Multiple sequence alignment - TraesCS5B01G272200

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 TraesCS5B01G272200 chr5B 100.000 6511 0 0 1 6511 457392153 457398663 0.000000e+00 12024.0
1 TraesCS5B01G272200 chr5B 93.650 1370 78 6 3843 5206 471134508 471135874 0.000000e+00 2039.0
2 TraesCS5B01G272200 chr5B 92.017 1190 92 1 4333 5519 473193425 473194614 0.000000e+00 1668.0
3 TraesCS5B01G272200 chr5B 86.091 1517 142 28 988 2460 471131783 471133274 0.000000e+00 1568.0
4 TraesCS5B01G272200 chr5B 78.965 1217 215 24 4333 5515 473285296 473286505 0.000000e+00 791.0
5 TraesCS5B01G272200 chr5B 87.117 652 58 14 2489 3125 471133274 471133914 0.000000e+00 715.0
6 TraesCS5B01G272200 chr5B 93.947 380 22 1 5199 5577 471136608 471136987 2.040000e-159 573.0
7 TraesCS5B01G272200 chr5B 89.278 457 43 5 3153 3608 471133901 471134352 9.470000e-158 568.0
8 TraesCS5B01G272200 chr5B 76.362 973 200 19 3948 4900 457969168 457968206 4.530000e-136 496.0
9 TraesCS5B01G272200 chr5B 96.587 293 10 0 6219 6511 564479695 564479987 2.730000e-133 486.0
10 TraesCS5B01G272200 chr5B 84.584 493 61 9 3829 4307 473665175 473664684 5.910000e-130 475.0
11 TraesCS5B01G272200 chr5B 81.081 592 82 16 3737 4314 473192798 473193373 4.630000e-121 446.0
12 TraesCS5B01G272200 chr5B 80.488 369 59 9 3948 4314 473284887 473285244 2.990000e-68 270.0
13 TraesCS5B01G272200 chr5B 73.451 565 95 27 991 1527 459554216 459554753 1.880000e-35 161.0
14 TraesCS5B01G272200 chr5D 96.736 2696 61 17 3289 5984 381563916 381566584 0.000000e+00 4466.0
15 TraesCS5B01G272200 chr5D 96.796 1654 37 8 1643 3290 381562191 381563834 0.000000e+00 2747.0
16 TraesCS5B01G272200 chr5D 93.750 1744 97 7 3843 5577 390706960 390708700 0.000000e+00 2606.0
17 TraesCS5B01G272200 chr5D 91.997 1187 95 0 4333 5519 393555474 393556660 0.000000e+00 1666.0
18 TraesCS5B01G272200 chr5D 86.728 1311 117 25 1186 2460 390704433 390705722 0.000000e+00 1404.0
19 TraesCS5B01G272200 chr5D 85.269 1188 169 6 4333 5520 393814574 393813393 0.000000e+00 1219.0
20 TraesCS5B01G272200 chr5D 95.681 764 22 8 890 1647 381561243 381562001 0.000000e+00 1218.0
21 TraesCS5B01G272200 chr5D 85.257 1187 167 7 4334 5520 393848899 393847721 0.000000e+00 1216.0
22 TraesCS5B01G272200 chr5D 79.228 1218 207 30 4334 5513 393560037 393561246 0.000000e+00 806.0
23 TraesCS5B01G272200 chr5D 88.000 650 58 11 2489 3125 390705722 390706364 0.000000e+00 750.0
24 TraesCS5B01G272200 chr5D 89.633 463 40 6 3153 3612 390706351 390706808 3.380000e-162 582.0
25 TraesCS5B01G272200 chr5D 88.056 360 43 0 3948 4307 393849317 393848958 1.680000e-115 427.0
26 TraesCS5B01G272200 chr5D 86.111 360 50 0 3948 4307 393814991 393814632 7.920000e-104 388.0
27 TraesCS5B01G272200 chr5D 85.879 347 46 1 3968 4314 393555079 393555422 3.710000e-97 366.0
28 TraesCS5B01G272200 chr5D 80.759 369 58 8 3948 4314 393559627 393559984 6.430000e-70 276.0
29 TraesCS5B01G272200 chr5D 97.973 148 1 2 716 862 381561094 381561240 8.380000e-64 255.0
30 TraesCS5B01G272200 chr5D 90.556 180 11 6 932 1106 390704216 390704394 3.930000e-57 233.0
31 TraesCS5B01G272200 chr5D 92.632 95 7 0 3626 3720 210384624 210384718 3.170000e-28 137.0
32 TraesCS5B01G272200 chr5D 82.517 143 25 0 5187 5329 375407499 375407357 6.850000e-25 126.0
33 TraesCS5B01G272200 chr5D 77.640 161 32 4 5172 5330 404882223 404882381 1.930000e-15 95.3
34 TraesCS5B01G272200 chr5A 92.732 1197 86 1 4333 5528 495327598 495328794 0.000000e+00 1727.0
35 TraesCS5B01G272200 chr5A 85.618 1182 165 5 4339 5520 495879401 495878225 0.000000e+00 1236.0
36 TraesCS5B01G272200 chr5A 94.538 714 24 1 1 714 41486077 41486775 0.000000e+00 1088.0
37 TraesCS5B01G272200 chr5A 85.474 475 64 4 3838 4307 495879940 495879466 2.110000e-134 490.0
38 TraesCS5B01G272200 chr5A 96.587 293 10 0 6219 6511 45711865 45711573 2.730000e-133 486.0
39 TraesCS5B01G272200 chr5A 80.323 620 93 19 3737 4342 495326970 495327574 5.990000e-120 442.0
