Multiple sequence alignment - TraesCS7D01G037700

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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 TraesCS7D01G037700 chr7D 100.000 5569 0 0 1 5569 19048690 19054258 0.000000e+00 10285.0
1 TraesCS7D01G037700 chr7D 83.050 2177 335 29 1989 4147 2442954 2440794 0.000000e+00 1945.0
2 TraesCS7D01G037700 chr7D 97.935 581 12 0 80 660 19034886 19035466 0.000000e+00 1007.0
3 TraesCS7D01G037700 chr7D 75.442 1470 300 44 969 2397 3219062 3217613 0.000000e+00 658.0
4 TraesCS7D01G037700 chr7D 77.384 1101 202 33 969 2035 3234296 3233209 1.330000e-170 610.0
5 TraesCS7D01G037700 chr7D 83.586 396 49 9 4194 4580 3845704 3845316 1.910000e-94 357.0
6 TraesCS7D01G037700 chr7D 78.291 433 90 4 1856 2286 2442943 2442513 5.500000e-70 276.0
7 TraesCS7D01G037700 chr7D 74.908 546 101 21 5002 5523 13714655 13714122 3.380000e-52 217.0
8 TraesCS7D01G037700 chr7D 100.000 81 0 0 1 81 607815592 607815672 3.480000e-32 150.0
9 TraesCS7D01G037700 chr4A 96.841 4242 128 5 370 4608 713507039 713502801 0.000000e+00 7086.0
10 TraesCS7D01G037700 chr4A 82.576 2554 414 30 1631 4169 733990688 733993225 0.000000e+00 2222.0
11 TraesCS7D01G037700 chr4A 81.245 2682 443 42 1951 4589 739906282 739908946 0.000000e+00 2111.0
12 TraesCS7D01G037700 chr4A 81.252 2683 441 42 1951 4589 742144560 742147224 0.000000e+00 2111.0
13 TraesCS7D01G037700 chr4A 81.133 2682 447 41 1951 4589 733871893 733869228 0.000000e+00 2095.0
14 TraesCS7D01G037700 chr4A 76.508 1907 397 40 1032 2906 739779713 739781600 0.000000e+00 992.0
15 TraesCS7D01G037700 chr4A 76.992 1004 199 26 1042 2023 741045462 741046455 3.790000e-151 545.0
16 TraesCS7D01G037700 chr4A 86.387 382 49 1 4191 4569 739710913 739710532 1.120000e-111 414.0
17 TraesCS7D01G037700 chr4A 86.126 382 50 1 4191 4569 742106405 742106024 5.190000e-110 409.0
18 TraesCS7D01G037700 chr4A 85.552 353 48 1 4212 4561 739783228 739783580 3.170000e-97 366.0
19 TraesCS7D01G037700 chr4A 90.535 243 18 1 4609 4851 713502727 713502490 3.240000e-82 316.0
20 TraesCS7D01G037700 chr4A 77.677 439 94 4 1847 2283 741851060 741851496 1.190000e-66 265.0
21 TraesCS7D01G037700 chr4A 77.523 436 94 4 1847 2280 742144600 742145033 5.530000e-65 259.0
22 TraesCS7D01G037700 chr4A 77.167 473 87 14 962 1422 741158892 741159355 7.160000e-64 255.0
23 TraesCS7D01G037700 chr4A 83.214 280 39 3 82 359 713507504 713507231 3.330000e-62 250.0
24 TraesCS7D01G037700 chr4A 80.115 347 60 4 1082 1422 733990067 733990410 3.330000e-62 250.0
25 TraesCS7D01G037700 chr4A 75.769 553 97 19 5002 5523 722843812 722844358 1.550000e-60 244.0
26 TraesCS7D01G037700 chr4A 76.674 433 97 4 1856 2286 733871844 733871414 2.590000e-58 237.0
27 TraesCS7D01G037700 chr4A 73.993 596 149 6 1523 2115 739906142 739906734 2.590000e-58 237.0
28 TraesCS7D01G037700 chr4A 73.826 596 150 6 1523 2115 742144420 742145012 1.210000e-56 231.0
29 TraesCS7D01G037700 chr4A 73.490 596 152 6 1523 2115 733872033 733871441 2.610000e-53 220.0
30 TraesCS7D01G037700 chr4A 73.244 598 150 9 1523 2115 741850880 741851472 5.650000e-50 209.0
31 TraesCS7D01G037700 chr7A 96.467 2944 101 3 1664 4605 19516564 19519506 0.000000e+00 4857.0
32 TraesCS7D01G037700 chr7A 87.169 2338 264 24 82 2396 19514828 19517152 0.000000e+00 2623.0
33 TraesCS7D01G037700 chr7A 83.426 2160 327 26 2029 4174 2959123 2956981 0.000000e+00 1977.0
34 TraesCS7D01G037700 chr7A 84.442 1909 285 11 2268 4169 3139047 3140950 0.000000e+00 1869.0
35 TraesCS7D01G037700 chr7A 90.549 656 60 2 4898 5552 19526806 19527460 0.000000e+00 867.0
36 TraesCS7D01G037700 chr7A 85.427 398 53 3 4191 4584 3141195 3141591 5.190000e-110 409.0
37 TraesCS7D01G037700 chr7A 85.596 361 49 1 4212 4569 2956554 2956194 5.270000e-100 375.0
38 TraesCS7D01G037700 chr7A 81.218 394 56 12 1054 1435 3137829 3138216 9.070000e-78 302.0
