Multiple sequence alignment - TraesCS2A01G108500

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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 TraesCS2A01G108500 chr2A 100.000 3221 0 0 1 3221 60610830 60607610 0.000000e+00 5949.0
1 TraesCS2A01G108500 chr2A 98.569 2445 28 3 1 2445 60196804 60194367 0.000000e+00 4314.0
2 TraesCS2A01G108500 chr2A 90.813 566 52 0 1641 2206 60176970 60176405 0.000000e+00 758.0
3 TraesCS2A01G108500 chr2A 96.910 356 11 0 2650 3005 60194463 60194108 5.950000e-167 597.0
4 TraesCS2A01G108500 chr2A 75.496 1261 207 54 998 2175 60101039 60099798 1.020000e-144 523.0
5 TraesCS2A01G108500 chr2A 77.739 575 105 13 1632 2202 59724446 59725001 6.660000e-87 331.0
6 TraesCS2A01G108500 chr2A 93.567 171 9 2 1039 1208 59587358 59587527 1.480000e-63 254.0
7 TraesCS2A01G108500 chr2A 95.333 150 6 1 2199 2347 60175890 60175741 1.490000e-58 237.0
8 TraesCS2A01G108500 chr2A 89.326 178 17 1 1040 1217 59880704 59880529 4.180000e-54 222.0
9 TraesCS2A01G108500 chr2A 88.764 178 18 1 1040 1217 59943376 59943201 1.950000e-52 217.0
10 TraesCS2A01G108500 chr2A 83.857 223 28 8 1000 1218 60711808 60711590 4.210000e-49 206.0
11 TraesCS2A01G108500 chr2A 98.198 111 2 0 2336 2446 60175725 60175615 9.120000e-46 195.0
12 TraesCS2A01G108500 chr2A 95.918 98 4 0 2349 2446 60608181 60608084 3.330000e-35 159.0
13 TraesCS2A01G108500 chr2A 77.990 209 30 13 1 202 60101941 60101742 2.030000e-22 117.0
14 TraesCS2A01G108500 chr2A 92.308 65 4 1 1471 1535 60283360 60283297 1.230000e-14 91.6
15 TraesCS2A01G108500 chr2A 91.667 60 5 0 3133 3192 59934591 59934532 2.060000e-12 84.2
16 TraesCS2A01G108500 chr2B 90.698 1935 118 30 545 2433 94203867 94201949 0.000000e+00 2519.0
17 TraesCS2A01G108500 chr2B 77.452 1366 197 63 892 2191 93934719 93933399 0.000000e+00 713.0
18 TraesCS2A01G108500 chr2B 78.783 575 95 18 1634 2202 94224400 94223847 8.490000e-96 361.0
19 TraesCS2A01G108500 chr2B 93.793 145 8 1 2861 3005 94201880 94201737 1.950000e-52 217.0
20 TraesCS2A01G108500 chr2B 80.615 325 22 13 227 515 94204588 94204269 2.520000e-51 213.0
21 TraesCS2A01G108500 chr2B 88.235 170 8 2 2650 2819 94202033 94201876 3.280000e-45 193.0
22 TraesCS2A01G108500 chr2B 98.182 55 1 0 1470 1524 93804576 93804522 2.640000e-16 97.1
23 TraesCS2A01G108500 chr2B 98.182 55 1 0 1470 1524 93882613 93882559 2.640000e-16 97.1
24 TraesCS2A01G108500 chr2D 76.974 1355 214 48 897 2191 60108898 60107582 0.000000e+00 684.0
25 TraesCS2A01G108500 chr2D 78.087 575 103 13 1632 2202 59727695 59728250 3.080000e-90 342.0
26 TraesCS2A01G108500 chr2D 77.391 575 107 15 1632 2202 60138369 60137814 1.440000e-83 320.0
27 TraesCS2A01G108500 chr2D 88.073 218 17 5 2445 2654 76002729 76002945 1.920000e-62 250.0
28 TraesCS2A01G108500 chr2D 88.764 178 18 1 1040 1217 60023201 60023026 1.950000e-52 217.0
29 TraesCS2A01G108500 chr2D 80.488 205 28 11 1 202 60110125 60109930 2.590000e-31 147.0
30 TraesCS2A01G108500 chr2D 77.387 199 30 5 1326 1524 59658164 59658347 1.580000e-18 104.0
31 TraesCS2A01G108500 chr2D 98.182 55 1 0 1470 1524 60078916 60078862 2.640000e-16 97.1
32 TraesCS2A01G108500 chr2D 92.308 65 4 1 1471 1535 60166850 60166787 1.230000e-14 91.6
33 TraesCS2A01G108500 chr5A 79.647 624 106 14 1640 2259 704015618 704015012 2.300000e-116 429.0
34 TraesCS2A01G108500 chr5A 79.487 624 107 14 1640 2259 704099422 704098816 1.070000e-114 424.0
35 TraesCS2A01G108500 chr5A 79.487 624 107 14 1640 2259 704260216 704259610 1.070000e-114 424.0
36 TraesCS2A01G108500 chr1A 80.000 565 97 11 1635 2191 299267823 299268379 1.390000e-108 403.0
37 TraesCS2A01G108500 chr1A 78.882 483 65 25 897 1353 299261398 299261869 3.140000e-75 292.0
38 TraesCS2A01G108500 chr1A 87.654 81 7 3 1448 1528 299267495 299267572 1.230000e-14 91.6
39 TraesCS2A01G108500 chr4B 79.174 605 104 13 1600 2202 664052235 664052819 1.800000e-107 399.0
40 TraesCS2A01G108500 chr4B 79.516 537 48 21 998 1528 664051602 664052082 3.100000e-85 326.0
41 TraesCS2A01G108500 chrUn 79.813 535 44 26 1000 1528 109056647 109057123 6.660000e-87 331.0
42 TraesCS2A01G108500 chr4A 90.187 214 11 7 2449 2654 219185628 219185417 1.470000e-68 270.0
43 TraesCS2A01G108500 chr4A 88.532 218 16 4 2445 2654 491446534 491446750 4.120000e-64 255.0
44 TraesCS2A01G108500 chr5B 87.124 233 20 6 2429 2654 609842446 609842675 4.120000e-64 255.0
45 TraesCS2A01G108500 chr3B 88.532 218 16 5 2445 2654 77005271 77005487 4.120000e-64 255.0
46 TraesCS2A01G108500 chr3B 87.124 233 18 7 2429 2654 738505635 738505862 1.480000e-63 254.0