40 TraesCS5B01G272200 chr7A 96.770 712 23 0 1 712 194165985 194165274 0.000000e+00 1188.0
41 TraesCS5B01G272200 chr7A 96.229 716 22 3 1 716 7420623 7419913 0.000000e+00 1168.0
42 TraesCS5B01G272200 chr7A 95.391 716 24 1 1 716 46763377 46764083 0.000000e+00 1131.0
43 TraesCS5B01G272200 chr7A 95.493 710 25 5 1 709 98749937 98749234 0.000000e+00 1127.0
44 TraesCS5B01G272200 chr7A 93.667 600 28 2 129 727 46764574 46765164 0.000000e+00 889.0
45 TraesCS5B01G272200 chr7A 96.575 292 10 0 6220 6511 710491398 710491107 9.820000e-133 484.0
46 TraesCS5B01G272200 chr7A 95.436 241 11 0 5983 6223 715247691 715247931 1.020000e-102 385.0
47 TraesCS5B01G272200 chr4B 95.640 711 24 2 2 712 141453835 141454538 0.000000e+00 1134.0
48 TraesCS5B01G272200 chr4B 91.667 372 9 3 1 372 17271464 17271813 4.530000e-136 496.0
49 TraesCS5B01G272200 chr4B 94.332 247 14 0 5977 6223 483834018 483834264 4.760000e-101 379.0
50 TraesCS5B01G272200 chr4B 80.952 126 24 0 5202 5327 638844385 638844510 4.150000e-17 100.0
51 TraesCS5B01G272200 chr3D 89.400 717 37 7 1 716 569160701 569161379 0.000000e+00 867.0
52 TraesCS5B01G272200 chr3D 93.548 93 6 0 3626 3718 475310593 475310501 8.800000e-29 139.0
53 TraesCS5B01G272200 chr3D 95.294 85 4 0 3629 3713 42630682 42630766 1.140000e-27 135.0
54 TraesCS5B01G272200 chr3D 94.318 88 5 0 3626 3713 54370410 54370497 1.140000e-27 135.0
55 TraesCS5B01G272200 chr1B 91.707 627 39 6 101 723 673721669 673722286 0.000000e+00 857.0
56 TraesCS5B01G272200 chrUn 91.980 611 34 3 101 711 86827136 86827731 0.000000e+00 843.0
57 TraesCS5B01G272200 chrUn 90.000 100 9 1 3619 3717 110002999 110002900 1.910000e-25 128.0
58 TraesCS5B01G272200 chrUn 93.023 86 5 1 3629 3713 84435465 84435380 2.470000e-24 124.0
59 TraesCS5B01G272200 chrUn 91.954 87 7 0 3628 3714 378270567 378270653 8.870000e-24 122.0
60 TraesCS5B01G272200 chrUn 91.111 90 8 0 3628 3717 447954347 447954258 8.870000e-24 122.0
61 TraesCS5B01G272200 chrUn 91.765 85 7 0 3629 3713 222975770 222975854 1.150000e-22 119.0
62 TraesCS5B01G272200 chrUn 91.765 85 7 0 3629 3713 303647904 303647988 1.150000e-22 119.0
63 TraesCS5B01G272200 chrUn 90.000 90 9 0 3628 3717 320620154 320620065 4.120000e-22 117.0
64 TraesCS5B01G272200 chrUn 88.889 90 10 0 3628 3717 108327678 108327589 1.920000e-20 111.0
65 TraesCS5B01G272200 chr2A 90.960 531 42 3 5981 6510 103237992 103238517 0.000000e+00 710.0
66 TraesCS5B01G272200 chr2A 87.160 405 45 6 6110 6511 756119801 756120201 2.770000e-123 453.0
67 TraesCS5B01G272200 chr4A 96.918 292 9 0 6220 6511 690223177 690223468 2.110000e-134 490.0
68 TraesCS5B01G272200 chr6A 96.599 294 10 0 6218 6511 74433004 74433297 7.590000e-134 488.0
69 TraesCS5B01G272200 chr6A 94.672 244 13 0 5981 6224 451606521 451606278 4.760000e-101 379.0
70 TraesCS5B01G272200 chr3B 95.960 297 11 1 6215 6511 327365128 327365423 1.270000e-131 481.0
71 TraesCS5B01G272200 chr3B 92.705 329 24 0 6183 6511 670166056 670165728 5.910000e-130 475.0
72 TraesCS5B01G272200 chr7B 84.966 439 55 1 6073 6511 156417514 156417941 1.000000e-117 435.0
73 TraesCS5B01G272200 chr6D 96.311 244 8 1 5980 6222 305111209 305111452 3.660000e-107 399.0
74 TraesCS5B01G272200 chr6D 92.784 97 7 0 3618 3714 78083174 78083078 2.450000e-29 141.0
75 TraesCS5B01G272200 chr6D 93.023 86 6 0 3629 3714 157587494 157587409 6.850000e-25 126.0
76 TraesCS5B01G272200 chr6D 92.045 88 7 0 3629 3716 59623259 59623172 2.470000e-24 124.0
77 TraesCS5B01G272200 chr6D 92.135 89 6 1 3626 3713 120657573 120657661 2.470000e-24 124.0
78 TraesCS5B01G272200 chr6D 92.941 85 4 2 3629 3713 185368165 185368083 8.870000e-24 122.0
79 TraesCS5B01G272200 chr2B 94.737 247 12 1 5978 6223 666724809 666724563 3.680000e-102 383.0
80 TraesCS5B01G272200 chr7D 94.355 248 13 1 5977 6223 294049930 294050177 4.760000e-101 379.0
81 TraesCS5B01G272200 chr7D 93.407 91 6 0 3626 3716 22964344 22964254 1.140000e-27 135.0
82 TraesCS5B01G272200 chr7D 92.391 92 7 0 3622 3713 510397751 510397842 1.470000e-26 132.0
