS4B01G306100 chr2B 70753527 70754437 910 False 1103.000000 1103 88.711000 833 1752 1 chr2B.!!$F1 919

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
764 974 0.602060 ACGAGTCCTTCCGTTCTTCC 59.398 55.0 0.00 0.0 35.21 3.46 F
1557 1843 0.846015 TTGCCCTGTATGGATGGAGG 59.154 55.0 0.00 0.0 38.35 4.30 F
1963 2258 0.393537 GGTTCCTCATCAGTGGCCTG 60.394 60.0 3.32 0.0 40.25 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1957 2252 0.611200 ACGCATTACACTACAGGCCA 59.389 50.000 5.01 0.0 0.00 5.36 R
3110 3446 2.037772 CCAGGAGGAAATGGAGATACCG 59.962 54.545 0.00 0.0 39.02 4.02 R
3874 4213 0.741915 GGTGTGGCGACAAAAGGAAA 59.258 50.000 2.03 0.0 46.06 3.13 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 8.740123 AATATGACGACCACTATCTATAGAGG 57.260 38.462 8.70 10.77 43.88 3.69
64 65 6.934561 AGATTGCGAGCTTCAAAATTAAAC 57.065 33.333 6.47 0.00 0.00 2.01
111 112 5.376625 ACAAGACTGAAATAAAGTCCTGCA 58.623 37.500 2.82 0.00 44.27 4.41
153 154 2.609299 TCCATGAGGGCCGTCCAA 60.609 61.111 22.25 5.43 38.24 3.53
162 163 4.796495 GCCGTCCAAGCCCCGAAT 62.796 66.667 0.00 0.00 0.00 3.34
165 166 0.602905 CCGTCCAAGCCCCGAATATC 60.603 60.000 0.00 0.00 0.00 1.63
185 186 2.901192 TCGTCTTGGATAACACCTTGGA 59.099 45.455 0.00 0.00 0.00 3.53
218 219 2.946329 ACACAAATGTTGCGTAGTCCAA 59.054 40.909 0.00 0.00 34.46 3.53
226 227 3.006430 TGTTGCGTAGTCCAAGATCTTCA 59.994 43.478 4.57 0.00 0.00 3.02
231 232 3.614616 CGTAGTCCAAGATCTTCAGCAAC 59.385 47.826 4.57 1.20 0.00 4.17
245 246 1.055040 AGCAACTGACAGAGCTTCCT 58.945 50.000 17.41 1.35 32.52 3.36
287 288 6.246919 AGTGTAGTAGGATCGGCAATACTAT 58.753 40.000 0.00 0.00 33.21 2.12
300 301 5.292589 CGGCAATACTATTGAAAACTACCGT 59.707 40.000 12.26 0.00 0.00 4.83
302 303 7.010367 CGGCAATACTATTGAAAACTACCGTTA 59.990 37.037 12.26 0.00 31.86 3.18
317 318 2.770232 ACCGTTAAGGATCCAAGGTAGG 59.230 50.000 15.82 12.07 45.00 3.18
320 321 3.741388 CGTTAAGGATCCAAGGTAGGCTG 60.741 52.174 15.82 0.00 0.00 4.85
361 362 3.741476 GCCGCTGCTCCTTTGTGG 61.741 66.667 0.00 0.00 37.10 4.17
362 363 3.741476 CCGCTGCTCCTTTGTGGC 61.741 66.667 0.00 0.00 35.26 5.01
364 365 2.598394 GCTGCTCCTTTGTGGCCA 60.598 61.111 0.00 0.00 35.26 5.36
414 421 2.804986 TTCATCATGCCTGCAGGTTA 57.195 45.000 32.81 22.54 37.57 2.85
417 424 2.173143 TCATCATGCCTGCAGGTTATGA 59.827 45.455 35.70 35.70 41.50 2.15
420 427 3.634504 TCATGCCTGCAGGTTATGAAAT 58.365 40.909 33.73 17.44 37.69 2.17
432 439 4.007659 GGTTATGAAATCCACCGTTCAGT 58.992 43.478 0.00 0.00 37.19 3.41
437 593 2.169832 AATCCACCGTTCAGTCAGTG 57.830 50.000 0.00 0.00 0.00 3.66
456 612 5.587043 TCAGTGGTGATTTAAAACGTCTTGT 59.413 36.000 0.00 0.00 0.00 3.16
457 613 6.762187 TCAGTGGTGATTTAAAACGTCTTGTA 59.238 34.615 0.00 0.00 0.00 2.41
458 614 6.849305 CAGTGGTGATTTAAAACGTCTTGTAC 59.151 38.462 0.00 0.00 0.00 2.90
459 615 6.764560 AGTGGTGATTTAAAACGTCTTGTACT 59.235 34.615 0.00 0.00 0.00 2.73
460 616 7.281549 AGTGGTGATTTAAAACGTCTTGTACTT 59.718 33.333 0.00 0.00 0.00 2.24
461 617 7.911727 GTGGTGATTTAAAACGTCTTGTACTTT 59.088 33.333 0.00 0.00 0.00 2.66
462 618 8.124199 TGGTGATTTAAAACGTCTTGTACTTTC 58.876 33.333 0.00 0.00 0.00 2.62
463 619 8.340443 GGTGATTTAAAACGTCTTGTACTTTCT 58.660 33.333 0.00 0.00 0.00 2.52
464 620 9.366513 GTGATTTAAAACGTCTTGTACTTTCTC 57.633 33.333 0.00 0.00 0.00 2.87
465 621 9.321562 TGATTTAAAACGTCTTGTACTTTCTCT 57.678 29.630 0.00 0.00 0.00 3.10
