Multiple sequence alignment - TraesCS4A01G479100

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 TraesCS4A01G479100 chr4A 100.000 3533 0 0 1 3533 735817716 735821248 0.000000e+00 6525
1 TraesCS4A01G479100 chr4A 90.384 2475 215 8 533 2997 736755857 736758318 0.000000e+00 3230
2 TraesCS4A01G479100 chr4A 84.002 2619 351 41 973 3532 735562731 735560122 0.000000e+00 2453
3 TraesCS4A01G479100 chr4A 83.226 2641 390 32 913 3524 736119658 736122274 0.000000e+00 2374
4 TraesCS4A01G479100 chr4A 83.851 2545 347 37 1038 3525 736884006 736886543 0.000000e+00 2364
5 TraesCS4A01G479100 chr4A 83.863 2547 339 45 1040 3525 735767154 735769689 0.000000e+00 2361
6 TraesCS4A01G479100 chr4A 83.898 2509 364 28 1038 3520 735020331 735022825 0.000000e+00 2359
7 TraesCS4A01G479100 chr4A 82.875 2692 380 38 888 3528 734730560 734733221 0.000000e+00 2342
8 TraesCS4A01G479100 chr4A 82.814 2694 380 40 888 3528 736570634 736573297 0.000000e+00 2333
9 TraesCS4A01G479100 chr4A 85.178 2186 283 26 1038 3187 734480184 734482364 0.000000e+00 2204
10 TraesCS4A01G479100 chr4A 81.998 2533 398 33 1039 3521 735733913 735736437 0.000000e+00 2098
11 TraesCS4A01G479100 chr4A 81.847 2534 400 35 1039 3521 736433809 736431285 0.000000e+00 2076
12 TraesCS4A01G479100 chr4A 84.213 2046 295 21 977 3003 735367948 735365912 0.000000e+00 1964
13 TraesCS4A01G479100 chr4A 84.800 1954 267 24 1060 2997 734996813 734998752 0.000000e+00 1936
14 TraesCS4A01G479100 chr4A 83.192 2124 299 29 1445 3521 735689506 735691618 0.000000e+00 1892
15 TraesCS4A01G479100 chr4A 91.391 453 28 2 99 540 736754973 736755425 8.380000e-171 610
16 TraesCS4A01G479100 chr4A 84.109 516 72 5 3019 3524 736057990 736058505 1.140000e-134 490
17 TraesCS4A01G479100 chr4A 83.092 414 69 1 1045 1458 735687745 735688157 3.330000e-100 375
18 TraesCS4A01G479100 chr4A 92.357 157 11 1 533 689 735831114 735831269 4.590000e-54 222
19 TraesCS4A01G479100 chr4A 100.000 98 0 0 1 98 735812142 735812239 7.790000e-42 182
20 TraesCS4A01G479100 chr7D 83.430 2758 374 42 830 3524 5649558 5646821 0.000000e+00 2484
21 TraesCS4A01G479100 chr7D 82.195 2533 393 32 1039 3521 5788110 5785586 0.000000e+00 2126
22 TraesCS4A01G479100 chr7D 83.452 2248 306 39 1329 3528 5486537 5484308 0.000000e+00 2030
23 TraesCS4A01G479100 chr7D 84.136 1412 192 19 2130 3526 5459025 5457631 0.000000e+00 1338
24 TraesCS4A01G479100 chr7A 82.497 2651 379 49 933 3526 7045554 7042932 0.000000e+00 2246
25 TraesCS4A01G479100 chr7A 83.527 516 75 5 3019 3524 7320290 7319775 1.150000e-129 473
26 TraesCS4A01G479100 chr5B 90.000 100 9 1 1 99 18133593 18133494 1.030000e-25 128


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 TraesCS4A01G479100 chr4A 735817716 735821248 3532 False 6525.0 6525 100.0000 1 3533 1 chr4A.!!$F8 3532
1 TraesCS4A01G479100 chr4A 735560122 735562731 2609 True 2453.0 2453 84.0020 973 3532 1 chr4A.!!$R2 2559
2 TraesCS4A01G479100 chr4A 736119658 736122274 2616 False 2374.0 2374 83.2260 913 3524 1 chr4A.!!$F11 2611
3 TraesCS4A01G479100 chr4A 736884006 736886543 2537 False 2364.0 2364 83.8510 1038 3525 1 chr4A.!!$F13 2487
4 TraesCS4A01G479100 chr4A 735767154 735769689 2535 False 2361.0 2361 83.8630 1040 3525 1 chr4A.!!$F6 2485
5 TraesCS4A01G479100 chr4A 735020331 735022825 2494 False 2359.0 2359 83.8980 1038 3520 1 chr4A.!!$F4 2482
6 TraesCS4A01G479100 chr4A 734730560 734733221 2661 False 2342.0 2342 82.8750 888 3528 1 chr4A.!!$F2 2640
7 TraesCS4A01G479100 chr4A 736570634 736573297 2663 False 2333.0 2333 82.8140 888 3528 1 chr4A.!!$F12 2640
8 TraesCS4A01G479100 chr4A 734480184 734482364 2180 False 2204.0 2204 85.1780 1038 3187 1 chr4A.!!$F1 2149
9 TraesCS4A01G479100 chr4A 735733913 735736437 2524 False 2098.0 2098 81.9980 1039 3521 1 chr4A.!!$F5 2482