83 TraesCS5B01G272200 chr3A 92.578 256 19 0 5981 6236 106494675 106494420 1.030000e-97 368.0
84 TraesCS5B01G272200 chr3A 94.505 91 3 2 3624 3714 556668800 556668888 8.800000e-29 139.0
85 TraesCS5B01G272200 chr1D 88.793 116 11 2 3608 3722 409047158 409047044 2.450000e-29 141.0
86 TraesCS5B01G272200 chr1D 93.548 93 6 0 3624 3716 93124879 93124787 8.800000e-29 139.0
87 TraesCS5B01G272200 chr1D 94.318 88 5 0 3629 3716 440050358 440050445 1.140000e-27 135.0
88 TraesCS5B01G272200 chr1D 94.118 85 5 0 3629 3713 216728396 216728480 5.300000e-26 130.0
89 TraesCS5B01G272200 chr1D 91.579 95 6 2 3620 3713 355081122 355081215 5.300000e-26 130.0
90 TraesCS5B01G272200 chr2D 95.402 87 4 0 3629 3715 328356991 328357077 8.800000e-29 139.0
91 TraesCS5B01G272200 chr4D 93.258 89 6 0 3628 3716 218516198 218516286 1.470000e-26 132.0
92 TraesCS5B01G272200 chr4D 93.023 86 6 0 3628 3713 333063358 333063273 6.850000e-25 126.0
93 TraesCS5B01G272200 chr4D 92.135 89 6 1 3632 3719 497247640 497247552 2.470000e-24 124.0
94 TraesCS5B01G272200 chr1A 93.258 89 6 0 3629 3717 91047542 91047454 1.470000e-26 132.0


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 TraesCS5B01G272200 chr5B 457392153 457398663 6510 False 12024.0 12024 100.00000 1 6511 1 chr5B.!!$F1 6510
1 TraesCS5B01G272200 chr5B 471131783 471136987 5204 False 1092.6 2039 90.01660 988 5577 5 chr5B.!!$F4 4589
2 TraesCS5B01G272200 chr5B 473192798 473194614 1816 False 1057.0 1668 86.54900 3737 5519 2 chr5B.!!$F5 1782
3 TraesCS5B01G272200 chr5B 473284887 473286505 1618 False 530.5 791 79.72650 3948 5515 2 chr5B.!!$F6 1567
4 TraesCS5B01G272200 chr5B 457968206 457969168 962 True 496.0 496 76.36200 3948 4900 1 chr5B.!!$R1 952
5 TraesCS5B01G272200 chr5D 381561094 381566584 5490 False 2171.5 4466 96.79650 716 5984 4 chr5D.!!$F3 5268
6 TraesCS5B01G272200 chr5D 390704216 390708700 4484 False 1115.0 2606 89.73340 932 5577 5 chr5D.!!$F4 4645
7 TraesCS5B01G272200 chr5D 393847721 393849317 1596 True 821.5 1216 86.65650 3948 5520 2 chr5D.!!$R3 1572
8 TraesCS5B01G272200 chr5D 393813393 393814991 1598 True 803.5 1219 85.69000 3948 5520 2 chr5D.!!$R2 1572
9 TraesCS5B01G272200 chr5D 393555079 393561246 6167 False 778.5 1666 84.46575 3948 5519 4 chr5D.!!$F5 1571
10 TraesCS5B01G272200 chr5A 41486077 41486775 698 False 1088.0 1088 94.53800 1 714 1 chr5A.!!$F1 713
11 TraesCS5B01G272200 chr5A 495326970 495328794 1824 False 1084.5 1727 86.52750 3737 5528 2 chr5A.!!$F2 1791
12 TraesCS5B01G272200 chr5A 495878225 495879940 1715 True 863.0 1236 85.54600 3838 5520 2 chr5A.!!$R2 1682
13 TraesCS5B01G272200 chr7A 194165274 194165985 711 True 1188.0 1188 96.77000 1 712 1 chr7A.!!$R3 711
14 TraesCS5B01G272200 chr7A 7419913 7420623 710 True 1168.0 1168 96.22900 1 716 1 chr7A.!!$R1 715
15 TraesCS5B01G272200 chr7A 98749234 98749937 703 True 1127.0 1127 95.49300 1 709 1 chr7A.!!$R2 708
16 TraesCS5B01G272200 chr7A 46763377 46765164 1787 False 1010.0 1131 94.52900 1 727 2 chr7A.!!$F2 726
17 TraesCS5B01G272200 chr4B 141453835 141454538 703 False 1134.0 1134 95.64000 2 712 1 chr4B.!!$F2 710
18 TraesCS5B01G272200 chr3D 569160701 569161379 678 False 867.0 867 89.40000 1 716 1 chr3D.!!$F3 715
19 TraesCS5B01G272200 chr1B 673721669 673722286 617 False 857.0 857 91.70700 101 723 1 chr1B.!!$F1 622
20 TraesCS5B01G272200 chrUn 86827136 86827731 595 False 843.0 843 91.98000 101 711 1 chrUn.!!$F1 610
21 TraesCS5B01G272200 chr2A 103237992 103238517 525 False 710.0 710 90.96000 5981 6510 1 chr2A.!!$F1 529

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
698 1817 0.326927 TTGGGCCCTAAAACGAGGAG 59.673 55.0 25.70 0.0 39.15 3.69 F
2320 3668 0.030504 CACTGTTCGCCAACATGCAA 59.969 50.0 0.00 0.0 41.82 4.08 F
2321 3669 0.030638 ACTGTTCGCCAACATGCAAC 59.969 50.0 0.00 0.0 41.82 4.17 F
2671 4050 0.179140 AGTTTGTTGTGCTGTTGGCG 60.179 50.0 0.00 0.0 45.43 5.69 F
3014 4397 0.874175 TGTGGCTGAAGTTGACGTCG 60.874 55.0 11.62 0.0 0.00 5.12 F
