Multiple sequence alignment - TraesCS7B01G014400

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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 TraesCS7B01G014400 chr7B 100.000 3492 0 0 1 3492 10945562 10949053 0.000000e+00 6449.0
1 TraesCS7B01G014400 chr7B 99.142 583 5 0 2910 3492 745661680 745662262 0.000000e+00 1050.0
2 TraesCS7B01G014400 chr7B 75.157 1115 182 53 967 2013 7717620 7716533 1.490000e-118 436.0
3 TraesCS7B01G014400 chr7B 74.776 1118 189 51 967 2013 10559004 10560099 1.940000e-112 416.0
4 TraesCS7B01G014400 chr7B 78.803 618 101 14 909 1515 7560787 7560189 4.230000e-104 388.0
5 TraesCS7B01G014400 chr7B 75.000 832 131 41 809 1597 32898705 32897908 2.620000e-81 313.0
6 TraesCS7B01G014400 chr7B 79.634 437 71 12 1009 1432 16826364 16826795 7.330000e-77 298.0
7 TraesCS7B01G014400 chr7B 80.311 386 71 5 1009 1392 16732345 16732727 1.590000e-73 287.0
8 TraesCS7B01G014400 chr7B 75.530 519 93 18 1056 1563 10916956 10917451 1.260000e-54 224.0
9 TraesCS7B01G014400 chr7B 89.032 155 11 3 1472 1620 8448140 8447986 1.650000e-43 187.0
10 TraesCS7B01G014400 chr7B 75.355 422 68 21 1186 1598 10061186 10061580 1.670000e-38 171.0
11 TraesCS7B01G014400 chr7B 89.076 119 6 1 2562 2680 7730560 7730449 1.310000e-29 141.0
12 TraesCS7B01G014400 chr7B 84.722 144 14 2 2538 2680 10560640 10560776 1.690000e-28 137.0
13 TraesCS7B01G014400 chr7B 82.353 119 18 3 481 598 103508694 103508810 2.220000e-17 100.0
14 TraesCS7B01G014400 chr7B 78.151 119 18 4 1905 2016 29828935 29828818 6.250000e-08 69.4
15 TraesCS7B01G014400 chr7B 85.484 62 7 2 1905 1965 31447092 31447032 2.910000e-06 63.9
16 TraesCS7B01G014400 chr7B 100.000 29 0 0 877 905 10067524 10067552 2.000000e-03 54.7
17 TraesCS7B01G014400 chr7A 92.618 1463 50 25 737 2156 74883215 74884662 0.000000e+00 2050.0
18 TraesCS7B01G014400 chr7A 92.715 755 39 8 2161 2909 74884977 74885721 0.000000e+00 1075.0
19 TraesCS7B01G014400 chr7A 75.975 1128 183 49 951 2013 70889938 70888834 5.200000e-138 501.0
20 TraesCS7B01G014400 chr7A 76.226 1060 177 42 1002 2013 74642584 74643616 3.130000e-135 492.0
21 TraesCS7B01G014400 chr7A 78.428 598 116 9 1028 1620 70238031 70237442 9.150000e-101 377.0
22 TraesCS7B01G014400 chr7A 77.670 618 102 20 1023 1613 74592489 74593097 9.280000e-91 344.0
23 TraesCS7B01G014400 chr7A 79.167 432 77 9 1012 1432 78080684 78080255 1.590000e-73 287.0
24 TraesCS7B01G014400 chr7A 75.567 397 64 17 1638 2021 74593165 74593541 7.750000e-37 165.0
25 TraesCS7B01G014400 chr7A 73.961 457 97 17 1023 1471 634363170 634362728 7.750000e-37 165.0
26 TraesCS7B01G014400 chr7A 82.902 193 20 6 2489 2680 70888379 70888199 1.000000e-35 161.0
27 TraesCS7B01G014400 chr7A 85.000 140 13 2 2538 2676 74644131 74644263 6.080000e-28 135.0
28 TraesCS7B01G014400 chr7A 88.182 110 7 3 2233 2342 74643940 74644043 3.660000e-25 126.0
29 TraesCS7B01G014400 chr7A 87.952 83 8 2 34 115 138010162 138010243 2.870000e-16 97.1
30 TraesCS7B01G014400 chr7A 100.000 32 0 0 2456 2487 74885316 74885347 3.760000e-05 60.2
31 TraesCS7B01G014400 chr7D 93.552 853 31 14 737 1577 69055170 69056010 0.000000e+00 1249.0
32 TraesCS7B01G014400 chr7D 89.123 855 39 21 2068 2909 69056668 69057481 0.000000e+00 1014.0
33 TraesCS7B01G014400 chr7D 80.119 1011 137 31 1029 2020 66508450 66507485 0.000000e+00 695.0
34 TraesCS7B01G014400 chr7D 79.843 1017 141 31 1023 2020 68928631 68929602 0.000000e+00 684.0
35 TraesCS7B01G014400 chr7D 91.164 464 29 10 1695 2156 69056086 69056539 1.380000e-173 619.0
36 TraesCS7B01G014400 chr7D 76.294 1101 177 51 971 2013 66416502 66415428 8.650000e-141 510.0
37 TraesCS7B01G014400 chr7D 78.582 691 108 18 932 1618 66367425 66366771 1.500000e-113 420.0
38 TraesCS7B01G014400 chr7D 74.838 1077 188 51 996 2021 68901909 68902953 9.020000e-111 411.0
39 TraesCS7B01G014400 chr7D 77.840 713 125 20 927 1618 85345206 85345906 9.020000e-111 411.0
40 TraesCS7B01G014400 chr7D 82.588 425 53 10 34 438 80301010 80300587 4.290000e-94 355.0
41 TraesCS7B01G014400 chr7D 76.512 711 114 34 930 1620 66548123 66547446 4.320000e-89 339.0
42 TraesCS7B01G014400 chr7D 83.030 330 50 3 1687 2013 68984244 68984570 9.480000e-76 294.0
43 TraesCS7B01G014400 chr7D 79.847 392 68 8 1009 1392 73612766 73612378 3.430000e-70 276.0
44 TraesCS7B01G014400 chr7D 74.629 607 108 25 1012 1607 65814575 65814004 3.510000e-55 226.0
45 TraesCS7B01G014400 chr7D 74.742 582 100 25 1029 1588 548818607 548818051 2.110000e-52 217.0
46 TraesCS7B01G014400 chr7D 78.233 317 56 8 951 1256 68897520 68897834 1.280000e-44 191.0