468 624 9.807649 TTTAAAACGTCTTGTACTTTCTCTAGT 57.192 29.630 0.00 0.00 0.00 2.57
469 625 7.695869 AAAACGTCTTGTACTTTCTCTAGTG 57.304 36.000 0.00 0.00 0.00 2.74
470 626 6.388435 AACGTCTTGTACTTTCTCTAGTGT 57.612 37.500 0.00 0.00 0.00 3.55
471 627 6.388435 ACGTCTTGTACTTTCTCTAGTGTT 57.612 37.500 0.00 0.00 0.00 3.32
472 628 7.502120 ACGTCTTGTACTTTCTCTAGTGTTA 57.498 36.000 0.00 0.00 0.00 2.41
473 629 7.934457 ACGTCTTGTACTTTCTCTAGTGTTAA 58.066 34.615 0.00 0.00 0.00 2.01
474 630 8.408601 ACGTCTTGTACTTTCTCTAGTGTTAAA 58.591 33.333 0.00 0.00 0.00 1.52
475 631 9.241317 CGTCTTGTACTTTCTCTAGTGTTAAAA 57.759 33.333 0.00 0.00 0.00 1.52
500 656 5.988310 TGTCTTACATTACGAAGAAGGGA 57.012 39.130 0.00 0.00 33.59 4.20
501 657 6.349243 TGTCTTACATTACGAAGAAGGGAA 57.651 37.500 0.00 0.00 33.59 3.97
502 658 6.942976 TGTCTTACATTACGAAGAAGGGAAT 58.057 36.000 0.00 0.00 33.59 3.01
503 659 8.070034 TGTCTTACATTACGAAGAAGGGAATA 57.930 34.615 0.00 0.00 33.59 1.75
504 660 8.701895 TGTCTTACATTACGAAGAAGGGAATAT 58.298 33.333 0.00 0.00 33.59 1.28
507 663 9.976511 CTTACATTACGAAGAAGGGAATATACA 57.023 33.333 0.00 0.00 0.00 2.29
634 797 3.147595 CGATCCCACGCTCCTGGA 61.148 66.667 0.00 0.00 32.30 3.86
749 959 3.081133 CCGCACCGATTTGACGAG 58.919 61.111 0.00 0.00 35.09 4.18
755 965 1.993370 CACCGATTTGACGAGTCCTTC 59.007 52.381 0.34 0.00 35.09 3.46
756 966 1.067071 ACCGATTTGACGAGTCCTTCC 60.067 52.381 0.34 0.00 35.09 3.46
757 967 1.269166 CGATTTGACGAGTCCTTCCG 58.731 55.000 0.34 0.00 35.09 4.30
758 968 1.402456 CGATTTGACGAGTCCTTCCGT 60.402 52.381 0.34 0.00 42.17 4.69
759 969 2.685100 GATTTGACGAGTCCTTCCGTT 58.315 47.619 0.34 0.00 39.30 4.44
760 970 2.144482 TTTGACGAGTCCTTCCGTTC 57.856 50.000 0.34 0.00 39.30 3.95
761 971 1.325355 TTGACGAGTCCTTCCGTTCT 58.675 50.000 0.34 0.00 39.30 3.01
762 972 1.325355 TGACGAGTCCTTCCGTTCTT 58.675 50.000 0.34 0.00 39.30 2.52
763 973 1.268899 TGACGAGTCCTTCCGTTCTTC 59.731 52.381 0.34 0.00 39.30 2.87
764 974 0.602060 ACGAGTCCTTCCGTTCTTCC 59.398 55.000 0.00 0.00 35.21 3.46
765 975 0.889306 CGAGTCCTTCCGTTCTTCCT 59.111 55.000 0.00 0.00 0.00 3.36
766 976 1.135344 CGAGTCCTTCCGTTCTTCCTC 60.135 57.143 0.00 0.00 0.00 3.71
767 977 2.172679 GAGTCCTTCCGTTCTTCCTCT 58.827 52.381 0.00 0.00 0.00 3.69
768 978 3.354467 GAGTCCTTCCGTTCTTCCTCTA 58.646 50.000 0.00 0.00 0.00 2.43
769 979 3.090790 AGTCCTTCCGTTCTTCCTCTAC 58.909 50.000 0.00 0.00 0.00 2.59
770 980 3.090790 GTCCTTCCGTTCTTCCTCTACT 58.909 50.000 0.00 0.00 0.00 2.57
771 981 4.018597 AGTCCTTCCGTTCTTCCTCTACTA 60.019 45.833 0.00 0.00 0.00 1.82
773 983 3.380954 CCTTCCGTTCTTCCTCTACTACC 59.619 52.174 0.00 0.00 0.00 3.18
774 984 3.726557 TCCGTTCTTCCTCTACTACCA 57.273 47.619 0.00 0.00 0.00 3.25
1129 1372 4.371417 TCCAGGTACGGACGCCCT 62.371 66.667 0.00 0.00 0.00 5.19
1227 1481 1.144969 TTCGTCCTGTTCAATGCGTC 58.855 50.000 0.00 0.00 0.00 5.19
1456 1740 1.062880 TGTGTTCGAACTTTGAACCGC 59.937 47.619 27.32 7.24 43.95 5.68
1549 1835 2.095768 CGTGTGAGTTTTGCCCTGTATG 60.096 50.000 0.00 0.00 0.00 2.39
1550 1836 2.228822 GTGTGAGTTTTGCCCTGTATGG 59.771 50.000 0.00 0.00 0.00 2.74
1551 1837 2.107378 TGTGAGTTTTGCCCTGTATGGA 59.893 45.455 0.00 0.00 38.35 3.41
1554 1840 2.689983 GAGTTTTGCCCTGTATGGATGG 59.310 50.000 0.00 0.00 38.35 3.51
1555 1841 2.311542 AGTTTTGCCCTGTATGGATGGA 59.688 45.455 0.00 0.00 38.35 3.41