10 TraesCS4A01G479100 chr4A 736431285 736433809 2524 True 2076.0 2076 81.8470 1039 3521 1 chr4A.!!$R3 2482
11 TraesCS4A01G479100 chr4A 735365912 735367948 2036 True 1964.0 1964 84.2130 977 3003 1 chr4A.!!$R1 2026
12 TraesCS4A01G479100 chr4A 734996813 734998752 1939 False 1936.0 1936 84.8000 1060 2997 1 chr4A.!!$F3 1937
13 TraesCS4A01G479100 chr4A 736754973 736758318 3345 False 1920.0 3230 90.8875 99 2997 2 chr4A.!!$F15 2898
14 TraesCS4A01G479100 chr4A 735687745 735691618 3873 False 1133.5 1892 83.1420 1045 3521 2 chr4A.!!$F14 2476
15 TraesCS4A01G479100 chr4A 736057990 736058505 515 False 490.0 490 84.1090 3019 3524 1 chr4A.!!$F10 505
16 TraesCS4A01G479100 chr7D 5646821 5649558 2737 True 2484.0 2484 83.4300 830 3524 1 chr7D.!!$R3 2694
17 TraesCS4A01G479100 chr7D 5785586 5788110 2524 True 2126.0 2126 82.1950 1039 3521 1 chr7D.!!$R4 2482
18 TraesCS4A01G479100 chr7D 5484308 5486537 2229 True 2030.0 2030 83.4520 1329 3528 1 chr7D.!!$R2 2199
19 TraesCS4A01G479100 chr7D 5457631 5459025 1394 True 1338.0 1338 84.1360 2130 3526 1 chr7D.!!$R1 1396
20 TraesCS4A01G479100 chr7A 7042932 7045554 2622 True 2246.0 2246 82.4970 933 3526 1 chr7A.!!$R1 2593
21 TraesCS4A01G479100 chr7A 7319775 7320290 515 True 473.0 473 83.5270 3019 3524 1 chr7A.!!$R2 505

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
718 1169 0.109132 GAAGCAATTCTTGTGCCCGG 60.109 55.0 0.00 0.0 43.27 5.73 F
1389 1862 0.035630 GCAGGCTGTCCAATCTGAGT 60.036 55.0 17.16 0.0 33.74 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1761 3619 0.529773 TATGACGGCGGACATCAAGC 60.530 55.000 20.85 0.0 31.18 4.01 R
3160 5103 1.004745 GGCTTGATCCTTCCCAGTGAA 59.995 52.381 0.00 0.0 0.00 3.18 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
23 24 5.520632 CCATATACTCGCAATATACCTCCG 58.479 45.833 0.00 0.00 0.00 4.63
24 25 5.298527 CCATATACTCGCAATATACCTCCGA 59.701 44.000 0.00 0.00 0.00 4.55
25 26 6.016192 CCATATACTCGCAATATACCTCCGAT 60.016 42.308 0.00 0.00 0.00 4.18
26 27 5.916661 ATACTCGCAATATACCTCCGATT 57.083 39.130 0.00 0.00 0.00 3.34
27 28 4.602340 ACTCGCAATATACCTCCGATTT 57.398 40.909 0.00 0.00 0.00 2.17
28 29 4.557205 ACTCGCAATATACCTCCGATTTC 58.443 43.478 0.00 0.00 0.00 2.17
29 30 3.571571 TCGCAATATACCTCCGATTTCG 58.428 45.455 0.00 0.00 39.44 3.46
43 44 4.197107 CGATTTCGGCCTGAATTAGTTC 57.803 45.455 0.00 0.00 36.22 3.01
44 45 3.871594 CGATTTCGGCCTGAATTAGTTCT 59.128 43.478 0.00 0.00 36.22 3.01
45 46 4.332819 CGATTTCGGCCTGAATTAGTTCTT 59.667 41.667 0.00 0.00 36.22 2.52
46 47 5.502544 CGATTTCGGCCTGAATTAGTTCTTC 60.503 44.000 0.00 0.00 36.22 2.87
47 48 3.261981 TCGGCCTGAATTAGTTCTTCC 57.738 47.619 0.00 0.00 35.33 3.46
48 49 2.093128 TCGGCCTGAATTAGTTCTTCCC 60.093 50.000 0.00 0.00 35.33 3.97
49 50 2.092914 CGGCCTGAATTAGTTCTTCCCT 60.093 50.000 0.00 0.00 35.33 4.20
50 51 3.622455 CGGCCTGAATTAGTTCTTCCCTT 60.622 47.826 0.00 0.00 35.33 3.95
51 52 3.696548 GGCCTGAATTAGTTCTTCCCTTG 59.303 47.826 0.00 0.00 35.33 3.61
52 53 3.129462 GCCTGAATTAGTTCTTCCCTTGC 59.871 47.826 0.00 0.00 35.33 4.01
53 54 4.335416 CCTGAATTAGTTCTTCCCTTGCA 58.665 43.478 0.00 0.00 35.33 4.08
54 55 4.156739 CCTGAATTAGTTCTTCCCTTGCAC 59.843 45.833 0.00 0.00 35.33 4.57
55 56 4.724399 TGAATTAGTTCTTCCCTTGCACA 58.276 39.130 0.00 0.00 35.33 4.57
56 57 5.136828 TGAATTAGTTCTTCCCTTGCACAA 58.863 37.500 0.00 0.00 35.33 3.33
57 58 5.596361 TGAATTAGTTCTTCCCTTGCACAAA 59.404 36.000 0.00 0.00 35.33 2.83
58 59 6.267471 TGAATTAGTTCTTCCCTTGCACAAAT 59.733 34.615 0.00 0.00 35.33 2.32
59 60 6.670695 ATTAGTTCTTCCCTTGCACAAATT 57.329 33.333 0.00 0.00 0.00 1.82
60 61 6.478512 TTAGTTCTTCCCTTGCACAAATTT 57.521 33.333 0.00 0.00 0.00 1.82
61 62 7.589958 TTAGTTCTTCCCTTGCACAAATTTA 57.410 32.000 0.00 0.00 0.00 1.40
62 63 6.089249 AGTTCTTCCCTTGCACAAATTTAG 57.911 37.500 0.00 0.00 0.00 1.85