47 TraesCS7B01G014400 chr7D 76.108 406 72 17 925 1313 44560294 44559897 4.600000e-44 189.0
48 TraesCS7B01G014400 chr7D 78.723 282 45 9 1346 1618 85281832 85282107 1.290000e-39 174.0
49 TraesCS7B01G014400 chr7D 80.804 224 35 4 1021 1237 65903130 65902908 5.990000e-38 169.0
50 TraesCS7B01G014400 chr7D 87.143 140 10 3 2538 2676 66413257 66413125 6.040000e-33 152.0
51 TraesCS7B01G014400 chr7D 93.548 93 4 2 903 995 66376043 66375953 1.690000e-28 137.0
52 TraesCS7B01G014400 chr7D 86.555 119 14 2 2562 2680 68930311 68930427 2.830000e-26 130.0
53 TraesCS7B01G014400 chr7D 86.777 121 8 2 2538 2657 68984957 68985070 1.020000e-25 128.0
54 TraesCS7B01G014400 chr7D 77.533 227 31 7 47 254 126279603 126279828 6.120000e-23 119.0
55 TraesCS7B01G014400 chr7D 91.304 69 3 3 925 992 69012874 69012940 1.330000e-14 91.6
56 TraesCS7B01G014400 chr7D 84.706 85 11 2 34 118 36858816 36858734 2.230000e-12 84.2
57 TraesCS7B01G014400 chr7D 100.000 32 0 0 2456 2487 69057077 69057108 3.760000e-05 60.2
58 TraesCS7B01G014400 chr7D 100.000 29 0 0 877 905 68901800 68901828 2.000000e-03 54.7
59 TraesCS7B01G014400 chr2B 99.829 584 1 0 2909 3492 767147797 767147214 0.000000e+00 1074.0
60 TraesCS7B01G014400 chr2B 99.314 583 4 0 2910 3492 763649403 763648821 0.000000e+00 1055.0
61 TraesCS7B01G014400 chr2B 78.332 1163 164 52 928 2020 135794840 135795984 0.000000e+00 671.0
62 TraesCS7B01G014400 chr2B 75.514 584 94 26 28 600 121119063 121119608 1.250000e-59 241.0
63 TraesCS7B01G014400 chr2B 89.855 69 5 1 2046 2114 135797102 135797168 1.730000e-13 87.9
64 TraesCS7B01G014400 chr4A 99.828 583 1 0 2910 3492 646244857 646245439 0.000000e+00 1072.0
65 TraesCS7B01G014400 chr4A 99.828 583 1 0 2910 3492 707449490 707450072 0.000000e+00 1072.0
66 TraesCS7B01G014400 chr2A 99.657 583 2 0 2910 3492 29901357 29901939 0.000000e+00 1066.0
67 TraesCS7B01G014400 chr2A 77.990 1154 164 47 928 2020 84749010 84750134 2.940000e-180 641.0
68 TraesCS7B01G014400 chr2A 77.963 599 101 17 34 604 16980512 16979917 2.580000e-91 346.0
69 TraesCS7B01G014400 chr2A 89.855 69 5 1 2046 2114 84751215 84751281 1.730000e-13 87.9
70 TraesCS7B01G014400 chr2A 86.957 69 6 2 2046 2114 84750889 84750954 1.340000e-09 75.0
71 TraesCS7B01G014400 chr2A 91.667 48 4 0 358 405 729642877 729642924 2.250000e-07 67.6
72 TraesCS7B01G014400 chr3B 99.485 583 3 0 2910 3492 759247185 759246603 0.000000e+00 1061.0
73 TraesCS7B01G014400 chr1A 99.316 585 4 0 2908 3492 567725584 567726168 0.000000e+00 1059.0
74 TraesCS7B01G014400 chr1A 79.412 136 26 2 464 598 9102069 9101935 1.030000e-15 95.3
75 TraesCS7B01G014400 chr3A 99.314 583 4 0 2910 3492 728697639 728698221 0.000000e+00 1055.0
76 TraesCS7B01G014400 chr3A 80.000 180 26 7 34 205 61231479 61231302 1.320000e-24 124.0
77 TraesCS7B01G014400 chr2D 77.396 553 81 23 34 576 14820468 14819950 4.410000e-74 289.0
78 TraesCS7B01G014400 chrUn 76.013 617 107 25 994 1597 305654430 305655018 7.380000e-72 281.0
79 TraesCS7B01G014400 chrUn 75.923 623 109 25 994 1603 308151889 308151295 7.380000e-72 281.0
80 TraesCS7B01G014400 chrUn 75.923 623 109 25 994 1603 308155997 308155403 7.380000e-72 281.0
81 TraesCS7B01G014400 chrUn 74.766 535 86 29 34 556 36523398 36522901 9.890000e-46 195.0
82 TraesCS7B01G014400 chrUn 80.147 136 19 8 467 598 384678727 384678596 1.030000e-15 95.3
83 TraesCS7B01G014400 chrUn 85.526 76 9 2 34 108 79759089 79759163 1.040000e-10 78.7
84 TraesCS7B01G014400 chr4D 76.098 569 107 19 42 596 421217028 421217581 1.600000e-68 270.0
85 TraesCS7B01G014400 chr4D 87.059 85 9 2 34 118 442179315 442179233 1.030000e-15 95.3
86 TraesCS7B01G014400 chr4D 97.222 36 1 0 42 77 455310002 455310037 1.050000e-05 62.1
87 TraesCS7B01G014400 chr5B 86.705 173 16 4 1953 2118 616512447 616512619 5.950000e-43 185.0
88 TraesCS7B01G014400 chr5B 86.364 154 21 0 260 413 441119129 441118976 5.990000e-38 169.0
89 TraesCS7B01G014400 chr5B 91.071 112 8 2 2161 2272 616512812 616512921 2.170000e-32 150.0
90 TraesCS7B01G014400 chr5B 97.561 41 1 0 2271 2311 616513004 616513044 1.740000e-08 71.3
91 TraesCS7B01G014400 chr6B 85.326 184 19 6 1947 2122 30979980 30980163 2.140000e-42 183.0
92 TraesCS7B01G014400 chr6B 80.576 139 19 8 464 598 111350786 111350920 2.220000e-17 100.0
93 TraesCS7B01G014400 chr6B 80.576 139 19 8 464 598 111454987 111455121 2.220000e-17 100.0
94 TraesCS7B01G014400 chr6B 79.856 139 20 8 464 598 111218481 111218615 1.030000e-15 95.3
95 TraesCS7B01G014400 chr6B 79.856 139 20 8 464 598 111399433 111399567 1.030000e-15 95.3
96 TraesCS7B01G014400 chr6B 79.856 139 20 8 464 598 111477317 111477451 1.030000e-15 95.3
