Multiple sequence alignment - TraesCS3B01G504600

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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 TraesCS3B01G504600 chr3B 100.000 3263 0 0 1 3263 749026817 749023555 0.000000e+00 6026.0
1 TraesCS3B01G504600 chr3B 79.388 1373 228 31 1037 2389 749680335 749681672 0.000000e+00 917.0
2 TraesCS3B01G504600 chr3B 76.669 1453 269 45 960 2391 749979299 749980702 0.000000e+00 741.0
3 TraesCS3B01G504600 chr3B 76.361 1506 252 51 942 2391 749648209 749649666 0.000000e+00 713.0
4 TraesCS3B01G504600 chr3B 76.941 1275 235 38 1046 2301 748779460 748778226 0.000000e+00 671.0
5 TraesCS3B01G504600 chr3B 76.740 1221 209 50 939 2135 749725716 749726885 2.150000e-171 612.0
6 TraesCS3B01G504600 chr3B 76.871 1189 203 50 963 2124 749859887 749861030 1.000000e-169 606.0
7 TraesCS3B01G504600 chr3B 84.874 119 16 2 2619 2736 749650455 749650572 5.720000e-23 119.0
8 TraesCS3B01G504600 chr3B 85.870 92 7 3 2493 2583 749682331 749682417 3.470000e-15 93.5
9 TraesCS3B01G504600 chr3B 93.750 48 3 0 2738 2785 749681913 749681960 4.520000e-09 73.1
10 TraesCS3B01G504600 chr3D 94.831 1567 56 15 828 2393 561711822 561710280 0.000000e+00 2422.0
11 TraesCS3B01G504600 chr3D 94.994 779 32 3 2486 3263 561710282 561709510 0.000000e+00 1216.0
12 TraesCS3B01G504600 chr3D 78.009 1396 236 47 1037 2391 562459591 562460956 0.000000e+00 811.0
13 TraesCS3B01G504600 chr3D 77.847 1291 213 36 963 2223 562348048 562349295 0.000000e+00 732.0
14 TraesCS3B01G504600 chr3D 76.917 1291 242 37 1029 2301 561456378 561455126 0.000000e+00 682.0
15 TraesCS3B01G504600 chr3D 76.917 1200 204 47 963 2135 562538213 562539366 5.980000e-172 614.0
16 TraesCS3B01G504600 chr3D 81.832 677 110 10 1695 2361 562384088 562384761 1.020000e-154 556.0
17 TraesCS3B01G504600 chr3D 82.571 459 65 10 1932 2386 561466433 561465986 1.100000e-104 390.0
18 TraesCS3B01G504600 chr3D 75.223 561 73 39 266 799 349640260 349639739 4.270000e-49 206.0
19 TraesCS3B01G504600 chr3D 80.976 205 26 7 2738 2942 561465781 561465590 2.030000e-32 150.0
20 TraesCS3B01G504600 chr3D 82.278 158 19 8 561 712 583306427 583306273 9.500000e-26 128.0
21 TraesCS3B01G504600 chr3D 85.714 119 15 2 2619 2736 562437086 562437203 1.230000e-24 124.0
22 TraesCS3B01G504600 chr3D 77.665 197 31 10 430 622 605411060 605411247 1.240000e-19 108.0
23 TraesCS3B01G504600 chr3D 76.699 206 34 11 431 632 606471088 606471283 5.760000e-18 102.0
24 TraesCS3B01G504600 chr3D 94.444 36 0 1 2675 2710 561710184 561710151 2.000000e-03 54.7
25 TraesCS3B01G504600 chr3A 91.413 1514 82 19 896 2393 697457560 697456079 0.000000e+00 2032.0
26 TraesCS3B01G504600 chr3A 86.410 780 64 19 2486 3263 697456081 697455342 0.000000e+00 815.0
27 TraesCS3B01G504600 chr3A 77.665 1285 236 34 1032 2301 697391429 697390181 0.000000e+00 736.0
28 TraesCS3B01G504600 chr3A 77.189 1188 201 44 963 2124 697673440 697674583 2.140000e-176 628.0
29 TraesCS3B01G504600 chr3A 74.974 959 177 40 1199 2135 697617717 697618634 1.840000e-102 383.0
30 TraesCS3B01G504600 chr3A 75.931 806 116 53 67 833 595758328 595757562 3.120000e-90 342.0
31 TraesCS3B01G504600 chr3A 78.469 209 22 11 2738 2942 697444900 697444711 7.400000e-22 115.0
32 TraesCS3B01G504600 chr3A 91.803 61 3 2 2524 2583 697570309 697570368 2.090000e-12 84.2
33 TraesCS3B01G504600 chr3A 97.222 36 1 0 2587 2622 697455916 697455881 9.780000e-06 62.1
34 TraesCS3B01G504600 chr7A 76.793 767 123 42 95 831 730878008 730877267 2.380000e-101 379.0
35 TraesCS3B01G504600 chr7A 77.477 555 78 27 176 702 165444875 165445410 4.120000e-74 289.0
36 TraesCS3B01G504600 chr7A 88.333 60 5 2 828 885 71147151 71147092 1.620000e-08 71.3
37 TraesCS3B01G504600 chr2B 76.903 749 117 40 4 719 95507074 95506349 1.110000e-99 374.0
38 TraesCS3B01G504600 chr2B 76.880 359 62 17 110 461 753942131 753941787 2.000000e-42 183.0
39 TraesCS3B01G504600 chr2A 81.223 458 64 14 1 449 61353205 61352761 1.860000e-92 350.0