1556 1842 2.689983 GTTTTGCCCTGTATGGATGGAG 59.310 50.000 0.00 0.00 38.35 3.86
1557 1843 0.846015 TTGCCCTGTATGGATGGAGG 59.154 55.000 0.00 0.00 38.35 4.30
1574 1861 3.390967 TGGAGGTGTTCTCATCAGAAACA 59.609 43.478 0.00 0.00 44.19 2.83
1579 1866 5.829924 AGGTGTTCTCATCAGAAACATTGTT 59.170 36.000 0.00 0.00 40.49 2.83
1580 1867 5.916883 GGTGTTCTCATCAGAAACATTGTTG 59.083 40.000 2.13 0.00 40.49 3.33
1582 1869 4.408993 TCTCATCAGAAACATTGTTGCG 57.591 40.909 2.13 0.00 0.00 4.85
1585 1872 4.064388 TCATCAGAAACATTGTTGCGAGA 58.936 39.130 2.13 5.58 0.00 4.04
1708 2001 5.508153 CGAGCAATTACTGGAGTACTATGCT 60.508 44.000 15.06 15.06 41.99 3.79
1765 2058 3.263261 GTTAACCTGCTTAGCTGACCTC 58.737 50.000 12.66 0.00 0.00 3.85
1781 2074 2.756207 GACCTCTTCTCTCAGGTACCAC 59.244 54.545 15.94 0.00 43.52 4.16
1830 2124 3.261897 TCCTCTGCCTCAGTTTCCTTAAG 59.738 47.826 0.00 0.00 32.61 1.85
1859 2153 5.408204 TTGCTGCGTCATATACAAATCAG 57.592 39.130 0.00 0.00 0.00 2.90
1861 2155 5.115480 TGCTGCGTCATATACAAATCAGAA 58.885 37.500 0.00 0.00 0.00 3.02
1862 2156 5.584251 TGCTGCGTCATATACAAATCAGAAA 59.416 36.000 0.00 0.00 0.00 2.52
1864 2158 6.794158 GCTGCGTCATATACAAATCAGAAATC 59.206 38.462 0.00 0.00 0.00 2.17
1868 2162 8.285394 GCGTCATATACAAATCAGAAATCACAT 58.715 33.333 0.00 0.00 0.00 3.21
1869 2163 9.590088 CGTCATATACAAATCAGAAATCACATG 57.410 33.333 0.00 0.00 0.00 3.21
1877 2171 8.959548 ACAAATCAGAAATCACATGTAAGCATA 58.040 29.630 0.00 0.00 33.30 3.14
1900 2194 5.551760 AAATCTGAACTGGCACTTTATCG 57.448 39.130 0.00 0.00 0.00 2.92
1915 2210 5.122869 CACTTTATCGCATATCCCCTGAATG 59.877 44.000 0.00 0.00 0.00 2.67
1936 2231 4.335416 TGACATGGGATTTTCTCTGGTTC 58.665 43.478 0.00 0.00 0.00 3.62
1963 2258 0.393537 GGTTCCTCATCAGTGGCCTG 60.394 60.000 3.32 0.00 40.25 4.85
1977 2278 1.006832 GGCCTGTAGTGTAATGCGTG 58.993 55.000 0.00 0.00 0.00 5.34
2078 2379 3.650950 TGGAGCAACCCCAGGAGC 61.651 66.667 0.00 0.00 38.00 4.70
2246 2548 3.545703 ACATAGGTGCTAGTCAATTGCC 58.454 45.455 0.00 0.00 0.00 4.52
2360 2694 7.961326 TGATAATAGTAGCTATGCTGGATCA 57.039 36.000 0.00 0.26 40.10 2.92
2500 2834 2.837532 TCCGCAGCTATATGCATCAA 57.162 45.000 0.19 0.00 46.87 2.57
2544 2878 5.579119 TGACACATTTACTAGCGTGTTATGG 59.421 40.000 0.00 0.00 42.42 2.74
2546 2880 4.331443 CACATTTACTAGCGTGTTATGGCA 59.669 41.667 0.00 0.00 0.00 4.92
2582 2916 6.464322 CCCAATTGACCATGACTGCTATACTA 60.464 42.308 7.12 0.00 0.00 1.82
2585 2919 8.501580 CAATTGACCATGACTGCTATACTATTG 58.498 37.037 0.00 0.00 0.00 1.90
2810 3144 8.773033 AGTTTTCATCCATTTCTGCCTATATT 57.227 30.769 0.00 0.00 0.00 1.28
2815 3151 8.169977 TCATCCATTTCTGCCTATATTGTTTC 57.830 34.615 0.00 0.00 0.00 2.78
2860 3196 0.835276 TCTGGGAGATGTGCCTCATG 59.165 55.000 1.13 0.00 36.83 3.07
3063 3399 1.879380 TGTGACAAATGCTGCAGGTAC 59.121 47.619 17.12 0.00 0.00 3.34
3110 3446 5.297776 CCTGTTGTTTCCTCATGTGATATCC 59.702 44.000 0.00 0.00 0.00 2.59
3146 3482 3.372349 CCTCCTGGTCCACATCATGATTT 60.372 47.826 5.16 0.00 0.00 2.17
3183 3519 5.769662 TCAGAGCTTGTGGAAATGTTGTTAT 59.230 36.000 0.00 0.00 0.00 1.89
3368 3706 3.756933 AAATTGTTGCATTGCCTGTCT 57.243 38.095 6.12 0.00 0.00 3.41
3372 3710 3.853831 TGTTGCATTGCCTGTCTATTG 57.146 42.857 6.12 0.00 0.00 1.90
3528 3866 0.176680 AGTACATCGAGCAGCTTGGG 59.823 55.000 9.98 5.36 0.00 4.12
3654 3992 2.613506 CGTCGGAAGTGGGCCAAAC 61.614 63.158 8.40 1.53 0.00 2.93