3746 5292 0.941463 CTCCGTGTGAGCTGTGTCAC 60.941 60.0 0.00 0.0 46.08 3.67 F
4460 6069 0.317854 GAACCCTGAAAACGCTGCAC 60.318 55.0 0.00 0.0 0.00 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2641 4012 1.145738 ACAACAAACTCCTGAGCCCAT 59.854 47.619 0.00 0.0 0.00 4.00 R
3155 4542 1.153549 CAGCCGTCCTCCACTAAGC 60.154 63.158 0.00 0.0 0.00 3.09 R
3290 4677 2.566952 AGTTCAAGCACACACAAAGC 57.433 45.000 0.00 0.0 0.00 3.51 R
3568 5040 3.026694 AGTTTTCTGCTGGAAAGTTGCT 58.973 40.909 0.00 0.0 43.68 3.91 R
3832 5378 4.202050 GCACAATCTACAATTAGCCAAGGG 60.202 45.833 0.00 0.0 0.00 3.95 R
5444 12403 3.714798 TGACTGTGGAGTTAACTTTCCCT 59.285 43.478 10.02 0.0 30.16 4.20 R
6221 13181 0.622665 CTTGGATCCAAGCACCCTCT 59.377 55.000 35.47 0.0 45.38 3.69 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
188 211 3.554342 CGGGGAGGGATGGCAGAG 61.554 72.222 0.00 0.00 0.00 3.35
189 212 3.174265 GGGGAGGGATGGCAGAGG 61.174 72.222 0.00 0.00 0.00 3.69
190 213 2.040464 GGGAGGGATGGCAGAGGA 60.040 66.667 0.00 0.00 0.00 3.71
191 214 2.146061 GGGAGGGATGGCAGAGGAG 61.146 68.421 0.00 0.00 0.00 3.69
192 215 2.146061 GGAGGGATGGCAGAGGAGG 61.146 68.421 0.00 0.00 0.00 4.30
193 216 1.074926 GAGGGATGGCAGAGGAGGA 60.075 63.158 0.00 0.00 0.00 3.71
194 217 1.074623 AGGGATGGCAGAGGAGGAG 60.075 63.158 0.00 0.00 0.00 3.69
195 218 2.146061 GGGATGGCAGAGGAGGAGG 61.146 68.421 0.00 0.00 0.00 4.30
196 219 1.074926 GGATGGCAGAGGAGGAGGA 60.075 63.158 0.00 0.00 0.00 3.71
197 220 1.120795 GGATGGCAGAGGAGGAGGAG 61.121 65.000 0.00 0.00 0.00 3.69
198 221 1.074623 ATGGCAGAGGAGGAGGAGG 60.075 63.158 0.00 0.00 0.00 4.30
199 222 1.597905 ATGGCAGAGGAGGAGGAGGA 61.598 60.000 0.00 0.00 0.00 3.71
200 223 1.457455 GGCAGAGGAGGAGGAGGAG 60.457 68.421 0.00 0.00 0.00 3.69
201 224 1.457455 GCAGAGGAGGAGGAGGAGG 60.457 68.421 0.00 0.00 0.00 4.30
202 225 1.943730 GCAGAGGAGGAGGAGGAGGA 61.944 65.000 0.00 0.00 0.00 3.71
268 294 2.725641 CGTCACGGTCAGGTCACA 59.274 61.111 0.00 0.00 0.00 3.58
320 346 1.007271 CGAGTTGCCGTCACTGTCT 60.007 57.895 0.00 0.00 0.00 3.41
538 1656 2.188161 GTGGGGAAAAACGACGGCA 61.188 57.895 0.00 0.00 0.00 5.69
604 1722 7.201582 CGAGAAAACCAGTGTAAAACTTACAGT 60.202 37.037 0.00 0.75 36.83 3.55
657 1775 5.020795 AGGCCCATCCGTTTTTATTTTACT 58.979 37.500 0.00 0.00 40.77 2.24
698 1817 0.326927 TTGGGCCCTAAAACGAGGAG 59.673 55.000 25.70 0.00 39.15 3.69
776 1895 0.881796 CTTTGGTTTCCTCCCTTCGC 59.118 55.000 0.00 0.00 0.00 4.70
815 1935 1.233950 TTCGCGCCAGCTGATTCAAA 61.234 50.000 17.39 0.77 42.32 2.69
862 1982 1.008767 GATCTCTTACCCGACCGCG 60.009 63.158 0.00 0.00 37.24 6.46
864 1984 4.867599 CTCTTACCCGACCGCGCC 62.868 72.222 0.00 0.00 35.83 6.53
901 2021 1.614241 AATTGGAGGTAGCGCGGAGT 61.614 55.000 8.83 0.00 0.00 3.85
907 2027 2.408241 GGTAGCGCGGAGTGAGAGT 61.408 63.158 8.83 0.00 43.07 3.24
950 2080 2.746472 GCAGGGAGAGAGAGAGAGAGAC 60.746 59.091 0.00 0.00 0.00 3.36
965 2095 1.077068 AGACAGAGAGCGGGAGAGG 60.077 63.158 0.00 0.00 0.00 3.69
975 2105 4.179599 GGGAGAGGGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
979 2109 3.036959 GAGGGGGAGGGAGGGAGA 61.037 72.222 0.00 0.00 0.00 3.71
980 2110 3.039526 AGGGGGAGGGAGGGAGAG 61.040 72.222 0.00 0.00 0.00 3.20
983 2113 2.329399 GGGGAGGGAGGGAGAGAGT 61.329 68.421 0.00 0.00 0.00 3.24
984 2114 1.707200 GGGAGGGAGGGAGAGAGTT 59.293 63.158 0.00 0.00 0.00 3.01
1074 2207 0.461339 AGCGAAATCGTGGCCGTATT 60.461 50.000 0.00 0.00 42.22 1.89
1130 2263 1.066430 TCGATTTACCTTCTGCGGCTT 60.066 47.619 0.00 0.00 0.00 4.35
1183 2330 9.934190 GTGAGTTTTTCCGTAAATAAAAGTACA 57.066 29.630 0.00 0.00 0.00 2.90
1299 2446 4.281525 TGCGCCGTTTTCCTAAAATATC 57.718 40.909 4.18 0.00 32.22 1.63
1351 2498 4.933330 TGACACAACTGAGTCTTGTAGAC 58.067 43.478 8.44 0.00 45.38 2.59
1405 2553 6.399639 TGGACAAAAGATCCAACTTTTACC 57.600 37.500 2.93 2.93 44.73 2.85
1527 2679 6.903479 CGATTCCGTAGTTTTGCTAAAATACC 59.097 38.462 20.09 8.99 40.10 2.73
1531 2683 6.711645 TCCGTAGTTTTGCTAAAATACCTGTT 59.288 34.615 20.09 0.00 40.10 3.16