40 TraesCS3B01G504600 chr2D 80.574 453 67 14 1 446 60782767 60782329 2.430000e-86 329.0
41 TraesCS3B01G504600 chr1D 85.965 228 23 9 216 437 467533123 467533347 5.440000e-58 235.0
42 TraesCS3B01G504600 chr1D 76.298 443 62 25 14 432 8620756 8621179 2.570000e-46 196.0
43 TraesCS3B01G504600 chr1D 95.000 40 0 2 619 658 118802237 118802274 9.780000e-06 62.1
44 TraesCS3B01G504600 chr6D 79.063 363 46 21 95 440 148769652 148769303 4.240000e-54 222.0
45 TraesCS3B01G504600 chr1A 75.309 567 71 42 292 830 440032425 440032950 1.190000e-49 207.0
46 TraesCS3B01G504600 chr7B 74.946 463 80 26 1 433 716045488 716045032 2.590000e-41 180.0
47 TraesCS3B01G504600 chr7B 90.816 98 9 0 2391 2488 129541176 129541079 7.350000e-27 132.0
48 TraesCS3B01G504600 chr7B 73.558 416 75 23 315 712 745580701 745581099 3.420000e-25 126.0
49 TraesCS3B01G504600 chr5A 91.753 97 8 0 2391 2487 17837012 17836916 5.680000e-28 135.0
50 TraesCS3B01G504600 chr5D 89.899 99 10 0 2390 2488 499115157 499115255 9.500000e-26 128.0
51 TraesCS3B01G504600 chr6A 89.796 98 9 1 2391 2488 8173708 8173804 1.230000e-24 124.0
52 TraesCS3B01G504600 chr4B 87.850 107 12 1 2391 2497 626285000 626284895 1.230000e-24 124.0
53 TraesCS3B01G504600 chr7D 88.350 103 11 1 2390 2492 36671037 36670936 4.420000e-24 122.0
54 TraesCS3B01G504600 chr7D 87.255 102 13 0 2386 2487 189320860 189320961 2.060000e-22 117.0
55 TraesCS3B01G504600 chr7D 92.063 63 4 1 829 890 24957595 24957533 1.610000e-13 87.9
56 TraesCS3B01G504600 chr4D 90.217 92 9 0 2397 2488 331633292 331633383 1.590000e-23 121.0
57 TraesCS3B01G504600 chr4A 87.755 98 12 0 2390 2487 459668516 459668419 7.400000e-22 115.0
58 TraesCS3B01G504600 chr4A 92.982 57 3 1 830 885 60050240 60050296 7.500000e-12 82.4
59 TraesCS3B01G504600 chr1B 100.000 32 0 0 628 659 180525556 180525587 3.520000e-05 60.2
60 TraesCS3B01G504600 chr5B 94.595 37 1 1 628 664 604880355 604880390 4.550000e-04 56.5


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 TraesCS3B01G504600 chr3B 749023555 749026817 3262 True 6026.0 6026 100.000000 1 3263 1 chr3B.!!$R2 3262
1 TraesCS3B01G504600 chr3B 749979299 749980702 1403 False 741.0 741 76.669000 960 2391 1 chr3B.!!$F3 1431
2 TraesCS3B01G504600 chr3B 748778226 748779460 1234 True 671.0 671 76.941000 1046 2301 1 chr3B.!!$R1 1255
3 TraesCS3B01G504600 chr3B 749725716 749726885 1169 False 612.0 612 76.740000 939 2135 1 chr3B.!!$F1 1196
4 TraesCS3B01G504600 chr3B 749859887 749861030 1143 False 606.0 606 76.871000 963 2124 1 chr3B.!!$F2 1161
5 TraesCS3B01G504600 chr3B 749648209 749650572 2363 False 416.0 713 80.617500 942 2736 2 chr3B.!!$F4 1794
6 TraesCS3B01G504600 chr3B 749680335 749682417 2082 False 361.2 917 86.336000 1037 2785 3 chr3B.!!$F5 1748
7 TraesCS3B01G504600 chr3D 561709510 561711822 2312 True 1230.9 2422 94.756333 828 3263 3 chr3D.!!$R5 2435
8 TraesCS3B01G504600 chr3D 562459591 562460956 1365 False 811.0 811 78.009000 1037 2391 1 chr3D.!!$F4 1354
9 TraesCS3B01G504600 chr3D 562348048 562349295 1247 False 732.0 732 77.847000 963 2223 1 chr3D.!!$F1 1260
10 TraesCS3B01G504600 chr3D 561455126 561456378 1252 True 682.0 682 76.917000 1029 2301 1 chr3D.!!$R2 1272
11 TraesCS3B01G504600 chr3D 562538213 562539366 1153 False 614.0 614 76.917000 963 2135 1 chr3D.!!$F5 1172
12 TraesCS3B01G504600 chr3D 562384088 562384761 673 False 556.0 556 81.832000 1695 2361 1 chr3D.!!$F2 666
13 TraesCS3B01G504600 chr3D 561465590 561466433 843 True 270.0 390 81.773500 1932 2942 2 chr3D.!!$R4 1010
14 TraesCS3B01G504600 chr3D 349639739 349640260 521 True 206.0 206 75.223000 266 799 1 chr3D.!!$R1 533
15 TraesCS3B01G504600 chr3A 697455342 697457560 2218 True 969.7 2032 91.681667 896 3263 3 chr3A.!!$R4 2367
16 TraesCS3B01G504600 chr3A 697390181 697391429 1248 True 736.0 736 77.665000 1032 2301 1 chr3A.!!$R2 1269
17 TraesCS3B01G504600 chr3A 697673440 697674583 1143 False 628.0 628 77.189000 963 2124 1 chr3A.!!$F3 1161