39 TraesCS7D01G037700 chr7A 75.769 553 95 22 5002 5523 13190588 13190044 5.570000e-60 243.0
40 TraesCS7D01G037700 chr7A 74.161 298 65 11 1664 1955 2744251 2744542 4.560000e-21 113.0
41 TraesCS7D01G037700 chr5B 85.013 387 46 4 4191 4577 280603526 280603152 3.150000e-102 383.0
42 TraesCS7D01G037700 chr5B 97.059 34 1 0 462 495 559406243 559406276 2.170000e-04 58.4
43 TraesCS7D01G037700 chr3D 78.897 526 79 20 5043 5546 547627174 547627689 1.500000e-85 327.0
44 TraesCS7D01G037700 chr3D 100.000 80 0 0 1 80 393227568 393227489 1.250000e-31 148.0
45 TraesCS7D01G037700 chr3A 79.000 500 74 21 5069 5545 684594066 684594557 4.190000e-81 313.0
46 TraesCS7D01G037700 chr3A 100.000 34 0 0 462 495 603909733 603909766 4.660000e-06 63.9
47 TraesCS7D01G037700 chrUn 76.347 334 67 11 1708 2035 347565488 347565161 9.590000e-38 169.0
48 TraesCS7D01G037700 chrUn 92.500 40 3 0 462 501 400993479 400993440 2.170000e-04 58.4
49 TraesCS7D01G037700 chr5D 100.000 81 0 0 1 81 32261189 32261109 3.480000e-32 150.0
50 TraesCS7D01G037700 chr5D 100.000 80 0 0 1 80 357447753 357447674 1.250000e-31 148.0
51 TraesCS7D01G037700 chr5D 75.646 271 40 18 247 502 8638380 8638121 1.640000e-20 111.0
52 TraesCS7D01G037700 chr2D 100.000 81 0 0 1 81 603631010 603631090 3.480000e-32 150.0
53 TraesCS7D01G037700 chr2D 100.000 80 0 0 1 80 650800847 650800768 1.250000e-31 148.0
54 TraesCS7D01G037700 chr2D 96.552 87 1 2 1 86 21095164 21095249 5.820000e-30 143.0
55 TraesCS7D01G037700 chr6D 100.000 80 0 0 4 83 6991999 6991920 1.250000e-31 148.0
56 TraesCS7D01G037700 chr1D 97.674 86 1 1 1 85 470137770 470137685 4.500000e-31 147.0
57 TraesCS7D01G037700 chr1A 87.000 100 9 2 186 281 568316473 568316374 5.900000e-20 110.0
58 TraesCS7D01G037700 chr1A 97.297 37 1 0 462 498 11977364 11977400 4.660000e-06 63.9
59 TraesCS7D01G037700 chr7B 100.000 38 0 0 462 499 611698381 611698418 2.780000e-08 71.3
60 TraesCS7D01G037700 chr2B 96.875 32 1 0 462 493 41480219 41480250 3.000000e-03 54.7
61 TraesCS7D01G037700 chr2B 92.308 39 1 2 1032 1070 199466095 199466131 3.000000e-03 54.7


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 TraesCS7D01G037700 chr7D 19048690 19054258 5568 False 10285.000000 10285 100.000000 1 5569 1 chr7D.!!$F2 5568
1 TraesCS7D01G037700 chr7D 2440794 2442954 2160 True 1110.500000 1945 80.670500 1856 4147 2 chr7D.!!$R5 2291
2 TraesCS7D01G037700 chr7D 19034886 19035466 580 False 1007.000000 1007 97.935000 80 660 1 chr7D.!!$F1 580
3 TraesCS7D01G037700 chr7D 3217613 3219062 1449 True 658.000000 658 75.442000 969 2397 1 chr7D.!!$R1 1428
4 TraesCS7D01G037700 chr7D 3233209 3234296 1087 True 610.000000 610 77.384000 969 2035 1 chr7D.!!$R2 1066
5 TraesCS7D01G037700 chr7D 13714122 13714655 533 True 217.000000 217 74.908000 5002 5523 1 chr7D.!!$R4 521
6 TraesCS7D01G037700 chr4A 713502490 713507504 5014 True 2550.666667 7086 90.196667 82 4851 3 chr4A.!!$R3 4769
7 TraesCS7D01G037700 chr4A 733990067 733993225 3158 False 1236.000000 2222 81.345500 1082 4169 2 chr4A.!!$F4 3087
8 TraesCS7D01G037700 chr4A 739906142 739908946 2804 False 1174.000000 2111 77.619000 1523 4589 2 chr4A.!!$F6 3066
9 TraesCS7D01G037700 chr4A 742144420 742147224 2804 False 867.000000 2111 77.533667 1523 4589 3 chr4A.!!$F8 3066
10 TraesCS7D01G037700 chr4A 733869228 733872033 2805 True 850.666667 2095 77.099000 1523 4589 3 chr4A.!!$R4 3066
11 TraesCS7D01G037700 chr4A 739779713 739783580 3867 False 679.000000 992 81.030000 1032 4561 2 chr4A.!!$F5 3529
12 TraesCS7D01G037700 chr4A 741045462 741046455 993 False 545.000000 545 76.992000 1042 2023 1 chr4A.!!$F2 981
13 TraesCS7D01G037700 chr4A 722843812 722844358 546 False 244.000000 244 75.769000 5002 5523 1 chr4A.!!$F1 521
14 TraesCS7D01G037700 chr4A 741850880 741851496 616 False 237.000000 265 75.460500 1523 2283 2 chr4A.!!$F7 760
15 TraesCS7D01G037700 chr7A 19514828 19519506 4678 False 3740.000000 4857 91.818000 82 4605 2 chr7A.!!$F4 4523