1532 2684 7.229106 TCCGTAGTTTTGCTAAAATACCTGTTT 59.771 33.333 20.09 0.00 40.10 2.83
1596 2748 8.927721 GTCTTGTAAATTCTAGGTCTCTTTCAC 58.072 37.037 0.00 0.00 0.00 3.18
1636 2788 5.887214 AGACAAAAGGCCCAACTTTTATT 57.113 34.783 0.00 0.00 45.96 1.40
1638 2790 6.755206 AGACAAAAGGCCCAACTTTTATTAC 58.245 36.000 0.00 0.00 45.96 1.89
1641 2793 7.513856 ACAAAAGGCCCAACTTTTATTACAAT 58.486 30.769 0.00 0.00 45.96 2.71
1682 3025 0.904865 TCTTCGCAGTGGGGATCTGT 60.905 55.000 7.42 0.00 35.72 3.41
1683 3026 0.036010 CTTCGCAGTGGGGATCTGTT 60.036 55.000 7.42 0.00 35.72 3.16
1684 3027 1.207089 CTTCGCAGTGGGGATCTGTTA 59.793 52.381 7.42 0.00 35.72 2.41
1685 3028 0.824109 TCGCAGTGGGGATCTGTTAG 59.176 55.000 7.42 0.00 35.60 2.34
1686 3029 0.179073 CGCAGTGGGGATCTGTTAGG 60.179 60.000 0.00 0.00 35.60 2.69
1687 3030 1.204146 GCAGTGGGGATCTGTTAGGA 58.796 55.000 0.00 0.00 35.60 2.94
1688 3031 1.134371 GCAGTGGGGATCTGTTAGGAC 60.134 57.143 0.00 0.00 35.60 3.85
1710 3053 7.404980 AGGACTTAGGACCCTGAATAATTGTAA 59.595 37.037 0.00 0.00 0.00 2.41
1819 3163 8.579850 TGCAAGGAATTGTAGAAAAGATACAT 57.420 30.769 0.00 0.00 33.36 2.29
1919 3263 3.297736 AGATCACCCTTCTACCCTTACG 58.702 50.000 0.00 0.00 0.00 3.18
1971 3315 3.248024 ACTACCCTGACATTCAACCTCA 58.752 45.455 0.00 0.00 0.00 3.86
2036 3381 5.779241 TTCTTCATCCATGTTAAGGAGGT 57.221 39.130 0.00 0.00 38.83 3.85
2138 3486 1.579964 CTGGCAAGAGCGCATGACAA 61.580 55.000 11.47 0.00 43.41 3.18
2230 3578 5.215160 GGATGTGCACTTTCTGTACTTTTG 58.785 41.667 19.41 0.00 36.49 2.44
2320 3668 0.030504 CACTGTTCGCCAACATGCAA 59.969 50.000 0.00 0.00 41.82 4.08
2321 3669 0.030638 ACTGTTCGCCAACATGCAAC 59.969 50.000 0.00 0.00 41.82 4.17
2433 3803 6.072452 GCTGTTTTACAGGGATTATAGCATCC 60.072 42.308 8.73 0.00 46.01 3.51
2590 3961 7.615403 AGTACATCATATTCTGGCATATCGTT 58.385 34.615 0.00 0.00 0.00 3.85
2636 4007 2.169561 TGTTGCTGTCAGTTCCACACTA 59.830 45.455 0.93 0.00 32.76 2.74
2671 4050 0.179140 AGTTTGTTGTGCTGTTGGCG 60.179 50.000 0.00 0.00 45.43 5.69
2688 4068 1.944709 GGCGTTGGTGTTTCAGTAACT 59.055 47.619 0.00 0.00 37.64 2.24
2717 4097 5.892348 AGGATAAGTGGTGAAGTTTGGAAT 58.108 37.500 0.00 0.00 0.00 3.01
3014 4397 0.874175 TGTGGCTGAAGTTGACGTCG 60.874 55.000 11.62 0.00 0.00 5.12
3061 4447 2.469516 CGGGTAGTCGCATTTGGCC 61.470 63.158 0.00 0.00 40.31 5.36
3064 4450 2.124901 TAGTCGCATTTGGCCCCG 60.125 61.111 0.00 0.00 40.31 5.73
3155 4542 2.233271 AGTTGGCATGGTTTGTGAGAG 58.767 47.619 0.00 0.00 0.00 3.20
3233 4620 5.181245 GGAGTCTTGCTAAAATAGTTGTGCA 59.819 40.000 0.03 0.03 0.00 4.57
3243 4630 5.368256 AAATAGTTGTGCAGAGCTTTGAG 57.632 39.130 8.73 0.00 0.00 3.02
3401 4873 8.820933 TCATCATTAGCTAAAAGAAACAGATCG 58.179 33.333 10.85 1.56 0.00 3.69
3409 4881 1.377202 GAAACAGATCGCCCTGCCA 60.377 57.895 4.18 0.00 37.68 4.92
3568 5040 2.094078 AGCTTTGCTTTGTTCTGTTGCA 60.094 40.909 0.00 0.00 33.89 4.08
3651 5197 6.890814 ACTACTCCTTCCGTCCCATAATATAG 59.109 42.308 0.00 0.00 0.00 1.31
3664 5210 8.837389 GTCCCATAATATAGGAGTGTTTTTGAC 58.163 37.037 0.00 0.00 0.00 3.18
3746 5292 0.941463 CTCCGTGTGAGCTGTGTCAC 60.941 60.000 0.00 0.00 46.08 3.67
3773 5319 7.939782 TGTTTTATTTGCCATGATCGATGTAT 58.060 30.769 0.54 0.00 0.00 2.29
3832 5378 5.296035 AGAACCAGTTGCAACTTGTACTTAC 59.704 40.000 30.10 19.79 37.08 2.34
4460 6069 0.317854 GAACCCTGAAAACGCTGCAC 60.318 55.000 0.00 0.00 0.00 4.57
4900 6519 4.148128 ACCAGAGTCATCTTTATGCAGG 57.852 45.455 0.00 0.00 31.64 4.85
5080 11293 2.227388 CACTGTTCACCCTGCAAAGATC 59.773 50.000 0.00 0.00 0.00 2.75
5444 12403 4.650734 TGGCTGTGAGAACATACATTGAA 58.349 39.130 0.00 0.00 0.00 2.69
5637 12597 1.522668 CACCTGCCGTGATGAAGAAA 58.477 50.000 0.00 0.00 46.20 2.52
5768 12728 7.551585 TGAAAGTAGCCTTTGATTCAAAACAA 58.448 30.769 12.62 0.00 40.98 2.83
5832 12792 0.611714 GAACCTTTAGGCTCCGACCA 59.388 55.000 0.00 0.00 39.32 4.02
5833 12793 0.613777 AACCTTTAGGCTCCGACCAG 59.386 55.000 0.00 0.00 39.32 4.00
5866 12826 5.123227 CGATTGGTTGTGATATTACACCCT 58.877 41.667 14.14 0.00 39.69 4.34
