Multiple sequence alignment - TraesCS4D01G187800

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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 TraesCS4D01G187800 chr4D 100.000 6432 0 0 1 6432 326978873 326972442 0.000000e+00 11878.0
1 TraesCS4D01G187800 chr4D 83.469 490 50 19 5690 6160 454441018 454440541 1.660000e-115 427.0
2 TraesCS4D01G187800 chr4D 85.758 330 41 5 2391 2717 326976387 326976061 1.720000e-90 344.0
3 TraesCS4D01G187800 chr4D 85.671 328 45 2 2487 2813 326976483 326976157 1.720000e-90 344.0
4 TraesCS4D01G187800 chr4D 82.353 136 22 2 2391 2525 326976195 326976061 4.070000e-22 117.0
5 TraesCS4D01G187800 chr4D 82.353 136 22 2 2679 2813 326976483 326976349 4.070000e-22 117.0
6 TraesCS4D01G187800 chr4D 97.368 38 1 0 2392 2429 326976098 326976061 1.500000e-06 65.8
7 TraesCS4D01G187800 chr4D 97.368 38 1 0 2776 2813 326976482 326976445 1.500000e-06 65.8
8 TraesCS4D01G187800 chr4A 93.832 5188 165 40 542 5629 144359850 144364982 0.000000e+00 7664.0
9 TraesCS4D01G187800 chr4A 91.003 289 13 9 1 287 144358996 144359273 1.690000e-100 377.0
10 TraesCS4D01G187800 chr4A 87.576 330 35 5 2391 2717 144361805 144362131 1.690000e-100 377.0
11 TraesCS4D01G187800 chr4A 87.195 328 40 2 2487 2813 144361709 144362035 7.880000e-99 372.0
12 TraesCS4D01G187800 chr4A 95.050 101 5 0 444 544 144359476 144359576 6.670000e-35 159.0
13 TraesCS4D01G187800 chr4A 83.824 136 20 2 2391 2525 144361997 144362131 1.880000e-25 128.0
14 TraesCS4D01G187800 chr4A 80.606 165 30 2 2650 2813 144361680 144361843 6.770000e-25 126.0
15 TraesCS4D01G187800 chr4A 90.123 81 3 3 275 350 144359296 144359376 4.100000e-17 100.0
16 TraesCS4D01G187800 chr4B 92.990 5307 191 56 446 5635 406462307 406457065 0.000000e+00 7572.0
17 TraesCS4D01G187800 chr4B 96.396 333 7 3 1 332 406462803 406462475 1.580000e-150 544.0
18 TraesCS4D01G187800 chr4B 86.667 330 38 5 2391 2717 406460244 406459918 1.700000e-95 361.0
19 TraesCS4D01G187800 chr4B 84.756 328 42 4 2487 2813 406460334 406460014 8.040000e-84 322.0
20 TraesCS4D01G187800 chr4B 83.824 136 20 2 2391 2525 406460052 406459918 1.880000e-25 128.0
21 TraesCS4D01G187800 chr4B 94.030 67 4 0 321 387 406462372 406462306 1.140000e-17 102.0
22 TraesCS4D01G187800 chr4B 97.368 38 1 0 2776 2813 406460333 406460296 1.500000e-06 65.8
23 TraesCS4D01G187800 chr6D 86.396 713 72 14 5656 6357 448627569 448626871 0.000000e+00 756.0
24 TraesCS4D01G187800 chr2A 85.912 724 68 17 5656 6357 753100073 753100784 0.000000e+00 741.0