16 TraesCS7D01G037700 chr7A 2956194 2959123 2929 True 1176.000000 1977 84.511000 2029 4569 2 chr7A.!!$R2 2540
17 TraesCS7D01G037700 chr7A 19526806 19527460 654 False 867.000000 867 90.549000 4898 5552 1 chr7A.!!$F2 654
18 TraesCS7D01G037700 chr7A 3137829 3141591 3762 False 860.000000 1869 83.695667 1054 4584 3 chr7A.!!$F3 3530
19 TraesCS7D01G037700 chr7A 13190044 13190588 544 True 243.000000 243 75.769000 5002 5523 1 chr7A.!!$R1 521
20 TraesCS7D01G037700 chr3D 547627174 547627689 515 False 327.000000 327 78.897000 5043 5546 1 chr3D.!!$F1 503

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
49 50 0.595588 TGCAAACCGGCACTAATGTG 59.404 50.000 0.00 0.00 46.37 3.21 F
50 51 0.596082 GCAAACCGGCACTAATGTGT 59.404 50.000 0.00 0.00 45.44 3.72 F
54 55 0.973632 ACCGGCACTAATGTGTCTCA 59.026 50.000 0.00 0.00 45.84 3.27 F
603 790 1.218875 TTGTGGTGCTGTCTAACGCG 61.219 55.000 3.53 3.53 0.00 6.01 F
875 1068 1.541588 GACTTTGACTTCCATGGCCAC 59.458 52.381 8.16 0.00 0.00 5.01 F
2071 2435 1.967319 TGAAAACACACTCTCAGGGC 58.033 50.000 0.00 0.00 0.00 5.19 F
2531 3974 1.118965 TCTGGTCTTTGTGCGGGAGA 61.119 55.000 0.00 0.00 0.00 3.71 F
2670 4113 1.142748 CACCGAGATGGGAGCTCAC 59.857 63.158 17.19 13.72 44.64 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1980 2344 0.536460 GCCCCGAAAGTTGGTTCTGA 60.536 55.000 0.00 0.0 0.00 3.27 R
2124 2488 3.623060 TCTGACCAGAAAATCTATTGCGC 59.377 43.478 0.00 0.0 33.91 6.09 R
2134 2930 3.323691 TCTCGTGGAATCTGACCAGAAAA 59.676 43.478 3.62 0.0 41.36 2.29 R
2308 3176 4.608948 ACTCCTCTAAGTTCACAAGGTG 57.391 45.455 0.00 0.0 34.45 4.00 R
2372 3240 4.873827 TGAGCTTTGTCAAACTTCGTAAGT 59.126 37.500 0.00 0.0 45.46 2.24 R
3146 4596 2.159085 AGTTGACTAGGAATAGCGCCAC 60.159 50.000 2.29 0.0 0.00 5.01 R
4427 6325 0.179163 GCTTTATGCACCGAACAGCC 60.179 55.000 0.00 0.0 42.31 4.85 R
4684 6659 0.395312 GGACCAAAAGGAGACGTCCA 59.605 55.000 13.01 0.0 46.80 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
27 28 4.615901 CACATTAGTGCCGGCTCA 57.384 55.556 29.70 9.72 39.21 4.26
28 29 2.853159 CACATTAGTGCCGGCTCAA 58.147 52.632 29.70 19.77 39.21 3.02
29 30 1.164411 CACATTAGTGCCGGCTCAAA 58.836 50.000 29.70 18.42 39.21 2.69
30 31 1.745087 CACATTAGTGCCGGCTCAAAT 59.255 47.619 29.70 19.83 39.21 2.32
31 32 1.745087 ACATTAGTGCCGGCTCAAATG 59.255 47.619 29.90 29.90 0.00 2.32
32 33 0.740737 ATTAGTGCCGGCTCAAATGC 59.259 50.000 29.70 8.72 0.00 3.56
33 34 0.607762 TTAGTGCCGGCTCAAATGCA 60.608 50.000 29.70 0.07 34.04 3.96
34 35 0.607762 TAGTGCCGGCTCAAATGCAA 60.608 50.000 29.70 0.00 35.16 4.08
35 36 1.006337 GTGCCGGCTCAAATGCAAA 60.006 52.632 29.70 0.00 35.16 3.68
36 37 1.006337 TGCCGGCTCAAATGCAAAC 60.006 52.632 29.70 0.00 34.04 2.93
37 38 1.737735 GCCGGCTCAAATGCAAACC 60.738 57.895 22.15 0.00 34.04 3.27
38 39 1.444212 CCGGCTCAAATGCAAACCG 60.444 57.895 0.00 0.00 40.30 4.44
39 40 1.444212 CGGCTCAAATGCAAACCGG 60.444 57.895 0.00 0.00 37.04 5.28
40 41 1.737735 GGCTCAAATGCAAACCGGC 60.738 57.895 0.00 0.00 34.04 6.13
48 49 3.028916 TGCAAACCGGCACTAATGT 57.971 47.368 0.00 0.00 39.25 2.71
49 50 0.595588 TGCAAACCGGCACTAATGTG 59.404 50.000 0.00 0.00 46.37 3.21
50 51 0.596082 GCAAACCGGCACTAATGTGT 59.404 50.000 0.00 0.00 45.44 3.72
51 52 1.401018 GCAAACCGGCACTAATGTGTC 60.401 52.381 0.00 0.00 45.44 3.67
52 53 2.151202 CAAACCGGCACTAATGTGTCT 58.849 47.619 0.00 0.00 45.84 3.41
53 54 2.094762 AACCGGCACTAATGTGTCTC 57.905 50.000 0.00 0.00 45.84 3.36
54 55 0.973632 ACCGGCACTAATGTGTCTCA 59.026 50.000 0.00 0.00 45.84 3.27
55 56 1.337823 ACCGGCACTAATGTGTCTCAC 60.338 52.381 0.00 0.00 45.84 3.51
66 67 3.576078 TGTGTCTCACATTTGACCCTT 57.424 42.857 0.00 0.00 39.62 3.95
67 68 3.897239 TGTGTCTCACATTTGACCCTTT 58.103 40.909 0.00 0.00 39.62 3.11
68 69 4.277476 TGTGTCTCACATTTGACCCTTTT 58.723 39.130 0.00 0.00 39.62 2.27
69 70 4.709397 TGTGTCTCACATTTGACCCTTTTT 59.291 37.500 0.00 0.00 39.62 1.94