63 64 4.519540 TCTTCCCTTGCACAAATTTAGC 57.480 40.909 7.62 7.62 0.00 3.09
64 65 3.258123 TCTTCCCTTGCACAAATTTAGCC 59.742 43.478 11.05 0.00 0.00 3.93
65 66 1.899142 TCCCTTGCACAAATTTAGCCC 59.101 47.619 11.05 0.00 0.00 5.19
66 67 1.622811 CCCTTGCACAAATTTAGCCCA 59.377 47.619 11.05 0.03 0.00 5.36
67 68 2.038295 CCCTTGCACAAATTTAGCCCAA 59.962 45.455 11.05 3.49 0.00 4.12
68 69 3.495806 CCCTTGCACAAATTTAGCCCAAA 60.496 43.478 11.05 0.99 0.00 3.28
69 70 3.498018 CCTTGCACAAATTTAGCCCAAAC 59.502 43.478 11.05 0.00 0.00 2.93
70 71 4.379652 CTTGCACAAATTTAGCCCAAACT 58.620 39.130 11.05 0.00 0.00 2.66
71 72 5.510520 CCTTGCACAAATTTAGCCCAAACTA 60.511 40.000 11.05 0.00 0.00 2.24
72 73 5.132897 TGCACAAATTTAGCCCAAACTAG 57.867 39.130 11.05 0.00 0.00 2.57
73 74 4.586841 TGCACAAATTTAGCCCAAACTAGT 59.413 37.500 11.05 0.00 0.00 2.57
74 75 5.161358 GCACAAATTTAGCCCAAACTAGTC 58.839 41.667 0.00 0.00 0.00 2.59
75 76 5.709966 CACAAATTTAGCCCAAACTAGTCC 58.290 41.667 0.00 0.00 0.00 3.85
76 77 4.770531 ACAAATTTAGCCCAAACTAGTCCC 59.229 41.667 0.00 0.00 0.00 4.46
77 78 4.948062 AATTTAGCCCAAACTAGTCCCT 57.052 40.909 0.00 0.00 0.00 4.20
78 79 6.184789 CAAATTTAGCCCAAACTAGTCCCTA 58.815 40.000 0.00 0.00 0.00 3.53
79 80 4.831674 TTTAGCCCAAACTAGTCCCTAC 57.168 45.455 0.00 0.00 0.00 3.18
80 81 2.337359 AGCCCAAACTAGTCCCTACA 57.663 50.000 0.00 0.00 0.00 2.74
81 82 2.627933 AGCCCAAACTAGTCCCTACAA 58.372 47.619 0.00 0.00 0.00 2.41
82 83 2.305052 AGCCCAAACTAGTCCCTACAAC 59.695 50.000 0.00 0.00 0.00 3.32
83 84 2.617276 GCCCAAACTAGTCCCTACAACC 60.617 54.545 0.00 0.00 0.00 3.77
84 85 2.910977 CCCAAACTAGTCCCTACAACCT 59.089 50.000 0.00 0.00 0.00 3.50
85 86 3.055312 CCCAAACTAGTCCCTACAACCTC 60.055 52.174 0.00 0.00 0.00 3.85
86 87 3.838903 CCAAACTAGTCCCTACAACCTCT 59.161 47.826 0.00 0.00 0.00 3.69
87 88 4.081586 CCAAACTAGTCCCTACAACCTCTC 60.082 50.000 0.00 0.00 0.00 3.20
88 89 3.002038 ACTAGTCCCTACAACCTCTCG 57.998 52.381 0.00 0.00 0.00 4.04
89 90 2.299521 CTAGTCCCTACAACCTCTCGG 58.700 57.143 0.00 0.00 0.00 4.63
90 91 0.324460 AGTCCCTACAACCTCTCGGG 60.324 60.000 0.00 0.00 41.89 5.14
91 92 1.684734 TCCCTACAACCTCTCGGGC 60.685 63.158 0.00 0.00 39.10 6.13
92 93 2.732619 CCCTACAACCTCTCGGGCC 61.733 68.421 0.00 0.00 39.10 5.80
93 94 1.686110 CCTACAACCTCTCGGGCCT 60.686 63.158 0.84 0.00 39.10 5.19
94 95 1.517832 CTACAACCTCTCGGGCCTG 59.482 63.158 4.71 4.71 39.10 4.85
95 96 0.970937 CTACAACCTCTCGGGCCTGA 60.971 60.000 15.16 15.16 39.10 3.86
96 97 1.255667 TACAACCTCTCGGGCCTGAC 61.256 60.000 11.27 0.00 39.10 3.51
97 98 2.203788 AACCTCTCGGGCCTGACA 60.204 61.111 11.27 0.00 39.10 3.58
158 159 1.117150 AGTCACCAACTGTGTACCGT 58.883 50.000 0.00 0.00 45.61 4.83
159 160 2.309613 AGTCACCAACTGTGTACCGTA 58.690 47.619 0.00 0.00 45.61 4.02
176 177 3.066342 ACCGTATGACTACATTGGAGACG 59.934 47.826 1.99 1.89 37.87 4.18
227 228 0.249657 GCGAGAGGTTATGGCTCCAG 60.250 60.000 0.00 0.00 0.00 3.86
233 234 2.435805 GAGGTTATGGCTCCAGATGTGA 59.564 50.000 0.00 0.00 0.00 3.58
238 239 2.556144 TGGCTCCAGATGTGATATGC 57.444 50.000 0.00 0.00 0.00 3.14
240 241 1.436600 GCTCCAGATGTGATATGCGG 58.563 55.000 0.00 0.00 0.00 5.69
260 261 2.605366 GGCGAGAGATGTTTCTTACTGC 59.395 50.000 0.00 0.00 30.30 4.40
264 265 2.996621 AGAGATGTTTCTTACTGCGTGC 59.003 45.455 0.00 0.00 30.30 5.34
338 339 9.444600 TGGTTCTTAGGTAAGTACATTCATTTC 57.555 33.333 8.29 0.00 35.92 2.17
433 445 2.675889 GCAAGGTTCATGGAAAGCATGG 60.676 50.000 0.00 0.00 0.00 3.66
462 474 2.567169 ACGATGGTGATGGACAGAAAGA 59.433 45.455 0.00 0.00 0.00 2.52
467 479 6.349611 CGATGGTGATGGACAGAAAGAAAAAT 60.350 38.462 0.00 0.00 0.00 1.82
513 525 5.168526 TCTGTTTAGTCACACAATGTTGC 57.831 39.130 0.00 0.00 0.00 4.17
514 526 4.036262 TCTGTTTAGTCACACAATGTTGCC 59.964 41.667 0.00 0.00 0.00 4.52
526 538 2.821969 CAATGTTGCCCTCTGCTACTTT 59.178 45.455 0.00 0.00 44.65 2.66