47 TraesCS2A01G108500 chr7B 87.273 220 21 3 2441 2654 693160562 693160780 8.930000e-61 244.0
48 TraesCS2A01G108500 chr5D 87.097 217 20 5 2445 2654 473469979 473469764 4.150000e-59 239.0
49 TraesCS2A01G108500 chr7A 85.714 231 24 5 2431 2654 620373950 620374178 5.370000e-58 235.0


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 TraesCS2A01G108500 chr2A 60607610 60610830 3220 True 3054.000000 5949 97.959000 1 3221 2 chr2A.!!$R9 3220
1 TraesCS2A01G108500 chr2A 60194108 60196804 2696 True 2455.500000 4314 97.739500 1 3005 2 chr2A.!!$R8 3004
2 TraesCS2A01G108500 chr2A 60175615 60176970 1355 True 396.666667 758 94.781333 1641 2446 3 chr2A.!!$R7 805
3 TraesCS2A01G108500 chr2A 59724446 59725001 555 False 331.000000 331 77.739000 1632 2202 1 chr2A.!!$F2 570
4 TraesCS2A01G108500 chr2A 60099798 60101941 2143 True 320.000000 523 76.743000 1 2175 2 chr2A.!!$R6 2174
5 TraesCS2A01G108500 chr2B 94201737 94204588 2851 True 785.500000 2519 88.335250 227 3005 4 chr2B.!!$R5 2778
6 TraesCS2A01G108500 chr2B 93933399 93934719 1320 True 713.000000 713 77.452000 892 2191 1 chr2B.!!$R3 1299
7 TraesCS2A01G108500 chr2B 94223847 94224400 553 True 361.000000 361 78.783000 1634 2202 1 chr2B.!!$R4 568
8 TraesCS2A01G108500 chr2D 60107582 60110125 2543 True 415.500000 684 78.731000 1 2191 2 chr2D.!!$R5 2190
9 TraesCS2A01G108500 chr2D 59727695 59728250 555 False 342.000000 342 78.087000 1632 2202 1 chr2D.!!$F2 570
10 TraesCS2A01G108500 chr2D 60137814 60138369 555 True 320.000000 320 77.391000 1632 2202 1 chr2D.!!$R3 570
11 TraesCS2A01G108500 chr5A 704015012 704015618 606 True 429.000000 429 79.647000 1640 2259 1 chr5A.!!$R1 619
12 TraesCS2A01G108500 chr5A 704098816 704099422 606 True 424.000000 424 79.487000 1640 2259 1 chr5A.!!$R2 619
13 TraesCS2A01G108500 chr5A 704259610 704260216 606 True 424.000000 424 79.487000 1640 2259 1 chr5A.!!$R3 619
14 TraesCS2A01G108500 chr1A 299267495 299268379 884 False 247.300000 403 83.827000 1448 2191 2 chr1A.!!$F2 743
15 TraesCS2A01G108500 chr4B 664051602 664052819 1217 False 362.500000 399 79.345000 998 2202 2 chr4B.!!$F1 1204

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
276 366 0.321346 TGAAGAGCAGCAACCATCGA 59.679 50.0 0.0 0.0 0.0 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2223 4069 0.95396 ATTTCGGTGCCAAGGACGAC 60.954 55.0 0.0 0.0 34.82 4.34 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
84 89 2.037712 CGAAATGTTAAATTGCGCGTCG 60.038 45.455 8.43 0.00 0.00 5.12
117 122 8.835734 TGGTGCATCCTATTATATATGGAACTT 58.164 33.333 0.00 0.00 37.07 2.66
174 179 1.541147 CCACGCCTGAAAATCATGTGT 59.459 47.619 0.00 0.00 36.43 3.72
225 230 2.159184 TGGAGATGCTCTTAGAACTGCG 60.159 50.000 0.00 0.00 0.00 5.18
275 365 1.329906 GATGAAGAGCAGCAACCATCG 59.670 52.381 0.00 0.00 31.86 3.84
276 366 0.321346 TGAAGAGCAGCAACCATCGA 59.679 50.000 0.00 0.00 0.00 3.59
277 367 1.065926 TGAAGAGCAGCAACCATCGAT 60.066 47.619 0.00 0.00 0.00 3.59
278 368 1.596727 GAAGAGCAGCAACCATCGATC 59.403 52.381 0.00 0.00 0.00 3.69
417 892 6.639212 GTGCACAACACTTTGTCAAATAATG 58.361 36.000 13.17 1.22 44.57 1.90
421 896 7.114811 GCACAACACTTTGTCAAATAATGTAGG 59.885 37.037 0.00 3.88 44.57 3.18
2223 4069 1.079503 GCACCAAGGCGAACTAAGAG 58.920 55.000 0.00 0.00 0.00 2.85
2454 4337 5.340439 AGAACTACAAAATACTCTCCCCG 57.660 43.478 0.00 0.00 0.00 5.73
2455 4338 4.161754 AGAACTACAAAATACTCTCCCCGG 59.838 45.833 0.00 0.00 0.00 5.73
2456 4339 3.447950 ACTACAAAATACTCTCCCCGGT 58.552 45.455 0.00 0.00 0.00 5.28
2457 4340 3.450096 ACTACAAAATACTCTCCCCGGTC 59.550 47.826 0.00 0.00 0.00 4.79
2458 4341 1.558294 ACAAAATACTCTCCCCGGTCC 59.442 52.381 0.00 0.00 0.00 4.46
2459 4342 1.838077 CAAAATACTCTCCCCGGTCCT 59.162 52.381 0.00 0.00 0.00 3.85
2460 4343 2.238898 CAAAATACTCTCCCCGGTCCTT 59.761 50.000 0.00 0.00 0.00 3.36
2461 4344 2.265526 AATACTCTCCCCGGTCCTTT 57.734 50.000 0.00 0.00 0.00 3.11
2462 4345 2.265526 ATACTCTCCCCGGTCCTTTT 57.734 50.000 0.00 0.00 0.00 2.27
2463 4346 2.034436 TACTCTCCCCGGTCCTTTTT 57.966 50.000 0.00 0.00 0.00 1.94
2464 4347 2.034436 ACTCTCCCCGGTCCTTTTTA 57.966 50.000 0.00 0.00 0.00 1.52
2465 4348 1.627329 ACTCTCCCCGGTCCTTTTTAC 59.373 52.381 0.00 0.00 0.00 2.01
2466 4349 1.907255 CTCTCCCCGGTCCTTTTTACT 59.093 52.381 0.00 0.00 0.00 2.24
2467 4350 2.305052 CTCTCCCCGGTCCTTTTTACTT 59.695 50.000 0.00 0.00 0.00 2.24
2468 4351 2.303890 TCTCCCCGGTCCTTTTTACTTC 59.696 50.000 0.00 0.00 0.00 3.01
2469 4352 1.002315 TCCCCGGTCCTTTTTACTTCG 59.998 52.381 0.00 0.00 0.00 3.79