97 TraesCS7B01G014400 chr1B 90.370 135 12 1 463 596 319133764 319133898 3.580000e-40 176.0
98 TraesCS7B01G014400 chr1B 80.420 143 25 3 458 598 9873145 9873286 4.770000e-19 106.0
99 TraesCS7B01G014400 chr1B 95.385 65 3 0 2051 2115 567661447 567661511 1.710000e-18 104.0
100 TraesCS7B01G014400 chr1B 85.185 81 9 3 38 118 531187404 531187327 2.890000e-11 80.5
101 TraesCS7B01G014400 chr1B 92.000 50 4 0 356 405 57073538 57073587 1.740000e-08 71.3
102 TraesCS7B01G014400 chr1B 100.000 32 0 0 2142 2173 567661496 567661527 3.760000e-05 60.2
103 TraesCS7B01G014400 chr1D 73.884 448 94 14 163 598 335072086 335072522 1.300000e-34 158.0
104 TraesCS7B01G014400 chr1D 85.135 74 7 3 34 105 483067072 483067143 4.830000e-09 73.1
105 TraesCS7B01G014400 chr1D 90.909 44 3 1 34 77 469124017 469124059 1.350000e-04 58.4
106 TraesCS7B01G014400 chr4B 72.125 574 119 32 43 596 582742546 582741994 6.080000e-28 135.0
107 TraesCS7B01G014400 chr4B 88.312 77 9 0 522 598 449563256 449563332 3.710000e-15 93.5
108 TraesCS7B01G014400 chr5A 79.444 180 28 6 34 205 385953722 385953544 6.120000e-23 119.0
109 TraesCS7B01G014400 chr5A 83.582 67 10 1 340 405 584707826 584707892 1.050000e-05 62.1
110 TraesCS7B01G014400 chr5A 91.111 45 4 0 358 402 689415426 689415470 1.050000e-05 62.1
111 TraesCS7B01G014400 chr3D 86.585 82 9 2 34 115 532109290 532109369 4.800000e-14 89.8
112 TraesCS7B01G014400 chr6A 89.706 68 6 1 42 108 171788394 171788327 6.210000e-13 86.1
113 TraesCS7B01G014400 chr6A 86.486 74 10 0 42 115 60540205 60540278 8.030000e-12 82.4
114 TraesCS7B01G014400 chr5D 88.889 63 7 0 343 405 23300479 23300417 1.040000e-10 78.7


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 TraesCS7B01G014400 chr7B 10945562 10949053 3491 False 6449.000000 6449 100.00000 1 3492 1 chr7B.!!$F4 3491
1 TraesCS7B01G014400 chr7B 745661680 745662262 582 False 1050.000000 1050 99.14200 2910 3492 1 chr7B.!!$F8 582
2 TraesCS7B01G014400 chr7B 7716533 7717620 1087 True 436.000000 436 75.15700 967 2013 1 chr7B.!!$R2 1046
3 TraesCS7B01G014400 chr7B 7560189 7560787 598 True 388.000000 388 78.80300 909 1515 1 chr7B.!!$R1 606
4 TraesCS7B01G014400 chr7B 32897908 32898705 797 True 313.000000 313 75.00000 809 1597 1 chr7B.!!$R7 788
5 TraesCS7B01G014400 chr7B 10559004 10560776 1772 False 276.500000 416 79.74900 967 2680 2 chr7B.!!$F9 1713
6 TraesCS7B01G014400 chr7A 74883215 74885721 2506 False 1061.733333 2050 95.11100 737 2909 3 chr7A.!!$F4 2172
7 TraesCS7B01G014400 chr7A 70237442 70238031 589 True 377.000000 377 78.42800 1028 1620 1 chr7A.!!$R1 592
8 TraesCS7B01G014400 chr7A 70888199 70889938 1739 True 331.000000 501 79.43850 951 2680 2 chr7A.!!$R4 1729
9 TraesCS7B01G014400 chr7A 74592489 74593541 1052 False 254.500000 344 76.61850 1023 2021 2 chr7A.!!$F2 998
10 TraesCS7B01G014400 chr7A 74642584 74644263 1679 False 251.000000 492 83.13600 1002 2676 3 chr7A.!!$F3 1674
11 TraesCS7B01G014400 chr7D 69055170 69057481 2311 False 735.550000 1249 93.45975 737 2909 4 chr7D.!!$F8 2172
12 TraesCS7B01G014400 chr7D 66507485 66508450 965 True 695.000000 695 80.11900 1029 2020 1 chr7D.!!$R7 991
13 TraesCS7B01G014400 chr7D 66366771 66367425 654 True 420.000000 420 78.58200 932 1618 1 chr7D.!!$R5 686
14 TraesCS7B01G014400 chr7D 85345206 85345906 700 False 411.000000 411 77.84000 927 1618 1 chr7D.!!$F3 691
15 TraesCS7B01G014400 chr7D 68928631 68930427 1796 False 407.000000 684 83.19900 1023 2680 2 chr7D.!!$F6 1657
16 TraesCS7B01G014400 chr7D 66547446 66548123 677 True 339.000000 339 76.51200 930 1620 1 chr7D.!!$R8 690
17 TraesCS7B01G014400 chr7D 66413125 66416502 3377 True 331.000000 510 81.71850 971 2676 2 chr7D.!!$R12 1705
18 TraesCS7B01G014400 chr7D 65814004 65814575 571 True 226.000000 226 74.62900 1012 1607 1 chr7D.!!$R3 595
19 TraesCS7B01G014400 chr7D 68897520 68902953 5433 False 218.900000 411 84.35700 877 2021 3 chr7D.!!$F5 1144
20 TraesCS7B01G014400 chr7D 548818051 548818607 556 True 217.000000 217 74.74200 1029 1588 1 chr7D.!!$R11 559
21 TraesCS7B01G014400 chr7D 68984244 68985070 826 False 211.000000 294 84.90350 1687 2657 2 chr7D.!!$F7 970
22 TraesCS7B01G014400 chr2B 767147214 767147797 583 True 1074.000000 1074 99.82900 2909 3492 1 chr2B.!!$R2 583
23 TraesCS7B01G014400 chr2B 763648821 763649403 582 True 1055.000000 1055 99.31400 2910 3492 1 chr2B.!!$R1 582
24 TraesCS7B01G014400 chr2B 135794840 135797168 2328 False 379.450000 671 84.09350 928 2114 2 chr2B.!!$F2 1186
25 TraesCS7B01G014400 chr2B 121119063 121119608 545 False 241.000000 241 75.51400 28 600 1 chr2B.!!$F1 572