528 540 3.053831 TGTTGCCCTCTGCTACTTTAC 57.946 47.619 0.00 0.00 44.65 2.01
534 546 3.306780 GCCCTCTGCTACTTTACACTTCA 60.307 47.826 0.00 0.00 36.87 3.02
576 1027 7.561356 ACCCACTCTCAAAAATATTATCCTTGG 59.439 37.037 0.00 0.00 0.00 3.61
659 1110 9.632638 ATGCAGTTGACTAATTTATCCTGTAAT 57.367 29.630 0.00 0.00 0.00 1.89
685 1136 6.708285 TCCTACTCTAACAGGTTTTTCATCC 58.292 40.000 0.00 0.00 33.37 3.51
718 1169 0.109132 GAAGCAATTCTTGTGCCCGG 60.109 55.000 0.00 0.00 43.27 5.73
721 1172 1.966762 CAATTCTTGTGCCCGGCTT 59.033 52.632 11.61 0.00 0.00 4.35
807 1264 8.825667 TTTGCTCCTATTTTTCATTGTAAACC 57.174 30.769 0.00 0.00 0.00 3.27
964 1427 3.719871 ACAAACAAAACTCCCTTCCCTT 58.280 40.909 0.00 0.00 0.00 3.95
1077 1550 2.705658 TCCAGTCTTGAAGAAGCTCCAA 59.294 45.455 0.00 0.00 0.00 3.53
1155 1628 1.376543 CCACTATCTTGCCACAGCTG 58.623 55.000 13.48 13.48 40.80 4.24
1159 1632 2.304180 ACTATCTTGCCACAGCTGAAGT 59.696 45.455 23.35 6.91 40.80 3.01
1209 1682 1.077265 CAGGCCCAGGTTGGACAAT 59.923 57.895 0.00 0.00 40.96 2.71
1217 1690 1.068333 CAGGTTGGACAATTGGCTTCG 60.068 52.381 11.97 0.00 0.00 3.79
1246 1719 0.545309 AGAAGCACTCTACCTGGCCA 60.545 55.000 4.71 4.71 30.22 5.36
1257 1730 1.260544 ACCTGGCCAAAGAATTGCTC 58.739 50.000 7.01 0.00 35.10 4.26
1389 1862 0.035630 GCAGGCTGTCCAATCTGAGT 60.036 55.000 17.16 0.00 33.74 3.41
1605 3451 9.864034 GATCATACAATACATCTTACCAAAACG 57.136 33.333 0.00 0.00 0.00 3.60
1661 3519 1.124477 GGTTTGGCCATTGTTGGGGA 61.124 55.000 6.09 0.00 43.84 4.81
1806 3664 1.952990 GAGATCATCGAGTCTGCCTCA 59.047 52.381 0.00 0.00 40.48 3.86
1813 3672 1.544825 CGAGTCTGCCTCAAAGGGGA 61.545 60.000 0.00 0.00 40.48 4.81
1848 3707 6.206243 GCATCAATAACCTTGATACTCTGCAT 59.794 38.462 0.48 0.00 37.06 3.96
1875 3734 6.072838 ACAAGTTGATTGACATACTGCAAGAG 60.073 38.462 10.54 0.00 41.83 2.85
1893 3752 5.104900 GCAAGAGTCAGGGAAATTCCTACTA 60.105 44.000 12.28 0.00 36.57 1.82
1899 3758 6.958192 AGTCAGGGAAATTCCTACTAGTGTTA 59.042 38.462 12.28 0.00 36.57 2.41
1965 3824 4.439253 ACTGTTGGCTCCTTTAGTTTCT 57.561 40.909 0.00 0.00 0.00 2.52
2023 3883 4.853007 ACAAGATAGATTTCCAGCTGCTT 58.147 39.130 8.66 0.00 0.00 3.91
2034 3897 2.929830 AGCTGCTTTCTGCTGTGAG 58.070 52.632 0.00 0.00 44.34 3.51
2056 3925 2.622942 GTGTGCCCTCTGAAAAACATGA 59.377 45.455 0.00 0.00 0.00 3.07
2105 3974 1.136305 GCATCATGCATTTGCTGGACT 59.864 47.619 19.45 0.00 44.26 3.85
2120 3989 8.806429 TTTGCTGGACTAGAAATCATAAATCA 57.194 30.769 0.00 0.00 0.00 2.57
2264 4133 7.805163 TGGAAGGATGCTCTGAATATAAAGAA 58.195 34.615 0.00 0.00 0.00 2.52
2424 4294 3.993535 GCAGAGGGCCTTGTTGAG 58.006 61.111 7.89 0.00 36.11 3.02
2521 4421 4.522114 TCAACCAGTTGATGAGAAACACA 58.478 39.130 9.12 0.00 43.90 3.72
2522 4422 4.335315 TCAACCAGTTGATGAGAAACACAC 59.665 41.667 9.12 0.00 43.90 3.82
2523 4423 3.214328 ACCAGTTGATGAGAAACACACC 58.786 45.455 0.00 0.00 0.00 4.16
2524 4424 2.224079 CCAGTTGATGAGAAACACACCG 59.776 50.000 0.00 0.00 0.00 4.94
2525 4425 3.130633 CAGTTGATGAGAAACACACCGA 58.869 45.455 0.00 0.00 0.00 4.69
2526 4426 3.059597 CAGTTGATGAGAAACACACCGAC 60.060 47.826 0.00 0.00 0.00 4.79
2527 4427 2.869801 GTTGATGAGAAACACACCGACA 59.130 45.455 0.00 0.00 0.00 4.35
2528 4428 2.479837 TGATGAGAAACACACCGACAC 58.520 47.619 0.00 0.00 0.00 3.67
2529 4429 2.102420 TGATGAGAAACACACCGACACT 59.898 45.455 0.00 0.00 0.00 3.55
2532 4444 3.713288 TGAGAAACACACCGACACTTAG 58.287 45.455 0.00 0.00 0.00 2.18
2628 4540 7.194112 TGATAAGGTGACAGAAATACCATCA 57.806 36.000 0.00 0.00 36.94 3.07
2631 4543 4.253685 AGGTGACAGAAATACCATCAACG 58.746 43.478 0.00 0.00 36.94 4.10
2667 4579 9.335891 CTATCTGTTCGTGTTGATAGTATGATC 57.664 37.037 0.00 0.00 35.78 2.92
2703 4619 6.615264 AGTATCTGCAAGCTACATCATTTG 57.385 37.500 0.00 0.00 37.99 2.32
2722 4638 9.605275 ATCATTTGCGTACTATTATCTGCATAT 57.395 29.630 0.00 0.00 31.70 1.78