2470 4353 0.800631 CCCGGTCCTTTTTACTTCGC 59.199 55.000 0.00 0.00 0.00 4.70
2471 4354 0.441145 CCGGTCCTTTTTACTTCGCG 59.559 55.000 0.00 0.00 0.00 5.87
2472 4355 1.142474 CGGTCCTTTTTACTTCGCGT 58.858 50.000 5.77 0.00 0.00 6.01
2473 4356 2.327568 CGGTCCTTTTTACTTCGCGTA 58.672 47.619 5.77 0.00 0.00 4.42
2474 4357 2.925563 CGGTCCTTTTTACTTCGCGTAT 59.074 45.455 5.77 0.00 0.00 3.06
2475 4358 3.368843 CGGTCCTTTTTACTTCGCGTATT 59.631 43.478 5.77 0.00 0.00 1.89
2476 4359 4.562394 CGGTCCTTTTTACTTCGCGTATTA 59.438 41.667 5.77 0.00 0.00 0.98
2477 4360 5.276067 CGGTCCTTTTTACTTCGCGTATTAG 60.276 44.000 5.77 2.30 0.00 1.73
2478 4361 5.807011 GGTCCTTTTTACTTCGCGTATTAGA 59.193 40.000 5.77 0.00 0.00 2.10
2479 4362 6.478016 GGTCCTTTTTACTTCGCGTATTAGAT 59.522 38.462 5.77 0.00 0.00 1.98
2480 4363 7.010830 GGTCCTTTTTACTTCGCGTATTAGATT 59.989 37.037 5.77 0.00 0.00 2.40
2481 4364 8.385858 GTCCTTTTTACTTCGCGTATTAGATTT 58.614 33.333 5.77 0.00 0.00 2.17
2482 4365 9.585099 TCCTTTTTACTTCGCGTATTAGATTTA 57.415 29.630 5.77 0.00 0.00 1.40
2483 4366 9.845305 CCTTTTTACTTCGCGTATTAGATTTAG 57.155 33.333 5.77 0.00 0.00 1.85
2487 4370 9.955208 TTTACTTCGCGTATTAGATTTAGATCA 57.045 29.630 5.77 0.00 34.60 2.92
2488 4371 9.955208 TTACTTCGCGTATTAGATTTAGATCAA 57.045 29.630 5.77 0.00 34.60 2.57
2489 4372 8.508800 ACTTCGCGTATTAGATTTAGATCAAG 57.491 34.615 5.77 0.00 34.60 3.02
2490 4373 8.136165 ACTTCGCGTATTAGATTTAGATCAAGT 58.864 33.333 5.77 0.00 34.60 3.16
2491 4374 8.503486 TTCGCGTATTAGATTTAGATCAAGTC 57.497 34.615 5.77 0.00 34.60 3.01
2492 4375 7.645402 TCGCGTATTAGATTTAGATCAAGTCA 58.355 34.615 5.77 0.00 34.60 3.41
2493 4376 8.132995 TCGCGTATTAGATTTAGATCAAGTCAA 58.867 33.333 5.77 0.00 34.60 3.18
2494 4377 8.752254 CGCGTATTAGATTTAGATCAAGTCAAA 58.248 33.333 0.00 0.00 34.60 2.69
2495 4378 9.851043 GCGTATTAGATTTAGATCAAGTCAAAC 57.149 33.333 0.00 0.00 34.60 2.93
2605 4488 7.894753 TGAATCTAACAATATTGATTGGGCA 57.105 32.000 22.16 8.53 45.83 5.36
2606 4489 8.481492 TGAATCTAACAATATTGATTGGGCAT 57.519 30.769 22.16 0.00 45.83 4.40
2607 4490 8.926374 TGAATCTAACAATATTGATTGGGCATT 58.074 29.630 22.16 7.23 45.83 3.56
2608 4491 9.199982 GAATCTAACAATATTGATTGGGCATTG 57.800 33.333 22.16 0.00 45.83 2.82
2609 4492 7.658525 TCTAACAATATTGATTGGGCATTGT 57.341 32.000 22.16 0.00 45.83 2.71
2610 4493 8.076910 TCTAACAATATTGATTGGGCATTGTT 57.923 30.769 22.16 13.56 45.83 2.83
2611 4494 6.988622 AACAATATTGATTGGGCATTGTTG 57.011 33.333 22.16 0.00 45.83 3.33
2612 4495 6.297080 ACAATATTGATTGGGCATTGTTGA 57.703 33.333 22.16 0.00 45.83 3.18
2613 4496 6.891388 ACAATATTGATTGGGCATTGTTGAT 58.109 32.000 22.16 0.00 45.83 2.57
2614 4497 8.020777 ACAATATTGATTGGGCATTGTTGATA 57.979 30.769 22.16 0.00 45.83 2.15
2615 4498 8.653191 ACAATATTGATTGGGCATTGTTGATAT 58.347 29.630 22.16 0.00 45.83 1.63
2616 4499 9.496873 CAATATTGATTGGGCATTGTTGATATT 57.503 29.630 10.04 0.00 39.10 1.28
2619 4502 8.810990 ATTGATTGGGCATTGTTGATATTTTT 57.189 26.923 0.00 0.00 0.00 1.94
2647 4530 9.294030 CAATAAGTTTGGTCAAAATAGAGATGC 57.706 33.333 0.00 0.00 31.33 3.91
2648 4531 8.814038 ATAAGTTTGGTCAAAATAGAGATGCT 57.186 30.769 0.00 0.00 31.33 3.79
2649 4532 7.530426 AAGTTTGGTCAAAATAGAGATGCTT 57.470 32.000 0.00 0.00 31.33 3.91
2650 4533 7.530426 AGTTTGGTCAAAATAGAGATGCTTT 57.470 32.000 0.00 0.00 31.33 3.51
2651 4534 7.373493 AGTTTGGTCAAAATAGAGATGCTTTG 58.627 34.615 0.00 0.00 31.33 2.77
2652 4535 7.231317 AGTTTGGTCAAAATAGAGATGCTTTGA 59.769 33.333 0.00 0.00 35.88 2.69
2658 4541 8.339344 TCAAAATAGAGATGCTTTGACATTGA 57.661 30.769 0.00 0.00 33.90 2.57
2659 4542 8.963725 TCAAAATAGAGATGCTTTGACATTGAT 58.036 29.630 0.00 0.00 33.90 2.57
2668 4551 9.932207 AGATGCTTTGACATTGATAATTTTTCA 57.068 25.926 0.00 0.00 0.00 2.69
3010 4893 6.377327 TTTTTGAAACATGGTCTGAGAGTC 57.623 37.500 0.00 0.00 0.00 3.36
3011 4894 3.303881 TGAAACATGGTCTGAGAGTCG 57.696 47.619 0.00 0.00 0.00 4.18
3012 4895 2.890945 TGAAACATGGTCTGAGAGTCGA 59.109 45.455 0.00 0.00 0.00 4.20
3013 4896 3.057245 TGAAACATGGTCTGAGAGTCGAG 60.057 47.826 0.00 0.00 0.00 4.04
3014 4897 2.208132 ACATGGTCTGAGAGTCGAGT 57.792 50.000 0.00 0.00 0.00 4.18
3015 4898 2.088423 ACATGGTCTGAGAGTCGAGTC 58.912 52.381 12.54 12.54 0.00 3.36
3016 4899 1.403679 CATGGTCTGAGAGTCGAGTCC 59.596 57.143 16.67 8.93 0.00 3.85
3017 4900 0.400594 TGGTCTGAGAGTCGAGTCCA 59.599 55.000 16.67 12.77 0.00 4.02
3018 4901 0.806241 GGTCTGAGAGTCGAGTCCAC 59.194 60.000 16.67 11.60 0.00 4.02
3019 4902 0.444651 GTCTGAGAGTCGAGTCCACG 59.555 60.000 16.67 5.41 0.00 4.94