70 71 5.163561 TGTGTCTCACATTTGACCCTTTTTC 60.164 40.000 0.00 0.00 39.62 2.29
71 72 5.067805 GTGTCTCACATTTGACCCTTTTTCT 59.932 40.000 0.00 0.00 34.08 2.52
72 73 6.262273 GTGTCTCACATTTGACCCTTTTTCTA 59.738 38.462 0.00 0.00 34.08 2.10
73 74 6.262273 TGTCTCACATTTGACCCTTTTTCTAC 59.738 38.462 0.00 0.00 32.67 2.59
74 75 6.486993 GTCTCACATTTGACCCTTTTTCTACT 59.513 38.462 0.00 0.00 0.00 2.57
75 76 7.660208 GTCTCACATTTGACCCTTTTTCTACTA 59.340 37.037 0.00 0.00 0.00 1.82
76 77 7.878127 TCTCACATTTGACCCTTTTTCTACTAG 59.122 37.037 0.00 0.00 0.00 2.57
77 78 7.514721 TCACATTTGACCCTTTTTCTACTAGT 58.485 34.615 0.00 0.00 0.00 2.57
78 79 7.444183 TCACATTTGACCCTTTTTCTACTAGTG 59.556 37.037 5.39 0.00 0.00 2.74
603 790 1.218875 TTGTGGTGCTGTCTAACGCG 61.219 55.000 3.53 3.53 0.00 6.01
875 1068 1.541588 GACTTTGACTTCCATGGCCAC 59.458 52.381 8.16 0.00 0.00 5.01
899 1092 2.093711 TGGTCACCGTGAACATATGGAG 60.094 50.000 15.47 0.00 39.52 3.86
1184 1392 4.778143 GGGGAACATGTCGGCGCT 62.778 66.667 7.64 0.00 0.00 5.92
1187 1395 2.456119 GGAACATGTCGGCGCTCTG 61.456 63.158 7.64 1.03 0.00 3.35
1188 1396 3.088500 GAACATGTCGGCGCTCTGC 62.089 63.158 7.64 0.00 45.38 4.26
1492 1712 6.593268 TGCTTCATGAAAATGAAATCTCCA 57.407 33.333 9.88 0.00 39.73 3.86
1939 2303 3.639094 ACTCTCAGGTTCTATCCCAATCG 59.361 47.826 0.00 0.00 0.00 3.34
2071 2435 1.967319 TGAAAACACACTCTCAGGGC 58.033 50.000 0.00 0.00 0.00 5.19
2110 2474 5.886960 ATGTAATTTGACCAAGCTCACTC 57.113 39.130 0.00 0.00 0.00 3.51
2124 2488 2.342948 GCTCACTCGCTTACTTCTTTCG 59.657 50.000 0.00 0.00 0.00 3.46
2134 2930 4.025647 GCTTACTTCTTTCGCGCAATAGAT 60.026 41.667 8.75 0.00 0.00 1.98
2194 2990 7.874940 TGTGAACTTAAATGACTTGGATCTTG 58.125 34.615 0.00 0.00 0.00 3.02
2372 3240 3.541242 ATCAGGTTCCATCCCAAACAA 57.459 42.857 0.00 0.00 0.00 2.83
2531 3974 1.118965 TCTGGTCTTTGTGCGGGAGA 61.119 55.000 0.00 0.00 0.00 3.71
2670 4113 1.142748 CACCGAGATGGGAGCTCAC 59.857 63.158 17.19 13.72 44.64 3.51
2682 4125 3.350219 GGAGCTCACCCAAATCTTGTA 57.650 47.619 17.19 0.00 0.00 2.41
3042 4492 4.859304 TCAGCATTGTTTGAAGCTTCAT 57.141 36.364 28.89 11.78 37.00 2.57
3146 4596 9.143631 GTTGGATCTAAGTGAAAATTCAATTGG 57.856 33.333 16.52 14.12 44.15 3.16
3432 4886 2.031120 CAAGGGAAAAAGTCTGGTGCA 58.969 47.619 0.00 0.00 0.00 4.57
3523 4980 6.147000 GTGCAAAAAGAAGAAAACCAAGACAA 59.853 34.615 0.00 0.00 0.00 3.18
3529 4986 6.196079 AGAAGAAAACCAAGACAACAGTTC 57.804 37.500 0.00 0.00 0.00 3.01
4019 5477 2.600731 CAACAACGTTTTGCTTGACCA 58.399 42.857 0.00 0.00 36.00 4.02
4059 5517 4.748892 TCTCAGATTTTGGTCTAGCGAAG 58.251 43.478 0.00 0.00 0.00 3.79
4427 6325 3.879295 AGATATTTCAAGTGGTCGCCATG 59.121 43.478 1.90 0.00 35.28 3.66
4443 6341 1.093972 CATGGCTGTTCGGTGCATAA 58.906 50.000 0.00 0.00 0.00 1.90
4594 6496 6.149633 TGTTCATCTGATTATACATCCGACG 58.850 40.000 0.00 0.00 0.00 5.12
4605 6507 5.700722 ATACATCCGACGCTGTCTATAAA 57.299 39.130 4.79 0.00 0.00 1.40
4683 6658 7.521871 AAATAAATCAATCTGCATCCTCTCC 57.478 36.000 0.00 0.00 0.00 3.71
4684 6659 4.792513 AAATCAATCTGCATCCTCTCCT 57.207 40.909 0.00 0.00 0.00 3.69
4730 6705 1.168714 CTTACAAGGTGCTCAAGCCC 58.831 55.000 0.00 0.74 41.18 5.19
4753 6728 1.655350 GCTGTTGCGTGTCACTTGC 60.655 57.895 0.65 0.00 0.00 4.01
4770 6745 2.577059 CGGCCGTAGCAAGAAGGA 59.423 61.111 19.50 0.00 42.56 3.36
4775 6750 1.571919 CCGTAGCAAGAAGGAATCCG 58.428 55.000 0.00 0.00 0.00 4.18
4776 6751 0.931005 CGTAGCAAGAAGGAATCCGC 59.069 55.000 0.00 0.00 0.00 5.54
4777 6752 1.739035 CGTAGCAAGAAGGAATCCGCA 60.739 52.381 0.00 0.00 31.07 5.69
4778 6753 1.666189 GTAGCAAGAAGGAATCCGCAC 59.334 52.381 0.00 0.00 31.07 5.34
4779 6754 0.326264 AGCAAGAAGGAATCCGCACT 59.674 50.000 0.00 0.00 31.07 4.40
4795 6770 1.453155 CACTGCATTACCCTGTGGAC 58.547 55.000 0.00 0.00 34.81 4.02
4797 6772 1.705186 ACTGCATTACCCTGTGGACTT 59.295 47.619 0.00 0.00 34.81 3.01
4804 6779 0.765510 ACCCTGTGGACTTGGAGAAC 59.234 55.000 0.00 0.00 34.81 3.01