2739 4655 6.611642 TCTGCATATACCCCCTAATAGATGAC 59.388 42.308 0.00 0.00 0.00 3.06
2742 4658 6.683110 GCATATACCCCCTAATAGATGACGTG 60.683 46.154 0.00 0.00 0.00 4.49
2820 4736 9.278978 TGTTTGTCATCTTACAGCAGTAATAAA 57.721 29.630 1.83 0.00 39.36 1.40
2826 4742 7.775093 TCATCTTACAGCAGTAATAAATTGCCT 59.225 33.333 1.83 0.00 39.36 4.75
2856 4772 1.583054 GTGAGTTGAAGCACCTTCGT 58.417 50.000 1.07 0.00 42.78 3.85
2867 4783 4.483476 AGCACCTTCGTTATTTGAACAC 57.517 40.909 0.00 0.00 0.00 3.32
2871 4787 4.274950 CACCTTCGTTATTTGAACACCAGT 59.725 41.667 0.00 0.00 0.00 4.00
2936 4852 7.386848 TCTTTACCACTTGCAGTTACTTATGTC 59.613 37.037 0.00 0.00 0.00 3.06
2970 4886 2.105477 TGAGAGTTTGCCTGAGAAGCTT 59.895 45.455 0.00 0.00 0.00 3.74
2989 4905 9.816354 AGAAGCTTTGCAATTTAAGAAAGTTAA 57.184 25.926 0.00 0.00 0.00 2.01
2997 4913 7.814107 TGCAATTTAAGAAAGTTAAGGCATCTG 59.186 33.333 0.00 0.00 0.00 2.90
3005 4921 3.019564 AGTTAAGGCATCTGCAATGTCC 58.980 45.455 4.33 10.14 44.36 4.02
3006 4922 2.754552 GTTAAGGCATCTGCAATGTCCA 59.245 45.455 4.33 4.48 44.36 4.02
3011 4954 2.689471 GGCATCTGCAATGTCCATACAA 59.311 45.455 4.33 0.00 44.36 2.41
3015 4958 5.066375 GCATCTGCAATGTCCATACAAAGTA 59.934 40.000 0.00 0.00 39.07 2.24
3017 4960 5.555966 TCTGCAATGTCCATACAAAGTACA 58.444 37.500 0.00 0.00 39.58 2.90
3063 5006 6.476706 AGCTAACTTTGCTTCAACAATTGAAC 59.523 34.615 13.59 0.00 44.21 3.18
3083 5026 5.743398 TGAACGAATTTTCTGTGCAAAAGAG 59.257 36.000 0.00 0.00 27.22 2.85
3127 5070 3.866651 CTGAGGGACATGAACGAGATTT 58.133 45.455 0.00 0.00 0.00 2.17
3160 5103 9.736023 GTTTAAGTGTGACAAATCTTGAGAATT 57.264 29.630 0.00 0.00 0.00 2.17
3229 5173 0.185901 TCTTGGCAGCTTGGGACTTT 59.814 50.000 0.00 0.00 0.00 2.66
3241 5194 6.378280 CAGCTTGGGACTTTATTGGAATAACT 59.622 38.462 0.00 0.00 31.03 2.24
3304 5257 1.168714 GATGCCACCACCTCAACTTC 58.831 55.000 0.00 0.00 0.00 3.01
3310 5263 1.068588 CACCACCTCAACTTCGAGACA 59.931 52.381 0.00 0.00 34.79 3.41
3312 5265 2.028930 ACCACCTCAACTTCGAGACATC 60.029 50.000 0.00 0.00 34.79 3.06
3328 5281 5.220662 CGAGACATCACAATTCATGGTTACC 60.221 44.000 0.00 0.00 0.00 2.85
3376 5329 7.094933 GGTTACTTGATGGTTCGTATTTTGAGT 60.095 37.037 0.00 0.00 0.00 3.41
3385 5338 7.812648 TGGTTCGTATTTTGAGTATTTGGAAG 58.187 34.615 0.00 0.00 0.00 3.46
3446 5399 8.157476 CCTACCATCCAATACTAAGCTATTTGT 58.843 37.037 0.00 0.00 0.00 2.83
3471 5424 5.590530 ATTGCTCTAGTCTTGTACTCAGG 57.409 43.478 0.00 0.00 39.80 3.86
3509 5462 0.470766 ACGTTACCTTGCCTTCCACA 59.529 50.000 0.00 0.00 0.00 4.17
3528 5481 4.099419 CCACAAGGCCTTGAAAGTTTAGTT 59.901 41.667 44.50 20.55 42.93 2.24
3532 5485 8.237267 CACAAGGCCTTGAAAGTTTAGTTATAG 58.763 37.037 44.50 17.72 42.93 1.31
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 5.618418 CGAAATCGGAGGTATATTGCGAGTA 60.618 44.000 9.07 0.00 41.57 2.59
6 7 4.557205 GAAATCGGAGGTATATTGCGAGT 58.443 43.478 9.07 4.68 41.57 4.18
7 8 3.608506 CGAAATCGGAGGTATATTGCGAG 59.391 47.826 9.07 0.00 41.57 5.03
8 9 3.571571 CGAAATCGGAGGTATATTGCGA 58.428 45.455 6.34 6.34 42.44 5.10
9 10 3.972706 CGAAATCGGAGGTATATTGCG 57.027 47.619 0.00 0.00 35.37 4.85
21 22 3.002348 GAACTAATTCAGGCCGAAATCGG 59.998 47.826 17.29 17.29 46.97 4.18
22 23 3.871594 AGAACTAATTCAGGCCGAAATCG 59.128 43.478 12.83 5.16 37.12 3.34
23 24 5.220873 GGAAGAACTAATTCAGGCCGAAATC 60.221 44.000 12.83 7.70 37.12 2.17
24 25 4.640647 GGAAGAACTAATTCAGGCCGAAAT 59.359 41.667 12.83 6.92 37.12 2.17
25 26 4.007659 GGAAGAACTAATTCAGGCCGAAA 58.992 43.478 12.83 4.85 37.12 3.46
26 27 3.606687 GGAAGAACTAATTCAGGCCGAA 58.393 45.455 11.52 11.52 37.29 4.30
27 28 2.093128 GGGAAGAACTAATTCAGGCCGA 60.093 50.000 0.00 0.00 37.29 5.54
28 29 2.092914 AGGGAAGAACTAATTCAGGCCG 60.093 50.000 0.00 0.00 37.29 6.13
29 30 3.653835 AGGGAAGAACTAATTCAGGCC 57.346 47.619 0.00 0.00 37.29 5.19
30 31 3.129462 GCAAGGGAAGAACTAATTCAGGC 59.871 47.826 0.00 0.00 37.29 4.85