26 TraesCS7B01G014400 chr4A 646244857 646245439 582 False 1072.000000 1072 99.82800 2910 3492 1 chr4A.!!$F1 582
27 TraesCS7B01G014400 chr4A 707449490 707450072 582 False 1072.000000 1072 99.82800 2910 3492 1 chr4A.!!$F2 582
28 TraesCS7B01G014400 chr2A 29901357 29901939 582 False 1066.000000 1066 99.65700 2910 3492 1 chr2A.!!$F1 582
29 TraesCS7B01G014400 chr2A 16979917 16980512 595 True 346.000000 346 77.96300 34 604 1 chr2A.!!$R1 570
30 TraesCS7B01G014400 chr2A 84749010 84751281 2271 False 267.966667 641 84.93400 928 2114 3 chr2A.!!$F3 1186
31 TraesCS7B01G014400 chr3B 759246603 759247185 582 True 1061.000000 1061 99.48500 2910 3492 1 chr3B.!!$R1 582
32 TraesCS7B01G014400 chr1A 567725584 567726168 584 False 1059.000000 1059 99.31600 2908 3492 1 chr1A.!!$F1 584
33 TraesCS7B01G014400 chr3A 728697639 728698221 582 False 1055.000000 1055 99.31400 2910 3492 1 chr3A.!!$F1 582
34 TraesCS7B01G014400 chr2D 14819950 14820468 518 True 289.000000 289 77.39600 34 576 1 chr2D.!!$R1 542
35 TraesCS7B01G014400 chrUn 305654430 305655018 588 False 281.000000 281 76.01300 994 1597 1 chrUn.!!$F2 603
36 TraesCS7B01G014400 chrUn 308151295 308155997 4702 True 281.000000 281 75.92300 994 1603 2 chrUn.!!$R3 609
37 TraesCS7B01G014400 chr4D 421217028 421217581 553 False 270.000000 270 76.09800 42 596 1 chr4D.!!$F1 554

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
695 749 0.173708 GGGAACAGATCGAGAAGCGT 59.826 55.0 0.0 0.0 41.8 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2636 14097 0.5966 GAACTGTGAAGCGACGGTCA 60.597 55.0 9.1 0.0 34.18 4.02 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
19 20 0.890683 ACAATGGCAACCTAGCTTGC 59.109 50.000 13.41 13.41 45.01 4.01
25 26 1.783284 GCAACCTAGCTTGCAAAACC 58.217 50.000 16.29 0.00 45.07 3.27
26 27 1.341209 GCAACCTAGCTTGCAAAACCT 59.659 47.619 16.29 0.00 45.07 3.50
27 28 2.608016 GCAACCTAGCTTGCAAAACCTC 60.608 50.000 16.29 0.00 45.07 3.85
28 29 2.622942 CAACCTAGCTTGCAAAACCTCA 59.377 45.455 0.00 0.00 0.00 3.86
29 30 2.944129 ACCTAGCTTGCAAAACCTCAA 58.056 42.857 0.00 0.00 0.00 3.02
30 31 3.295973 ACCTAGCTTGCAAAACCTCAAA 58.704 40.909 0.00 0.00 0.00 2.69
31 32 3.319122 ACCTAGCTTGCAAAACCTCAAAG 59.681 43.478 0.00 0.00 0.00 2.77
32 33 2.896745 AGCTTGCAAAACCTCAAAGG 57.103 45.000 0.00 0.00 42.49 3.11
33 34 1.202568 AGCTTGCAAAACCTCAAAGGC 60.203 47.619 0.00 0.00 39.63 4.35
34 35 1.202568 GCTTGCAAAACCTCAAAGGCT 60.203 47.619 0.00 0.00 39.63 4.58
35 36 2.747436 CTTGCAAAACCTCAAAGGCTC 58.253 47.619 0.00 0.00 39.63 4.70
36 37 1.774110 TGCAAAACCTCAAAGGCTCA 58.226 45.000 0.00 0.00 39.63 4.26
37 38 2.106566 TGCAAAACCTCAAAGGCTCAA 58.893 42.857 0.00 0.00 39.63 3.02
38 39 2.101249 TGCAAAACCTCAAAGGCTCAAG 59.899 45.455 0.00 0.00 39.63 3.02
39 40 2.362077 GCAAAACCTCAAAGGCTCAAGA 59.638 45.455 0.00 0.00 39.63 3.02
95 96 1.308069 ATCGCAACGGAGCTTGCATT 61.308 50.000 8.72 0.00 41.88 3.56
111 112 4.285807 TGCATTAACGGAAATCATTCGG 57.714 40.909 0.00 0.00 40.60 4.30
115 116 5.679792 GCATTAACGGAAATCATTCGGTAAC 59.320 40.000 0.00 0.00 45.20 2.50
118 119 3.184541 ACGGAAATCATTCGGTAACTCG 58.815 45.455 0.63 0.00 44.43 4.18
120 129 3.528532 GGAAATCATTCGGTAACTCGGT 58.471 45.455 0.00 0.00 36.36 4.69
122 131 3.880047 AATCATTCGGTAACTCGGTGA 57.120 42.857 0.00 0.00 32.92 4.02
137 146 4.202264 ACTCGGTGACAGAAAAAGACTCAT 60.202 41.667 0.00 0.00 0.00 2.90
141 150 4.058817 GTGACAGAAAAAGACTCATCGGT 58.941 43.478 0.00 0.00 0.00 4.69
170 182 3.735029 GAGCGGTGACTCGACGGT 61.735 66.667 0.00 0.00 41.36 4.83
174 186 2.732658 GGTGACTCGACGGTGGTT 59.267 61.111 0.00 0.00 0.00 3.67
178 190 0.677288 TGACTCGACGGTGGTTGATT 59.323 50.000 0.00 0.00 36.00 2.57
271 294 3.353836 CCAGCGGTGTGTTTCCGG 61.354 66.667 14.40 0.00 46.90 5.14
284 307 1.628238 TTTCCGGTGGCGGATATGGT 61.628 55.000 0.00 0.00 37.93 3.55
302 345 4.865761 CGGAATCGAAGGCGGCGA 62.866 66.667 12.98 7.16 42.48 5.54
348 391 2.037238 GGGATGGGGGAGGGGAAT 60.037 66.667 0.00 0.00 0.00 3.01
360 403 2.270850 GGGAATGCGTGTGGGCTA 59.729 61.111 0.00 0.00 0.00 3.93
420 464 3.743636 CGGCGGGGCGTGAAAAAT 61.744 61.111 6.46 0.00 0.00 1.82
425 469 1.215382 GGGGCGTGAAAAATCCTGC 59.785 57.895 0.00 0.00 0.00 4.85
426 470 1.250840 GGGGCGTGAAAAATCCTGCT 61.251 55.000 0.00 0.00 0.00 4.24
445 494 3.680920 TTTTTGTGGGTGGCGGGGT 62.681 57.895 0.00 0.00 0.00 4.95
476 525 0.395173 AATTAACCGCGCCCCTCAAT 60.395 50.000 0.00 0.00 0.00 2.57
546 600 7.763172 TTTTCGTGCAAAATTGTAAACTGAT 57.237 28.000 0.00 0.00 0.00 2.90
576 630 1.767289 CAGTTCGGCGCGATATAAGT 58.233 50.000 12.10 0.00 35.23 2.24
601 655 5.475220 GGTCTGCTAGAGATGCTCTTATACA 59.525 44.000 1.88 0.00 41.50 2.29