18 TraesCS3B01G504600 chr3A 697617717 697618634 917 False 383.0 383 74.974000 1199 2135 1 chr3A.!!$F2 936
19 TraesCS3B01G504600 chr3A 595757562 595758328 766 True 342.0 342 75.931000 67 833 1 chr3A.!!$R1 766
20 TraesCS3B01G504600 chr7A 730877267 730878008 741 True 379.0 379 76.793000 95 831 1 chr7A.!!$R2 736
21 TraesCS3B01G504600 chr7A 165444875 165445410 535 False 289.0 289 77.477000 176 702 1 chr7A.!!$F1 526
22 TraesCS3B01G504600 chr2B 95506349 95507074 725 True 374.0 374 76.903000 4 719 1 chr2B.!!$R1 715
23 TraesCS3B01G504600 chr1A 440032425 440032950 525 False 207.0 207 75.309000 292 830 1 chr1A.!!$F1 538

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
972 1081 0.33812 AGTCCTCTCCCCTCCTGAAG 59.662 60.0 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2471 2699 0.042131 ATGGTACTCCCTTCGTCCCA 59.958 55.0 0.0 0.0 0.0 4.37 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
20 21 2.862512 GACACAACGCATATGTTTGGG 58.137 47.619 15.88 15.88 35.79 4.12
23 24 0.525242 CAACGCATATGTTTGGGCCG 60.525 55.000 4.29 0.00 33.14 6.13
25 26 0.678366 ACGCATATGTTTGGGCCGAA 60.678 50.000 0.79 0.79 33.14 4.30
28 29 1.468985 CATATGTTTGGGCCGAACCA 58.531 50.000 29.46 19.41 42.05 3.67
33 34 1.605165 TTTGGGCCGAACCATGTCC 60.605 57.895 0.79 0.00 40.91 4.02
84 87 5.761165 TTACCTTTTGTCTTCCTTTTCCG 57.239 39.130 0.00 0.00 0.00 4.30
89 95 5.494632 TTTTGTCTTCCTTTTCCGTCTTC 57.505 39.130 0.00 0.00 0.00 2.87
90 96 2.750948 TGTCTTCCTTTTCCGTCTTCG 58.249 47.619 0.00 0.00 0.00 3.79
91 97 2.101917 TGTCTTCCTTTTCCGTCTTCGT 59.898 45.455 0.00 0.00 35.01 3.85
92 98 3.129109 GTCTTCCTTTTCCGTCTTCGTT 58.871 45.455 0.00 0.00 35.01 3.85
93 99 3.183976 GTCTTCCTTTTCCGTCTTCGTTC 59.816 47.826 0.00 0.00 35.01 3.95
102 108 4.572985 TCCGTCTTCGTTCTTTTCTACA 57.427 40.909 0.00 0.00 35.01 2.74
105 111 5.404366 TCCGTCTTCGTTCTTTTCTACATTG 59.596 40.000 0.00 0.00 35.01 2.82
439 495 8.610248 TGATCATGCATTTCAAAAAGAATGTT 57.390 26.923 0.00 0.00 35.83 2.71
440 496 8.499967 TGATCATGCATTTCAAAAAGAATGTTG 58.500 29.630 0.00 0.00 35.83 3.33
441 497 7.192148 TCATGCATTTCAAAAAGAATGTTGG 57.808 32.000 0.00 0.00 35.83 3.77
442 498 6.766944 TCATGCATTTCAAAAAGAATGTTGGT 59.233 30.769 0.00 0.00 35.83 3.67
443 499 6.360844 TGCATTTCAAAAAGAATGTTGGTG 57.639 33.333 0.00 0.00 35.83 4.17
446 540 7.282675 TGCATTTCAAAAAGAATGTTGGTGAAT 59.717 29.630 0.00 0.00 35.83 2.57
452 546 8.881743 TCAAAAAGAATGTTGGTGAATTTTCAG 58.118 29.630 0.00 0.00 37.98 3.02
464 558 8.243961 TGGTGAATTTTCAGAAATTGTTCCTA 57.756 30.769 0.00 0.00 43.61 2.94
465 559 8.141268 TGGTGAATTTTCAGAAATTGTTCCTAC 58.859 33.333 0.00 0.00 43.61 3.18
466 560 7.598869 GGTGAATTTTCAGAAATTGTTCCTACC 59.401 37.037 0.00 4.00 43.61 3.18
467 561 8.141268 GTGAATTTTCAGAAATTGTTCCTACCA 58.859 33.333 0.00 0.00 43.61 3.25
468 562 8.700051 TGAATTTTCAGAAATTGTTCCTACCAA 58.300 29.630 0.00 0.00 43.61 3.67
469 563 9.541143 GAATTTTCAGAAATTGTTCCTACCAAA 57.459 29.630 0.00 0.00 43.61 3.28
519 614 5.308825 CCCTAGAAATGTTCGCCTATTCAT 58.691 41.667 0.00 0.00 34.02 2.57
677 782 9.685276 AAGTTCATGATTTCAGGTATGTTCATA 57.315 29.630 0.00 0.00 0.00 2.15
680 785 9.685276 TTCATGATTTCAGGTATGTTCATAAGT 57.315 29.630 0.00 0.00 0.00 2.24
745 850 7.905604 TCACGAAAATGAGAATGATAGTGTT 57.094 32.000 0.00 0.00 0.00 3.32
748 853 7.693951 CACGAAAATGAGAATGATAGTGTTTCC 59.306 37.037 0.00 0.00 0.00 3.13
753 858 4.712829 TGAGAATGATAGTGTTTCCCGGTA 59.287 41.667 0.00 0.00 0.00 4.02
769 874 2.352617 CCGGTAATGCAGCAAAATGTGT 60.353 45.455 0.00 0.00 0.00 3.72
770 875 2.916716 CGGTAATGCAGCAAAATGTGTC 59.083 45.455 0.00 0.00 0.00 3.67
771 876 3.366273 CGGTAATGCAGCAAAATGTGTCT 60.366 43.478 0.00 0.00 0.00 3.41
776 881 3.156293 TGCAGCAAAATGTGTCTATGGT 58.844 40.909 0.00 0.00 0.00 3.55
782 887 4.563976 GCAAAATGTGTCTATGGTCATTGC 59.436 41.667 0.00 0.00 32.05 3.56
807 912 7.285788 CAGATTATGCTTTGTTTTCTTGTTGC 58.714 34.615 0.00 0.00 0.00 4.17
808 913 6.985645 AGATTATGCTTTGTTTTCTTGTTGCA 59.014 30.769 0.00 0.00 0.00 4.08
809 914 6.974932 TTATGCTTTGTTTTCTTGTTGCAA 57.025 29.167 0.00 0.00 32.88 4.08