3020 4903 0.035036 TCTGAGAGTCGAGTCCACGT 59.965 55.000 16.67 0.00 34.70 4.49
3021 4904 0.167033 CTGAGAGTCGAGTCCACGTG 59.833 60.000 16.67 9.08 34.70 4.49
3022 4905 0.534427 TGAGAGTCGAGTCCACGTGT 60.534 55.000 16.67 0.00 34.70 4.49
3023 4906 0.166379 GAGAGTCGAGTCCACGTGTC 59.834 60.000 16.67 7.33 34.70 3.67
3024 4907 0.534427 AGAGTCGAGTCCACGTGTCA 60.534 55.000 16.67 0.00 34.70 3.58
3025 4908 0.309922 GAGTCGAGTCCACGTGTCAA 59.690 55.000 15.65 0.00 34.70 3.18
3026 4909 0.311165 AGTCGAGTCCACGTGTCAAG 59.689 55.000 15.65 0.00 34.70 3.02
3027 4910 1.007734 TCGAGTCCACGTGTCAAGC 60.008 57.895 15.65 0.00 34.70 4.01
3028 4911 1.299850 CGAGTCCACGTGTCAAGCA 60.300 57.895 15.65 0.00 0.00 3.91
3029 4912 0.874175 CGAGTCCACGTGTCAAGCAA 60.874 55.000 15.65 0.00 0.00 3.91
3030 4913 1.295792 GAGTCCACGTGTCAAGCAAA 58.704 50.000 15.65 0.00 0.00 3.68
3031 4914 1.261619 GAGTCCACGTGTCAAGCAAAG 59.738 52.381 15.65 0.00 0.00 2.77
3032 4915 0.307760 GTCCACGTGTCAAGCAAAGG 59.692 55.000 15.65 0.00 0.00 3.11
3033 4916 0.179234 TCCACGTGTCAAGCAAAGGA 59.821 50.000 15.65 0.00 0.00 3.36
3034 4917 0.588252 CCACGTGTCAAGCAAAGGAG 59.412 55.000 15.65 0.00 0.00 3.69
3035 4918 0.588252 CACGTGTCAAGCAAAGGAGG 59.412 55.000 7.58 0.00 0.00 4.30
3036 4919 1.166531 ACGTGTCAAGCAAAGGAGGC 61.167 55.000 0.00 0.00 0.00 4.70
3037 4920 1.165907 CGTGTCAAGCAAAGGAGGCA 61.166 55.000 0.00 0.00 0.00 4.75
3038 4921 0.595095 GTGTCAAGCAAAGGAGGCAG 59.405 55.000 0.00 0.00 0.00 4.85
3039 4922 1.174712 TGTCAAGCAAAGGAGGCAGC 61.175 55.000 0.00 0.00 0.00 5.25
3040 4923 1.968017 TCAAGCAAAGGAGGCAGCG 60.968 57.895 0.00 0.00 0.00 5.18
3041 4924 2.674380 AAGCAAAGGAGGCAGCGG 60.674 61.111 0.00 0.00 0.00 5.52
3042 4925 3.196207 AAGCAAAGGAGGCAGCGGA 62.196 57.895 0.00 0.00 0.00 5.54
3043 4926 2.439156 GCAAAGGAGGCAGCGGAT 60.439 61.111 0.00 0.00 0.00 4.18
3044 4927 2.768492 GCAAAGGAGGCAGCGGATG 61.768 63.158 0.00 0.00 0.00 3.51
3045 4928 1.078214 CAAAGGAGGCAGCGGATGA 60.078 57.895 0.00 0.00 0.00 2.92
3046 4929 1.094073 CAAAGGAGGCAGCGGATGAG 61.094 60.000 0.00 0.00 0.00 2.90
3047 4930 2.262774 AAAGGAGGCAGCGGATGAGG 62.263 60.000 0.00 0.00 0.00 3.86
3048 4931 4.925861 GGAGGCAGCGGATGAGGC 62.926 72.222 0.00 0.00 0.00 4.70
3049 4932 3.859414 GAGGCAGCGGATGAGGCT 61.859 66.667 0.00 0.00 42.61 4.58
3054 4937 3.639445 AGCGGATGAGGCTGTGAT 58.361 55.556 0.00 0.00 39.77 3.06
3055 4938 2.826337 AGCGGATGAGGCTGTGATA 58.174 52.632 0.00 0.00 39.77 2.15
3056 4939 1.346062 AGCGGATGAGGCTGTGATAT 58.654 50.000 0.00 0.00 39.77 1.63
3057 4940 1.274728 AGCGGATGAGGCTGTGATATC 59.725 52.381 0.00 0.00 39.77 1.63
3058 4941 1.001293 GCGGATGAGGCTGTGATATCA 59.999 52.381 0.00 0.00 0.00 2.15
3059 4942 2.930023 GCGGATGAGGCTGTGATATCAG 60.930 54.545 5.42 0.00 38.35 2.90
3066 4949 2.910205 CTGTGATATCAGCCGGCTG 58.090 57.895 44.24 44.24 44.86 4.85
3075 4958 2.983433 CAGCCGGCTGACTAGAATG 58.017 57.895 46.72 21.11 46.30 2.67
3076 4959 0.176680 CAGCCGGCTGACTAGAATGT 59.823 55.000 46.72 11.07 46.30 2.71
3077 4960 0.905357 AGCCGGCTGACTAGAATGTT 59.095 50.000 32.33 0.00 0.00 2.71
3078 4961 1.279271 AGCCGGCTGACTAGAATGTTT 59.721 47.619 32.33 0.00 0.00 2.83
3079 4962 2.084546 GCCGGCTGACTAGAATGTTTT 58.915 47.619 22.15 0.00 0.00 2.43
3080 4963 2.096013 GCCGGCTGACTAGAATGTTTTC 59.904 50.000 22.15 0.00 0.00 2.29
3081 4964 2.678336 CCGGCTGACTAGAATGTTTTCC 59.322 50.000 0.00 0.00 31.84 3.13
3082 4965 2.678336 CGGCTGACTAGAATGTTTTCCC 59.322 50.000 0.00 0.00 31.84 3.97
3083 4966 3.017442 GGCTGACTAGAATGTTTTCCCC 58.983 50.000 0.00 0.00 31.84 4.81
3084 4967 3.561313 GGCTGACTAGAATGTTTTCCCCA 60.561 47.826 0.00 0.00 31.84 4.96
3085 4968 4.079253 GCTGACTAGAATGTTTTCCCCAA 58.921 43.478 0.00 0.00 31.84 4.12
3086 4969 4.522789 GCTGACTAGAATGTTTTCCCCAAA 59.477 41.667 0.00 0.00 31.84 3.28
3087 4970 5.010617 GCTGACTAGAATGTTTTCCCCAAAA 59.989 40.000 0.00 0.00 31.84 2.44
3088 4971 6.462347 GCTGACTAGAATGTTTTCCCCAAAAA 60.462 38.462 0.00 0.00 33.17 1.94
3120 5003 8.335532 CTGTTTCAGGAACTCAAATATAACCA 57.664 34.615 0.00 0.00 39.08 3.67
3121 5004 8.335532 TGTTTCAGGAACTCAAATATAACCAG 57.664 34.615 0.00 0.00 39.08 4.00
3122 5005 7.094377 TGTTTCAGGAACTCAAATATAACCAGC 60.094 37.037 0.00 0.00 39.08 4.85
3123 5006 6.061022 TCAGGAACTCAAATATAACCAGCA 57.939 37.500 0.00 0.00 34.60 4.41
3124 5007 6.480763 TCAGGAACTCAAATATAACCAGCAA 58.519 36.000 0.00 0.00 34.60 3.91
3125 5008 7.118723 TCAGGAACTCAAATATAACCAGCAAT 58.881 34.615 0.00 0.00 34.60 3.56
3126 5009 7.615365 TCAGGAACTCAAATATAACCAGCAATT 59.385 33.333 0.00 0.00 34.60 2.32