604 658 7.389330 GTCTGCTAGAGATGCTCTTATACACTA 59.611 40.741 1.88 0.00 41.50 2.74
605 659 7.389330 TCTGCTAGAGATGCTCTTATACACTAC 59.611 40.741 1.88 0.00 41.50 2.73
606 660 6.998673 TGCTAGAGATGCTCTTATACACTACA 59.001 38.462 1.88 0.00 41.50 2.74
607 661 7.667635 TGCTAGAGATGCTCTTATACACTACAT 59.332 37.037 1.88 0.00 41.50 2.29
608 662 9.168451 GCTAGAGATGCTCTTATACACTACATA 57.832 37.037 1.88 0.00 41.50 2.29
610 664 8.574251 AGAGATGCTCTTATACACTACATAGG 57.426 38.462 0.00 0.00 37.60 2.57
611 665 7.122055 AGAGATGCTCTTATACACTACATAGGC 59.878 40.741 0.00 0.00 37.60 3.93
612 666 6.721668 AGATGCTCTTATACACTACATAGGCA 59.278 38.462 0.00 0.00 0.00 4.75
613 667 6.918067 TGCTCTTATACACTACATAGGCAT 57.082 37.500 0.00 0.00 0.00 4.40
614 668 6.691508 TGCTCTTATACACTACATAGGCATG 58.308 40.000 0.00 0.00 38.21 4.06
615 669 6.493458 TGCTCTTATACACTACATAGGCATGA 59.507 38.462 0.00 0.00 35.96 3.07
616 670 7.015195 TGCTCTTATACACTACATAGGCATGAA 59.985 37.037 0.00 0.00 35.96 2.57
617 671 7.543868 GCTCTTATACACTACATAGGCATGAAG 59.456 40.741 0.00 0.00 35.96 3.02
618 672 7.378966 TCTTATACACTACATAGGCATGAAGC 58.621 38.462 0.00 0.00 44.65 3.86
652 706 9.900710 TTTTTATATTGCATTGTACGAGTGTTT 57.099 25.926 0.00 0.00 0.00 2.83
653 707 9.900710 TTTTATATTGCATTGTACGAGTGTTTT 57.099 25.926 0.00 0.00 0.00 2.43
656 710 4.398549 TGCATTGTACGAGTGTTTTAGC 57.601 40.909 0.00 0.00 0.00 3.09
657 711 3.810386 TGCATTGTACGAGTGTTTTAGCA 59.190 39.130 0.00 0.00 0.00 3.49
658 712 4.084066 TGCATTGTACGAGTGTTTTAGCAG 60.084 41.667 0.00 0.00 0.00 4.24
659 713 4.084013 GCATTGTACGAGTGTTTTAGCAGT 60.084 41.667 0.00 0.00 0.00 4.40
660 714 5.374080 CATTGTACGAGTGTTTTAGCAGTG 58.626 41.667 0.00 0.00 0.00 3.66
661 715 4.049546 TGTACGAGTGTTTTAGCAGTGT 57.950 40.909 0.00 0.00 0.00 3.55
662 716 4.435425 TGTACGAGTGTTTTAGCAGTGTT 58.565 39.130 0.00 0.00 0.00 3.32
663 717 3.944422 ACGAGTGTTTTAGCAGTGTTG 57.056 42.857 0.00 0.00 0.00 3.33
664 718 3.267483 ACGAGTGTTTTAGCAGTGTTGT 58.733 40.909 0.00 0.00 0.00 3.32
665 719 3.063452 ACGAGTGTTTTAGCAGTGTTGTG 59.937 43.478 0.00 0.00 0.00 3.33
666 720 3.063452 CGAGTGTTTTAGCAGTGTTGTGT 59.937 43.478 0.00 0.00 0.00 3.72
667 721 4.436852 CGAGTGTTTTAGCAGTGTTGTGTT 60.437 41.667 0.00 0.00 0.00 3.32
668 722 5.385509 AGTGTTTTAGCAGTGTTGTGTTT 57.614 34.783 0.00 0.00 0.00 2.83
669 723 5.778862 AGTGTTTTAGCAGTGTTGTGTTTT 58.221 33.333 0.00 0.00 0.00 2.43
670 724 6.915349 AGTGTTTTAGCAGTGTTGTGTTTTA 58.085 32.000 0.00 0.00 0.00 1.52
671 725 7.543756 AGTGTTTTAGCAGTGTTGTGTTTTAT 58.456 30.769 0.00 0.00 0.00 1.40
672 726 8.032451 AGTGTTTTAGCAGTGTTGTGTTTTATT 58.968 29.630 0.00 0.00 0.00 1.40
673 727 8.652463 GTGTTTTAGCAGTGTTGTGTTTTATTT 58.348 29.630 0.00 0.00 0.00 1.40
674 728 8.651588 TGTTTTAGCAGTGTTGTGTTTTATTTG 58.348 29.630 0.00 0.00 0.00 2.32
675 729 8.865001 GTTTTAGCAGTGTTGTGTTTTATTTGA 58.135 29.630 0.00 0.00 0.00 2.69
676 730 8.627487 TTTAGCAGTGTTGTGTTTTATTTGAG 57.373 30.769 0.00 0.00 0.00 3.02
677 731 5.591099 AGCAGTGTTGTGTTTTATTTGAGG 58.409 37.500 0.00 0.00 0.00 3.86
678 732 4.744631 GCAGTGTTGTGTTTTATTTGAGGG 59.255 41.667 0.00 0.00 0.00 4.30
679 733 5.451242 GCAGTGTTGTGTTTTATTTGAGGGA 60.451 40.000 0.00 0.00 0.00 4.20
680 734 6.568869 CAGTGTTGTGTTTTATTTGAGGGAA 58.431 36.000 0.00 0.00 0.00 3.97
681 735 6.475402 CAGTGTTGTGTTTTATTTGAGGGAAC 59.525 38.462 0.00 0.00 0.00 3.62
682 736 6.153680 AGTGTTGTGTTTTATTTGAGGGAACA 59.846 34.615 0.00 0.00 0.00 3.18
683 737 6.475402 GTGTTGTGTTTTATTTGAGGGAACAG 59.525 38.462 0.00 0.00 31.58 3.16
684 738 6.378564 TGTTGTGTTTTATTTGAGGGAACAGA 59.621 34.615 0.00 0.00 31.58 3.41
685 739 7.069331 TGTTGTGTTTTATTTGAGGGAACAGAT 59.931 33.333 0.00 0.00 31.58 2.90
686 740 7.214467 TGTGTTTTATTTGAGGGAACAGATC 57.786 36.000 0.00 0.00 31.58 2.75
687 741 6.072728 TGTGTTTTATTTGAGGGAACAGATCG 60.073 38.462 0.00 0.00 31.58 3.69
688 742 6.148811 GTGTTTTATTTGAGGGAACAGATCGA 59.851 38.462 0.00 0.00 31.58 3.59
689 743 6.371548 TGTTTTATTTGAGGGAACAGATCGAG 59.628 38.462 0.00 0.00 0.00 4.04
690 744 5.932619 TTATTTGAGGGAACAGATCGAGA 57.067 39.130 0.00 0.00 0.00 4.04
691 745 4.826274 ATTTGAGGGAACAGATCGAGAA 57.174 40.909 0.00 0.00 0.00 2.87
692 746 3.876274 TTGAGGGAACAGATCGAGAAG 57.124 47.619 0.00 0.00 0.00 2.85
693 747 1.478510 TGAGGGAACAGATCGAGAAGC 59.521 52.381 0.00 0.00 0.00 3.86
694 748 0.457851 AGGGAACAGATCGAGAAGCG 59.542 55.000 0.00 0.00 42.69 4.68
695 749 0.173708 GGGAACAGATCGAGAAGCGT 59.826 55.000 0.00 0.00 41.80 5.07
696 750 1.404315 GGGAACAGATCGAGAAGCGTT 60.404 52.381 0.00 0.00 41.80 4.84
697 751 1.656095 GGAACAGATCGAGAAGCGTTG 59.344 52.381 0.00 0.00 41.80 4.10
698 752 2.329379 GAACAGATCGAGAAGCGTTGT 58.671 47.619 0.00 0.00 41.80 3.32