816 925 1.178276 TTTCTTGTTGCAACACGGGT 58.822 45.000 31.17 0.00 38.92 5.28
817 926 1.178276 TTCTTGTTGCAACACGGGTT 58.822 45.000 31.17 0.00 38.92 4.11
834 943 5.980715 CACGGGTTGTTTTGCTAGTAAAAAT 59.019 36.000 18.64 0.00 31.92 1.82
839 948 9.353999 GGGTTGTTTTGCTAGTAAAAATATCAG 57.646 33.333 18.64 0.00 31.92 2.90
840 949 9.353999 GGTTGTTTTGCTAGTAAAAATATCAGG 57.646 33.333 18.64 0.00 31.92 3.86
855 964 2.600769 AGGACCGGAGTGCTTCGT 60.601 61.111 9.46 0.00 42.95 3.85
856 965 2.432628 GGACCGGAGTGCTTCGTG 60.433 66.667 9.46 0.00 0.00 4.35
858 967 1.733399 GACCGGAGTGCTTCGTGTC 60.733 63.158 9.46 3.12 0.00 3.67
859 968 2.338620 CCGGAGTGCTTCGTGTCA 59.661 61.111 0.00 0.00 0.00 3.58
860 969 2.022129 CCGGAGTGCTTCGTGTCAC 61.022 63.158 0.00 0.00 0.00 3.67
861 970 1.299850 CGGAGTGCTTCGTGTCACA 60.300 57.895 3.42 0.00 35.76 3.58
862 971 1.548973 CGGAGTGCTTCGTGTCACAC 61.549 60.000 0.00 0.00 35.76 3.82
885 994 6.414694 CACGTGTGCATTTATCATTTGGATAC 59.585 38.462 7.58 0.00 38.20 2.24
954 1063 1.793820 AAGCCCAAACCCCTCTCCAG 61.794 60.000 0.00 0.00 0.00 3.86
955 1064 2.539081 GCCCAAACCCCTCTCCAGT 61.539 63.158 0.00 0.00 0.00 4.00
959 1068 0.615850 CAAACCCCTCTCCAGTCCTC 59.384 60.000 0.00 0.00 0.00 3.71
960 1069 0.494095 AAACCCCTCTCCAGTCCTCT 59.506 55.000 0.00 0.00 0.00 3.69
967 1076 1.075600 CTCCAGTCCTCTCCCCTCC 60.076 68.421 0.00 0.00 0.00 4.30
972 1081 0.338120 AGTCCTCTCCCCTCCTGAAG 59.662 60.000 0.00 0.00 0.00 3.02
1016 1127 1.048601 AATATGGACGGCGATGGACT 58.951 50.000 16.62 0.00 0.00 3.85
1017 1128 1.919240 ATATGGACGGCGATGGACTA 58.081 50.000 16.62 0.00 0.00 2.59
1122 1239 2.045926 CTCGGCTTCCCCAACCTG 60.046 66.667 0.00 0.00 0.00 4.00
1538 1693 0.981277 ACCCAGATGTTCCTACCCGG 60.981 60.000 0.00 0.00 0.00 5.73
1624 1785 2.039787 TGTACGCCCTGGGATCCA 59.960 61.111 19.27 3.70 0.00 3.41
1727 1888 1.197721 CGTTCATGGCAAGGTCTTCAC 59.802 52.381 0.00 0.00 0.00 3.18
1729 1890 0.955428 TCATGGCAAGGTCTTCACGC 60.955 55.000 0.00 0.00 0.00 5.34
2077 2244 9.625747 TTGTCTTCTTGGATTATGCAACATATA 57.374 29.630 0.00 0.00 0.00 0.86
2117 2284 2.360475 GAGGAGCAGGGTGGTTGC 60.360 66.667 0.00 0.00 41.83 4.17
2391 2619 7.575155 GCCTGCATCTCGTCTAACTAATGTATA 60.575 40.741 0.00 0.00 0.00 1.47
2392 2620 7.751348 CCTGCATCTCGTCTAACTAATGTATAC 59.249 40.741 0.00 0.00 0.00 1.47
2393 2621 8.392372 TGCATCTCGTCTAACTAATGTATACT 57.608 34.615 4.17 0.00 0.00 2.12
2394 2622 8.504815 TGCATCTCGTCTAACTAATGTATACTC 58.495 37.037 4.17 0.00 0.00 2.59
2395 2623 7.964011 GCATCTCGTCTAACTAATGTATACTCC 59.036 40.741 4.17 0.00 0.00 3.85
2396 2624 7.976135 TCTCGTCTAACTAATGTATACTCCC 57.024 40.000 4.17 0.00 0.00 4.30
2397 2625 7.743749 TCTCGTCTAACTAATGTATACTCCCT 58.256 38.462 4.17 0.00 0.00 4.20
2398 2626 7.877097 TCTCGTCTAACTAATGTATACTCCCTC 59.123 40.741 4.17 0.00 0.00 4.30
2399 2627 7.743749 TCGTCTAACTAATGTATACTCCCTCT 58.256 38.462 4.17 0.00 0.00 3.69
2400 2628 7.660617 TCGTCTAACTAATGTATACTCCCTCTG 59.339 40.741 4.17 0.00 0.00 3.35
2401 2629 7.444792 CGTCTAACTAATGTATACTCCCTCTGT 59.555 40.741 4.17 0.00 0.00 3.41
2402 2630 8.785946 GTCTAACTAATGTATACTCCCTCTGTC 58.214 40.741 4.17 0.00 0.00 3.51
2403 2631 6.980416 AACTAATGTATACTCCCTCTGTCC 57.020 41.667 4.17 0.00 0.00 4.02
2404 2632 5.395611 ACTAATGTATACTCCCTCTGTCCC 58.604 45.833 4.17 0.00 0.00 4.46
2405 2633 3.993658 ATGTATACTCCCTCTGTCCCA 57.006 47.619 4.17 0.00 0.00 4.37
2406 2634 3.769189 TGTATACTCCCTCTGTCCCAA 57.231 47.619 4.17 0.00 0.00 4.12
2407 2635 4.069312 TGTATACTCCCTCTGTCCCAAA 57.931 45.455 4.17 0.00 0.00 3.28
2408 2636 4.431378 TGTATACTCCCTCTGTCCCAAAA 58.569 43.478 4.17 0.00 0.00 2.44
2409 2637 5.036916 TGTATACTCCCTCTGTCCCAAAAT 58.963 41.667 4.17 0.00 0.00 1.82
2410 2638 6.206787 TGTATACTCCCTCTGTCCCAAAATA 58.793 40.000 4.17 0.00 0.00 1.40
2411 2639 6.674861 TGTATACTCCCTCTGTCCCAAAATAA 59.325 38.462 4.17 0.00 0.00 1.40
2412 2640 4.576330 ACTCCCTCTGTCCCAAAATAAG 57.424 45.455 0.00 0.00 0.00 1.73
2413 2641 3.916989 ACTCCCTCTGTCCCAAAATAAGT 59.083 43.478 0.00 0.00 0.00 2.24