3127 5010 7.917505 CAGGAACTCAAATATAACCAGCAATTC 59.082 37.037 0.00 0.00 34.60 2.17
3128 5011 6.912591 GGAACTCAAATATAACCAGCAATTCG 59.087 38.462 0.00 0.00 0.00 3.34
3129 5012 7.391148 AACTCAAATATAACCAGCAATTCGT 57.609 32.000 0.00 0.00 0.00 3.85
3130 5013 7.016361 ACTCAAATATAACCAGCAATTCGTC 57.984 36.000 0.00 0.00 0.00 4.20
3131 5014 6.038271 ACTCAAATATAACCAGCAATTCGTCC 59.962 38.462 0.00 0.00 0.00 4.79
3132 5015 5.007234 TCAAATATAACCAGCAATTCGTCCG 59.993 40.000 0.00 0.00 0.00 4.79
3133 5016 1.663695 ATAACCAGCAATTCGTCCGG 58.336 50.000 0.00 0.00 0.00 5.14
3134 5017 1.022451 TAACCAGCAATTCGTCCGGC 61.022 55.000 0.00 0.00 0.00 6.13
3135 5018 3.508840 CCAGCAATTCGTCCGGCC 61.509 66.667 0.00 0.00 0.00 6.13
3136 5019 2.436646 CAGCAATTCGTCCGGCCT 60.437 61.111 0.00 0.00 0.00 5.19
3137 5020 1.153449 CAGCAATTCGTCCGGCCTA 60.153 57.895 0.00 0.00 0.00 3.93
3138 5021 1.153429 AGCAATTCGTCCGGCCTAC 60.153 57.895 0.00 0.00 0.00 3.18
3139 5022 1.448893 GCAATTCGTCCGGCCTACA 60.449 57.895 0.00 0.00 0.00 2.74
3140 5023 1.022451 GCAATTCGTCCGGCCTACAA 61.022 55.000 0.00 0.00 0.00 2.41
3141 5024 1.444836 CAATTCGTCCGGCCTACAAA 58.555 50.000 0.00 0.00 0.00 2.83
3142 5025 2.014128 CAATTCGTCCGGCCTACAAAT 58.986 47.619 0.00 0.00 0.00 2.32
3143 5026 1.949465 ATTCGTCCGGCCTACAAATC 58.051 50.000 0.00 0.00 0.00 2.17
3144 5027 0.609151 TTCGTCCGGCCTACAAATCA 59.391 50.000 0.00 0.00 0.00 2.57
3145 5028 0.174845 TCGTCCGGCCTACAAATCAG 59.825 55.000 0.00 0.00 0.00 2.90
3146 5029 0.174845 CGTCCGGCCTACAAATCAGA 59.825 55.000 0.00 0.00 0.00 3.27
3147 5030 1.653151 GTCCGGCCTACAAATCAGAC 58.347 55.000 0.00 0.00 0.00 3.51
3148 5031 0.539986 TCCGGCCTACAAATCAGACC 59.460 55.000 0.00 0.00 0.00 3.85
3149 5032 0.251916 CCGGCCTACAAATCAGACCA 59.748 55.000 0.00 0.00 0.00 4.02
3150 5033 1.369625 CGGCCTACAAATCAGACCAC 58.630 55.000 0.00 0.00 0.00 4.16
3151 5034 1.369625 GGCCTACAAATCAGACCACG 58.630 55.000 0.00 0.00 0.00 4.94
3152 5035 1.338769 GGCCTACAAATCAGACCACGT 60.339 52.381 0.00 0.00 0.00 4.49
3153 5036 2.423577 GCCTACAAATCAGACCACGTT 58.576 47.619 0.00 0.00 0.00 3.99
3154 5037 3.592059 GCCTACAAATCAGACCACGTTA 58.408 45.455 0.00 0.00 0.00 3.18
3155 5038 4.189231 GCCTACAAATCAGACCACGTTAT 58.811 43.478 0.00 0.00 0.00 1.89
3156 5039 4.034048 GCCTACAAATCAGACCACGTTATG 59.966 45.833 0.00 0.00 0.00 1.90
3164 5047 4.483243 CCACGTTATGGCCGGCCT 62.483 66.667 43.34 30.54 43.24 5.19
3165 5048 2.502093 CACGTTATGGCCGGCCTA 59.498 61.111 43.34 30.35 36.94 3.93
3166 5049 1.153329 CACGTTATGGCCGGCCTAA 60.153 57.895 43.34 32.71 36.94 2.69
3167 5050 0.745128 CACGTTATGGCCGGCCTAAA 60.745 55.000 43.34 32.85 36.94 1.85
3168 5051 0.745486 ACGTTATGGCCGGCCTAAAC 60.745 55.000 43.34 38.37 36.94 2.01
3169 5052 1.768112 CGTTATGGCCGGCCTAAACG 61.768 60.000 43.03 43.03 42.98 3.60
3170 5053 0.745486 GTTATGGCCGGCCTAAACGT 60.745 55.000 43.34 24.11 36.94 3.99
3171 5054 0.462403 TTATGGCCGGCCTAAACGTC 60.462 55.000 43.34 17.51 36.94 4.34
3172 5055 2.314415 TATGGCCGGCCTAAACGTCC 62.314 60.000 43.34 16.73 36.94 4.79
3174 5057 4.747529 GCCGGCCTAAACGTCCGT 62.748 66.667 18.11 0.00 41.46 4.69
3175 5058 2.507769 CCGGCCTAAACGTCCGTC 60.508 66.667 11.17 0.00 41.46 4.79
3176 5059 2.877582 CGGCCTAAACGTCCGTCG 60.878 66.667 0.00 0.00 46.00 5.12
3177 5060 2.507769 GGCCTAAACGTCCGTCGG 60.508 66.667 4.39 4.39 44.69 4.79
3178 5061 2.259511 GCCTAAACGTCCGTCGGT 59.740 61.111 11.88 0.00 44.69 4.69
3179 5062 2.090524 GCCTAAACGTCCGTCGGTG 61.091 63.158 11.88 7.93 44.69 4.94
3180 5063 2.090524 CCTAAACGTCCGTCGGTGC 61.091 63.158 11.88 4.89 44.69 5.01
3181 5064 1.080974 CTAAACGTCCGTCGGTGCT 60.081 57.895 11.88 0.00 44.69 4.40
3182 5065 1.342082 CTAAACGTCCGTCGGTGCTG 61.342 60.000 11.88 2.36 44.69 4.41
3183 5066 2.752322 TAAACGTCCGTCGGTGCTGG 62.752 60.000 11.88 0.00 44.69 4.85
3188 5071 4.814294 CCGTCGGTGCTGGCCTAC 62.814 72.222 3.32 0.00 0.00 3.18
3190 5073 4.814294 GTCGGTGCTGGCCTACGG 62.814 72.222 3.32 5.48 0.00 4.02
3213 5096 5.306532 CCACATGGCTTGCATATAGAATC 57.693 43.478 0.00 0.00 0.00 2.52
3214 5097 5.008331 CCACATGGCTTGCATATAGAATCT 58.992 41.667 0.00 0.00 0.00 2.40
3215 5098 5.106277 CCACATGGCTTGCATATAGAATCTG 60.106 44.000 0.00 0.00 0.00 2.90
3216 5099 5.472478 CACATGGCTTGCATATAGAATCTGT 59.528 40.000 0.00 0.00 0.00 3.41
3217 5100 6.652062 CACATGGCTTGCATATAGAATCTGTA 59.348 38.462 0.00 0.00 0.00 2.74
3218 5101 7.173735 CACATGGCTTGCATATAGAATCTGTAA 59.826 37.037 0.00 0.00 0.00 2.41
3219 5102 7.886970 ACATGGCTTGCATATAGAATCTGTAAT 59.113 33.333 0.00 0.00 0.00 1.89