699 753 1.702886 ACAGATCGAGAAGCGTTGTG 58.297 50.000 0.00 0.00 41.80 3.33
700 754 1.000163 ACAGATCGAGAAGCGTTGTGT 60.000 47.619 0.00 0.00 40.16 3.72
701 755 2.061773 CAGATCGAGAAGCGTTGTGTT 58.938 47.619 0.00 0.00 41.80 3.32
702 756 2.476619 CAGATCGAGAAGCGTTGTGTTT 59.523 45.455 0.00 0.00 41.80 2.83
703 757 3.059597 CAGATCGAGAAGCGTTGTGTTTT 60.060 43.478 0.00 0.00 41.80 2.43
704 758 3.560068 AGATCGAGAAGCGTTGTGTTTTT 59.440 39.130 0.00 0.00 41.80 1.94
763 817 4.014847 TGTTTGAGACAAAGAAGCGTTG 57.985 40.909 0.00 0.00 34.69 4.10
764 818 3.438781 TGTTTGAGACAAAGAAGCGTTGT 59.561 39.130 0.00 0.00 41.84 3.32
765 819 3.673746 TTGAGACAAAGAAGCGTTGTG 57.326 42.857 3.60 0.00 39.29 3.33
766 820 2.627945 TGAGACAAAGAAGCGTTGTGT 58.372 42.857 3.60 0.00 39.29 3.72
768 822 3.181511 TGAGACAAAGAAGCGTTGTGTTG 60.182 43.478 3.60 0.00 39.29 3.33
769 823 1.846175 GACAAAGAAGCGTTGTGTTGC 59.154 47.619 3.60 0.00 39.29 4.17
770 824 0.839477 CAAAGAAGCGTTGTGTTGCG 59.161 50.000 0.00 0.00 35.87 4.85
795 850 3.186047 GGACGATTGGACGTGCCG 61.186 66.667 4.04 3.39 45.84 5.69
834 890 1.073897 GCCCAATAGCCCAGCTAGG 59.926 63.158 0.00 0.00 44.66 3.02
841 897 2.514824 GCCCAGCTAGGCGGAAAG 60.515 66.667 7.62 0.00 44.57 2.62
850 906 3.564027 GGCGGAAAGGCGATCACG 61.564 66.667 0.00 0.00 42.93 4.35
851 907 3.564027 GCGGAAAGGCGATCACGG 61.564 66.667 0.00 0.00 40.15 4.94
852 908 2.890474 CGGAAAGGCGATCACGGG 60.890 66.667 0.00 0.00 40.15 5.28
853 909 3.202706 GGAAAGGCGATCACGGGC 61.203 66.667 0.00 0.00 40.15 6.13
854 910 2.125106 GAAAGGCGATCACGGGCT 60.125 61.111 0.00 0.00 42.77 5.19
1007 1097 2.507992 CAACGCCTCTGCTCTCCG 60.508 66.667 0.00 0.00 34.43 4.63
1106 5319 4.498520 CTGCACGCCGACGAGGAT 62.499 66.667 0.00 0.00 45.00 3.24
1517 5795 3.801997 AGGGATGGCTTGCCTCCG 61.802 66.667 13.18 0.00 44.08 4.63
1673 10503 4.512657 CAATTCTTGATCGCATTCTCGAC 58.487 43.478 0.00 0.00 41.62 4.20
1711 10558 1.940613 GGTTCTTTGCGACTCAACTGT 59.059 47.619 0.00 0.00 33.73 3.55
1831 10687 0.955919 CTCGTTCAAGTTCAGGGGGC 60.956 60.000 0.00 0.00 0.00 5.80
2137 11141 7.389607 ACTGTTGTAGTATTTACATTGTGGTCC 59.610 37.037 0.00 0.00 38.04 4.46
2338 12181 4.141287 TCCCACAAAACACTACATGGAAG 58.859 43.478 0.00 0.00 0.00 3.46
2405 12554 8.146479 TGACATGTGTTAGCAATATCAGATTC 57.854 34.615 1.15 0.00 0.00 2.52
2437 12586 4.126437 TGTGACATGATTATGCCTAACCG 58.874 43.478 0.00 0.00 37.85 4.44
2441 12590 6.259167 GTGACATGATTATGCCTAACCGTTAA 59.741 38.462 0.00 0.00 37.85 2.01
2447 12596 2.754946 TGCCTAACCGTTAACTCCTG 57.245 50.000 3.71 0.00 0.00 3.86
2518 12667 3.670055 CGCTTGAACCTGTTTTAGCAATG 59.330 43.478 13.87 0.00 32.43 2.82
2794 14262 5.607939 TGTTCTCCTGACAGTAGAAAACA 57.392 39.130 11.65 5.43 31.41 2.83
2841 14309 5.948992 AGTATTCAGAAACTGTTTGAGCC 57.051 39.130 11.03 0.00 32.61 4.70
2882 14350 7.360575 GGTGACGTTATTCTCTAATGTTTGT 57.639 36.000 0.00 0.00 0.00 2.83
2885 14353 6.128391 TGACGTTATTCTCTAATGTTTGTGCC 60.128 38.462 0.00 0.00 0.00 5.01
2957 14425 1.472026 GCCCCATTAGTCGCGAAACTA 60.472 52.381 12.06 7.03 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.622942 TGAGGTTTTGCAAGCTAGGTTG 59.377 45.455 26.61 26.61 40.97 3.77
8 9 2.944129 TGAGGTTTTGCAAGCTAGGTT 58.056 42.857 0.12 0.12 40.97 3.50
11 12 3.858503 GCCTTTGAGGTTTTGCAAGCTAG 60.859 47.826 0.00 0.00 40.97 3.42
12 13 2.035832 GCCTTTGAGGTTTTGCAAGCTA 59.964 45.455 0.00 0.00 40.97 3.32
13 14 1.202568 GCCTTTGAGGTTTTGCAAGCT 60.203 47.619 0.00 0.00 43.69 3.74
14 15 1.202568 AGCCTTTGAGGTTTTGCAAGC 60.203 47.619 0.00 0.00 37.80 4.01
15 16 2.101249 TGAGCCTTTGAGGTTTTGCAAG 59.899 45.455 0.00 0.00 37.80 4.01
16 17 2.106566 TGAGCCTTTGAGGTTTTGCAA 58.893 42.857 0.00 0.00 37.80 4.08
17 18 1.774110 TGAGCCTTTGAGGTTTTGCA 58.226 45.000 0.00 0.00 37.80 4.08
18 19 2.362077 TCTTGAGCCTTTGAGGTTTTGC 59.638 45.455 0.00 0.00 37.80 3.68
19 20 4.654091 TTCTTGAGCCTTTGAGGTTTTG 57.346 40.909 0.00 0.00 37.80 2.44
20 21 5.675684 TTTTCTTGAGCCTTTGAGGTTTT 57.324 34.783 0.00 0.00 37.80 2.43
21 22 5.675684 TTTTTCTTGAGCCTTTGAGGTTT 57.324 34.783 0.00 0.00 37.80 3.27
45 46 1.686355 TTTGAGCCCTTGCGAGAAAA 58.314 45.000 1.22 0.00 44.33 2.29
95 96 4.799949 CGAGTTACCGAATGATTTCCGTTA 59.200 41.667 0.00 0.00 0.00 3.18
111 112 5.048507 AGTCTTTTTCTGTCACCGAGTTAC 58.951 41.667 0.00 0.00 0.00 2.50
115 116 3.717707 TGAGTCTTTTTCTGTCACCGAG 58.282 45.455 0.00 0.00 0.00 4.63
118 119 3.433615 CCGATGAGTCTTTTTCTGTCACC 59.566 47.826 0.00 0.00 0.00 4.02
120 129 4.058124 CACCGATGAGTCTTTTTCTGTCA 58.942 43.478 0.00 0.00 0.00 3.58
122 131 3.071023 TCCACCGATGAGTCTTTTTCTGT 59.929 43.478 0.00 0.00 0.00 3.41
166 175 2.349755 CCCCGAATCAACCACCGT 59.650 61.111 0.00 0.00 0.00 4.83