25 TraesCS4D01G187800 chr2A 87.879 198 16 4 1 195 582966629 582966437 6.490000e-55 226.0
26 TraesCS4D01G187800 chr5B 82.739 701 87 23 5656 6337 221276782 221276097 1.540000e-165 593.0
27 TraesCS4D01G187800 chr5B 89.286 196 15 4 1 195 700921714 700921524 2.320000e-59 241.0
28 TraesCS4D01G187800 chr2B 81.206 713 86 22 5656 6357 796029227 796029902 1.230000e-146 531.0
29 TraesCS4D01G187800 chr2B 83.713 307 35 8 5656 5958 184925859 184926154 6.350000e-70 276.0
30 TraesCS4D01G187800 chr1B 81.937 382 54 10 5980 6357 614945971 614945601 6.260000e-80 309.0
31 TraesCS4D01G187800 chr1B 83.083 266 36 8 6027 6286 671187859 671188121 3.880000e-57 233.0
32 TraesCS4D01G187800 chr7D 84.122 296 35 8 5999 6286 382280152 382280443 6.350000e-70 276.0
33 TraesCS4D01G187800 chr2D 84.231 260 33 7 6033 6286 628999564 628999307 4.980000e-61 246.0
34 TraesCS4D01G187800 chr2D 83.142 261 34 9 6033 6286 641538656 641538913 5.020000e-56 230.0
35 TraesCS4D01G187800 chr5D 81.973 294 42 9 6001 6285 459571265 459571556 8.330000e-59 239.0


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 TraesCS4D01G187800 chr4D 326972442 326978873 6431 True 1847.371429 11878 90.124429 1 6432 7 chr4D.!!$R2 6431
1 TraesCS4D01G187800 chr4A 144358996 144364982 5986 False 1162.875000 7664 88.651125 1 5629 8 chr4A.!!$F1 5628
2 TraesCS4D01G187800 chr4B 406457065 406462803 5738 True 1299.257143 7572 90.861571 1 5635 7 chr4B.!!$R1 5634
3 TraesCS4D01G187800 chr6D 448626871 448627569 698 True 756.000000 756 86.396000 5656 6357 1 chr6D.!!$R1 701
4 TraesCS4D01G187800 chr2A 753100073 753100784 711 False 741.000000 741 85.912000 5656 6357 1 chr2A.!!$F1 701
5 TraesCS4D01G187800 chr5B 221276097 221276782 685 True 593.000000 593 82.739000 5656 6337 1 chr5B.!!$R1 681
6 TraesCS4D01G187800 chr2B 796029227 796029902 675 False 531.000000 531 81.206000 5656 6357 1 chr2B.!!$F2 701

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
78 79 0.179134 GACAGCAGCACGGTAGGTAG 60.179 60.000 0.0 0.0 0.00 3.18 F
1125 1629 0.177604 CAGCGAGCCTCTCCAATTCT 59.822 55.000 0.0 0.0 0.00 2.40 F
1313 1833 0.394488 TGGTTTTGGCGGTGTCTCAA 60.394 50.000 0.0 0.0 0.00 3.02 F
2183 2727 0.608130 TCGTGGAGGATGAACTGGTG 59.392 55.000 0.0 0.0 0.00 4.17 F
2870 3414 2.042831 GCCCATGCTGTCTGTGTCC 61.043 63.158 0.0 0.0 33.53 4.02 F
3271 3816 2.297033 GGGTGAGCAATTCAACACATGT 59.703 45.455 0.0 0.0 45.78 3.21 F