3220 5103 9.387257 CATGGCTTGCATATAGAATCTGTAATA 57.613 33.333 0.00 0.00 0.00 0.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 70 2.246789 CCGACGCGCAATTTAACATTT 58.753 42.857 5.73 0.00 0.00 2.32
72 77 0.380378 AATATGCCGACGCGCAATTT 59.620 45.000 5.73 8.48 43.24 1.82
84 89 9.745018 ATATATAATAGGATGCACCAATATGCC 57.255 33.333 7.86 0.00 45.50 4.40
117 122 9.031360 GTTGCTTCAACGTCTTAGATGATTATA 57.969 33.333 8.60 0.00 34.63 0.98
118 123 7.011482 GGTTGCTTCAACGTCTTAGATGATTAT 59.989 37.037 8.60 0.00 44.36 1.28
174 179 7.016153 AGATGTTGTGAAGGGAATAGTACAA 57.984 36.000 0.00 0.00 0.00 2.41
225 230 7.834068 TCTTCACAAATGCTATAGAACTCAC 57.166 36.000 3.21 0.00 0.00 3.51
275 365 4.863689 CCATCTGATAGCTGTTCGATGATC 59.136 45.833 18.20 3.88 31.64 2.92
276 366 4.525874 TCCATCTGATAGCTGTTCGATGAT 59.474 41.667 18.20 8.84 31.64 2.45
277 367 3.891366 TCCATCTGATAGCTGTTCGATGA 59.109 43.478 18.20 7.41 31.64 2.92
278 368 4.248691 TCCATCTGATAGCTGTTCGATG 57.751 45.455 12.79 12.79 0.00 3.84
559 1409 6.211515 TCACAACCTACGTAGTCTTTTCTTC 58.788 40.000 20.73 0.00 43.93 2.87
2202 3526 1.079503 CTTAGTTCGCCTTGGTGCTC 58.920 55.000 0.00 0.00 0.00 4.26
2223 4069 0.953960 ATTTCGGTGCCAAGGACGAC 60.954 55.000 0.00 0.00 34.82 4.34
2276 4131 1.191535 TTAGACGGCCACTGTGCTAT 58.808 50.000 2.24 0.00 0.00 2.97
2436 4319 3.181468 GGACCGGGGAGAGTATTTTGTAG 60.181 52.174 6.32 0.00 0.00 2.74
2439 4322 1.838077 AGGACCGGGGAGAGTATTTTG 59.162 52.381 6.32 0.00 0.00 2.44
2446 4329 1.907255 AGTAAAAAGGACCGGGGAGAG 59.093 52.381 6.32 0.00 0.00 3.20
2447 4330 2.034436 AGTAAAAAGGACCGGGGAGA 57.966 50.000 6.32 0.00 0.00 3.71
2448 4331 2.708051 GAAGTAAAAAGGACCGGGGAG 58.292 52.381 6.32 0.00 0.00 4.30
2449 4332 1.002315 CGAAGTAAAAAGGACCGGGGA 59.998 52.381 6.32 0.00 0.00 4.81
2450 4333 1.445871 CGAAGTAAAAAGGACCGGGG 58.554 55.000 6.32 0.00 0.00 5.73
2451 4334 0.800631 GCGAAGTAAAAAGGACCGGG 59.199 55.000 6.32 0.00 0.00 5.73
2452 4335 0.441145 CGCGAAGTAAAAAGGACCGG 59.559 55.000 0.00 0.00 0.00 5.28
2453 4336 1.142474 ACGCGAAGTAAAAAGGACCG 58.858 50.000 15.93 0.00 0.00 4.79
2454 4337 4.934075 AATACGCGAAGTAAAAAGGACC 57.066 40.909 15.93 0.00 39.04 4.46
2455 4338 6.875926 TCTAATACGCGAAGTAAAAAGGAC 57.124 37.500 15.93 0.00 39.04 3.85
2456 4339 8.483307 AAATCTAATACGCGAAGTAAAAAGGA 57.517 30.769 15.93 0.00 39.04 3.36
2457 4340 9.845305 CTAAATCTAATACGCGAAGTAAAAAGG 57.155 33.333 15.93 0.00 39.04 3.11
2461 4344 9.955208 TGATCTAAATCTAATACGCGAAGTAAA 57.045 29.630 15.93 0.00 34.39 2.01
2462 4345 9.955208 TTGATCTAAATCTAATACGCGAAGTAA 57.045 29.630 15.93 0.00 34.39 2.24
2463 4346 9.608617 CTTGATCTAAATCTAATACGCGAAGTA 57.391 33.333 15.93 0.00 34.83 2.24
2464 4347 8.136165 ACTTGATCTAAATCTAATACGCGAAGT 58.864 33.333 15.93 2.17 32.75 3.01
2465 4348 8.508800 ACTTGATCTAAATCTAATACGCGAAG 57.491 34.615 15.93 4.52 32.75 3.79
2466 4349 8.132995 TGACTTGATCTAAATCTAATACGCGAA 58.867 33.333 15.93 0.00 32.75 4.70
2467 4350 7.645402 TGACTTGATCTAAATCTAATACGCGA 58.355 34.615 15.93 0.00 32.75 5.87
2468 4351 7.853377 TGACTTGATCTAAATCTAATACGCG 57.147 36.000 3.53 3.53 32.75 6.01
2469 4352 9.851043 GTTTGACTTGATCTAAATCTAATACGC 57.149 33.333 0.00 0.00 32.75 4.42
2579 4462 8.926374 TGCCCAATCAATATTGTTAGATTCATT 58.074 29.630 14.97 2.63 40.84 2.57
2580 4463 8.481492 TGCCCAATCAATATTGTTAGATTCAT 57.519 30.769 14.97 0.00 40.84 2.57
2581 4464 7.894753 TGCCCAATCAATATTGTTAGATTCA 57.105 32.000 14.97 4.58 40.84 2.57
2582 4465 9.199982 CAATGCCCAATCAATATTGTTAGATTC 57.800 33.333 14.97 2.30 40.84 2.52
2583 4466 8.707449 ACAATGCCCAATCAATATTGTTAGATT 58.293 29.630 14.97 5.00 40.84 2.40
2584 4467 8.253867 ACAATGCCCAATCAATATTGTTAGAT 57.746 30.769 14.97 0.00 40.84 1.98
2585 4468 7.658525 ACAATGCCCAATCAATATTGTTAGA 57.341 32.000 14.97 0.00 40.84 2.10
2586 4469 7.980662 TCAACAATGCCCAATCAATATTGTTAG 59.019 33.333 14.97 6.16 45.13 2.34
2587 4470 7.845037 TCAACAATGCCCAATCAATATTGTTA 58.155 30.769 14.97 0.00 45.13 2.41
2588 4471 6.709281 TCAACAATGCCCAATCAATATTGTT 58.291 32.000 14.97 4.27 46.78 2.83
2589 4472 6.297080 TCAACAATGCCCAATCAATATTGT 57.703 33.333 14.97 0.00 42.03 2.71
2590 4473 9.496873 AATATCAACAATGCCCAATCAATATTG 57.503 29.630 9.29 9.29 41.90 1.90
2593 4476 9.902684 AAAAATATCAACAATGCCCAATCAATA 57.097 25.926 0.00 0.00 0.00 1.90
2594 4477 8.810990 AAAAATATCAACAATGCCCAATCAAT 57.189 26.923 0.00 0.00 0.00 2.57
2621 4504 9.294030 GCATCTCTATTTTGACCAAACTTATTG 57.706 33.333 0.00 0.00 0.00 1.90
2622 4505 9.247861 AGCATCTCTATTTTGACCAAACTTATT 57.752 29.630 0.00 0.00 0.00 1.40