4809 6784 1.230324 GTGGACTTGGAGAACAGTGC 58.770 55.000 0.00 0.00 0.00 4.40
4811 6786 1.070758 TGGACTTGGAGAACAGTGCTC 59.929 52.381 0.00 0.00 0.00 4.26
4851 6826 3.132111 ACCATGTCAAAAGAAACCACACC 59.868 43.478 0.00 0.00 0.00 4.16
4852 6827 3.384467 CCATGTCAAAAGAAACCACACCT 59.616 43.478 0.00 0.00 0.00 4.00
4853 6828 4.362279 CATGTCAAAAGAAACCACACCTG 58.638 43.478 0.00 0.00 0.00 4.00
4854 6829 3.426615 TGTCAAAAGAAACCACACCTGT 58.573 40.909 0.00 0.00 0.00 4.00
4855 6830 3.192422 TGTCAAAAGAAACCACACCTGTG 59.808 43.478 0.00 0.00 45.23 3.66
4864 6839 3.941188 ACACCTGTGACGGCTGGG 61.941 66.667 3.94 0.00 32.57 4.45
4880 6855 3.807538 GGCAGCGGCAGTGTCATG 61.808 66.667 11.88 0.00 43.71 3.07
4881 6856 4.471726 GCAGCGGCAGTGTCATGC 62.472 66.667 3.18 6.20 45.74 4.06
4882 6857 2.745100 CAGCGGCAGTGTCATGCT 60.745 61.111 1.45 0.00 45.75 3.79
4883 6858 2.033141 AGCGGCAGTGTCATGCTT 59.967 55.556 1.45 0.00 45.75 3.91
4884 6859 2.177531 GCGGCAGTGTCATGCTTG 59.822 61.111 0.00 0.00 45.75 4.01
4885 6860 2.872557 CGGCAGTGTCATGCTTGG 59.127 61.111 0.00 0.00 45.75 3.61
4886 6861 2.693762 CGGCAGTGTCATGCTTGGG 61.694 63.158 0.00 0.00 45.75 4.12
4887 6862 2.345760 GGCAGTGTCATGCTTGGGG 61.346 63.158 0.00 0.00 45.75 4.96
4888 6863 1.303561 GCAGTGTCATGCTTGGGGA 60.304 57.895 0.00 0.00 43.07 4.81
4889 6864 1.310933 GCAGTGTCATGCTTGGGGAG 61.311 60.000 0.00 0.00 43.07 4.30
4890 6865 0.679002 CAGTGTCATGCTTGGGGAGG 60.679 60.000 0.00 0.00 0.00 4.30
4891 6866 0.842030 AGTGTCATGCTTGGGGAGGA 60.842 55.000 0.00 0.00 0.00 3.71
4892 6867 0.257039 GTGTCATGCTTGGGGAGGAT 59.743 55.000 0.00 0.00 36.80 3.24
4894 6869 4.593033 CATGCTTGGGGAGGATGG 57.407 61.111 0.24 0.00 46.91 3.51
4895 6870 1.925120 CATGCTTGGGGAGGATGGA 59.075 57.895 0.24 0.00 46.91 3.41
4896 6871 0.259647 CATGCTTGGGGAGGATGGAA 59.740 55.000 0.24 0.00 46.91 3.53
4900 6875 0.033109 CTTGGGGAGGATGGAAACCC 60.033 60.000 0.00 0.00 41.84 4.11
4912 6887 4.381932 GGATGGAAACCCAATTGCTAACAG 60.382 45.833 0.00 0.00 37.24 3.16
4922 6897 5.220931 CCCAATTGCTAACAGAGTATGCTTC 60.221 44.000 0.00 0.00 0.00 3.86
4925 6900 4.655762 TGCTAACAGAGTATGCTTCGAT 57.344 40.909 0.00 0.00 0.00 3.59
4961 6936 5.136816 TCAAACACCACGTGTATAGCTTA 57.863 39.130 15.65 0.00 46.79 3.09
4971 6946 6.293516 CCACGTGTATAGCTTAGACCTAGAAG 60.294 46.154 15.65 0.00 0.00 2.85
4995 6970 5.989477 ACAGTTACACTATGTGCCATGTAT 58.011 37.500 0.00 0.00 36.98 2.29
5002 6977 2.645838 ATGTGCCATGTATCAGGGAC 57.354 50.000 4.60 0.00 45.35 4.46
5018 6993 6.887626 TCAGGGACAAACTTAACAAATACC 57.112 37.500 0.00 0.00 0.00 2.73
5030 7005 6.861055 ACTTAACAAATACCTTCGCACATTTG 59.139 34.615 0.00 0.00 41.79 2.32
5147 7124 5.213891 CAATAAATATTGGAGGTTGGGGC 57.786 43.478 5.44 0.00 39.42 5.80
5186 7163 6.329496 TGAGAGTTTTCAAACACAAACATCC 58.671 36.000 5.26 0.00 41.30 3.51
5206 7184 2.809446 CGATTCATCGGTAACTGCAGA 58.191 47.619 23.35 0.00 45.93 4.26
5237 7215 3.157087 ACAGGGGCAGAAACATTACTTG 58.843 45.455 0.00 0.00 0.00 3.16
5239 7217 1.824852 GGGGCAGAAACATTACTTGGG 59.175 52.381 0.00 0.00 0.00 4.12
5342 7324 6.793492 AGAACTGAACTGAGATTTAACAGC 57.207 37.500 0.00 0.00 37.61 4.40
5383 7371 4.274459 AGCCATCATAATCAAGAAAGCGAC 59.726 41.667 0.00 0.00 0.00 5.19
5421 7427 5.103000 CCTATCACCAAGAAGTGTTAGACG 58.897 45.833 10.06 0.00 40.30 4.18
5428 7434 4.262079 CCAAGAAGTGTTAGACGTTCTCCT 60.262 45.833 0.00 0.00 0.00 3.69
5432 7438 4.416505 AGTGTTAGACGTTCTCCTAACG 57.583 45.455 15.87 8.59 44.54 3.18
5453 7459 4.215399 ACGTATTCCCATCCATTTAATGCG 59.785 41.667 0.00 0.00 40.14 4.73
5464 7470 7.424803 CATCCATTTAATGCGGATCTAAAACA 58.575 34.615 0.00 0.00 37.44 2.83
5493 7499 8.032952 TGAATGACAAAGCAATAACTAGTGAG 57.967 34.615 0.00 0.00 0.00 3.51
5503 7509 6.210784 AGCAATAACTAGTGAGTTGGTGTAGA 59.789 38.462 14.98 0.00 45.74 2.59
5506 7512 7.778185 ATAACTAGTGAGTTGGTGTAGAGTT 57.222 36.000 0.00 0.00 45.74 3.01