4266 4848 2.664402 AGCACATTTGGAAGGTCACT 57.336 45.000 0.0 0.0 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1673 2193 0.315706 CCGAGTAATCGTCGTCGTCC 60.316 60.000 12.03 0.0 35.59 4.79 R
3053 3597 0.243907 ATGGACACCTTGACTCGACG 59.756 55.000 0.00 0.0 0.00 5.12 R
3278 3823 4.093998 ACGCAGAATGACAATGAAGATGTC 59.906 41.667 0.00 0.0 45.82 3.06 R
3823 4368 4.897509 AAAGTACAGTACCCCCTACAAC 57.102 45.455 7.13 0.0 0.00 3.32 R
4648 5230 1.154205 GCTGGTCCCGAATGTCATCG 61.154 60.000 0.00 0.0 42.37 3.84 R
5034 5645 0.739462 TGGTAAGAAGCGCATGTCCG 60.739 55.000 11.47 0.0 0.00 4.79 R
6165 6839 0.817654 GTGGTAGCAGATTTTGGGGC 59.182 55.000 0.00 0.0 0.00 5.80 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
68 69 5.641783 TTGCTTATATTTTGACAGCAGCA 57.358 34.783 0.00 0.00 41.38 4.41
78 79 0.179134 GACAGCAGCACGGTAGGTAG 60.179 60.000 0.00 0.00 0.00 3.18
80 81 0.747255 CAGCAGCACGGTAGGTAGAT 59.253 55.000 0.00 0.00 0.00 1.98
81 82 1.137086 CAGCAGCACGGTAGGTAGATT 59.863 52.381 0.00 0.00 0.00 2.40
82 83 1.137086 AGCAGCACGGTAGGTAGATTG 59.863 52.381 0.00 0.00 0.00 2.67
83 84 1.134788 GCAGCACGGTAGGTAGATTGT 60.135 52.381 0.00 0.00 0.00 2.71
353 505 5.122396 GTCCAGTAGACCTTGCAGTTATTTG 59.878 44.000 0.00 0.00 39.84 2.32
387 539 4.292186 TGTAAGAGCAAGAGCCAGAATT 57.708 40.909 0.00 0.00 43.56 2.17
388 540 4.005650 TGTAAGAGCAAGAGCCAGAATTG 58.994 43.478 0.00 0.00 43.56 2.32
389 541 2.875094 AGAGCAAGAGCCAGAATTGT 57.125 45.000 0.00 0.00 43.56 2.71
390 542 3.151912 AGAGCAAGAGCCAGAATTGTT 57.848 42.857 0.00 0.00 43.56 2.83
391 543 4.292186 AGAGCAAGAGCCAGAATTGTTA 57.708 40.909 0.00 0.00 43.56 2.41
392 544 4.006319 AGAGCAAGAGCCAGAATTGTTAC 58.994 43.478 0.00 0.00 43.56 2.50
393 545 3.084786 AGCAAGAGCCAGAATTGTTACC 58.915 45.455 0.00 0.00 43.56 2.85
394 546 2.819608 GCAAGAGCCAGAATTGTTACCA 59.180 45.455 0.00 0.00 33.58 3.25
396 548 4.074970 CAAGAGCCAGAATTGTTACCACT 58.925 43.478 0.00 0.00 0.00 4.00
397 549 5.245531 CAAGAGCCAGAATTGTTACCACTA 58.754 41.667 0.00 0.00 0.00 2.74
398 550 5.091261 AGAGCCAGAATTGTTACCACTAG 57.909 43.478 0.00 0.00 0.00 2.57
399 551 4.532521 AGAGCCAGAATTGTTACCACTAGT 59.467 41.667 0.00 0.00 0.00 2.57
400 552 5.720041 AGAGCCAGAATTGTTACCACTAGTA 59.280 40.000 0.00 0.00 0.00 1.82
401 553 6.212791 AGAGCCAGAATTGTTACCACTAGTAA 59.787 38.462 0.00 0.00 38.65 2.24
402 554 6.775708 AGCCAGAATTGTTACCACTAGTAAA 58.224 36.000 0.00 0.00 42.56 2.01
403 555 7.228590 AGCCAGAATTGTTACCACTAGTAAAA 58.771 34.615 0.00 0.00 42.56 1.52
404 556 7.722285 AGCCAGAATTGTTACCACTAGTAAAAA 59.278 33.333 0.00 0.00 42.56 1.94