231 254 2.447572 TGCAGACCAGGGTCCACA 60.448 61.111 14.67 10.41 45.59 4.17
271 294 0.034896 ATTCCGACCATATCCGCCAC 59.965 55.000 0.00 0.00 0.00 5.01
284 307 4.865761 CGCCGCCTTCGATTCCGA 62.866 66.667 0.00 0.00 43.96 4.55
330 373 2.998139 ATTCCCCTCCCCCATCCCA 61.998 63.158 0.00 0.00 0.00 4.37
333 376 2.523016 GCATTCCCCTCCCCCATC 59.477 66.667 0.00 0.00 0.00 3.51
348 391 0.878416 GACATTTTAGCCCACACGCA 59.122 50.000 0.00 0.00 0.00 5.24
360 403 0.898326 GTTGGCGGGAGGGACATTTT 60.898 55.000 0.00 0.00 0.00 1.82
461 510 1.468506 AAAAATTGAGGGGCGCGGTT 61.469 50.000 8.83 0.00 0.00 4.44
492 545 3.056678 TCGAATAGACACCTTAAACGCCA 60.057 43.478 0.00 0.00 0.00 5.69
535 589 7.721402 ACTGCAAAATAACCATCAGTTTACAA 58.279 30.769 0.00 0.00 40.05 2.41
546 600 1.068885 CGCCGAACTGCAAAATAACCA 60.069 47.619 0.00 0.00 0.00 3.67
601 655 3.041211 TCCTGCTTCATGCCTATGTAGT 58.959 45.455 0.00 0.00 42.00 2.73
604 658 1.842562 ACTCCTGCTTCATGCCTATGT 59.157 47.619 0.00 0.00 42.00 2.29
605 659 2.634815 ACTCCTGCTTCATGCCTATG 57.365 50.000 0.00 0.00 42.00 2.23
606 660 3.659183 AAACTCCTGCTTCATGCCTAT 57.341 42.857 0.00 0.00 42.00 2.57
607 661 3.439857 AAAACTCCTGCTTCATGCCTA 57.560 42.857 0.00 0.00 42.00 3.93
608 662 2.299326 AAAACTCCTGCTTCATGCCT 57.701 45.000 0.00 0.00 42.00 4.75
626 680 9.900710 AAACACTCGTACAATGCAATATAAAAA 57.099 25.926 0.00 0.00 0.00 1.94
627 681 9.900710 AAAACACTCGTACAATGCAATATAAAA 57.099 25.926 0.00 0.00 0.00 1.52
630 684 8.332464 GCTAAAACACTCGTACAATGCAATATA 58.668 33.333 0.00 0.00 0.00 0.86
631 685 7.148323 TGCTAAAACACTCGTACAATGCAATAT 60.148 33.333 0.00 0.00 0.00 1.28
632 686 6.147985 TGCTAAAACACTCGTACAATGCAATA 59.852 34.615 0.00 0.00 0.00 1.90
633 687 5.049060 TGCTAAAACACTCGTACAATGCAAT 60.049 36.000 0.00 0.00 0.00 3.56
634 688 4.273724 TGCTAAAACACTCGTACAATGCAA 59.726 37.500 0.00 0.00 0.00 4.08
635 689 3.810386 TGCTAAAACACTCGTACAATGCA 59.190 39.130 0.00 0.00 0.00 3.96
636 690 4.084013 ACTGCTAAAACACTCGTACAATGC 60.084 41.667 0.00 0.00 0.00 3.56
637 691 5.050363 ACACTGCTAAAACACTCGTACAATG 60.050 40.000 0.00 0.00 0.00 2.82
638 692 5.054477 ACACTGCTAAAACACTCGTACAAT 58.946 37.500 0.00 0.00 0.00 2.71
639 693 4.435425 ACACTGCTAAAACACTCGTACAA 58.565 39.130 0.00 0.00 0.00 2.41
640 694 4.049546 ACACTGCTAAAACACTCGTACA 57.950 40.909 0.00 0.00 0.00 2.90
641 695 4.269363 ACAACACTGCTAAAACACTCGTAC 59.731 41.667 0.00 0.00 0.00 3.67
642 696 4.269123 CACAACACTGCTAAAACACTCGTA 59.731 41.667 0.00 0.00 0.00 3.43
643 697 3.063452 CACAACACTGCTAAAACACTCGT 59.937 43.478 0.00 0.00 0.00 4.18
644 698 3.063452 ACACAACACTGCTAAAACACTCG 59.937 43.478 0.00 0.00 0.00 4.18
645 699 4.616181 ACACAACACTGCTAAAACACTC 57.384 40.909 0.00 0.00 0.00 3.51
646 700 5.385509 AAACACAACACTGCTAAAACACT 57.614 34.783 0.00 0.00 0.00 3.55
647 701 7.749539 ATAAAACACAACACTGCTAAAACAC 57.250 32.000 0.00 0.00 0.00 3.32
648 702 8.651588 CAAATAAAACACAACACTGCTAAAACA 58.348 29.630 0.00 0.00 0.00 2.83
649 703 8.865001 TCAAATAAAACACAACACTGCTAAAAC 58.135 29.630 0.00 0.00 0.00 2.43
650 704 8.988064 TCAAATAAAACACAACACTGCTAAAA 57.012 26.923 0.00 0.00 0.00 1.52
651 705 7.704472 CCTCAAATAAAACACAACACTGCTAAA 59.296 33.333 0.00 0.00 0.00 1.85
652 706 7.199766 CCTCAAATAAAACACAACACTGCTAA 58.800 34.615 0.00 0.00 0.00 3.09
653 707 6.238897 CCCTCAAATAAAACACAACACTGCTA 60.239 38.462 0.00 0.00 0.00 3.49
654 708 5.451798 CCCTCAAATAAAACACAACACTGCT 60.452 40.000 0.00 0.00 0.00 4.24
655 709 4.744631 CCCTCAAATAAAACACAACACTGC 59.255 41.667 0.00 0.00 0.00 4.40
656 710 6.142818 TCCCTCAAATAAAACACAACACTG 57.857 37.500 0.00 0.00 0.00 3.66
657 711 6.153680 TGTTCCCTCAAATAAAACACAACACT 59.846 34.615 0.00 0.00 0.00 3.55
658 712 6.334202 TGTTCCCTCAAATAAAACACAACAC 58.666 36.000 0.00 0.00 0.00 3.32
659 713 6.378564 TCTGTTCCCTCAAATAAAACACAACA 59.621 34.615 0.00 0.00 0.00 3.33
660 714 6.801575 TCTGTTCCCTCAAATAAAACACAAC 58.198 36.000 0.00 0.00 0.00 3.32
661 715 7.521423 CGATCTGTTCCCTCAAATAAAACACAA 60.521 37.037 0.00 0.00 0.00 3.33
662 716 6.072728 CGATCTGTTCCCTCAAATAAAACACA 60.073 38.462 0.00 0.00 0.00 3.72
663 717 6.148811 TCGATCTGTTCCCTCAAATAAAACAC 59.851 38.462 0.00 0.00 0.00 3.32
664 718 6.234920 TCGATCTGTTCCCTCAAATAAAACA 58.765 36.000 0.00 0.00 0.00 2.83
665 719 6.594159 TCTCGATCTGTTCCCTCAAATAAAAC 59.406 38.462 0.00 0.00 0.00 2.43
666 720 6.707290 TCTCGATCTGTTCCCTCAAATAAAA 58.293 36.000 0.00 0.00 0.00 1.52
667 721 6.294361 TCTCGATCTGTTCCCTCAAATAAA 57.706 37.500 0.00 0.00 0.00 1.40
668 722 5.932619 TCTCGATCTGTTCCCTCAAATAA 57.067 39.130 0.00 0.00 0.00 1.40
669 723 5.682471 GCTTCTCGATCTGTTCCCTCAAATA 60.682 44.000 0.00 0.00 0.00 1.40