2623 4506 8.814038 AGCATCTCTATTTTGACCAAACTTAT 57.186 30.769 0.00 0.00 0.00 1.73
2624 4507 8.635765 AAGCATCTCTATTTTGACCAAACTTA 57.364 30.769 0.00 0.00 0.00 2.24
2625 4508 7.530426 AAGCATCTCTATTTTGACCAAACTT 57.470 32.000 0.00 0.00 0.00 2.66
2626 4509 7.231317 TCAAAGCATCTCTATTTTGACCAAACT 59.769 33.333 0.00 0.00 35.34 2.66
2627 4510 7.327032 GTCAAAGCATCTCTATTTTGACCAAAC 59.673 37.037 14.68 0.00 46.80 2.93
2628 4511 7.370383 GTCAAAGCATCTCTATTTTGACCAAA 58.630 34.615 14.68 0.00 46.80 3.28
2629 4512 6.913170 GTCAAAGCATCTCTATTTTGACCAA 58.087 36.000 14.68 0.00 46.80 3.67
2630 4513 6.500684 GTCAAAGCATCTCTATTTTGACCA 57.499 37.500 14.68 0.00 46.80 4.02
2633 4516 8.339344 TCAATGTCAAAGCATCTCTATTTTGA 57.661 30.769 0.00 0.00 37.25 2.69
2642 4525 9.932207 TGAAAAATTATCAATGTCAAAGCATCT 57.068 25.926 0.00 0.00 0.00 2.90
2783 4666 9.502091 TGCCTGACTATGTAAACATATTATTCC 57.498 33.333 3.39 0.00 38.09 3.01
2847 4730 6.233434 AGAGCATACAACAACTGATCTTTCA 58.767 36.000 0.00 0.00 32.04 2.69
3002 4885 0.167033 CACGTGGACTCGACTCTCAG 59.833 60.000 7.95 0.00 34.70 3.35
3005 4888 0.534427 TGACACGTGGACTCGACTCT 60.534 55.000 21.57 0.00 34.70 3.24
3006 4889 0.309922 TTGACACGTGGACTCGACTC 59.690 55.000 21.57 6.04 34.70 3.36
3007 4890 0.311165 CTTGACACGTGGACTCGACT 59.689 55.000 21.57 0.00 34.70 4.18
3008 4891 1.276145 GCTTGACACGTGGACTCGAC 61.276 60.000 21.57 0.00 34.70 4.20
3009 4892 1.007734 GCTTGACACGTGGACTCGA 60.008 57.895 21.57 7.44 34.70 4.04
3010 4893 0.874175 TTGCTTGACACGTGGACTCG 60.874 55.000 21.57 5.18 0.00 4.18
3011 4894 1.261619 CTTTGCTTGACACGTGGACTC 59.738 52.381 21.57 9.15 0.00 3.36
3012 4895 1.299541 CTTTGCTTGACACGTGGACT 58.700 50.000 21.57 0.00 0.00 3.85
3013 4896 0.307760 CCTTTGCTTGACACGTGGAC 59.692 55.000 21.57 13.84 0.00 4.02
3014 4897 0.179234 TCCTTTGCTTGACACGTGGA 59.821 50.000 21.57 2.52 0.00 4.02
3015 4898 0.588252 CTCCTTTGCTTGACACGTGG 59.412 55.000 21.57 2.48 0.00 4.94
3016 4899 0.588252 CCTCCTTTGCTTGACACGTG 59.412 55.000 15.48 15.48 0.00 4.49
3017 4900 1.166531 GCCTCCTTTGCTTGACACGT 61.167 55.000 0.00 0.00 0.00 4.49
3018 4901 1.165907 TGCCTCCTTTGCTTGACACG 61.166 55.000 0.00 0.00 0.00 4.49
3019 4902 0.595095 CTGCCTCCTTTGCTTGACAC 59.405 55.000 0.00 0.00 0.00 3.67
3020 4903 1.174712 GCTGCCTCCTTTGCTTGACA 61.175 55.000 0.00 0.00 0.00 3.58
3021 4904 1.583477 GCTGCCTCCTTTGCTTGAC 59.417 57.895 0.00 0.00 0.00 3.18
3022 4905 1.968017 CGCTGCCTCCTTTGCTTGA 60.968 57.895 0.00 0.00 0.00 3.02
3023 4906 2.564975 CGCTGCCTCCTTTGCTTG 59.435 61.111 0.00 0.00 0.00 4.01
3024 4907 2.490270 ATCCGCTGCCTCCTTTGCTT 62.490 55.000 0.00 0.00 0.00 3.91
3025 4908 2.976490 ATCCGCTGCCTCCTTTGCT 61.976 57.895 0.00 0.00 0.00 3.91
3026 4909 2.439156 ATCCGCTGCCTCCTTTGC 60.439 61.111 0.00 0.00 0.00 3.68
3027 4910 1.078214 TCATCCGCTGCCTCCTTTG 60.078 57.895 0.00 0.00 0.00 2.77
3028 4911 1.222936 CTCATCCGCTGCCTCCTTT 59.777 57.895 0.00 0.00 0.00 3.11
3029 4912 2.739996 CCTCATCCGCTGCCTCCTT 61.740 63.158 0.00 0.00 0.00 3.36
3030 4913 3.160047 CCTCATCCGCTGCCTCCT 61.160 66.667 0.00 0.00 0.00 3.69
3031 4914 4.925861 GCCTCATCCGCTGCCTCC 62.926 72.222 0.00 0.00 0.00 4.30
3032 4915 3.859414 AGCCTCATCCGCTGCCTC 61.859 66.667 0.00 0.00 34.56 4.70
3033 4916 4.172512 CAGCCTCATCCGCTGCCT 62.173 66.667 0.00 0.00 46.54 4.75
3037 4920 1.274728 GATATCACAGCCTCATCCGCT 59.725 52.381 0.00 0.00 36.91 5.52
3038 4921 1.001293 TGATATCACAGCCTCATCCGC 59.999 52.381 0.00 0.00 0.00 5.54
3039 4922 2.956913 CTGATATCACAGCCTCATCCG 58.043 52.381 0.00 0.00 0.00 4.18
3048 4931 2.910205 CAGCCGGCTGATATCACAG 58.090 57.895 46.72 20.27 46.30 3.66
3057 4940 0.176680 ACATTCTAGTCAGCCGGCTG 59.823 55.000 44.24 44.24 44.86 4.85
3058 4941 0.905357 AACATTCTAGTCAGCCGGCT 59.095 50.000 27.08 27.08 0.00 5.52
3059 4942 1.739067 AAACATTCTAGTCAGCCGGC 58.261 50.000 21.89 21.89 0.00 6.13
3060 4943 2.678336 GGAAAACATTCTAGTCAGCCGG 59.322 50.000 0.00 0.00 0.00 6.13
3061 4944 2.678336 GGGAAAACATTCTAGTCAGCCG 59.322 50.000 0.00 0.00 0.00 5.52
3062 4945 3.017442 GGGGAAAACATTCTAGTCAGCC 58.983 50.000 0.00 0.00 0.00 4.85
3063 4946 3.686016 TGGGGAAAACATTCTAGTCAGC 58.314 45.455 0.00 0.00 0.00 4.26
3064 4947 6.648879 TTTTGGGGAAAACATTCTAGTCAG 57.351 37.500 0.00 0.00 0.00 3.51
3095 4978 8.335532 TGGTTATATTTGAGTTCCTGAAACAG 57.664 34.615 0.00 0.00 40.56 3.16
3096 4979 7.094377 GCTGGTTATATTTGAGTTCCTGAAACA 60.094 37.037 0.00 0.00 40.56 2.83
3097 4980 7.094377 TGCTGGTTATATTTGAGTTCCTGAAAC 60.094 37.037 0.00 0.00 38.21 2.78
3098 4981 6.945435 TGCTGGTTATATTTGAGTTCCTGAAA 59.055 34.615 0.00 0.00 0.00 2.69