424 576 4.756084 AAAATCCGTCTCTGAAGCAAAG 57.244 40.909 0.00 0.00 0.00 2.77
427 579 1.964223 TCCGTCTCTGAAGCAAAGAGT 59.036 47.619 9.36 0.00 41.64 3.24
428 580 2.064762 CCGTCTCTGAAGCAAAGAGTG 58.935 52.381 9.36 4.99 41.64 3.51
442 594 5.227238 CAAAGAGTGCTGCCTAAACTATG 57.773 43.478 0.00 0.00 0.00 2.23
445 604 2.170607 GAGTGCTGCCTAAACTATGGGA 59.829 50.000 0.00 0.00 0.00 4.37
498 657 3.386078 TCTGGTTGCATCAGAGAGTATCC 59.614 47.826 14.03 0.00 36.46 2.59
589 1033 1.448540 CAGGCCACCACGAGATGAC 60.449 63.158 5.01 0.00 0.00 3.06
665 1115 4.760047 GACACGTCAGGCGCCCAT 62.760 66.667 26.15 1.18 46.11 4.00
720 1170 1.933853 GCTGCCTGATACGAACGAAAT 59.066 47.619 0.14 0.00 0.00 2.17
801 1251 1.745115 ATGTGAACGGCCACGATGG 60.745 57.895 2.24 0.00 44.60 3.51
852 1302 1.006922 GCAAAAGCAGCACACTCCC 60.007 57.895 0.00 0.00 0.00 4.30
893 1349 0.814410 CCACTAGCGAGGAGTAGCGA 60.814 60.000 0.00 0.00 38.61 4.93
894 1350 0.584396 CACTAGCGAGGAGTAGCGAG 59.416 60.000 0.00 0.00 40.97 5.03
895 1351 1.161563 ACTAGCGAGGAGTAGCGAGC 61.162 60.000 0.00 0.00 39.23 5.03
896 1352 1.153229 TAGCGAGGAGTAGCGAGCA 60.153 57.895 0.00 0.00 38.61 4.26
897 1353 1.160946 TAGCGAGGAGTAGCGAGCAG 61.161 60.000 0.00 0.00 38.61 4.24
1016 1508 0.460284 CCTGTACGCGATGCTTCCTT 60.460 55.000 15.93 0.00 0.00 3.36
1018 1510 0.459585 TGTACGCGATGCTTCCTTCC 60.460 55.000 15.93 0.00 0.00 3.46
1078 1570 1.076995 CCCCCTTCCATTCCCGTTC 60.077 63.158 0.00 0.00 0.00 3.95
1125 1629 0.177604 CAGCGAGCCTCTCCAATTCT 59.822 55.000 0.00 0.00 0.00 2.40
1166 1670 4.206375 TGACCCGGTCGTATTTATACAGA 58.794 43.478 13.02 0.00 34.95 3.41
1169 1673 3.571401 CCCGGTCGTATTTATACAGACCT 59.429 47.826 24.46 0.00 44.80 3.85
1170 1674 4.038402 CCCGGTCGTATTTATACAGACCTT 59.962 45.833 24.46 0.00 44.80 3.50
1213 1717 8.575589 CAAAATATTATCCACAAATCCATCCGA 58.424 33.333 0.00 0.00 0.00 4.55
1254 1774 1.610673 ACTGCTCTCCCGTGGTGAT 60.611 57.895 0.00 0.00 0.00 3.06
1266 1786 1.079405 TGGTGATTTCCGGTCTCGC 60.079 57.895 0.00 3.50 34.56 5.03
1300 1820 3.601685 CGGCGGGTGCTTGGTTTT 61.602 61.111 0.00 0.00 42.25 2.43
1313 1833 0.394488 TGGTTTTGGCGGTGTCTCAA 60.394 50.000 0.00 0.00 0.00 3.02
1344 1864 1.218230 GCGATCTGGTCCTGATTCGC 61.218 60.000 24.83 24.83 34.55 4.70
1430 1950 4.790962 CTCGAGGGGGACGACGGA 62.791 72.222 3.91 0.00 35.88 4.69
1431 1951 4.790962 TCGAGGGGGACGACGGAG 62.791 72.222 0.00 0.00 34.85 4.63
1432 1952 4.790962 CGAGGGGGACGACGGAGA 62.791 72.222 0.00 0.00 0.00 3.71
1433 1953 3.139469 GAGGGGGACGACGGAGAC 61.139 72.222 0.00 0.00 0.00 3.36