5524 7530 0.249238 TTGGTGAACCATTGTTGCGC 60.249 50.000 0.00 0.00 46.97 6.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.912771 CCGGCACTAATGTGTCCATTA 58.087 47.619 0.00 0.00 45.29 1.90
4 5 1.750193 CCGGCACTAATGTGTCCATT 58.250 50.000 0.00 0.00 45.29 3.16
5 6 0.748005 GCCGGCACTAATGTGTCCAT 60.748 55.000 24.80 0.00 45.29 3.41
6 7 1.376683 GCCGGCACTAATGTGTCCA 60.377 57.895 24.80 0.00 45.29 4.02
7 8 1.078426 AGCCGGCACTAATGTGTCC 60.078 57.895 31.54 0.00 45.29 4.02
8 9 0.391130 TGAGCCGGCACTAATGTGTC 60.391 55.000 31.54 14.56 45.44 3.67
9 10 0.036164 TTGAGCCGGCACTAATGTGT 59.964 50.000 31.54 3.33 45.44 3.72
10 11 1.164411 TTTGAGCCGGCACTAATGTG 58.836 50.000 31.54 0.00 46.37 3.21
11 12 1.745087 CATTTGAGCCGGCACTAATGT 59.255 47.619 34.82 16.97 30.45 2.71
12 13 1.534595 GCATTTGAGCCGGCACTAATG 60.535 52.381 37.00 37.00 34.83 1.90
13 14 0.740737 GCATTTGAGCCGGCACTAAT 59.259 50.000 31.54 26.67 0.00 1.73
14 15 0.607762 TGCATTTGAGCCGGCACTAA 60.608 50.000 31.54 25.59 0.00 2.24
15 16 0.607762 TTGCATTTGAGCCGGCACTA 60.608 50.000 31.54 17.63 35.74 2.74
16 17 1.462731 TTTGCATTTGAGCCGGCACT 61.463 50.000 31.54 9.09 35.74 4.40
17 18 1.006337 TTTGCATTTGAGCCGGCAC 60.006 52.632 31.54 24.60 35.74 5.01
18 19 1.006337 GTTTGCATTTGAGCCGGCA 60.006 52.632 31.54 8.23 0.00 5.69
19 20 1.737735 GGTTTGCATTTGAGCCGGC 60.738 57.895 21.89 21.89 0.00 6.13
20 21 1.444212 CGGTTTGCATTTGAGCCGG 60.444 57.895 0.00 0.00 36.05 6.13
21 22 1.444212 CCGGTTTGCATTTGAGCCG 60.444 57.895 4.58 4.58 38.99 5.52
22 23 1.737735 GCCGGTTTGCATTTGAGCC 60.738 57.895 1.90 0.00 0.00 4.70
23 24 1.006337 TGCCGGTTTGCATTTGAGC 60.006 52.632 1.90 0.00 36.04 4.26
24 25 0.314935 AGTGCCGGTTTGCATTTGAG 59.685 50.000 1.90 0.00 44.30 3.02
25 26 1.610363 TAGTGCCGGTTTGCATTTGA 58.390 45.000 1.90 0.00 44.30 2.69
26 27 2.430546 TTAGTGCCGGTTTGCATTTG 57.569 45.000 1.90 0.00 44.30 2.32
27 28 2.298729 ACATTAGTGCCGGTTTGCATTT 59.701 40.909 1.90 0.00 44.30 2.32
28 29 1.892474 ACATTAGTGCCGGTTTGCATT 59.108 42.857 1.90 0.00 44.30 3.56
29 30 1.202114 CACATTAGTGCCGGTTTGCAT 59.798 47.619 1.90 0.00 44.30 3.96
30 31 0.595588 CACATTAGTGCCGGTTTGCA 59.404 50.000 1.90 0.00 39.21 4.08
31 32 3.399879 CACATTAGTGCCGGTTTGC 57.600 52.632 1.90 0.00 39.21 3.68
47 48 4.918810 AAAAGGGTCAAATGTGAGACAC 57.081 40.909 0.00 0.00 38.44 3.67
48 49 5.200483 AGAAAAAGGGTCAAATGTGAGACA 58.800 37.500 0.00 0.00 36.50 3.41
49 50 5.774498 AGAAAAAGGGTCAAATGTGAGAC 57.226 39.130 0.00 0.00 33.27 3.36
50 51 6.601332 AGTAGAAAAAGGGTCAAATGTGAGA 58.399 36.000 0.00 0.00 33.27 3.27
51 52 6.884280 AGTAGAAAAAGGGTCAAATGTGAG 57.116 37.500 0.00 0.00 33.27 3.51
52 53 7.444183 CACTAGTAGAAAAAGGGTCAAATGTGA 59.556 37.037 3.59 0.00 0.00 3.58
53 54 7.584987 CACTAGTAGAAAAAGGGTCAAATGTG 58.415 38.462 3.59 0.00 0.00 3.21
54 55 6.206829 GCACTAGTAGAAAAAGGGTCAAATGT 59.793 38.462 3.59 0.00 0.00 2.71
55 56 6.206634 TGCACTAGTAGAAAAAGGGTCAAATG 59.793 38.462 3.59 0.00 0.00 2.32
56 57 6.303839 TGCACTAGTAGAAAAAGGGTCAAAT 58.696 36.000 3.59 0.00 0.00 2.32
57 58 5.686753 TGCACTAGTAGAAAAAGGGTCAAA 58.313 37.500 3.59 0.00 0.00 2.69
58 59 5.298989 TGCACTAGTAGAAAAAGGGTCAA 57.701 39.130 3.59 0.00 0.00 3.18
59 60 4.262894 CCTGCACTAGTAGAAAAAGGGTCA 60.263 45.833 3.59 0.00 0.00 4.02
60 61 4.254492 CCTGCACTAGTAGAAAAAGGGTC 58.746 47.826 3.59 0.00 0.00 4.46
61 62 3.651423 ACCTGCACTAGTAGAAAAAGGGT 59.349 43.478 3.59 1.92 0.00 4.34
62 63 4.287766 ACCTGCACTAGTAGAAAAAGGG 57.712 45.455 3.59 1.33 0.00 3.95
63 64 4.695928 GGAACCTGCACTAGTAGAAAAAGG 59.304 45.833 3.59 7.63 0.00 3.11
64 65 5.409826 CAGGAACCTGCACTAGTAGAAAAAG 59.590 44.000 7.95 0.00 37.24 2.27
65 66 5.305585 CAGGAACCTGCACTAGTAGAAAAA 58.694 41.667 7.95 0.00 37.24 1.94
66 67 4.894784 CAGGAACCTGCACTAGTAGAAAA 58.105 43.478 7.95 0.00 37.24 2.29
67 68 4.537135 CAGGAACCTGCACTAGTAGAAA 57.463 45.455 7.95 0.00 37.24 2.52
603 790 3.061863 CGAAAACTTTGAAAGCAAGACGC 60.062 43.478 4.57 0.00 42.91 5.19