3099 4982 6.480763 TGCTGGTTATATTTGAGTTCCTGAA 58.519 36.000 0.00 0.00 0.00 3.02
3100 4983 6.061022 TGCTGGTTATATTTGAGTTCCTGA 57.939 37.500 0.00 0.00 0.00 3.86
3101 4984 6.757897 TTGCTGGTTATATTTGAGTTCCTG 57.242 37.500 0.00 0.00 0.00 3.86
3102 4985 7.201732 CGAATTGCTGGTTATATTTGAGTTCCT 60.202 37.037 0.00 0.00 0.00 3.36
3103 4986 6.912591 CGAATTGCTGGTTATATTTGAGTTCC 59.087 38.462 0.00 0.00 0.00 3.62
3104 4987 7.472543 ACGAATTGCTGGTTATATTTGAGTTC 58.527 34.615 0.00 0.00 0.00 3.01
3105 4988 7.391148 ACGAATTGCTGGTTATATTTGAGTT 57.609 32.000 0.00 0.00 0.00 3.01
3106 4989 6.038271 GGACGAATTGCTGGTTATATTTGAGT 59.962 38.462 0.00 0.00 0.00 3.41
3107 4990 6.430451 GGACGAATTGCTGGTTATATTTGAG 58.570 40.000 0.00 0.00 0.00 3.02
3108 4991 5.007234 CGGACGAATTGCTGGTTATATTTGA 59.993 40.000 0.00 0.00 0.00 2.69
3109 4992 5.204833 CGGACGAATTGCTGGTTATATTTG 58.795 41.667 0.00 0.00 0.00 2.32
3110 4993 4.274950 CCGGACGAATTGCTGGTTATATTT 59.725 41.667 0.00 0.00 0.00 1.40
3111 4994 3.813166 CCGGACGAATTGCTGGTTATATT 59.187 43.478 0.00 0.00 0.00 1.28
3112 4995 3.399330 CCGGACGAATTGCTGGTTATAT 58.601 45.455 0.00 0.00 0.00 0.86
3113 4996 2.828877 CCGGACGAATTGCTGGTTATA 58.171 47.619 0.00 0.00 0.00 0.98
3114 4997 1.663695 CCGGACGAATTGCTGGTTAT 58.336 50.000 0.00 0.00 0.00 1.89
3115 4998 1.022451 GCCGGACGAATTGCTGGTTA 61.022 55.000 5.05 0.00 32.98 2.85
3116 4999 2.332654 GCCGGACGAATTGCTGGTT 61.333 57.895 5.05 0.00 32.98 3.67
3117 5000 2.746277 GCCGGACGAATTGCTGGT 60.746 61.111 5.05 0.00 32.98 4.00
3118 5001 2.587322 TAGGCCGGACGAATTGCTGG 62.587 60.000 5.05 0.00 0.00 4.85
3119 5002 1.153449 TAGGCCGGACGAATTGCTG 60.153 57.895 5.05 0.00 0.00 4.41
3120 5003 1.153429 GTAGGCCGGACGAATTGCT 60.153 57.895 5.05 0.00 0.00 3.91
3121 5004 1.022451 TTGTAGGCCGGACGAATTGC 61.022 55.000 5.05 0.00 0.00 3.56
3122 5005 1.444836 TTTGTAGGCCGGACGAATTG 58.555 50.000 5.05 0.00 0.00 2.32
3123 5006 2.285977 GATTTGTAGGCCGGACGAATT 58.714 47.619 20.98 9.96 32.17 2.17
3124 5007 1.208535 TGATTTGTAGGCCGGACGAAT 59.791 47.619 20.44 20.44 34.27 3.34
3125 5008 0.609151 TGATTTGTAGGCCGGACGAA 59.391 50.000 5.05 13.95 0.00 3.85
3126 5009 0.174845 CTGATTTGTAGGCCGGACGA 59.825 55.000 5.05 0.00 0.00 4.20
3127 5010 0.174845 TCTGATTTGTAGGCCGGACG 59.825 55.000 5.05 0.00 0.00 4.79
3128 5011 1.653151 GTCTGATTTGTAGGCCGGAC 58.347 55.000 5.05 0.00 0.00 4.79
3129 5012 0.539986 GGTCTGATTTGTAGGCCGGA 59.460 55.000 5.05 0.00 29.01 5.14
3130 5013 0.251916 TGGTCTGATTTGTAGGCCGG 59.748 55.000 0.00 0.00 42.90 6.13
3131 5014 1.369625 GTGGTCTGATTTGTAGGCCG 58.630 55.000 0.00 0.00 42.90 6.13
3132 5015 1.338769 ACGTGGTCTGATTTGTAGGCC 60.339 52.381 0.00 0.00 40.37 5.19
3133 5016 2.094762 ACGTGGTCTGATTTGTAGGC 57.905 50.000 0.00 0.00 0.00 3.93
3134 5017 4.570772 CCATAACGTGGTCTGATTTGTAGG 59.429 45.833 0.00 0.00 43.44 3.18
3135 5018 5.718649 CCATAACGTGGTCTGATTTGTAG 57.281 43.478 0.00 0.00 43.44 2.74
3148 5031 0.745128 TTTAGGCCGGCCATAACGTG 60.745 55.000 45.13 0.00 38.92 4.49
3149 5032 0.745486 GTTTAGGCCGGCCATAACGT 60.745 55.000 45.13 27.13 38.92 3.99
3150 5033 1.768112 CGTTTAGGCCGGCCATAACG 61.768 60.000 43.21 43.21 43.23 3.18
3151 5034 0.745486 ACGTTTAGGCCGGCCATAAC 60.745 55.000 45.13 39.12 38.92 1.89
3152 5035 0.462403 GACGTTTAGGCCGGCCATAA 60.462 55.000 45.13 33.38 38.92 1.90
3153 5036 1.144496 GACGTTTAGGCCGGCCATA 59.856 57.895 45.13 30.18 38.92 2.74
3154 5037 2.124860 GACGTTTAGGCCGGCCAT 60.125 61.111 45.13 31.25 38.92 4.40
3161 5044 2.090524 CACCGACGGACGTTTAGGC 61.091 63.158 23.38 0.00 40.78 3.93
3162 5045 2.090524 GCACCGACGGACGTTTAGG 61.091 63.158 23.38 6.16 40.78 2.69
3163 5046 1.080974 AGCACCGACGGACGTTTAG 60.081 57.895 23.38 2.21 40.78 1.85
3164 5047 1.372004 CAGCACCGACGGACGTTTA 60.372 57.895 23.38 0.00 40.78 2.01
3165 5048 2.660552 CAGCACCGACGGACGTTT 60.661 61.111 23.38 0.00 40.78 3.60
3166 5049 4.657824 CCAGCACCGACGGACGTT 62.658 66.667 23.38 6.23 40.78 3.99
3171 5054 4.814294 GTAGGCCAGCACCGACGG 62.814 72.222 13.61 13.61 33.69 4.79
3173 5056 4.814294 CCGTAGGCCAGCACCGAC 62.814 72.222 5.01 0.00 46.14 4.79
3191 5074 5.008331 AGATTCTATATGCAAGCCATGTGG 58.992 41.667 0.00 0.00 35.34 4.17
3192 5075 5.472478 ACAGATTCTATATGCAAGCCATGTG 59.528 40.000 0.00 0.00 35.34 3.21
3193 5076 5.628130 ACAGATTCTATATGCAAGCCATGT 58.372 37.500 0.00 0.00 35.34 3.21
3194 5077 7.677454 TTACAGATTCTATATGCAAGCCATG 57.323 36.000 0.00 0.00 35.34 3.66


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

AutoCloner maintained by Alex Coulton.