31 32 4.156739 GTGCAAGGGAAGAACTAATTCAGG 59.843 45.833 0.00 0.00 37.29 3.86
32 33 4.761739 TGTGCAAGGGAAGAACTAATTCAG 59.238 41.667 0.00 0.00 37.29 3.02
33 34 4.724399 TGTGCAAGGGAAGAACTAATTCA 58.276 39.130 0.00 0.00 37.29 2.57
34 35 5.705609 TTGTGCAAGGGAAGAACTAATTC 57.294 39.130 0.00 0.00 34.78 2.17
35 36 6.670695 ATTTGTGCAAGGGAAGAACTAATT 57.329 33.333 0.00 0.00 0.00 1.40
36 37 6.670695 AATTTGTGCAAGGGAAGAACTAAT 57.329 33.333 0.00 0.00 0.00 1.73
37 38 6.478512 AAATTTGTGCAAGGGAAGAACTAA 57.521 33.333 0.00 0.00 0.00 2.24
38 39 6.294508 GCTAAATTTGTGCAAGGGAAGAACTA 60.295 38.462 0.00 0.00 0.00 2.24
39 40 5.509670 GCTAAATTTGTGCAAGGGAAGAACT 60.510 40.000 0.00 0.00 0.00 3.01
40 41 4.686091 GCTAAATTTGTGCAAGGGAAGAAC 59.314 41.667 0.00 0.00 0.00 3.01
41 42 4.262420 GGCTAAATTTGTGCAAGGGAAGAA 60.262 41.667 16.19 0.00 0.00 2.52
42 43 3.258123 GGCTAAATTTGTGCAAGGGAAGA 59.742 43.478 16.19 0.00 0.00 2.87
43 44 3.588955 GGCTAAATTTGTGCAAGGGAAG 58.411 45.455 16.19 0.00 0.00 3.46
44 45 2.301583 GGGCTAAATTTGTGCAAGGGAA 59.698 45.455 16.19 0.00 0.00 3.97
45 46 1.899142 GGGCTAAATTTGTGCAAGGGA 59.101 47.619 16.19 0.00 0.00 4.20
46 47 1.622811 TGGGCTAAATTTGTGCAAGGG 59.377 47.619 16.19 0.00 0.00 3.95
47 48 3.399440 TTGGGCTAAATTTGTGCAAGG 57.601 42.857 16.19 0.00 0.00 3.61
48 49 4.379652 AGTTTGGGCTAAATTTGTGCAAG 58.620 39.130 16.19 1.40 0.00 4.01
49 50 4.414337 AGTTTGGGCTAAATTTGTGCAA 57.586 36.364 16.19 4.38 0.00 4.08
50 51 4.586841 ACTAGTTTGGGCTAAATTTGTGCA 59.413 37.500 16.19 0.00 0.00 4.57
51 52 5.134202 ACTAGTTTGGGCTAAATTTGTGC 57.866 39.130 0.00 5.26 0.00 4.57
52 53 5.336451 GGGACTAGTTTGGGCTAAATTTGTG 60.336 44.000 10.01 0.00 27.75 3.33
53 54 4.770531 GGGACTAGTTTGGGCTAAATTTGT 59.229 41.667 5.77 5.77 29.57 2.83
54 55 5.016831 AGGGACTAGTTTGGGCTAAATTTG 58.983 41.667 0.00 0.00 36.02 2.32
55 56 5.270979 AGGGACTAGTTTGGGCTAAATTT 57.729 39.130 0.00 0.00 36.02 1.82
56 57 4.948062 AGGGACTAGTTTGGGCTAAATT 57.052 40.909 0.00 0.00 36.02 1.82
57 58 4.786454 TGTAGGGACTAGTTTGGGCTAAAT 59.214 41.667 0.00 0.00 44.14 1.40
58 59 4.169666 TGTAGGGACTAGTTTGGGCTAAA 58.830 43.478 0.00 0.00 44.14 1.85
59 60 3.793712 TGTAGGGACTAGTTTGGGCTAA 58.206 45.455 0.00 0.00 44.14 3.09
60 61 3.478175 TGTAGGGACTAGTTTGGGCTA 57.522 47.619 0.00 0.00 44.14 3.93
61 62 2.305052 GTTGTAGGGACTAGTTTGGGCT 59.695 50.000 0.00 0.00 44.14 5.19
62 63 2.617276 GGTTGTAGGGACTAGTTTGGGC 60.617 54.545 0.00 0.00 44.14 5.36
63 64 2.910977 AGGTTGTAGGGACTAGTTTGGG 59.089 50.000 0.00 0.00 44.14 4.12
64 65 3.838903 AGAGGTTGTAGGGACTAGTTTGG 59.161 47.826 0.00 0.00 44.14 3.28
65 66 4.380655 CGAGAGGTTGTAGGGACTAGTTTG 60.381 50.000 0.00 0.00 44.14 2.93
66 67 3.762823 CGAGAGGTTGTAGGGACTAGTTT 59.237 47.826 0.00 0.00 44.14 2.66
67 68 3.354467 CGAGAGGTTGTAGGGACTAGTT 58.646 50.000 0.00 0.00 44.14 2.24
68 69 3.002038 CGAGAGGTTGTAGGGACTAGT 57.998 52.381 0.00 0.00 44.14 2.57
83 84 2.262915 GTGTGTCAGGCCCGAGAG 59.737 66.667 0.00 0.00 0.00 3.20
84 85 2.523168 TGTGTGTCAGGCCCGAGA 60.523 61.111 0.00 0.00 0.00 4.04
85 86 2.357517 GTGTGTGTCAGGCCCGAG 60.358 66.667 0.00 0.00 0.00 4.63
86 87 3.157949 TGTGTGTGTCAGGCCCGA 61.158 61.111 0.00 0.00 0.00 5.14
87 88 2.972505 GTGTGTGTGTCAGGCCCG 60.973 66.667 0.00 0.00 0.00 6.13
88 89 2.594592 GGTGTGTGTGTCAGGCCC 60.595 66.667 0.00 0.00 0.00 5.80
89 90 1.893808 CTGGTGTGTGTGTCAGGCC 60.894 63.158 0.00 0.00 0.00 5.19
90 91 0.748005 AACTGGTGTGTGTGTCAGGC 60.748 55.000 0.00 0.00 0.00 4.85
91 92 1.401552 CAAACTGGTGTGTGTGTCAGG 59.598 52.381 0.00 0.00 0.00 3.86
92 93 2.083774 ACAAACTGGTGTGTGTGTCAG 58.916 47.619 0.00 0.00 42.61 3.51
93 94 2.192664 ACAAACTGGTGTGTGTGTCA 57.807 45.000 0.00 0.00 42.61 3.58
94 95 2.825086 GACAAACTGGTGTGTGTGTC 57.175 50.000 0.84 2.74 44.10 3.67
95 96 2.083774 CTGACAAACTGGTGTGTGTGT 58.916 47.619 0.84 0.00 44.10 3.72