1469 1989 2.649742 ATGTCTTGGAGGAGGAGGAA 57.350 50.000 0.00 0.00 0.00 3.36
1481 2001 2.359781 GGAGGAGGAAGATGAGGAGGAA 60.360 54.545 0.00 0.00 0.00 3.36
1482 2002 3.379452 GAGGAGGAAGATGAGGAGGAAA 58.621 50.000 0.00 0.00 0.00 3.13
1673 2193 2.658593 CGCCGGCGAAGGTATGAG 60.659 66.667 44.86 10.04 42.83 2.90
1705 2225 1.572689 TACTCGGAGGAGCTGGAGGT 61.573 60.000 10.23 0.00 44.48 3.85
1712 2232 0.980231 AGGAGCTGGAGGTGGATGAC 60.980 60.000 0.00 0.00 0.00 3.06
1724 2253 2.271800 GTGGATGACGAGATTGGTGAC 58.728 52.381 0.00 0.00 0.00 3.67
1725 2254 2.093973 GTGGATGACGAGATTGGTGACT 60.094 50.000 0.00 0.00 0.00 3.41
1726 2255 3.130516 GTGGATGACGAGATTGGTGACTA 59.869 47.826 0.00 0.00 0.00 2.59
1727 2256 3.130516 TGGATGACGAGATTGGTGACTAC 59.869 47.826 0.00 0.00 0.00 2.73
1757 2286 2.046864 CGACGAGGAAGAGGAGCCA 61.047 63.158 0.00 0.00 0.00 4.75
1761 2290 1.813192 GAGGAAGAGGAGCCACGAG 59.187 63.158 0.00 0.00 0.00 4.18
1967 2496 1.166129 TTGAGGACGACGAAGAGGAG 58.834 55.000 0.00 0.00 0.00 3.69
2085 2629 3.816994 AGTAAGGTTTCAAAGCGGAAGT 58.183 40.909 0.00 0.00 0.00 3.01
2141 2685 2.796383 GCGTTCTGTCATCGAGCACTAT 60.796 50.000 0.00 0.00 0.00 2.12
2183 2727 0.608130 TCGTGGAGGATGAACTGGTG 59.392 55.000 0.00 0.00 0.00 4.17
2198 2742 3.732212 ACTGGTGAAGGTAAACCGTAAC 58.268 45.455 0.00 0.00 42.08 2.50
2318 2862 4.821805 TCAGAGTTTGAGTTTGGAACATCC 59.178 41.667 0.00 0.00 39.30 3.51
2324 2868 4.286297 TGAGTTTGGAACATCCGAAGAT 57.714 40.909 0.00 0.00 40.46 2.40
2441 2985 3.809832 CGGATAAGGAATTGAGCGATGTT 59.190 43.478 0.00 0.00 0.00 2.71
2518 3062 2.988010 TCTGAATTCCATGTCTCGGG 57.012 50.000 2.27 0.00 0.00 5.14
2555 3099 6.390721 CGATGTCAGAGAAGAAGAGGTTAAA 58.609 40.000 0.00 0.00 0.00 1.52
2684 3228 3.332919 GACATGTGTCTTGCAGTCATCT 58.667 45.455 1.15 0.00 41.65 2.90
2690 3234 3.431572 GTGTCTTGCAGTCATCTTCAGAC 59.568 47.826 3.06 3.06 36.26 3.51
2766 3310 4.090090 CAGGAGGAAGAAGAGGTTACTCA 58.910 47.826 0.00 0.00 46.44 3.41
2870 3414 2.042831 GCCCATGCTGTCTGTGTCC 61.043 63.158 0.00 0.00 33.53 4.02
3053 3597 2.939103 GTGCATCATGGAGTGGTCTAAC 59.061 50.000 0.00 0.00 0.00 2.34
3200 3744 7.268586 AGTCTCCTTGCTGTAGTTGTTATATG 58.731 38.462 0.00 0.00 0.00 1.78
3271 3816 2.297033 GGGTGAGCAATTCAACACATGT 59.703 45.455 0.00 0.00 45.78 3.21
3278 3823 5.531634 AGCAATTCAACACATGTTTGGTAG 58.468 37.500 15.89 0.23 35.83 3.18
3833 4378 3.578282 AGCTCAAATTTTGTTGTAGGGGG 59.422 43.478 8.89 0.00 0.00 5.40
4266 4848 2.664402 AGCACATTTGGAAGGTCACT 57.336 45.000 0.00 0.00 0.00 3.41