3843 4181 0.883833 AAACAAGCTGATGCCTTCCG 59.116 50.000 0.00 0.00 40.80 4.30
3844 4182 0.250901 AACAAGCTGATGCCTTCCGT 60.251 50.000 0.00 0.00 40.80 4.69
3845 4183 0.613260 ACAAGCTGATGCCTTCCGTA 59.387 50.000 0.00 0.00 40.80 4.02
3894 4233 1.104577 TTCCTTTTGTCGCCACACCC 61.105 55.000 0.00 0.00 29.76 4.61
3895 4234 2.561037 CCTTTTGTCGCCACACCCC 61.561 63.158 0.00 0.00 29.76 4.95
3928 4268 9.011407 CGTGCTATATAGAAGATTCGGTAAATC 57.989 37.037 14.16 0.00 43.58 2.17
3946 4286 8.783093 CGGTAAATCAGAATAATTAGAATGGCA 58.217 33.333 0.00 0.00 0.00 4.92
3994 4342 3.369471 GGTGGAGTCAGTGCTTAGCAATA 60.369 47.826 9.05 0.00 41.47 1.90
4041 4389 0.893447 GGGTACTATAGCCGCCGAAT 59.107 55.000 0.00 0.00 36.50 3.34
4064 4412 4.274214 TCTTGCAGTCTTCTTGATGTTGTG 59.726 41.667 0.00 0.00 0.00 3.33
4069 4417 5.514279 CAGTCTTCTTGATGTTGTGTTTCC 58.486 41.667 0.00 0.00 0.00 3.13
4070 4418 4.273480 AGTCTTCTTGATGTTGTGTTTCCG 59.727 41.667 0.00 0.00 0.00 4.30
4071 4419 4.035208 GTCTTCTTGATGTTGTGTTTCCGT 59.965 41.667 0.00 0.00 0.00 4.69
4072 4420 4.638421 TCTTCTTGATGTTGTGTTTCCGTT 59.362 37.500 0.00 0.00 0.00 4.44
4073 4421 4.285807 TCTTGATGTTGTGTTTCCGTTG 57.714 40.909 0.00 0.00 0.00 4.10
4074 4422 3.692101 TCTTGATGTTGTGTTTCCGTTGT 59.308 39.130 0.00 0.00 0.00 3.32
4095 4443 2.099921 TGTTGTGGCGCAAGTTTGTATT 59.900 40.909 14.75 0.00 37.83 1.89
4138 4489 8.202811 TCTCAAGAAGATCTTATCATGTGAAGG 58.797 37.037 8.25 0.00 33.78 3.46
4212 4568 6.523676 GCTTCTGCTGATTCTGAAGTATAC 57.476 41.667 0.00 0.00 41.30 1.47
4215 4571 6.530019 TCTGCTGATTCTGAAGTATACACA 57.470 37.500 5.50 4.30 0.00 3.72
4216 4572 7.117285 TCTGCTGATTCTGAAGTATACACAT 57.883 36.000 5.50 0.00 0.00 3.21
4223 4614 4.102649 TCTGAAGTATACACATGCGAACG 58.897 43.478 5.50 0.00 0.00 3.95
4231 4622 1.917955 ACACATGCGAACGAATCTACG 59.082 47.619 0.00 0.00 39.31 3.51
4288 4679 4.202161 ACTGTATACTCTGATTTGGGAGCG 60.202 45.833 4.17 0.00 33.29 5.03
4289 4680 2.246719 ATACTCTGATTTGGGAGCGC 57.753 50.000 0.00 0.00 33.29 5.92
4297 4688 0.539438 ATTTGGGAGCGCTTGTTCCA 60.539 50.000 13.26 14.69 44.27 3.53
4326 4719 0.802494 GCTCCCGAAATTGCGAGAAA 59.198 50.000 7.61 0.00 0.00 2.52
4329 4722 0.179200 CCCGAAATTGCGAGAAACCG 60.179 55.000 7.61 0.00 0.00 4.44
4381 4777 1.081892 GTGTGTGACTGCATAGCCAG 58.918 55.000 0.00 0.00 38.78 4.85
4400 4796 3.189285 CAGTTTTCCAACTTGGTTGCAG 58.811 45.455 7.72 0.00 40.66 4.41
4416 4812 1.845791 TGCAGTGGACCACATGGATAT 59.154 47.619 26.30 0.55 36.74 1.63
4448 4844 3.826157 TGAGATTTGTTTGGCAAGGTAGG 59.174 43.478 0.00 0.00 38.47 3.18
4532 4931 2.456119 GGACGCCGCTGTTGATCTG 61.456 63.158 0.00 0.00 0.00 2.90
4674 5304 2.337644 CGAAGCGACAACAGTTACGTAG 59.662 50.000 11.79 0.00 0.00 3.51
4675 5305 2.342910 AGCGACAACAGTTACGTAGG 57.657 50.000 11.79 0.00 0.00 3.18
4677 5307 2.095364 AGCGACAACAGTTACGTAGGAG 60.095 50.000 11.79 0.00 0.00 3.69
4678 5308 2.351157 GCGACAACAGTTACGTAGGAGT 60.351 50.000 11.79 0.00 0.00 3.85
4679 5309 3.120199 GCGACAACAGTTACGTAGGAGTA 60.120 47.826 11.79 0.00 0.00 2.59
4680 5310 4.398247 CGACAACAGTTACGTAGGAGTAC 58.602 47.826 0.00 0.00 0.00 2.73
4681 5311 4.083855 CGACAACAGTTACGTAGGAGTACA 60.084 45.833 0.00 0.00 0.00 2.90
4682 5312 5.560760 CGACAACAGTTACGTAGGAGTACAA 60.561 44.000 0.00 0.00 0.00 2.41
4683 5313 6.336842 ACAACAGTTACGTAGGAGTACAAT 57.663 37.500 0.00 0.00 0.00 2.71