96 97 2.355197 TCTGACAAACTGGTGTGTGTG 58.645 47.619 0.84 0.00 44.10 3.82
97 98 2.779755 TCTGACAAACTGGTGTGTGT 57.220 45.000 0.84 0.00 46.52 3.72
158 159 5.137551 TCCATCGTCTCCAATGTAGTCATA 58.862 41.667 0.00 0.00 33.49 2.15
159 160 3.960755 TCCATCGTCTCCAATGTAGTCAT 59.039 43.478 0.00 0.00 35.59 3.06
176 177 7.559590 AATCTGTTACTAGCAATGTTCCATC 57.440 36.000 0.00 0.00 0.00 3.51
219 220 1.270465 CGCATATCACATCTGGAGCCA 60.270 52.381 0.00 0.00 0.00 4.75
227 228 1.068264 TCTCTCGCCGCATATCACATC 60.068 52.381 0.00 0.00 0.00 3.06
233 234 2.036475 AGAAACATCTCTCGCCGCATAT 59.964 45.455 0.00 0.00 0.00 1.78
238 239 2.854777 CAGTAAGAAACATCTCTCGCCG 59.145 50.000 0.00 0.00 0.00 6.46
240 241 2.280183 CGCAGTAAGAAACATCTCTCGC 59.720 50.000 0.00 0.00 0.00 5.03
264 265 1.297664 GCTGGCAGTTGAGCTATCTG 58.702 55.000 17.16 7.60 32.12 2.90
313 314 9.444600 TGAAATGAATGTACTTACCTAAGAACC 57.555 33.333 0.00 0.00 37.08 3.62
328 329 3.322828 ACAGCCAGCTTTGAAATGAATGT 59.677 39.130 0.00 0.00 0.00 2.71
338 339 6.381481 TCATTGATATAACAGCCAGCTTTG 57.619 37.500 0.00 0.00 0.00 2.77
378 379 9.956720 AAGAAAATAGCTAATGCACATATCAAC 57.043 29.630 0.00 0.00 42.74 3.18
398 399 4.161189 TGAACCTTGCATCCACAAAGAAAA 59.839 37.500 0.00 0.00 0.00 2.29
441 453 2.567169 TCTTTCTGTCCATCACCATCGT 59.433 45.455 0.00 0.00 0.00 3.73
442 454 3.251479 TCTTTCTGTCCATCACCATCG 57.749 47.619 0.00 0.00 0.00 3.84
492 504 4.290155 GGCAACATTGTGTGACTAAACAG 58.710 43.478 0.00 0.00 0.00 3.16
494 506 3.317993 AGGGCAACATTGTGTGACTAAAC 59.682 43.478 0.00 0.00 39.74 2.01
513 525 4.537135 TGAAGTGTAAAGTAGCAGAGGG 57.463 45.455 0.00 0.00 0.00 4.30
514 526 8.723942 ATAATTGAAGTGTAAAGTAGCAGAGG 57.276 34.615 0.00 0.00 0.00 3.69
526 538 9.391006 GGTAATGACCTGAATAATTGAAGTGTA 57.609 33.333 0.00 0.00 43.16 2.90
528 540 7.339212 TGGGTAATGACCTGAATAATTGAAGTG 59.661 37.037 0.00 0.00 46.09 3.16
534 546 7.092444 TGAGAGTGGGTAATGACCTGAATAATT 60.092 37.037 0.00 0.00 46.09 1.40
659 1110 7.664318 GGATGAAAAACCTGTTAGAGTAGGAAA 59.336 37.037 0.00 0.00 37.52 3.13
685 1136 2.014335 TGCTTCTGGACGTGATGATG 57.986 50.000 0.00 0.00 0.00 3.07
718 1169 3.733443 ATGGCCCGAATAAATGAAAGC 57.267 42.857 0.00 0.00 0.00 3.51
721 1172 3.383185 GTGGAATGGCCCGAATAAATGAA 59.617 43.478 0.00 0.00 34.97 2.57
795 1252 6.303054 TGGAGATGAACAGGTTTACAATGAA 58.697 36.000 0.00 0.00 0.00 2.57
807 1264 4.478206 AGGTGTGTATGGAGATGAACAG 57.522 45.455 0.00 0.00 0.00 3.16
1077 1550 8.604184 ACTCCAAGATATGATGAAGCATTAGAT 58.396 33.333 0.00 0.00 0.00 1.98
1090 1563 3.181451 GCCATGTCCACTCCAAGATATGA 60.181 47.826 0.00 0.00 34.55 2.15
1155 1628 2.355756 TGCTGCTTCAGTCAACAACTTC 59.644 45.455 0.00 0.00 35.45 3.01
1159 1632 1.942657 GTCTGCTGCTTCAGTCAACAA 59.057 47.619 0.00 0.00 35.63 2.83
1209 1682 1.142060 TCTTTGAGTTCCCGAAGCCAA 59.858 47.619 0.00 0.00 0.00 4.52
1217 1690 3.133141 AGAGTGCTTCTTTGAGTTCCC 57.867 47.619 0.00 0.00 29.61 3.97
1246 1719 4.825422 TCACTCTCATCGAGCAATTCTTT 58.175 39.130 0.00 0.00 43.85 2.52
1257 1730 2.535984 GCGGTTGTAATCACTCTCATCG 59.464 50.000 0.00 0.00 0.00 3.84
1389 1862 5.120830 GCGAATTAGCTTTCTGTTCTCTGAA 59.879 40.000 2.97 0.00 0.00 3.02
1586 3429 6.021596 GCAGTCGTTTTGGTAAGATGTATTG 58.978 40.000 0.00 0.00 0.00 1.90
1605 3451 6.339730 TGTACTAGACTCAGTAGTAGCAGTC 58.660 44.000 0.00 0.00 35.56 3.51
1661 3519 1.226311 GGACTTTCCCATCCCTCCAT 58.774 55.000 0.00 0.00 0.00 3.41
1718 3576 6.375174 CCACATCCTCACATCAAAACATTCTA 59.625 38.462 0.00 0.00 0.00 2.10
1761 3619 0.529773 TATGACGGCGGACATCAAGC 60.530 55.000 20.85 0.00 31.18 4.01
1806 3664 2.397044 TGCTTGGACATTTCCCCTTT 57.603 45.000 0.00 0.00 42.01 3.11
1813 3672 6.211184 TCAAGGTTATTGATGCTTGGACATTT 59.789 34.615 0.00 0.00 0.00 2.32
1827 3686 6.539826 TGTGATGCAGAGTATCAAGGTTATTG 59.460 38.462 0.00 0.00 36.41 1.90
1848 3707 5.062528 TGCAGTATGTCAATCAACTTGTGA 58.937 37.500 0.00 0.00 38.71 3.58