2414 2642 4.263506 ACTCCCTCTGTCCCAAAATAAGTG 60.264 45.833 0.00 0.00 0.00 3.16
2415 2643 2.755103 CCCTCTGTCCCAAAATAAGTGC 59.245 50.000 0.00 0.00 0.00 4.40
2416 2644 2.755103 CCTCTGTCCCAAAATAAGTGCC 59.245 50.000 0.00 0.00 0.00 5.01
2417 2645 3.562176 CCTCTGTCCCAAAATAAGTGCCT 60.562 47.826 0.00 0.00 0.00 4.75
2418 2646 3.686016 TCTGTCCCAAAATAAGTGCCTC 58.314 45.455 0.00 0.00 0.00 4.70
2419 2647 3.073798 TCTGTCCCAAAATAAGTGCCTCA 59.926 43.478 0.00 0.00 0.00 3.86
2420 2648 3.826157 CTGTCCCAAAATAAGTGCCTCAA 59.174 43.478 0.00 0.00 0.00 3.02
2421 2649 3.572255 TGTCCCAAAATAAGTGCCTCAAC 59.428 43.478 0.00 0.00 0.00 3.18
2422 2650 3.826729 GTCCCAAAATAAGTGCCTCAACT 59.173 43.478 0.00 0.00 0.00 3.16
2423 2651 4.280929 GTCCCAAAATAAGTGCCTCAACTT 59.719 41.667 0.00 0.00 42.89 2.66
2424 2652 4.898861 TCCCAAAATAAGTGCCTCAACTTT 59.101 37.500 0.00 0.00 40.77 2.66
2425 2653 4.990426 CCCAAAATAAGTGCCTCAACTTTG 59.010 41.667 0.00 0.00 40.77 2.77
2426 2654 5.453198 CCCAAAATAAGTGCCTCAACTTTGT 60.453 40.000 0.00 0.00 40.77 2.83
2427 2655 6.239176 CCCAAAATAAGTGCCTCAACTTTGTA 60.239 38.462 0.00 0.00 40.77 2.41
2428 2656 6.640907 CCAAAATAAGTGCCTCAACTTTGTAC 59.359 38.462 0.00 0.00 40.77 2.90
2429 2657 7.425606 CAAAATAAGTGCCTCAACTTTGTACT 58.574 34.615 0.00 0.00 40.77 2.73
2430 2658 8.564574 CAAAATAAGTGCCTCAACTTTGTACTA 58.435 33.333 0.00 0.00 40.77 1.82
2431 2659 8.685838 AAATAAGTGCCTCAACTTTGTACTAA 57.314 30.769 0.00 0.00 40.77 2.24
2432 2660 7.668525 ATAAGTGCCTCAACTTTGTACTAAC 57.331 36.000 0.00 0.00 40.77 2.34
2433 2661 5.291905 AGTGCCTCAACTTTGTACTAACT 57.708 39.130 0.00 0.00 0.00 2.24
2434 2662 5.681639 AGTGCCTCAACTTTGTACTAACTT 58.318 37.500 0.00 0.00 0.00 2.66
2435 2663 6.120220 AGTGCCTCAACTTTGTACTAACTTT 58.880 36.000 0.00 0.00 0.00 2.66
2436 2664 7.277396 AGTGCCTCAACTTTGTACTAACTTTA 58.723 34.615 0.00 0.00 0.00 1.85
2437 2665 7.441458 AGTGCCTCAACTTTGTACTAACTTTAG 59.559 37.037 0.00 0.00 36.82 1.85
2438 2666 7.226128 GTGCCTCAACTTTGTACTAACTTTAGT 59.774 37.037 6.85 6.85 45.39 2.24
2439 2667 8.423349 TGCCTCAACTTTGTACTAACTTTAGTA 58.577 33.333 4.98 4.98 43.36 1.82
2456 2684 8.835550 ACTTTAGTACAAGGCTATACTAACCT 57.164 34.615 21.88 12.40 41.40 3.50
2457 2685 9.264653 ACTTTAGTACAAGGCTATACTAACCTT 57.735 33.333 21.88 11.92 44.66 3.50
2462 2690 8.911965 AGTACAAGGCTATACTAACCTTAAGAC 58.088 37.037 3.36 0.00 41.90 3.01
2463 2691 7.729124 ACAAGGCTATACTAACCTTAAGACA 57.271 36.000 3.36 0.00 41.90 3.41
2464 2692 7.783042 ACAAGGCTATACTAACCTTAAGACAG 58.217 38.462 3.36 0.39 41.90 3.51
2465 2693 7.399478 ACAAGGCTATACTAACCTTAAGACAGT 59.601 37.037 3.36 6.45 41.90 3.55
2466 2694 7.974730 AGGCTATACTAACCTTAAGACAGTT 57.025 36.000 3.36 2.49 0.00 3.16
2467 2695 9.484806 AAGGCTATACTAACCTTAAGACAGTTA 57.515 33.333 3.36 3.57 42.00 2.24
2468 2696 9.657728 AGGCTATACTAACCTTAAGACAGTTAT 57.342 33.333 3.36 0.00 0.00 1.89
2474 2702 8.631480 ACTAACCTTAAGACAGTTATTTTGGG 57.369 34.615 3.36 0.00 0.00 4.12
2475 2703 8.442374 ACTAACCTTAAGACAGTTATTTTGGGA 58.558 33.333 3.36 0.00 0.00 4.37
2476 2704 7.520451 AACCTTAAGACAGTTATTTTGGGAC 57.480 36.000 3.36 0.00 0.00 4.46
2477 2705 5.704053 ACCTTAAGACAGTTATTTTGGGACG 59.296 40.000 3.36 0.00 0.00 4.79
2478 2706 5.935789 CCTTAAGACAGTTATTTTGGGACGA 59.064 40.000 3.36 0.00 0.00 4.20
2479 2707 6.428771 CCTTAAGACAGTTATTTTGGGACGAA 59.571 38.462 3.36 0.00 0.00 3.85
2480 2708 5.941948 AAGACAGTTATTTTGGGACGAAG 57.058 39.130 0.00 0.00 0.00 3.79
2481 2709 4.324267 AGACAGTTATTTTGGGACGAAGG 58.676 43.478 0.00 0.00 0.00 3.46
2482 2710 3.418047 ACAGTTATTTTGGGACGAAGGG 58.582 45.455 0.00 0.00 0.00 3.95
2483 2711 3.073356 ACAGTTATTTTGGGACGAAGGGA 59.927 43.478 0.00 0.00 0.00 4.20
2484 2712 3.689649 CAGTTATTTTGGGACGAAGGGAG 59.310 47.826 0.00 0.00 0.00 4.30
2485 2713 3.329814 AGTTATTTTGGGACGAAGGGAGT 59.670 43.478 0.00 0.00 0.00 3.85
2504 2732 5.640783 GGGAGTACCATGTTACTGTGTTTAC 59.359 44.000 7.77 0.00 39.85 2.01
2506 2735 6.589139 GGAGTACCATGTTACTGTGTTTACTC 59.411 42.308 7.77 0.35 33.05 2.59