4684 5314 7.452880 ACAACAGTTACGTAGGAGTACAATA 57.547 36.000 0.00 0.00 0.00 1.90
4685 5315 7.308435 ACAACAGTTACGTAGGAGTACAATAC 58.692 38.462 0.00 0.00 0.00 1.89
4687 5317 6.846350 ACAGTTACGTAGGAGTACAATACAC 58.154 40.000 0.00 0.00 0.00 2.90
4688 5318 6.127897 ACAGTTACGTAGGAGTACAATACACC 60.128 42.308 0.00 0.00 39.38 4.16
4817 5449 2.160417 CCGAGATTCACTGGCTTTTGAC 59.840 50.000 0.00 0.00 0.00 3.18
4820 5452 4.083110 CGAGATTCACTGGCTTTTGACAAT 60.083 41.667 0.00 0.00 36.75 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.179909 CCTCTATAGATAGTGGTCGTCATATTT 57.820 37.037 2.11 0.00 38.56 1.40
1 2 8.740123 CCTCTATAGATAGTGGTCGTCATATT 57.260 38.462 2.11 0.00 38.56 1.28
47 48 7.534239 GTGTAGGAAGTTTAATTTTGAAGCTCG 59.466 37.037 0.00 0.00 0.00 5.03
109 110 1.930567 TAGCGGAAATAGGACGTTGC 58.069 50.000 0.00 0.00 0.00 4.17
111 112 4.557205 GATCATAGCGGAAATAGGACGTT 58.443 43.478 0.00 0.00 0.00 3.99
153 154 0.393077 CCAAGACGATATTCGGGGCT 59.607 55.000 1.69 0.00 45.59 5.19
162 163 4.712829 TCCAAGGTGTTATCCAAGACGATA 59.287 41.667 0.00 0.00 0.00 2.92
165 166 3.328382 TCCAAGGTGTTATCCAAGACG 57.672 47.619 0.00 0.00 0.00 4.18
209 210 3.510388 TGCTGAAGATCTTGGACTACG 57.490 47.619 14.00 0.00 0.00 3.51
218 219 3.617045 GCTCTGTCAGTTGCTGAAGATCT 60.617 47.826 11.43 0.00 42.46 2.75
226 227 1.055040 AGGAAGCTCTGTCAGTTGCT 58.945 50.000 14.27 14.27 37.37 3.91
231 232 2.619147 CATGTCAGGAAGCTCTGTCAG 58.381 52.381 8.03 0.00 36.57 3.51
245 246 5.008619 ACACTTGAAACATTTGCATGTCA 57.991 34.783 0.00 0.00 43.34 3.58
287 288 5.867330 TGGATCCTTAACGGTAGTTTTCAA 58.133 37.500 14.23 0.00 41.49 2.69
300 301 2.172717 GCAGCCTACCTTGGATCCTTAA 59.827 50.000 14.23 0.00 0.00 1.85
302 303 0.548510 GCAGCCTACCTTGGATCCTT 59.451 55.000 14.23 0.00 0.00 3.36
317 318 1.446272 GTAGAGACCACACGGCAGC 60.446 63.158 0.00 0.00 34.57 5.25
320 321 2.094762 ATTTGTAGAGACCACACGGC 57.905 50.000 0.00 0.00 34.57 5.68
414 421 3.244561 ACTGACTGAACGGTGGATTTCAT 60.245 43.478 0.00 0.00 31.41 2.57
417 424 2.494059 CACTGACTGAACGGTGGATTT 58.506 47.619 0.00 0.00 41.70 2.17
432 439 5.587043 ACAAGACGTTTTAAATCACCACTGA 59.413 36.000 0.00 0.00 0.00 3.41
437 593 8.340443 AGAAAGTACAAGACGTTTTAAATCACC 58.660 33.333 0.00 0.00 29.05 4.02
473 629 8.512138 CCCTTCTTCGTAATGTAAGACATTTTT 58.488 33.333 9.92 0.00 45.80 1.94
474 630 7.881232 TCCCTTCTTCGTAATGTAAGACATTTT 59.119 33.333 9.92 0.00 45.80 1.82
475 631 7.391620 TCCCTTCTTCGTAATGTAAGACATTT 58.608 34.615 9.92 0.00 45.80 2.32
477 633 6.540438 TCCCTTCTTCGTAATGTAAGACAT 57.460 37.500 0.00 0.00 41.31 3.06
478 634 5.988310 TCCCTTCTTCGTAATGTAAGACA 57.012 39.130 0.00 0.00 31.62 3.41
481 637 9.976511 TGTATATTCCCTTCTTCGTAATGTAAG 57.023 33.333 0.00 0.00 0.00 2.34
508 664 9.715121 ACGTTTTGTCTAACTTTCAGGATTATA 57.285 29.630 0.00 0.00 0.00 0.98
509 665 8.617290 ACGTTTTGTCTAACTTTCAGGATTAT 57.383 30.769 0.00 0.00 0.00 1.28
510 666 8.080083 GACGTTTTGTCTAACTTTCAGGATTA 57.920 34.615 0.00 0.00 44.58 1.75
511 667 6.937436 ACGTTTTGTCTAACTTTCAGGATT 57.063 33.333 0.00 0.00 0.00 3.01
512 668 6.541111 GACGTTTTGTCTAACTTTCAGGAT 57.459 37.500 0.00 0.00 44.58 3.24
634 797 1.267261 GATTCGACGGTCTGGATCGAT 59.733 52.381 10.32 0.00 43.80 3.59
642 805 3.945921 TGTCTATCTTGATTCGACGGTCT 59.054 43.478 6.57 0.00 0.00 3.85
749 959 3.090790 AGTAGAGGAAGAACGGAAGGAC 58.909 50.000 0.00 0.00 0.00 3.85