1875 3734 5.678955 ACACTAGTAGGAATTTCCCTGAC 57.321 43.478 11.92 8.01 37.19 3.51
1893 3752 7.425606 GTTCAAACCAAACATCATCTAACACT 58.574 34.615 0.00 0.00 0.00 3.55
1965 3824 8.973182 ACCAAAACTTTACTTCCTGTATTTTGA 58.027 29.630 7.49 0.00 39.03 2.69
2023 3883 1.227943 GGCACACCTCACAGCAGAA 60.228 57.895 0.00 0.00 0.00 3.02
2034 3897 1.398692 TGTTTTTCAGAGGGCACACC 58.601 50.000 0.00 0.00 40.67 4.16
2056 3925 4.660168 AGTGCCAAGAAGTGATCATCTTT 58.340 39.130 8.54 0.06 33.73 2.52
2264 4133 7.520798 TCTCATGGGCTCACTTAATTTATCAT 58.479 34.615 0.00 0.00 0.00 2.45
2268 4137 5.104360 AGCTCTCATGGGCTCACTTAATTTA 60.104 40.000 0.00 0.00 32.98 1.40
2424 4294 3.753842 TCTCTTGTTTTTGTTGCACGAC 58.246 40.909 0.00 0.00 0.00 4.34
2518 4418 3.232213 AGCATACTAAGTGTCGGTGTG 57.768 47.619 0.00 0.00 0.00 3.82
2519 4419 4.736759 GCATAGCATACTAAGTGTCGGTGT 60.737 45.833 0.00 0.00 30.45 4.16
2520 4420 3.736252 GCATAGCATACTAAGTGTCGGTG 59.264 47.826 0.00 0.00 30.45 4.94
2521 4421 3.383505 TGCATAGCATACTAAGTGTCGGT 59.616 43.478 0.00 0.00 31.71 4.69
2522 4422 3.977427 TGCATAGCATACTAAGTGTCGG 58.023 45.455 0.00 0.00 31.71 4.79
2602 4514 7.716560 TGATGGTATTTCTGTCACCTTATCATG 59.283 37.037 0.00 0.00 33.28 3.07
2628 4540 4.421948 GAACAGATAGATGTCGAACCGTT 58.578 43.478 0.00 0.00 31.50 4.44
2631 4543 3.791887 CACGAACAGATAGATGTCGAACC 59.208 47.826 0.00 0.00 31.50 3.62
2667 4579 3.004629 TGCAGATACTTTGCTTGTGTTGG 59.995 43.478 0.00 0.00 42.02 3.77
2703 4619 6.214399 GGGGTATATGCAGATAATAGTACGC 58.786 44.000 1.88 0.59 0.00 4.42
2722 4638 4.141088 ACTCACGTCATCTATTAGGGGGTA 60.141 45.833 0.00 0.00 0.00 3.69
2739 4655 2.480419 CTGACTAAAAAGGGCACTCACG 59.520 50.000 0.00 0.00 0.00 4.35
2742 4658 5.735766 AGTATCTGACTAAAAAGGGCACTC 58.264 41.667 0.00 0.00 36.27 3.51
2820 4736 5.121380 ACTCACCAATAGATTCAGGCAAT 57.879 39.130 0.00 0.00 0.00 3.56
2826 4742 5.412594 GTGCTTCAACTCACCAATAGATTCA 59.587 40.000 0.00 0.00 0.00 2.57
2856 4772 6.767524 AGTGTTTCACTGGTGTTCAAATAA 57.232 33.333 1.44 0.00 43.63 1.40
2871 4787 4.545610 GCAATTCCGAAATCAGTGTTTCA 58.454 39.130 14.42 1.53 37.84 2.69
2886 4802 2.821969 ACACAGTGATCTTGGCAATTCC 59.178 45.455 7.81 0.00 0.00 3.01
2936 4852 6.980397 AGGCAAACTCTCAACTTTGTTATTTG 59.020 34.615 0.00 0.00 31.20 2.32
2970 4886 8.367156 AGATGCCTTAACTTTCTTAAATTGCAA 58.633 29.630 0.00 0.00 0.00 4.08
2989 4905 2.092267 TGTATGGACATTGCAGATGCCT 60.092 45.455 1.72 0.00 41.18 4.75
2997 4913 6.435430 TGATGTACTTTGTATGGACATTGC 57.565 37.500 0.00 0.00 34.86 3.56
3015 4958 8.042515 AGCTTGCCAATGTTATAAATTTGATGT 58.957 29.630 0.00 0.00 0.00 3.06
3025 4968 6.152661 AGCAAAGTTAGCTTGCCAATGTTATA 59.847 34.615 3.72 0.00 39.87 0.98
3063 5006 6.074676 CCTTTCTCTTTTGCACAGAAAATTCG 60.075 38.462 9.44 0.00 36.07 3.34
3083 5026 4.036144 GCTCTTGCAACTCATATCCCTTTC 59.964 45.833 0.00 0.00 39.41 2.62
3127 5070 2.992593 TGTCACACTTAAACTGCCACA 58.007 42.857 0.00 0.00 0.00 4.17
3160 5103 1.004745 GGCTTGATCCTTCCCAGTGAA 59.995 52.381 0.00 0.00 0.00 3.18
3304 5257 4.952262 AACCATGAATTGTGATGTCTCG 57.048 40.909 0.00 0.00 0.00 4.04
3310 5263 7.396907 TGAAGATTGGTAACCATGAATTGTGAT 59.603 33.333 0.00 0.00 31.53 3.06
3312 5265 6.923012 TGAAGATTGGTAACCATGAATTGTG 58.077 36.000 0.00 0.00 31.53 3.33
3328 5281 4.760715 CCAGCCTGGATATTCTGAAGATTG 59.239 45.833 4.15 0.00 40.96 2.67
3385 5338 5.406175 TGCTGCAATGAACAAAGCTTAATTC 59.594 36.000 13.29 13.29 34.92 2.17
3446 5399 6.350528 CCTGAGTACAAGACTAGAGCAATTCA 60.351 42.308 0.00 0.00 39.06 2.57
3457 5410 2.234908 GCACATCCCTGAGTACAAGACT 59.765 50.000 0.00 0.00 42.90 3.24
3458 5411 2.622436 GCACATCCCTGAGTACAAGAC 58.378 52.381 0.00 0.00 0.00 3.01
3471 5424 1.541588 GTCTTCAGGTTTGGCACATCC 59.458 52.381 0.00 0.00 39.30 3.51


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

AutoCloner maintained by Alex Coulton.