5884 12844 1.202405 CCTGTTTTGGCTGGTGTTGAC 60.202 52.381 0.00 0.00 0.00 3.18
5940 12900 1.178276 CACAGCTCCTAGAAGGTCGT 58.822 55.000 0.00 0.00 36.53 4.34
5950 12910 0.680061 AGAAGGTCGTCCGCTTCTTT 59.320 50.000 0.00 0.00 39.05 2.52
5966 12926 3.703001 TCTTTTGCCCTAGAGAACCTG 57.297 47.619 0.00 0.00 0.00 4.00
6010 12970 5.520751 AGTCATAGTGGGAGTAACTTAGCT 58.479 41.667 0.00 0.00 0.00 3.32
6020 12980 8.351461 GTGGGAGTAACTTAGCTAGTAACATAG 58.649 40.741 0.00 0.00 35.54 2.23
6031 12991 3.328382 AGTAACATAGCGCACTCCAAA 57.672 42.857 11.47 0.00 0.00 3.28
6032 12992 3.873910 AGTAACATAGCGCACTCCAAAT 58.126 40.909 11.47 0.00 0.00 2.32
6033 12993 4.261801 AGTAACATAGCGCACTCCAAATT 58.738 39.130 11.47 0.00 0.00 1.82
6063 13023 7.403312 TGCTTATGTGGCAAGTATTTAATGT 57.597 32.000 0.00 0.00 36.71 2.71
6064 13024 7.257003 TGCTTATGTGGCAAGTATTTAATGTG 58.743 34.615 0.00 0.00 36.71 3.21
6066 13026 7.645340 GCTTATGTGGCAAGTATTTAATGTGAG 59.355 37.037 0.00 0.00 0.00 3.51
6069 13029 5.182950 TGTGGCAAGTATTTAATGTGAGGTG 59.817 40.000 0.00 0.00 0.00 4.00
6107 13067 7.823310 TGTTACTGTAATATAGCGTTTCCCAAA 59.177 33.333 3.23 0.00 0.00 3.28
6125 13085 6.361433 TCCCAAAACAAGATGAGTCTACAAA 58.639 36.000 0.00 0.00 33.30 2.83
6157 13117 7.789202 ATGAAGCCATCTATGACACTACTAT 57.211 36.000 0.00 0.00 0.00 2.12
6203 13163 8.508883 AGGTAGTAACTTAGACTAGTGTCATG 57.491 38.462 0.00 0.00 45.20 3.07
6204 13164 7.067251 AGGTAGTAACTTAGACTAGTGTCATGC 59.933 40.741 0.00 0.00 45.20 4.06
6205 13165 6.835819 AGTAACTTAGACTAGTGTCATGCA 57.164 37.500 0.00 0.00 45.20 3.96
6206 13166 7.411486 AGTAACTTAGACTAGTGTCATGCAT 57.589 36.000 0.00 0.00 45.20 3.96
6297 13257 7.441458 TCTTTTAGAGACTAAAGTTCCAAGCAC 59.559 37.037 0.00 0.00 33.97 4.40
6326 13286 5.442391 ACTAAAGAGAGGCTAGGACTAGTG 58.558 45.833 0.00 0.00 35.65 2.74
6338 13299 4.538746 AGGACTAGTGTTGAGGCTAAAC 57.461 45.455 7.86 7.86 0.00 2.01
6339 13300 3.261137 AGGACTAGTGTTGAGGCTAAACC 59.739 47.826 12.26 3.95 39.61 3.27
6405 13366 7.128751 TCTCTCTCCTCATTTAATTCCTCTCA 58.871 38.462 0.00 0.00 0.00 3.27
6442 13403 2.287584 TCTGGATTGGAGGGTTTGGAT 58.712 47.619 0.00 0.00 0.00 3.41
6451 13412 7.508977 GGATTGGAGGGTTTGGATGATAATAAA 59.491 37.037 0.00 0.00 0.00 1.40
6496 13457 7.051000 AGTCTCTTTAGTATTTGGATCCAAGC 58.949 38.462 25.69 19.18 37.24 4.01
6510 13471 0.465097 CCAAGCATGGGTGAGGCTAG 60.465 60.000 0.00 0.00 42.15 3.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
188 211 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
189 212 0.996762 TCCTCCTCCTCCTCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
190 213 0.998945 CTCCTCCTCCTCCTCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
191 214 1.541672 CTCCTCCTCCTCCTCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
192 215 1.541672 CCTCCTCCTCCTCCTCCTC 59.458 68.421 0.00 0.00 0.00 3.71
193 216 2.018086 CCCTCCTCCTCCTCCTCCT 61.018 68.421 0.00 0.00 0.00 3.69
194 217 2.015726 TCCCTCCTCCTCCTCCTCC 61.016 68.421 0.00 0.00 0.00 4.30
195 218 1.541672 CTCCCTCCTCCTCCTCCTC 59.458 68.421 0.00 0.00 0.00 3.71
196 219 2.018086 CCTCCCTCCTCCTCCTCCT 61.018 68.421 0.00 0.00 0.00 3.69
197 220 1.376249 ATCCTCCCTCCTCCTCCTCC 61.376 65.000 0.00 0.00 0.00 4.30
198 221 1.076513 GTATCCTCCCTCCTCCTCCTC 59.923 61.905 0.00 0.00 0.00 3.71
199 222 1.163408 GTATCCTCCCTCCTCCTCCT 58.837 60.000 0.00 0.00 0.00 3.69
200 223 1.163408 AGTATCCTCCCTCCTCCTCC 58.837 60.000 0.00 0.00 0.00 4.30
201 224 2.969262 CAAAGTATCCTCCCTCCTCCTC 59.031 54.545 0.00 0.00 0.00 3.71
202 225 2.360854 CCAAAGTATCCTCCCTCCTCCT 60.361 54.545 0.00 0.00 0.00 3.69
219 245 0.473694 TCCTCCTCTGCTCCACCAAA 60.474 55.000 0.00 0.00 0.00 3.28
307 333 2.340078 GCTGAGACAGTGACGGCA 59.660 61.111 0.00 0.00 36.16 5.69
320 346 3.443925 CGACTCGCTCCTGGCTGA 61.444 66.667 0.00 0.00 39.13 4.26
604 1722 1.269517 GCTTGGCATGTCGTTTTTGGA 60.270 47.619 2.12 0.00 0.00 3.53
657 1775 7.291566 CCAATACACCTGTAAAATATACCCCA 58.708 38.462 0.00 0.00 33.76 4.96