755 965 2.426381 GGTGGTAGTAGAGGAAGAACGG 59.574 54.545 0.00 0.00 0.00 4.44
756 966 2.426381 GGGTGGTAGTAGAGGAAGAACG 59.574 54.545 0.00 0.00 0.00 3.95
757 967 2.765135 GGGGTGGTAGTAGAGGAAGAAC 59.235 54.545 0.00 0.00 0.00 3.01
758 968 2.384375 TGGGGTGGTAGTAGAGGAAGAA 59.616 50.000 0.00 0.00 0.00 2.52
759 969 2.005350 TGGGGTGGTAGTAGAGGAAGA 58.995 52.381 0.00 0.00 0.00 2.87
760 970 2.389715 CTGGGGTGGTAGTAGAGGAAG 58.610 57.143 0.00 0.00 0.00 3.46
761 971 1.621622 GCTGGGGTGGTAGTAGAGGAA 60.622 57.143 0.00 0.00 0.00 3.36
762 972 0.032416 GCTGGGGTGGTAGTAGAGGA 60.032 60.000 0.00 0.00 0.00 3.71
763 973 1.392710 CGCTGGGGTGGTAGTAGAGG 61.393 65.000 0.00 0.00 0.00 3.69
764 974 1.392710 CCGCTGGGGTGGTAGTAGAG 61.393 65.000 1.98 0.00 38.25 2.43
765 975 1.380785 CCGCTGGGGTGGTAGTAGA 60.381 63.158 1.98 0.00 38.25 2.59
766 976 3.090219 GCCGCTGGGGTGGTAGTAG 62.090 68.421 12.70 0.00 44.44 2.57
767 977 3.078836 GCCGCTGGGGTGGTAGTA 61.079 66.667 12.70 0.00 44.44 1.82
769 979 4.778143 GTGCCGCTGGGGTGGTAG 62.778 72.222 12.70 0.00 44.44 3.18
791 1001 3.802418 AAAAGGCGTCCGCGTGACT 62.802 57.895 20.38 9.08 42.13 3.41
792 1002 1.559149 TAAAAAGGCGTCCGCGTGAC 61.559 55.000 15.15 15.15 43.06 3.67
793 1003 0.671163 ATAAAAAGGCGTCCGCGTGA 60.671 50.000 4.92 0.00 43.06 4.35
799 1009 1.468565 GGGCGAAATAAAAAGGCGTCC 60.469 52.381 0.00 0.00 39.67 4.79
800 1010 1.792632 CGGGCGAAATAAAAAGGCGTC 60.793 52.381 0.00 0.00 0.00 5.19
801 1011 0.169451 CGGGCGAAATAAAAAGGCGT 59.831 50.000 0.00 0.00 0.00 5.68
802 1012 0.169451 ACGGGCGAAATAAAAAGGCG 59.831 50.000 0.00 0.00 0.00 5.52
803 1013 2.357327 AACGGGCGAAATAAAAAGGC 57.643 45.000 0.00 0.00 0.00 4.35
1129 1372 1.001393 GATCTCGGTTTTGGGGGCA 60.001 57.895 0.00 0.00 0.00 5.36
1202 1456 4.346129 GCATTGAACAGGACGAATCAATC 58.654 43.478 0.00 0.00 39.74 2.67
1335 1592 3.181427 ACTGGACTCTGAACCTCACTACT 60.181 47.826 0.00 0.00 0.00 2.57
1336 1593 3.158676 ACTGGACTCTGAACCTCACTAC 58.841 50.000 0.00 0.00 0.00 2.73
1337 1594 3.181433 TGACTGGACTCTGAACCTCACTA 60.181 47.826 0.00 0.00 0.00 2.74
1528 1813 1.588674 TACAGGGCAAAACTCACACG 58.411 50.000 0.00 0.00 0.00 4.49
1549 1835 2.768527 TCTGATGAGAACACCTCCATCC 59.231 50.000 0.00 0.00 41.25 3.51
1550 1836 4.478206 TTCTGATGAGAACACCTCCATC 57.522 45.455 0.00 0.00 41.25 3.51
1551 1837 4.042062 TGTTTCTGATGAGAACACCTCCAT 59.958 41.667 0.00 0.00 41.25 3.41
1554 1840 5.471456 ACAATGTTTCTGATGAGAACACCTC 59.529 40.000 0.00 0.00 37.97 3.85
1555 1841 5.380043 ACAATGTTTCTGATGAGAACACCT 58.620 37.500 0.00 0.00 37.97 4.00
1556 1842 5.695851 ACAATGTTTCTGATGAGAACACC 57.304 39.130 0.00 0.00 37.97 4.16
1557 1843 5.400485 GCAACAATGTTTCTGATGAGAACAC 59.600 40.000 0.00 0.00 37.97 3.32
1574 1861 5.543507 ATTATCCTCTCTCTCGCAACAAT 57.456 39.130 0.00 0.00 0.00 2.71
1579 1866 6.656632 AAACATATTATCCTCTCTCTCGCA 57.343 37.500 0.00 0.00 0.00 5.10
1580 1867 7.375053 AGAAAACATATTATCCTCTCTCTCGC 58.625 38.462 0.00 0.00 0.00 5.03
1582 1869 8.788806 TCGAGAAAACATATTATCCTCTCTCTC 58.211 37.037 0.00 0.00 0.00 3.20
1708 2001 2.077627 TCGCTGGCGCTTTTATTGTTA 58.922 42.857 7.64 0.00 39.59 2.41
1765 2058 1.895798 TGCAGTGGTACCTGAGAGAAG 59.104 52.381 14.36 0.00 34.23 2.85
1781 2074 7.478322 ACAATTTCAACAATAGATAGCTGCAG 58.522 34.615 10.11 10.11 0.00 4.41
1830 2124 3.698029 ATATGACGCAGCAAATGGAAC 57.302 42.857 0.00 0.00 0.00 3.62