4311 4893 7.154656 ACTTTTCAAGGGTTTGATCTAAATGC 58.845 34.615 0.00 0.00 42.60 3.56
4419 5001 4.037565 TGCAACTCTTTCTAGAAGACGTGA 59.962 41.667 5.12 0.72 0.00 4.35
4428 5010 2.768253 AGAAGACGTGAATGGATGCA 57.232 45.000 0.00 0.00 0.00 3.96
4452 5034 6.094603 CACATTTTGCTAGATAGACAAAGGCT 59.905 38.462 0.00 0.00 33.90 4.58
4453 5035 6.317391 ACATTTTGCTAGATAGACAAAGGCTC 59.683 38.462 0.00 0.00 33.90 4.70
4454 5036 3.717400 TGCTAGATAGACAAAGGCTCG 57.283 47.619 0.00 0.00 0.00 5.03
4548 5130 2.746362 GGAACTTCTGTGCTTCATCAGG 59.254 50.000 0.00 0.00 33.13 3.86
4575 5157 4.595762 ACTCTTTGCAGCACAATGATTT 57.404 36.364 0.00 0.00 40.50 2.17
4648 5230 4.346129 CAAACAGTTCACAAACTCTGCTC 58.654 43.478 0.00 0.00 43.99 4.26
4768 5350 4.039703 CAGAAAGTGTCAACAGCAATGTG 58.960 43.478 0.00 0.00 0.00 3.21
4906 5517 7.384524 TCTCCTGAATGAATGAATACTCCAT 57.615 36.000 0.00 0.00 0.00 3.41
5034 5645 3.728076 TGGATCGACCATAAGTAGCAC 57.272 47.619 3.02 0.00 44.64 4.40
5068 5679 7.280205 CGCTTCTTACCACACTTTAATATCCTT 59.720 37.037 0.00 0.00 0.00 3.36
5120 5731 4.920340 GCACCGAGTATCTCACTGAATATG 59.080 45.833 0.00 0.00 37.72 1.78
5151 5762 3.273434 TGTGCTTCAACTCATCCTATGC 58.727 45.455 0.00 0.00 0.00 3.14
5173 5784 4.981674 GCGGTCAATGACAGAAAAATGAAA 59.018 37.500 17.27 0.00 33.68 2.69
5252 5864 5.586243 CCATTCATTCAGTCCTAAACACGAT 59.414 40.000 0.00 0.00 0.00 3.73
5369 5981 5.526479 AGTTCCATCTGATGATCATTCAACG 59.474 40.000 18.92 0.00 34.96 4.10
5541 6160 3.962530 ATGGGGAGGGGAGGCGAAA 62.963 63.158 0.00 0.00 0.00 3.46
5591 6228 0.894184 AGAGTTTGTCCGCCGAGAGA 60.894 55.000 0.00 0.00 0.00 3.10
5604 6241 2.937433 GCCGAGAGAAAAGGGGAGAAAG 60.937 54.545 0.00 0.00 0.00 2.62
5653 6290 5.652994 TTTTAGGGAAATGTTTGGGATCG 57.347 39.130 0.00 0.00 0.00 3.69
5654 6291 2.143876 AGGGAAATGTTTGGGATCGG 57.856 50.000 0.00 0.00 0.00 4.18
5655 6292 1.357761 AGGGAAATGTTTGGGATCGGT 59.642 47.619 0.00 0.00 0.00 4.69
5656 6293 1.476488 GGGAAATGTTTGGGATCGGTG 59.524 52.381 0.00 0.00 0.00 4.94
5657 6294 1.476488 GGAAATGTTTGGGATCGGTGG 59.524 52.381 0.00 0.00 0.00 4.61
5658 6295 1.476488 GAAATGTTTGGGATCGGTGGG 59.524 52.381 0.00 0.00 0.00 4.61
5659 6296 0.970427 AATGTTTGGGATCGGTGGGC 60.970 55.000 0.00 0.00 0.00 5.36
5660 6297 2.754254 GTTTGGGATCGGTGGGCC 60.754 66.667 0.00 0.00 0.00 5.80
5693 6330 0.741574 ACGTGTCCGCTGTGTTTTCA 60.742 50.000 0.00 0.00 37.70 2.69
5697 6334 3.042887 GTGTCCGCTGTGTTTTCATTTC 58.957 45.455 0.00 0.00 0.00 2.17
5699 6336 1.265635 TCCGCTGTGTTTTCATTTCCG 59.734 47.619 0.00 0.00 0.00 4.30