789 981 2.093181 TGGGTTCCATTATCTCACACGG 60.093 50.000 0.00 0.00 0.00 4.94
875 1068 0.038067 TATGTTCACGGTGACCACGG 60.038 55.000 10.69 6.22 37.61 4.94
1134 1342 2.281484 TGCTGGCTTTGGTCGTCC 60.281 61.111 0.00 0.00 0.00 4.79
1492 1712 1.308877 ATGTGCCTTGGTATTCCCCT 58.691 50.000 0.00 0.00 0.00 4.79
1671 1891 2.490903 GTCAAGGTACAAGGTAGCGAGA 59.509 50.000 0.00 0.82 0.00 4.04
1818 2182 8.449423 TGTTGCCCCATAGATATAAGATAGTT 57.551 34.615 0.00 0.00 0.00 2.24
1939 2303 5.885912 TGAGTTTGGTCAAATTCCCTATAGC 59.114 40.000 13.71 0.00 36.55 2.97
1980 2344 0.536460 GCCCCGAAAGTTGGTTCTGA 60.536 55.000 0.00 0.00 0.00 3.27
2124 2488 3.623060 TCTGACCAGAAAATCTATTGCGC 59.377 43.478 0.00 0.00 33.91 6.09
2134 2930 3.323691 TCTCGTGGAATCTGACCAGAAAA 59.676 43.478 3.62 0.00 41.36 2.29
2194 2990 6.658188 AGGACCTGAGAGTGTATTATAAGC 57.342 41.667 0.00 0.00 0.00 3.09
2308 3176 4.608948 ACTCCTCTAAGTTCACAAGGTG 57.391 45.455 0.00 0.00 34.45 4.00
2372 3240 4.873827 TGAGCTTTGTCAAACTTCGTAAGT 59.126 37.500 0.00 0.00 45.46 2.24
2531 3974 7.692291 CGTTAACGATCAAAATTTGTAGCTGAT 59.308 33.333 23.35 2.64 43.02 2.90
3042 4492 7.624549 AGTGATTATGGCTCAACTTTAGAGAA 58.375 34.615 0.00 0.00 35.09 2.87
3146 4596 2.159085 AGTTGACTAGGAATAGCGCCAC 60.159 50.000 2.29 0.00 0.00 5.01
3529 4986 2.692557 TGGTTTGTTGTGGTTCATCTGG 59.307 45.455 0.00 0.00 0.00 3.86
4019 5477 5.946942 TGAGATGCAGACTCTAAATTCCT 57.053 39.130 19.51 0.00 35.66 3.36
4059 5517 5.316327 TCGATGCATCCACATCTAGTATC 57.684 43.478 20.87 0.00 43.54 2.24
4427 6325 0.179163 GCTTTATGCACCGAACAGCC 60.179 55.000 0.00 0.00 42.31 4.85
4443 6341 1.153086 GGTGCGATGGATCAGGCTT 60.153 57.895 0.00 0.00 0.00 4.35
4634 6609 9.665719 TTATCAATGTTTTACAGATACAGCAGA 57.334 29.630 0.00 0.00 0.00 4.26
4668 6643 1.767681 GTCCAGGAGAGGATGCAGATT 59.232 52.381 0.00 0.00 40.42 2.40
4682 6657 0.396811 ACCAAAAGGAGACGTCCAGG 59.603 55.000 13.01 6.45 46.80 4.45
4683 6658 1.608283 GGACCAAAAGGAGACGTCCAG 60.608 57.143 13.01 0.00 46.80 3.86
4684 6659 0.395312 GGACCAAAAGGAGACGTCCA 59.605 55.000 13.01 0.00 46.80 4.02
4730 6705 1.867233 AGTGACACGCAACAGCTAAAG 59.133 47.619 0.00 0.00 0.00 1.85
4753 6728 0.462047 ATTCCTTCTTGCTACGGCCG 60.462 55.000 26.86 26.86 37.74 6.13
4757 6732 0.931005 GCGGATTCCTTCTTGCTACG 59.069 55.000 0.30 0.00 0.00 3.51
4759 6734 1.555075 AGTGCGGATTCCTTCTTGCTA 59.445 47.619 0.30 0.00 0.00 3.49
4770 6745 0.255890 AGGGTAATGCAGTGCGGATT 59.744 50.000 11.20 8.22 39.31 3.01
4775 6750 0.322456 TCCACAGGGTAATGCAGTGC 60.322 55.000 8.58 8.58 34.93 4.40
4776 6751 1.003580 AGTCCACAGGGTAATGCAGTG 59.996 52.381 0.00 0.00 34.93 3.66
4777 6752 1.362224 AGTCCACAGGGTAATGCAGT 58.638 50.000 0.00 0.00 34.93 4.40
4778 6753 2.086869 CAAGTCCACAGGGTAATGCAG 58.913 52.381 0.00 0.00 34.93 4.41
4779 6754 1.271871 CCAAGTCCACAGGGTAATGCA 60.272 52.381 0.00 0.00 34.93 3.96
4795 6770 3.249559 GTGAAAGAGCACTGTTCTCCAAG 59.750 47.826 3.80 0.00 35.91 3.61
4797 6772 2.435805 AGTGAAAGAGCACTGTTCTCCA 59.564 45.455 3.80 0.00 46.72 3.86
4809 6784 7.173907 ACATGGTTTCTTGTATGAGTGAAAGAG 59.826 37.037 0.00 0.00 30.77 2.85
4811 6786 7.041167 TGACATGGTTTCTTGTATGAGTGAAAG 60.041 37.037 0.00 0.00 32.36 2.62
4818 6793 7.815840 TCTTTTGACATGGTTTCTTGTATGA 57.184 32.000 0.00 0.00 32.36 2.15
4863 6838 3.807538 CATGACACTGCCGCTGCC 61.808 66.667 0.00 0.00 36.33 4.85
4864 6839 4.471726 GCATGACACTGCCGCTGC 62.472 66.667 0.00 0.00 36.10 5.25
4865 6840 2.330372 AAGCATGACACTGCCGCTG 61.330 57.895 0.00 0.00 43.33 5.18
4866 6841 2.033141 AAGCATGACACTGCCGCT 59.967 55.556 0.00 0.00 43.33 5.52
4867 6842 2.177531 CAAGCATGACACTGCCGC 59.822 61.111 0.00 0.00 43.33 6.53
4868 6843 2.693762 CCCAAGCATGACACTGCCG 61.694 63.158 0.00 0.46 43.33 5.69
4869 6844 2.345760 CCCCAAGCATGACACTGCC 61.346 63.158 0.00 0.00 43.33 4.85
4870 6845 1.303561 TCCCCAAGCATGACACTGC 60.304 57.895 0.00 2.70 42.62 4.40
4871 6846 0.679002 CCTCCCCAAGCATGACACTG 60.679 60.000 0.00 0.00 0.00 3.66