1861 2155 9.793252 GTTCAGATTTTATGCTTACATGTGATT 57.207 29.630 9.11 0.00 37.04 2.57
1862 2156 9.182214 AGTTCAGATTTTATGCTTACATGTGAT 57.818 29.630 9.11 0.00 37.04 3.06
1864 2158 7.699391 CCAGTTCAGATTTTATGCTTACATGTG 59.301 37.037 9.11 0.00 37.04 3.21
1868 2162 5.709631 TGCCAGTTCAGATTTTATGCTTACA 59.290 36.000 0.00 0.00 0.00 2.41
1869 2163 6.030228 GTGCCAGTTCAGATTTTATGCTTAC 58.970 40.000 0.00 0.00 0.00 2.34
1871 2165 4.768968 AGTGCCAGTTCAGATTTTATGCTT 59.231 37.500 0.00 0.00 0.00 3.91
1872 2166 4.338879 AGTGCCAGTTCAGATTTTATGCT 58.661 39.130 0.00 0.00 0.00 3.79
1873 2167 4.708726 AGTGCCAGTTCAGATTTTATGC 57.291 40.909 0.00 0.00 0.00 3.14
1874 2168 7.641411 CGATAAAGTGCCAGTTCAGATTTTATG 59.359 37.037 0.00 0.00 0.00 1.90
1877 2171 5.619981 GCGATAAAGTGCCAGTTCAGATTTT 60.620 40.000 0.00 0.00 0.00 1.82
1900 2194 3.087031 CCATGTCATTCAGGGGATATGC 58.913 50.000 0.00 0.00 43.43 3.14
1915 2210 4.335416 TGAACCAGAGAAAATCCCATGTC 58.665 43.478 0.00 0.00 0.00 3.06
1927 2222 2.044793 ACCCCTCAATGAACCAGAGA 57.955 50.000 0.00 0.00 0.00 3.10
1957 2252 0.611200 ACGCATTACACTACAGGCCA 59.389 50.000 5.01 0.00 0.00 5.36
1963 2258 4.985044 AGAAACACACGCATTACACTAC 57.015 40.909 0.00 0.00 0.00 2.73
1977 2278 7.306983 CCAAATGCAGAATTCTTCAAGAAACAC 60.307 37.037 11.86 0.00 37.82 3.32
2163 2465 5.350504 ACCATAGAGATCAACCAAGACAG 57.649 43.478 0.00 0.00 0.00 3.51
2246 2548 9.582223 GTTCAGACTAAAAGATAAACAACGAAG 57.418 33.333 0.00 0.00 0.00 3.79
2296 2599 6.415573 ACTAGTAAAAGGCCTCCACATAAAG 58.584 40.000 5.23 0.00 0.00 1.85
2302 2605 4.648651 TGAAACTAGTAAAAGGCCTCCAC 58.351 43.478 5.23 4.24 0.00 4.02
2500 2834 8.194769 TGTGTCATCATCACGTAATGTATTACT 58.805 33.333 11.68 0.00 40.27 2.24
2544 2878 4.261909 GGTCAATTGGGATGATTGAGATGC 60.262 45.833 5.42 0.00 42.39 3.91
2546 2880 5.133383 TGGTCAATTGGGATGATTGAGAT 57.867 39.130 5.42 0.00 42.39 2.75
2582 2916 5.711506 TCATGAGCATCCTGTAAAACACAAT 59.288 36.000 0.00 0.00 36.48 2.71
2585 2919 5.627499 TTCATGAGCATCCTGTAAAACAC 57.373 39.130 0.00 0.00 32.22 3.32
2810 3144 8.969260 ATAAGAGCATGATTCATACAGAAACA 57.031 30.769 0.00 0.00 42.26 2.83
2815 3151 7.041303 ACTGCAATAAGAGCATGATTCATACAG 60.041 37.037 0.00 0.00 41.82 2.74
3063 3399 6.813152 AGGCAATCAAAAGAAATGGAATAACG 59.187 34.615 0.00 0.00 0.00 3.18
3110 3446 2.037772 CCAGGAGGAAATGGAGATACCG 59.962 54.545 0.00 0.00 39.02 4.02
3146 3482 5.298026 CACAAGCTCTGATGCTACTCTACTA 59.702 44.000 0.00 0.00 43.24 1.82
3183 3519 5.693769 AGCAAGTAGGCAGAGGTAATAAA 57.306 39.130 0.00 0.00 35.83 1.40
3368 3706 9.295825 AGAGATAATCCAAACACACAAACAATA 57.704 29.630 0.00 0.00 0.00 1.90
3407 3745 9.695526 TGAAATTAATGACAACTTCAATCAAGG 57.304 29.630 0.00 0.00 37.92 3.61
3528 3866 2.619013 ATGTCAGCTTTTTGTAGCGC 57.381 45.000 0.00 0.00 45.82 5.92
3654 3992 1.162181 CGCTGATGTAGTGGCCATGG 61.162 60.000 9.72 7.63 33.19 3.66
3874 4213 0.741915 GGTGTGGCGACAAAAGGAAA 59.258 50.000 2.03 0.00 46.06 3.13
3875 4214 1.104577 GGGTGTGGCGACAAAAGGAA 61.105 55.000 2.03 0.00 46.06 3.36
3877 4216 2.561037 GGGGTGTGGCGACAAAAGG 61.561 63.158 2.03 0.00 46.06 3.11
3878 4217 2.561037 GGGGGTGTGGCGACAAAAG 61.561 63.158 2.03 0.00 46.06 2.27
3928 4268 7.999679 TGGTCTTTGCCATTCTAATTATTCTG 58.000 34.615 0.00 0.00 32.81 3.02
3946 4286 5.574188 AGCATCTAAGGTTGAATGGTCTTT 58.426 37.500 0.00 0.00 0.00 2.52
3994 4342 4.662145 CAAAACTCGTCACAGCTTCTTTT 58.338 39.130 0.00 0.00 0.00 2.27