5769 6407 6.040616 TCTCGTCCACTACTTTTCTTTCTTCT 59.959 38.462 0.00 0.00 0.00 2.85
5789 6428 4.318332 TCTAGCGCAATCCTTATCCATTG 58.682 43.478 11.47 0.00 33.77 2.82
5834 6489 4.980805 TGAGCACCGCACCGTTCC 62.981 66.667 0.00 0.00 0.00 3.62
6091 6764 3.040206 GCTCTGCTCTCCATGGCCA 62.040 63.158 8.56 8.56 0.00 5.36
6097 6770 3.410628 TCTCCATGGCCACCGCAT 61.411 61.111 8.16 0.00 36.38 4.73
6124 6798 7.114670 CACGATTTTGCTACAATCATGTTTTGA 59.885 33.333 15.03 0.00 41.05 2.69
6165 6839 2.428890 TGTTTTTGCTACAACCCACCTG 59.571 45.455 0.00 0.00 0.00 4.00
6166 6840 1.036707 TTTTGCTACAACCCACCTGC 58.963 50.000 0.00 0.00 0.00 4.85
6204 6878 3.030291 ACTGTGATTTTTGCTGGAACCA 58.970 40.909 0.00 0.00 0.00 3.67
6205 6879 3.181476 ACTGTGATTTTTGCTGGAACCAC 60.181 43.478 0.00 0.00 0.00 4.16
6224 6898 3.306919 CCACCAAGCCATTTTGCTACAAT 60.307 43.478 0.00 0.00 41.80 2.71
6299 6978 1.444383 GACATGTGAGCTCGCGACA 60.444 57.895 21.66 14.64 0.00 4.35
6337 7019 2.034053 GGACATCGTTTTTGCTGGAACA 59.966 45.455 0.00 0.00 0.00 3.18
6340 7022 4.692228 ACATCGTTTTTGCTGGAACAATT 58.308 34.783 0.00 0.00 38.70 2.32
6357 7039 5.425196 ACAATTAGGCATTTTTGCTGGAT 57.575 34.783 0.00 0.00 34.73 3.41
6358 7040 5.422145 ACAATTAGGCATTTTTGCTGGATC 58.578 37.500 0.00 0.00 34.73 3.36
6359 7041 3.781079 TTAGGCATTTTTGCTGGATCG 57.219 42.857 0.00 0.00 34.73 3.69
6360 7042 0.819582 AGGCATTTTTGCTGGATCGG 59.180 50.000 0.00 0.00 34.73 4.18
6361 7043 0.807275 GGCATTTTTGCTGGATCGGC 60.807 55.000 2.84 2.84 36.10 5.54
6362 7044 0.108709 GCATTTTTGCTGGATCGGCA 60.109 50.000 7.72 7.72 44.61 5.69
6367 7049 4.032452 TGCTGGATCGGCAAGCCA 62.032 61.111 12.19 0.00 43.23 4.75
6368 7050 2.517875 GCTGGATCGGCAAGCCAT 60.518 61.111 12.19 3.94 44.08 4.40
6369 7051 2.123428 GCTGGATCGGCAAGCCATT 61.123 57.895 12.19 0.00 44.08 3.16
6370 7052 1.669999 GCTGGATCGGCAAGCCATTT 61.670 55.000 12.19 0.00 44.08 2.32
6371 7053 0.819582 CTGGATCGGCAAGCCATTTT 59.180 50.000 12.19 0.00 44.08 1.82
6372 7054 1.205417 CTGGATCGGCAAGCCATTTTT 59.795 47.619 12.19 0.00 44.08 1.94
6411 7093 6.076981 CAGTTTTTGCTTCAACCAGTATCT 57.923 37.500 0.00 0.00 0.00 1.98
6412 7094 6.507023 CAGTTTTTGCTTCAACCAGTATCTT 58.493 36.000 0.00 0.00 0.00 2.40
6413 7095 6.980397 CAGTTTTTGCTTCAACCAGTATCTTT 59.020 34.615 0.00 0.00 0.00 2.52
6414 7096 7.492344 CAGTTTTTGCTTCAACCAGTATCTTTT 59.508 33.333 0.00 0.00 0.00 2.27
6415 7097 8.040727 AGTTTTTGCTTCAACCAGTATCTTTTT 58.959 29.630 0.00 0.00 0.00 1.94
6431 7113 3.205815 TTTTTGCTGGAGCCTGTGT 57.794 47.368 0.00 0.00 41.18 3.72