670 724 4.764172 CTTCTCGATCTGTTCCCTCAAAT 58.236 43.478 0.00 0.00 0.00 2.32
671 725 3.617531 GCTTCTCGATCTGTTCCCTCAAA 60.618 47.826 0.00 0.00 0.00 2.69
672 726 2.093973 GCTTCTCGATCTGTTCCCTCAA 60.094 50.000 0.00 0.00 0.00 3.02
673 727 1.478510 GCTTCTCGATCTGTTCCCTCA 59.521 52.381 0.00 0.00 0.00 3.86
674 728 1.535015 CGCTTCTCGATCTGTTCCCTC 60.535 57.143 0.00 0.00 41.67 4.30
675 729 0.457851 CGCTTCTCGATCTGTTCCCT 59.542 55.000 0.00 0.00 41.67 4.20
676 730 0.173708 ACGCTTCTCGATCTGTTCCC 59.826 55.000 0.00 0.00 41.67 3.97
677 731 1.656095 CAACGCTTCTCGATCTGTTCC 59.344 52.381 0.00 0.00 41.67 3.62
678 732 2.091277 CACAACGCTTCTCGATCTGTTC 59.909 50.000 0.00 0.00 41.67 3.18
679 733 2.061773 CACAACGCTTCTCGATCTGTT 58.938 47.619 0.00 0.00 41.67 3.16
680 734 1.000163 ACACAACGCTTCTCGATCTGT 60.000 47.619 0.00 0.00 41.67 3.41
681 735 1.702886 ACACAACGCTTCTCGATCTG 58.297 50.000 0.00 0.00 41.67 2.90
682 736 2.440539 AACACAACGCTTCTCGATCT 57.559 45.000 0.00 0.00 41.67 2.75
683 737 3.521524 AAAACACAACGCTTCTCGATC 57.478 42.857 0.00 0.00 41.67 3.69
684 738 3.963383 AAAAACACAACGCTTCTCGAT 57.037 38.095 0.00 0.00 41.67 3.59
743 797 3.786048 CACAACGCTTCTTTGTCTCAAAC 59.214 43.478 0.00 0.00 34.91 2.93
759 813 3.016203 CAACCGCGCAACACAACG 61.016 61.111 8.75 0.00 0.00 4.10
760 814 2.101380 ACAACCGCGCAACACAAC 59.899 55.556 8.75 0.00 0.00 3.32
761 815 2.101185 CACAACCGCGCAACACAA 59.899 55.556 8.75 0.00 0.00 3.33
763 817 3.578272 TCCACAACCGCGCAACAC 61.578 61.111 8.75 0.00 0.00 3.32
764 818 3.578272 GTCCACAACCGCGCAACA 61.578 61.111 8.75 0.00 0.00 3.33
765 819 4.659874 CGTCCACAACCGCGCAAC 62.660 66.667 8.75 0.00 0.00 4.17
766 820 4.893601 TCGTCCACAACCGCGCAA 62.894 61.111 8.75 0.00 0.00 4.85
768 822 3.419759 AATCGTCCACAACCGCGC 61.420 61.111 0.00 0.00 0.00 6.86
769 823 2.474266 CAATCGTCCACAACCGCG 59.526 61.111 0.00 0.00 0.00 6.46
770 824 1.669760 TCCAATCGTCCACAACCGC 60.670 57.895 0.00 0.00 0.00 5.68
771 825 1.623081 CGTCCAATCGTCCACAACCG 61.623 60.000 0.00 0.00 0.00 4.44
795 850 2.609737 CCGTGGCCTAGGAAATACGATC 60.610 54.545 14.75 0.00 33.78 3.69
829 885 1.956678 GATCGCCTTTCCGCCTAGC 60.957 63.158 0.00 0.00 0.00 3.42
834 890 3.564027 CCGTGATCGCCTTTCCGC 61.564 66.667 0.00 0.00 35.54 5.54
835 891 2.890474 CCCGTGATCGCCTTTCCG 60.890 66.667 0.00 0.00 35.54 4.30
836 892 3.202706 GCCCGTGATCGCCTTTCC 61.203 66.667 0.00 0.00 35.54 3.13
837 893 2.125106 AGCCCGTGATCGCCTTTC 60.125 61.111 0.00 0.00 35.54 2.62
838 894 2.125106 GAGCCCGTGATCGCCTTT 60.125 61.111 0.00 0.00 35.54 3.11
1395 5635 1.122632 TTGTTCCGGCTGAGGTACCA 61.123 55.000 15.94 0.00 31.53 3.25
1517 5795 1.644786 CCCAAATCGGACGTGGAAGC 61.645 60.000 9.76 0.00 36.56 3.86
1673 10503 7.627298 AAGAACCATCATCAGATCAAAGAAG 57.373 36.000 0.00 0.00 30.20 2.85
1711 10558 1.003704 TTCCGGGGAAGGGATGCTA 59.996 57.895 0.00 0.00 32.58 3.49
1768 10624 4.382320 GCCCTCCCGCACGTACAA 62.382 66.667 0.00 0.00 0.00 2.41
1831 10687 2.885644 CAGGCGGAACACGGATCG 60.886 66.667 0.00 0.00 44.51 3.69
2090 11061 6.293004 AGTTCTAACTGAAGCAGATTAGCT 57.707 37.500 0.82 0.00 41.77 3.32
2405 12554 6.525628 GCATAATCATGTCACAAACTCACAAG 59.474 38.462 0.00 0.00 34.40 3.16
2437 12586 4.957296 TCAAGGAACAGTCAGGAGTTAAC 58.043 43.478 0.00 0.00 0.00 2.01
2441 12590 2.104963 GGTTCAAGGAACAGTCAGGAGT 59.895 50.000 10.86 0.00 43.54 3.85
2447 12596 4.983671 AAAACAGGTTCAAGGAACAGTC 57.016 40.909 10.86 0.00 43.54 3.51
2497 12646 4.620982 ACATTGCTAAAACAGGTTCAAGC 58.379 39.130 10.21 10.21 33.46 4.01
2518 12667 6.985188 TGAGGCTGTCACAATAAATCTTAC 57.015 37.500 0.00 0.00 0.00 2.34
2536 13991 6.205658 ACAGAATTTAGAAGAAACAGTGAGGC 59.794 38.462 0.00 0.00 0.00 4.70
2632 14093 1.733399 GTGAAGCGACGGTCAGGAC 60.733 63.158 9.10 0.00 0.00 3.85
2634 14095 1.734477 CTGTGAAGCGACGGTCAGG 60.734 63.158 9.10 0.00 0.00 3.86
2635 14096 0.597637 AACTGTGAAGCGACGGTCAG 60.598 55.000 9.10 11.37 34.18 3.51
2636 14097 0.596600 GAACTGTGAAGCGACGGTCA 60.597 55.000 9.10 0.00 34.18 4.02
2637 14098 0.596600 TGAACTGTGAAGCGACGGTC 60.597 55.000 0.00 0.00 34.18 4.79
2638 14099 0.874607 GTGAACTGTGAAGCGACGGT 60.875 55.000 0.00 0.00 37.01 4.83
2688 14149 2.885135 AGTTCTGGATTCACATGCCA 57.115 45.000 0.00 0.00 0.00 4.92
2841 14309 2.746904 TCACCGCATCAAACATTACAGG 59.253 45.455 0.00 0.00 0.00 4.00
2872 14340 5.894807 CCAGAATAAGGGCACAAACATTAG 58.105 41.667 0.00 0.00 0.00 1.73
2885 14353 2.290896 TGAAGTGGTGGCCAGAATAAGG 60.291 50.000 5.11 0.00 32.34 2.69
2957 14425 3.383825 ACTTCATTAGTCGCGGTTCCTAT 59.616 43.478 6.13 0.00 28.23 2.57


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

AutoCloner maintained by Alex Coulton.