815 1935 1.619827 TCTCAAAATACCGACCCGTGT 59.380 47.619 0.00 0.00 0.00 4.49
875 1995 2.572290 CGCTACCTCCAATTTAAGGGG 58.428 52.381 7.60 0.00 36.95 4.79
876 1996 1.947456 GCGCTACCTCCAATTTAAGGG 59.053 52.381 0.00 0.00 36.95 3.95
877 1997 1.597663 CGCGCTACCTCCAATTTAAGG 59.402 52.381 5.56 1.96 38.70 2.69
878 1998 1.597663 CCGCGCTACCTCCAATTTAAG 59.402 52.381 5.56 0.00 0.00 1.85
879 1999 1.207570 TCCGCGCTACCTCCAATTTAA 59.792 47.619 5.56 0.00 0.00 1.52
880 2000 0.825410 TCCGCGCTACCTCCAATTTA 59.175 50.000 5.56 0.00 0.00 1.40
881 2001 0.462047 CTCCGCGCTACCTCCAATTT 60.462 55.000 5.56 0.00 0.00 1.82
882 2002 1.144057 CTCCGCGCTACCTCCAATT 59.856 57.895 5.56 0.00 0.00 2.32
883 2003 2.058595 ACTCCGCGCTACCTCCAAT 61.059 57.895 5.56 0.00 0.00 3.16
884 2004 2.678934 ACTCCGCGCTACCTCCAA 60.679 61.111 5.56 0.00 0.00 3.53
885 2005 3.449227 CACTCCGCGCTACCTCCA 61.449 66.667 5.56 0.00 0.00 3.86
886 2006 3.127352 CTCACTCCGCGCTACCTCC 62.127 68.421 5.56 0.00 0.00 4.30
887 2007 2.054140 CTCTCACTCCGCGCTACCTC 62.054 65.000 5.56 0.00 0.00 3.85
888 2008 2.045242 TCTCACTCCGCGCTACCT 60.045 61.111 5.56 0.00 0.00 3.08
901 2021 2.992124 TTTGTTGAACGGGACTCTCA 57.008 45.000 0.00 0.00 0.00 3.27
933 2063 3.706594 TCTCTGTCTCTCTCTCTCTCTCC 59.293 52.174 0.00 0.00 0.00 3.71
950 2080 2.837291 CCCCTCTCCCGCTCTCTG 60.837 72.222 0.00 0.00 0.00 3.35
965 2095 1.892441 AACTCTCTCCCTCCCTCCCC 61.892 65.000 0.00 0.00 0.00 4.81
975 2105 2.161808 TCGACGATGTTCAACTCTCTCC 59.838 50.000 0.00 0.00 0.00 3.71
979 2109 4.174411 TGATTCGACGATGTTCAACTCT 57.826 40.909 0.00 0.00 0.00 3.24
980 2110 4.259970 CCATGATTCGACGATGTTCAACTC 60.260 45.833 0.00 0.00 0.00 3.01
983 2113 2.935849 CCCATGATTCGACGATGTTCAA 59.064 45.455 0.00 0.00 0.00 2.69
984 2114 2.549926 CCCATGATTCGACGATGTTCA 58.450 47.619 0.00 3.27 0.00 3.18
1074 2207 1.134220 CGGGGCTTACTATTGGCTTCA 60.134 52.381 0.00 0.00 0.00 3.02
1130 2263 2.715046 CAGCAAGGCACAAATAGGAGA 58.285 47.619 0.00 0.00 0.00 3.71
1183 2330 1.272704 GGACAGGGCTCCCAAGAAAAT 60.273 52.381 7.82 0.00 38.92 1.82
1299 2446 3.599730 TCATACTCCAACTGAGCACAG 57.400 47.619 9.82 9.82 45.61 3.66
1351 2498 3.109619 GGAACGCGAAAGAGATCTACAG 58.890 50.000 15.93 0.00 33.45 2.74
1527 2679 4.843220 ATCAAACTCCAGCTGAAAACAG 57.157 40.909 17.39 5.23 0.00 3.16
1531 2683 5.593909 TCTGAAAATCAAACTCCAGCTGAAA 59.406 36.000 17.39 1.42 0.00 2.69
1532 2684 5.132502 TCTGAAAATCAAACTCCAGCTGAA 58.867 37.500 17.39 0.00 0.00 3.02
1682 3025 7.404980 ACAATTATTCAGGGTCCTAAGTCCTAA 59.595 37.037 0.00 0.00 0.00 2.69
1683 3026 6.906901 ACAATTATTCAGGGTCCTAAGTCCTA 59.093 38.462 0.00 0.00 0.00 2.94
1684 3027 5.731678 ACAATTATTCAGGGTCCTAAGTCCT 59.268 40.000 0.00 0.00 0.00 3.85
1685 3028 6.002653 ACAATTATTCAGGGTCCTAAGTCC 57.997 41.667 0.00 0.00 0.00 3.85
1948 3292 5.030147 TGAGGTTGAATGTCAGGGTAGTAT 58.970 41.667 0.00 0.00 0.00 2.12
2036 3381 6.017192 TCACTCTTTCGCTGATCAATTTTCAA 60.017 34.615 0.00 0.00 0.00 2.69
2138 3486 1.208052 ACTATGCAGCTCACGGTTCAT 59.792 47.619 0.00 0.00 0.00 2.57
2320 3668 8.517878 CAACAGGAAGTTTAATGATCTGATTGT 58.482 33.333 0.00 0.00 38.74 2.71
2321 3669 8.517878 ACAACAGGAAGTTTAATGATCTGATTG 58.482 33.333 0.00 0.00 38.74 2.67
2433 3803 5.640732 CATATTTTTCCTGGAACTGAACGG 58.359 41.667 9.04 0.00 0.00 4.44
2636 4007 1.376649 AACTCCTGAGCCCATTTCCT 58.623 50.000 0.00 0.00 0.00 3.36
2641 4012 1.145738 ACAACAAACTCCTGAGCCCAT 59.854 47.619 0.00 0.00 0.00 4.00
2671 4050 3.942748 TCCACAGTTACTGAAACACCAAC 59.057 43.478 20.07 0.00 40.83 3.77
2688 4068 3.650942 ACTTCACCACTTATCCTTCCACA 59.349 43.478 0.00 0.00 0.00 4.17
2717 4097 2.378547 ACAATCCCAAACCTCTGCCTTA 59.621 45.455 0.00 0.00 0.00 2.69
3014 4397 0.813184 CCAGACACCATGACCAATGC 59.187 55.000 0.00 0.00 34.67 3.56
3061 4447 3.422303 CACACATGCACGTCCGGG 61.422 66.667 0.00 0.00 0.00 5.73
3064 4450 2.325082 GGACCACACATGCACGTCC 61.325 63.158 0.00 6.20 36.52 4.79
3155 4542 1.153549 CAGCCGTCCTCCACTAAGC 60.154 63.158 0.00 0.00 0.00 3.09
3233 4620 5.736951 ATGACTACAAGACTCAAAGCTCT 57.263 39.130 0.00 0.00 0.00 4.09