2520 2750 9.708092 ACTGTGTTTACTCCTTTAGTATTTCTC 57.292 33.333 0.00 0.00 40.41 2.87
2521 2751 9.706691 CTGTGTTTACTCCTTTAGTATTTCTCA 57.293 33.333 0.00 0.00 40.41 3.27
2522 2752 9.485206 TGTGTTTACTCCTTTAGTATTTCTCAC 57.515 33.333 0.00 0.00 40.41 3.51
2599 2829 4.343231 TGAGTAATGGACATTTGTGCCAT 58.657 39.130 2.53 4.72 43.95 4.40
2613 2843 7.555914 ACATTTGTGCCATGTCATATAACACTA 59.444 33.333 0.00 0.00 27.99 2.74
2614 2844 8.570488 CATTTGTGCCATGTCATATAACACTAT 58.430 33.333 0.00 0.00 30.55 2.12
2615 2845 9.791801 ATTTGTGCCATGTCATATAACACTATA 57.208 29.630 0.00 0.00 30.55 1.31
2965 3537 1.971357 CTGCTCATATAGGTTCCCGGT 59.029 52.381 0.00 0.00 0.00 5.28
2995 3567 6.072452 GCTAACTGTATGCTTTTTGGTCTCTT 60.072 38.462 0.00 0.00 0.00 2.85
3054 3626 3.007940 CCTCACAGTGATTCCCTTACACA 59.992 47.826 2.97 0.00 37.05 3.72
3061 3633 6.151648 ACAGTGATTCCCTTACACATCAAATG 59.848 38.462 0.00 0.00 37.05 2.32
3091 3663 6.770785 TGAAATACTGCACCTAACACTTTCTT 59.229 34.615 0.00 0.00 0.00 2.52
3184 3756 7.659652 ACTAGCTCAAATGAAGTAAGTTGAC 57.340 36.000 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.862512 CCCAAACATATGCGTTGTGTC 58.137 47.619 15.11 0.00 0.00 3.67
1 2 1.067915 GCCCAAACATATGCGTTGTGT 60.068 47.619 15.11 0.00 0.00 3.72
7 8 0.248458 GTTCGGCCCAAACATATGCG 60.248 55.000 1.58 0.00 0.00 4.73
10 11 2.031120 CATGGTTCGGCCCAAACATAT 58.969 47.619 13.70 6.16 38.20 1.78
12 13 0.541764 ACATGGTTCGGCCCAAACAT 60.542 50.000 7.95 7.95 38.20 2.71
33 34 1.238625 TTTAAGAAACAGGCCGCCCG 61.239 55.000 5.55 0.00 35.76 6.13
66 69 5.500645 AAGACGGAAAAGGAAGACAAAAG 57.499 39.130 0.00 0.00 0.00 2.27
68 71 3.558418 CGAAGACGGAAAAGGAAGACAAA 59.442 43.478 0.00 0.00 35.72 2.83
71 74 2.752121 ACGAAGACGGAAAAGGAAGAC 58.248 47.619 0.00 0.00 44.46 3.01
73 76 3.391049 AGAACGAAGACGGAAAAGGAAG 58.609 45.455 0.00 0.00 44.46 3.46
433 489 8.829612 ACAATTTCTGAAAATTCACCAACATTC 58.170 29.630 6.95 0.00 41.96 2.67
434 490 8.735692 ACAATTTCTGAAAATTCACCAACATT 57.264 26.923 6.95 0.00 41.96 2.71
437 493 7.495606 AGGAACAATTTCTGAAAATTCACCAAC 59.504 33.333 18.65 7.93 41.96 3.77
439 495 7.123355 AGGAACAATTTCTGAAAATTCACCA 57.877 32.000 18.65 0.00 41.96 4.17
440 496 7.598869 GGTAGGAACAATTTCTGAAAATTCACC 59.401 37.037 18.65 15.74 41.96 4.02
441 497 8.141268 TGGTAGGAACAATTTCTGAAAATTCAC 58.859 33.333 18.65 12.62 41.96 3.18
442 498 8.243961 TGGTAGGAACAATTTCTGAAAATTCA 57.756 30.769 18.65 0.00 41.96 2.57
443 499 9.541143 TTTGGTAGGAACAATTTCTGAAAATTC 57.459 29.630 6.95 10.72 41.96 2.17
446 540 7.841956 TGTTTGGTAGGAACAATTTCTGAAAA 58.158 30.769 6.95 0.00 34.32 2.29
485 580 2.773993 TTTCTAGGGCCGACGAATTT 57.226 45.000 0.00 0.00 0.00 1.82
486 581 2.093128 ACATTTCTAGGGCCGACGAATT 60.093 45.455 0.00 0.00 0.00 2.17
652 757 9.685276 TTATGAACATACCTGAAATCATGAACT 57.315 29.630 0.00 0.00 31.36 3.01
745 850 1.621992 TTTTGCTGCATTACCGGGAA 58.378 45.000 0.00 0.00 0.00 3.97
748 853 2.261345 CACATTTTGCTGCATTACCGG 58.739 47.619 1.84 0.00 0.00 5.28
753 858 4.221262 ACCATAGACACATTTTGCTGCATT 59.779 37.500 1.84 0.00 0.00 3.56
782 887 7.042590 TGCAACAAGAAAACAAAGCATAATCTG 60.043 33.333 0.00 0.00 0.00 2.90
791 896 4.434067 CCGTGTTGCAACAAGAAAACAAAG 60.434 41.667 36.69 19.23 41.21 2.77
795 900 1.923864 CCCGTGTTGCAACAAGAAAAC 59.076 47.619 36.69 22.02 41.21 2.43
809 914 2.047002 ACTAGCAAAACAACCCGTGT 57.953 45.000 0.00 0.00 44.64 4.49
817 926 8.736244 GGTCCTGATATTTTTACTAGCAAAACA 58.264 33.333 0.12 0.00 0.00 2.83
834 943 1.112113 GAAGCACTCCGGTCCTGATA 58.888 55.000 0.00 0.00 0.00 2.15
839 948 2.432628 CACGAAGCACTCCGGTCC 60.433 66.667 0.00 0.00 0.00 4.46
840 949 1.733399 GACACGAAGCACTCCGGTC 60.733 63.158 0.00 0.00 0.00 4.79
858 967 7.889847 TATCCAAATGATAAATGCACACGTGTG 60.890 37.037 38.01 38.01 39.67 3.82
859 968 4.217334 TCCAAATGATAAATGCACACGTGT 59.783 37.500 17.22 17.22 0.00 4.49
860 969 4.731720 TCCAAATGATAAATGCACACGTG 58.268 39.130 15.48 15.48 0.00 4.49
861 970 5.581126 ATCCAAATGATAAATGCACACGT 57.419 34.783 0.00 0.00 0.00 4.49