4872 6847 0.842030 TCCTCCCCAAGCATGACACT 60.842 55.000 0.00 0.00 0.00 3.55
4873 6848 0.257039 ATCCTCCCCAAGCATGACAC 59.743 55.000 0.00 0.00 0.00 3.67
4874 6849 0.256752 CATCCTCCCCAAGCATGACA 59.743 55.000 0.00 0.00 0.00 3.58
4875 6850 0.466922 CCATCCTCCCCAAGCATGAC 60.467 60.000 0.00 0.00 0.00 3.06
4876 6851 0.624206 TCCATCCTCCCCAAGCATGA 60.624 55.000 0.00 0.00 0.00 3.07
4877 6852 0.259647 TTCCATCCTCCCCAAGCATG 59.740 55.000 0.00 0.00 0.00 4.06
4878 6853 1.009997 TTTCCATCCTCCCCAAGCAT 58.990 50.000 0.00 0.00 0.00 3.79
4879 6854 0.039618 GTTTCCATCCTCCCCAAGCA 59.960 55.000 0.00 0.00 0.00 3.91
4880 6855 0.684479 GGTTTCCATCCTCCCCAAGC 60.684 60.000 0.00 0.00 0.00 4.01
4881 6856 0.033109 GGGTTTCCATCCTCCCCAAG 60.033 60.000 0.00 0.00 35.32 3.61
4882 6857 0.778078 TGGGTTTCCATCCTCCCCAA 60.778 55.000 0.00 0.00 42.30 4.12
4883 6858 0.778078 TTGGGTTTCCATCCTCCCCA 60.778 55.000 0.00 0.00 43.63 4.96
4884 6859 0.636647 ATTGGGTTTCCATCCTCCCC 59.363 55.000 0.00 0.00 43.63 4.81
4885 6860 2.110578 CAATTGGGTTTCCATCCTCCC 58.889 52.381 0.00 0.00 43.63 4.30
4886 6861 1.482182 GCAATTGGGTTTCCATCCTCC 59.518 52.381 7.72 0.00 43.63 4.30
4887 6862 2.460669 AGCAATTGGGTTTCCATCCTC 58.539 47.619 7.72 0.00 43.63 3.71
4888 6863 2.629017 AGCAATTGGGTTTCCATCCT 57.371 45.000 7.72 0.00 43.63 3.24
4889 6864 3.513515 TGTTAGCAATTGGGTTTCCATCC 59.486 43.478 7.72 0.00 43.63 3.51
4890 6865 4.462483 TCTGTTAGCAATTGGGTTTCCATC 59.538 41.667 7.72 0.00 43.63 3.51
4891 6866 4.415596 TCTGTTAGCAATTGGGTTTCCAT 58.584 39.130 7.72 0.00 43.63 3.41
4892 6867 3.826157 CTCTGTTAGCAATTGGGTTTCCA 59.174 43.478 7.72 0.00 42.25 3.53
4893 6868 3.826729 ACTCTGTTAGCAATTGGGTTTCC 59.173 43.478 7.72 0.00 0.00 3.13
4894 6869 6.555315 CATACTCTGTTAGCAATTGGGTTTC 58.445 40.000 7.72 0.00 0.00 2.78
4895 6870 5.105756 GCATACTCTGTTAGCAATTGGGTTT 60.106 40.000 7.72 0.00 0.00 3.27
4896 6871 4.399303 GCATACTCTGTTAGCAATTGGGTT 59.601 41.667 7.72 0.00 0.00 4.11
4900 6875 5.291858 TCGAAGCATACTCTGTTAGCAATTG 59.708 40.000 0.00 0.00 0.00 2.32
4912 6887 2.799412 CAGGCAAGATCGAAGCATACTC 59.201 50.000 8.85 0.00 0.00 2.59
4995 6970 6.607019 AGGTATTTGTTAAGTTTGTCCCTGA 58.393 36.000 0.00 0.00 0.00 3.86
5002 6977 6.202937 TGTGCGAAGGTATTTGTTAAGTTTG 58.797 36.000 0.00 0.00 0.00 2.93
5018 6993 7.621832 TTACTTTCAAATCAAATGTGCGAAG 57.378 32.000 0.00 0.00 0.00 3.79
5030 7005 7.437862 TGTTGCCAGTCATTTTACTTTCAAATC 59.562 33.333 0.00 0.00 0.00 2.17
5064 7039 2.031157 ACTTGCATTTTACTGGTCGTGC 60.031 45.455 0.00 0.00 0.00 5.34
5067 7042 5.856126 TCTAACTTGCATTTTACTGGTCG 57.144 39.130 0.00 0.00 0.00 4.79
5147 7124 8.939929 TGAAAACTCTCAGCTAATAATCACAAG 58.060 33.333 0.00 0.00 0.00 3.16
5206 7184 2.745968 TCTGCCCCTGTTTCTGTTTTT 58.254 42.857 0.00 0.00 0.00 1.94
5237 7215 2.406596 TGGCCGACATAACTTTACCC 57.593 50.000 0.00 0.00 0.00 3.69
5320 7302 6.366630 GTGCTGTTAAATCTCAGTTCAGTTC 58.633 40.000 0.00 0.00 34.57 3.01
5328 7310 5.437289 TTTGTGGTGCTGTTAAATCTCAG 57.563 39.130 0.00 0.00 35.12 3.35
5342 7324 3.005684 TGGCTCTATTTGCTTTTGTGGTG 59.994 43.478 0.00 0.00 0.00 4.17
5401 7407 4.602340 ACGTCTAACACTTCTTGGTGAT 57.398 40.909 1.52 0.00 40.13 3.06
5407 7413 6.445475 GTTAGGAGAACGTCTAACACTTCTT 58.555 40.000 16.02 0.00 42.70 2.52
5421 7427 4.100498 TGGATGGGAATACGTTAGGAGAAC 59.900 45.833 0.00 0.00 0.00 3.01
5428 7434 6.072948 CGCATTAAATGGATGGGAATACGTTA 60.073 38.462 0.00 0.00 39.12 3.18
5432 7438 4.764823 TCCGCATTAAATGGATGGGAATAC 59.235 41.667 3.15 0.00 39.12 1.89
5436 7442 3.074390 AGATCCGCATTAAATGGATGGGA 59.926 43.478 10.26 0.24 42.46 4.37
5453 7459 9.512435 CTTTGTCATTCATCATGTTTTAGATCC 57.488 33.333 0.00 0.00 34.06 3.36
5464 7470 9.182214 ACTAGTTATTGCTTTGTCATTCATCAT 57.818 29.630 0.00 0.00 0.00 2.45
5493 7499 2.876550 GGTTCACCAACTCTACACCAAC 59.123 50.000 0.00 0.00 35.64 3.77


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

AutoCloner maintained by Alex Coulton.