3243 4630 4.872691 CAGGGACATGAATGACTACAAGAC 59.127 45.833 0.00 0.00 0.00 3.01
3290 4677 2.566952 AGTTCAAGCACACACAAAGC 57.433 45.000 0.00 0.00 0.00 3.51
3369 4841 9.070149 GTTTCTTTTAGCTAATGATGAAGCAAG 57.930 33.333 7.08 4.86 41.32 4.01
3409 4881 5.653769 CCACCATGAGAATTAACATCCTGTT 59.346 40.000 0.00 0.00 43.88 3.16
3455 4927 4.000928 ACATACCTCTGGAAGATCTGGT 57.999 45.455 0.00 0.05 45.62 4.00
3568 5040 3.026694 AGTTTTCTGCTGGAAAGTTGCT 58.973 40.909 0.00 0.00 43.68 3.91
3684 5230 3.577667 TCCGTCCCATAATATAAACGCG 58.422 45.455 3.53 3.53 0.00 6.01
3687 5233 5.247792 ACTCCCTCCGTCCCATAATATAAAC 59.752 44.000 0.00 0.00 0.00 2.01
3702 5248 3.414269 GTTCTAGGATCTACTCCCTCCG 58.586 54.545 0.00 0.00 46.27 4.63
3746 5292 6.753279 ACATCGATCATGGCAAATAAAACAAG 59.247 34.615 0.00 0.00 36.72 3.16
3773 5319 4.277476 ACAGAAGGGAAAACAATGTGACA 58.723 39.130 0.00 0.00 0.00 3.58
3832 5378 4.202050 GCACAATCTACAATTAGCCAAGGG 60.202 45.833 0.00 0.00 0.00 3.95
4460 6069 5.584649 CCCCGTAATATGCACATTATACAGG 59.415 44.000 0.00 3.22 0.00 4.00
4900 6519 4.654091 ATGCCACTGGTGCATTAATTAC 57.346 40.909 0.00 0.00 46.91 1.89
5444 12403 3.714798 TGACTGTGGAGTTAACTTTCCCT 59.285 43.478 10.02 0.00 30.16 4.20
5556 12516 7.979537 GTGAATCCAAACAAAGAACTAAAAGGT 59.020 33.333 0.00 0.00 0.00 3.50
5654 12614 6.599244 CCAGGTATTGCTAGAAGATTGAAACA 59.401 38.462 0.00 0.00 0.00 2.83
5768 12728 7.410120 AACTCCACTTCTGAATTTTGAAAGT 57.590 32.000 0.00 0.00 0.00 2.66
5827 12787 0.673644 ATCGGCAGTTTTCCTGGTCG 60.674 55.000 0.00 0.00 41.81 4.79
5832 12792 1.613437 CAACCAATCGGCAGTTTTCCT 59.387 47.619 0.00 0.00 34.57 3.36
5833 12793 1.339929 ACAACCAATCGGCAGTTTTCC 59.660 47.619 0.00 0.00 34.57 3.13
5866 12826 1.550327 TGTCAACACCAGCCAAAACA 58.450 45.000 0.00 0.00 0.00 2.83
5884 12844 2.030805 GCCAAAGGCTGTAGAAGTGTTG 60.031 50.000 0.00 0.00 46.69 3.33
5940 12900 0.981183 TCTAGGGCAAAAGAAGCGGA 59.019 50.000 0.00 0.00 0.00 5.54
5950 12910 2.832129 CTGTACAGGTTCTCTAGGGCAA 59.168 50.000 15.49 0.00 0.00 4.52
5987 12947 5.520751 AGCTAAGTTACTCCCACTATGACT 58.479 41.667 0.00 0.00 0.00 3.41
6010 12970 4.459390 TTTGGAGTGCGCTATGTTACTA 57.541 40.909 9.73 0.00 0.00 1.82
6092 13052 5.941058 TCATCTTGTTTTGGGAAACGCTATA 59.059 36.000 0.00 0.00 46.44 1.31
6099 13059 6.361433 TGTAGACTCATCTTGTTTTGGGAAA 58.639 36.000 0.00 0.00 36.29 3.13
6125 13085 9.277783 GTGTCATAGATGGCTTCATTTATTAGT 57.722 33.333 3.03 0.00 32.56 2.24
6168 13128 9.962783 AGTCTAAGTTACTACCTTTATAATGCG 57.037 33.333 0.00 0.00 0.00 4.73
6176 13136 8.930846 TGACACTAGTCTAAGTTACTACCTTT 57.069 34.615 0.00 0.00 45.20 3.11
6180 13140 7.759465 TGCATGACACTAGTCTAAGTTACTAC 58.241 38.462 0.00 0.00 45.20 2.73
6203 13163 5.536916 ACCCTCTTAGACTAGTGTCATATGC 59.463 44.000 0.00 0.00 45.20 3.14
6204 13164 6.515862 GCACCCTCTTAGACTAGTGTCATATG 60.516 46.154 0.00 0.00 45.20 1.78
6205 13165 5.536916 GCACCCTCTTAGACTAGTGTCATAT 59.463 44.000 0.00 0.00 45.20 1.78
6206 13166 4.888239 GCACCCTCTTAGACTAGTGTCATA 59.112 45.833 0.00 0.00 45.20 2.15
6218 13178 1.839994 TGGATCCAAGCACCCTCTTAG 59.160 52.381 13.46 0.00 0.00 2.18
6219 13179 1.965414 TGGATCCAAGCACCCTCTTA 58.035 50.000 13.46 0.00 0.00 2.10
6220 13180 1.005215 CTTGGATCCAAGCACCCTCTT 59.995 52.381 35.47 0.00 45.38 2.85
6221 13181 0.622665 CTTGGATCCAAGCACCCTCT 59.377 55.000 35.47 0.00 45.38 3.69
6222 13182 3.181526 CTTGGATCCAAGCACCCTC 57.818 57.895 35.47 0.00 45.38 4.30
6270 13230 7.990886 TGCTTGGAACTTTAGTCTCTAAAAGAA 59.009 33.333 2.08 0.00 36.43 2.52
6281 13241 1.780919 AGGGGTGCTTGGAACTTTAGT 59.219 47.619 0.00 0.00 0.00 2.24
6287 13247 0.690762 TAGTCAGGGGTGCTTGGAAC 59.309 55.000 0.00 0.00 0.00 3.62
6297 13257 1.872773 AGCCTCTCTTTAGTCAGGGG 58.127 55.000 0.00 0.00 0.00 4.79
6364 13325 7.252678 AGGAGAGAGAGGGCTAATACATATTT 58.747 38.462 0.00 0.00 0.00 1.40
6405 13366 4.323417 TCCAGAACTCGCATGTGTTAAAT 58.677 39.130 6.09 0.00 32.29 1.40


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

AutoCloner maintained by Alex Coulton.