862 971 6.493978 TGTATCCAAATGATAAATGCACACG 58.506 36.000 0.00 0.00 37.69 4.49
863 972 8.876275 AATGTATCCAAATGATAAATGCACAC 57.124 30.769 0.00 0.00 37.69 3.82
864 973 9.315525 CAAATGTATCCAAATGATAAATGCACA 57.684 29.630 0.00 0.00 37.69 4.57
865 974 9.316730 ACAAATGTATCCAAATGATAAATGCAC 57.683 29.630 0.00 0.00 37.69 4.57
866 975 9.531942 GACAAATGTATCCAAATGATAAATGCA 57.468 29.630 0.00 0.00 37.69 3.96
906 1015 5.261216 GGGTTTATTTCAGAACAGGATCCA 58.739 41.667 15.82 0.00 0.00 3.41
908 1017 5.510430 AGGGGTTTATTTCAGAACAGGATC 58.490 41.667 0.00 0.00 0.00 3.36
909 1018 5.510430 GAGGGGTTTATTTCAGAACAGGAT 58.490 41.667 0.00 0.00 0.00 3.24
910 1019 4.263771 GGAGGGGTTTATTTCAGAACAGGA 60.264 45.833 0.00 0.00 0.00 3.86
918 1027 2.619590 GGCTTCGGAGGGGTTTATTTCA 60.620 50.000 0.00 0.00 0.00 2.69
954 1063 0.336737 TCTTCAGGAGGGGAGAGGAC 59.663 60.000 0.00 0.00 0.00 3.85
955 1064 1.093408 TTCTTCAGGAGGGGAGAGGA 58.907 55.000 0.00 0.00 0.00 3.71
959 1068 1.135960 GGGATTCTTCAGGAGGGGAG 58.864 60.000 0.00 0.00 0.00 4.30
960 1069 0.327576 GGGGATTCTTCAGGAGGGGA 60.328 60.000 0.00 0.00 0.00 4.81
967 1076 3.950395 GTCAGATTTGGGGGATTCTTCAG 59.050 47.826 0.00 0.00 0.00 3.02
972 1081 1.680338 CGGTCAGATTTGGGGGATTC 58.320 55.000 0.00 0.00 0.00 2.52
1074 1191 2.670592 TCGCGGAAGAGGTCGTCA 60.671 61.111 6.13 0.00 0.00 4.35
1656 1817 0.320247 CATGCGGGTGCTCTATCTCC 60.320 60.000 0.00 0.00 43.34 3.71
1824 1985 3.713902 GGAATCCTCCGCACATGAT 57.286 52.632 0.00 0.00 30.03 2.45
2077 2244 6.533730 TCAGATGAACATAAAGGACAACACT 58.466 36.000 0.00 0.00 0.00 3.55
2117 2284 0.108186 TGCCTGCTCATACACCTTCG 60.108 55.000 0.00 0.00 0.00 3.79
2366 2587 4.938080 ACATTAGTTAGACGAGATGCAGG 58.062 43.478 0.00 0.00 0.00 4.85
2391 2619 3.916989 ACTTATTTTGGGACAGAGGGAGT 59.083 43.478 0.00 0.00 42.39 3.85
2392 2620 4.265073 CACTTATTTTGGGACAGAGGGAG 58.735 47.826 0.00 0.00 42.39 4.30
2393 2621 3.561313 GCACTTATTTTGGGACAGAGGGA 60.561 47.826 0.00 0.00 42.39 4.20
2394 2622 2.755103 GCACTTATTTTGGGACAGAGGG 59.245 50.000 0.00 0.00 42.39 4.30
2395 2623 2.755103 GGCACTTATTTTGGGACAGAGG 59.245 50.000 0.00 0.00 42.39 3.69
2396 2624 3.690460 AGGCACTTATTTTGGGACAGAG 58.310 45.455 0.00 0.00 33.92 3.35
2397 2625 3.073798 TGAGGCACTTATTTTGGGACAGA 59.926 43.478 0.00 0.00 41.55 3.41
2398 2626 3.420893 TGAGGCACTTATTTTGGGACAG 58.579 45.455 0.00 0.00 41.55 3.51
2399 2627 3.517296 TGAGGCACTTATTTTGGGACA 57.483 42.857 0.00 0.00 41.55 4.02
2400 2628 3.826729 AGTTGAGGCACTTATTTTGGGAC 59.173 43.478 0.00 0.00 41.55 4.46
2401 2629 4.112634 AGTTGAGGCACTTATTTTGGGA 57.887 40.909 0.00 0.00 41.55 4.37
2402 2630 4.871933 AAGTTGAGGCACTTATTTTGGG 57.128 40.909 0.00 0.00 41.55 4.12
2403 2631 5.600696 ACAAAGTTGAGGCACTTATTTTGG 58.399 37.500 0.00 0.00 41.55 3.28
2404 2632 7.425606 AGTACAAAGTTGAGGCACTTATTTTG 58.574 34.615 0.00 0.00 41.55 2.44
2405 2633 7.582667 AGTACAAAGTTGAGGCACTTATTTT 57.417 32.000 0.00 0.00 41.55 1.82
2406 2634 8.565416 GTTAGTACAAAGTTGAGGCACTTATTT 58.435 33.333 0.00 0.00 41.55 1.40
2407 2635 7.937394 AGTTAGTACAAAGTTGAGGCACTTATT 59.063 33.333 0.00 0.00 41.55 1.40
2408 2636 7.450903 AGTTAGTACAAAGTTGAGGCACTTAT 58.549 34.615 0.00 0.00 41.55 1.73
2409 2637 6.823497 AGTTAGTACAAAGTTGAGGCACTTA 58.177 36.000 0.00 0.00 41.55 2.24
2410 2638 5.681639 AGTTAGTACAAAGTTGAGGCACTT 58.318 37.500 0.00 0.00 41.55 3.16
2412 2640 6.373186 AAAGTTAGTACAAAGTTGAGGCAC 57.627 37.500 0.00 0.00 0.00 5.01
2413 2641 7.277396 ACTAAAGTTAGTACAAAGTTGAGGCA 58.723 34.615 1.81 0.00 41.92 4.75
2414 2642 7.725818 ACTAAAGTTAGTACAAAGTTGAGGC 57.274 36.000 1.81 0.00 41.92 4.70
2448 2676 9.729281 CCCAAAATAACTGTCTTAAGGTTAGTA 57.271 33.333 1.85 0.00 0.00 1.82
2449 2677 8.442374 TCCCAAAATAACTGTCTTAAGGTTAGT 58.558 33.333 1.85 2.32 0.00 2.24
2450 2678 8.727910 GTCCCAAAATAACTGTCTTAAGGTTAG 58.272 37.037 1.85 1.71 0.00 2.34
2451 2679 7.388500 CGTCCCAAAATAACTGTCTTAAGGTTA 59.612 37.037 1.85 4.14 0.00 2.85
2452 2680 6.206048 CGTCCCAAAATAACTGTCTTAAGGTT 59.794 38.462 1.85 1.91 0.00 3.50