4041 4389 4.274214 CACAACATCAAGAAGACTGCAAGA 59.726 41.667 0.00 0.00 37.43 3.02
4064 4412 0.863957 CGCCACAACACAACGGAAAC 60.864 55.000 0.00 0.00 0.00 2.78
4069 4417 1.938814 CTTGCGCCACAACACAACG 60.939 57.895 4.18 0.00 33.68 4.10
4070 4418 0.457681 AACTTGCGCCACAACACAAC 60.458 50.000 4.18 0.00 33.68 3.32
4071 4419 0.244994 AAACTTGCGCCACAACACAA 59.755 45.000 4.18 0.00 33.68 3.33
4072 4420 0.457509 CAAACTTGCGCCACAACACA 60.458 50.000 4.18 0.00 33.68 3.72
4073 4421 0.457681 ACAAACTTGCGCCACAACAC 60.458 50.000 4.18 0.00 33.68 3.32
4074 4422 1.095600 TACAAACTTGCGCCACAACA 58.904 45.000 4.18 0.00 33.68 3.33
4095 4443 9.170734 CTTCTTGAGAAACATTATTCCAGATCA 57.829 33.333 0.00 0.00 33.07 2.92
4115 4463 7.278135 TCCCTTCACATGATAAGATCTTCTTG 58.722 38.462 12.24 9.69 37.29 3.02
4138 4489 3.549794 AGGCTTCAAGATACAAGCATCC 58.450 45.455 6.04 0.00 45.85 3.51
4168 4520 4.021104 AGCTCTCCCAAGCAAAAATTTACC 60.021 41.667 0.00 0.00 45.00 2.85
4174 4528 2.624838 CAGAAGCTCTCCCAAGCAAAAA 59.375 45.455 0.00 0.00 45.00 1.94
4209 4563 3.729217 CGTAGATTCGTTCGCATGTGTAT 59.271 43.478 6.09 0.00 0.00 2.29
4212 4568 1.255342 CCGTAGATTCGTTCGCATGTG 59.745 52.381 0.00 0.00 0.00 3.21
4215 4571 0.874607 GGCCGTAGATTCGTTCGCAT 60.875 55.000 0.00 0.00 0.00 4.73
4216 4572 1.517694 GGCCGTAGATTCGTTCGCA 60.518 57.895 0.00 0.00 0.00 5.10
4223 4614 3.545366 AGAAAGGAAGGCCGTAGATTC 57.455 47.619 0.00 1.02 39.96 2.52
4231 4622 4.202253 ACAAATGACAAAGAAAGGAAGGCC 60.202 41.667 0.00 0.00 0.00 5.19
4297 4688 0.034337 TTTCGGGAGCTTAGCACGTT 59.966 50.000 7.07 0.00 0.00 3.99
4326 4719 4.100963 TGGCTGTACATATCTGAATTCGGT 59.899 41.667 13.95 4.65 0.00 4.69
4329 4722 7.657354 TGTATGTGGCTGTACATATCTGAATTC 59.343 37.037 0.00 0.00 43.27 2.17
4381 4777 2.929398 CACTGCAACCAAGTTGGAAAAC 59.071 45.455 28.80 14.18 42.72 2.43
4400 4796 6.655003 CCACTTATAATATCCATGTGGTCCAC 59.345 42.308 15.64 15.64 38.75 4.02
4416 4812 6.491745 TGCCAAACAAATCTCACCACTTATAA 59.508 34.615 0.00 0.00 0.00 0.98
4448 4844 2.363683 CTTCCTCACTTGGGCTTCATC 58.636 52.381 0.00 0.00 0.00 2.92
4532 4931 2.579738 GAGGAGAACAGCCGGTCC 59.420 66.667 1.90 0.00 0.00 4.46
4621 5251 2.352127 GGATTCCAGTTTGAGCTTGTGC 60.352 50.000 0.00 0.00 40.05 4.57
4674 5304 1.488390 TCCCCGGTGTATTGTACTCC 58.512 55.000 0.00 0.00 38.60 3.85
4675 5305 3.832615 ATTCCCCGGTGTATTGTACTC 57.167 47.619 0.00 0.00 0.00 2.59
4677 5307 4.942761 TCTATTCCCCGGTGTATTGTAC 57.057 45.455 0.00 0.00 0.00 2.90
4678 5308 4.715792 TGTTCTATTCCCCGGTGTATTGTA 59.284 41.667 0.00 0.00 0.00 2.41
4679 5309 3.520317 TGTTCTATTCCCCGGTGTATTGT 59.480 43.478 0.00 0.00 0.00 2.71
4680 5310 4.145365 TGTTCTATTCCCCGGTGTATTG 57.855 45.455 0.00 0.00 0.00 1.90
4681 5311 5.132144 AGAATGTTCTATTCCCCGGTGTATT 59.868 40.000 0.00 0.00 35.34 1.89
4682 5312 4.658901 AGAATGTTCTATTCCCCGGTGTAT 59.341 41.667 0.00 0.00 35.34 2.29
4683 5313 4.035112 AGAATGTTCTATTCCCCGGTGTA 58.965 43.478 0.00 0.00 35.34 2.90
4684 5314 2.844348 AGAATGTTCTATTCCCCGGTGT 59.156 45.455 0.00 0.00 35.34 4.16
4685 5315 3.560636 AGAATGTTCTATTCCCCGGTG 57.439 47.619 0.00 0.00 35.34 4.94
4687 5317 3.325135 AGCTAGAATGTTCTATTCCCCGG 59.675 47.826 0.00 0.00 38.95 5.73
4688 5318 4.039245 TCAGCTAGAATGTTCTATTCCCCG 59.961 45.833 3.15 0.00 38.95 5.73


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

AutoCloner maintained by Alex Coulton.