2453 2681 5.704053 CGTCCCAAAATAACTGTCTTAAGGT 59.296 40.000 1.85 0.00 0.00 3.50
2454 2682 5.935789 TCGTCCCAAAATAACTGTCTTAAGG 59.064 40.000 1.85 0.00 0.00 2.69
2455 2683 7.360946 CCTTCGTCCCAAAATAACTGTCTTAAG 60.361 40.741 0.00 0.00 0.00 1.85
2456 2684 6.428771 CCTTCGTCCCAAAATAACTGTCTTAA 59.571 38.462 0.00 0.00 0.00 1.85
2457 2685 5.935789 CCTTCGTCCCAAAATAACTGTCTTA 59.064 40.000 0.00 0.00 0.00 2.10
2458 2686 4.760204 CCTTCGTCCCAAAATAACTGTCTT 59.240 41.667 0.00 0.00 0.00 3.01
2459 2687 4.324267 CCTTCGTCCCAAAATAACTGTCT 58.676 43.478 0.00 0.00 0.00 3.41
2460 2688 3.439129 CCCTTCGTCCCAAAATAACTGTC 59.561 47.826 0.00 0.00 0.00 3.51
2461 2689 3.073356 TCCCTTCGTCCCAAAATAACTGT 59.927 43.478 0.00 0.00 0.00 3.55
2462 2690 3.681593 TCCCTTCGTCCCAAAATAACTG 58.318 45.455 0.00 0.00 0.00 3.16
2463 2691 3.329814 ACTCCCTTCGTCCCAAAATAACT 59.670 43.478 0.00 0.00 0.00 2.24
2464 2692 3.682696 ACTCCCTTCGTCCCAAAATAAC 58.317 45.455 0.00 0.00 0.00 1.89
2465 2693 4.323715 GGTACTCCCTTCGTCCCAAAATAA 60.324 45.833 0.00 0.00 0.00 1.40
2466 2694 3.198417 GGTACTCCCTTCGTCCCAAAATA 59.802 47.826 0.00 0.00 0.00 1.40
2467 2695 2.026542 GGTACTCCCTTCGTCCCAAAAT 60.027 50.000 0.00 0.00 0.00 1.82
2468 2696 1.348696 GGTACTCCCTTCGTCCCAAAA 59.651 52.381 0.00 0.00 0.00 2.44
2469 2697 0.978907 GGTACTCCCTTCGTCCCAAA 59.021 55.000 0.00 0.00 0.00 3.28
2470 2698 0.178926 TGGTACTCCCTTCGTCCCAA 60.179 55.000 0.00 0.00 0.00 4.12
2471 2699 0.042131 ATGGTACTCCCTTCGTCCCA 59.958 55.000 0.00 0.00 0.00 4.37
2472 2700 0.464452 CATGGTACTCCCTTCGTCCC 59.536 60.000 0.00 0.00 0.00 4.46
2473 2701 1.192428 ACATGGTACTCCCTTCGTCC 58.808 55.000 0.00 0.00 0.00 4.79
2474 2702 3.446516 AGTAACATGGTACTCCCTTCGTC 59.553 47.826 17.95 0.00 27.56 4.20
2475 2703 3.194968 CAGTAACATGGTACTCCCTTCGT 59.805 47.826 20.73 0.00 31.78 3.85
2476 2704 3.194968 ACAGTAACATGGTACTCCCTTCG 59.805 47.826 20.73 10.88 31.78 3.79
2477 2705 4.020485 ACACAGTAACATGGTACTCCCTTC 60.020 45.833 20.73 0.00 31.78 3.46
2478 2706 3.908103 ACACAGTAACATGGTACTCCCTT 59.092 43.478 20.73 2.96 31.78 3.95
2479 2707 3.517612 ACACAGTAACATGGTACTCCCT 58.482 45.455 20.73 3.58 31.78 4.20
2480 2708 3.975168 ACACAGTAACATGGTACTCCC 57.025 47.619 20.73 0.00 31.78 4.30
2481 2709 6.461640 AGTAAACACAGTAACATGGTACTCC 58.538 40.000 20.73 3.45 31.78 3.85
2482 2710 6.589139 GGAGTAAACACAGTAACATGGTACTC 59.411 42.308 20.73 8.13 37.12 2.59
2483 2711 6.269307 AGGAGTAAACACAGTAACATGGTACT 59.731 38.462 17.95 17.95 34.56 2.73
2484 2712 6.461640 AGGAGTAAACACAGTAACATGGTAC 58.538 40.000 13.28 13.28 0.00 3.34
2485 2713 6.675413 AGGAGTAAACACAGTAACATGGTA 57.325 37.500 0.00 0.00 0.00 3.25
2519 2749 5.798132 AGTTGATTGCAGAGTAATGAGTGA 58.202 37.500 0.00 0.00 0.00 3.41
2520 2750 6.072838 ACAAGTTGATTGCAGAGTAATGAGTG 60.073 38.462 10.54 0.00 43.15 3.51
2521 2751 6.000219 ACAAGTTGATTGCAGAGTAATGAGT 59.000 36.000 10.54 0.00 43.15 3.41
2522 2752 6.072838 ACACAAGTTGATTGCAGAGTAATGAG 60.073 38.462 10.54 0.00 43.15 2.90
2613 2843 7.719633 ACAAACTCAGAACCAAGTACAACATAT 59.280 33.333 0.00 0.00 0.00 1.78
2614 2844 7.051623 ACAAACTCAGAACCAAGTACAACATA 58.948 34.615 0.00 0.00 0.00 2.29
2615 2845 5.885912 ACAAACTCAGAACCAAGTACAACAT 59.114 36.000 0.00 0.00 0.00 2.71
2848 3109 7.246674 TCATTGCCAGAGAATCGTTATAAAC 57.753 36.000 0.00 0.00 42.67 2.01
2850 3111 8.988934 GTAATCATTGCCAGAGAATCGTTATAA 58.011 33.333 0.00 0.00 42.67 0.98
2851 3112 8.367911 AGTAATCATTGCCAGAGAATCGTTATA 58.632 33.333 0.00 0.00 42.67 0.98
2965 3537 5.350365 CCAAAAAGCATACAGTTAGCTACGA 59.650 40.000 0.00 0.00 37.70 3.43
2995 3567 5.497474 GGAGACCAAGTATTAGCTTTTGGA 58.503 41.667 15.85 0.00 42.05 3.53
3054 3626 4.951715 TGCAGTATTTCAGGCTCATTTGAT 59.048 37.500 0.00 0.00 0.00 2.57
3061 3633 2.409948 AGGTGCAGTATTTCAGGCTC 57.590 50.000 0.00 0.00 0.00 4.70
3180 3752 4.347876 TCTTCAGATCCAAACTCTGGTCAA 59.652 41.667 0.87 0.00 46.51 3.18


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

AutoCloner maintained by Alex Coulton.