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
66 67 1.479323 TCCACAATCTACCTACCGTGC 59.521 52.381 0.00 0.00 0.00 5.34
68 69 3.377253 TCTCCACAATCTACCTACCGT 57.623 47.619 0.00 0.00 0.00 4.83
78 79 6.935208 AGGTAGTAAACTGTTTCTCCACAATC 59.065 38.462 9.38 0.00 0.00 2.67
80 81 6.099269 AGAGGTAGTAAACTGTTTCTCCACAA 59.901 38.462 9.38 0.00 0.00 3.33
81 82 5.601313 AGAGGTAGTAAACTGTTTCTCCACA 59.399 40.000 9.38 0.00 0.00 4.17
82 83 6.099159 AGAGGTAGTAAACTGTTTCTCCAC 57.901 41.667 9.38 2.50 0.00 4.02
83 84 5.048224 CGAGAGGTAGTAAACTGTTTCTCCA 60.048 44.000 9.38 0.00 0.00 3.86
308 345 6.719370 TGGACAGGAAAGCAGTAATGTTTTAT 59.281 34.615 4.96 0.00 0.00 1.40
309 346 6.065374 TGGACAGGAAAGCAGTAATGTTTTA 58.935 36.000 4.96 0.00 0.00 1.52
312 349 4.074970 CTGGACAGGAAAGCAGTAATGTT 58.925 43.478 0.00 0.00 0.00 2.71
314 351 3.679389 ACTGGACAGGAAAGCAGTAATG 58.321 45.455 4.14 0.00 0.00 1.90
315 352 4.777896 TCTACTGGACAGGAAAGCAGTAAT 59.222 41.667 4.14 0.00 0.00 1.89
353 505 7.773149 TCTTGCTCTTACATCTACTAACTTCC 58.227 38.462 0.00 0.00 0.00 3.46
402 554 4.821805 TCTTTGCTTCAGAGACGGATTTTT 59.178 37.500 0.00 0.00 0.00 1.94
403 555 4.389374 TCTTTGCTTCAGAGACGGATTTT 58.611 39.130 0.00 0.00 0.00 1.82
404 556 3.999663 CTCTTTGCTTCAGAGACGGATTT 59.000 43.478 2.21 0.00 40.39 2.17
406 558 2.564947 ACTCTTTGCTTCAGAGACGGAT 59.435 45.455 12.59 0.00 40.39 4.18
407 559 1.964223 ACTCTTTGCTTCAGAGACGGA 59.036 47.619 12.59 0.00 40.39 4.69
408 560 2.064762 CACTCTTTGCTTCAGAGACGG 58.935 52.381 12.59 1.36 40.39 4.79
420 572 4.095483 CCATAGTTTAGGCAGCACTCTTTG 59.905 45.833 0.00 0.00 0.00 2.77
421 573 4.265073 CCATAGTTTAGGCAGCACTCTTT 58.735 43.478 0.00 0.00 0.00 2.52
422 574 3.370953 CCCATAGTTTAGGCAGCACTCTT 60.371 47.826 0.00 0.00 0.00 2.85
423 575 2.171448 CCCATAGTTTAGGCAGCACTCT 59.829 50.000 0.00 0.00 0.00 3.24
424 576 2.170607 TCCCATAGTTTAGGCAGCACTC 59.829 50.000 0.00 0.00 0.00 3.51
427 579 4.263462 CCATATCCCATAGTTTAGGCAGCA 60.263 45.833 0.00 0.00 0.00 4.41
428 580 4.019321 TCCATATCCCATAGTTTAGGCAGC 60.019 45.833 0.00 0.00 0.00 5.25
429 581 5.762179 TCCATATCCCATAGTTTAGGCAG 57.238 43.478 0.00 0.00 0.00 4.85
430 582 6.484288 CATTCCATATCCCATAGTTTAGGCA 58.516 40.000 0.00 0.00 0.00 4.75
433 585 7.270832 TCCCATTCCATATCCCATAGTTTAG 57.729 40.000 0.00 0.00 0.00 1.85
434 586 7.845537 ATCCCATTCCATATCCCATAGTTTA 57.154 36.000 0.00 0.00 0.00 2.01
435 587 6.741500 ATCCCATTCCATATCCCATAGTTT 57.259 37.500 0.00 0.00 0.00 2.66
436 588 6.047120 ACAATCCCATTCCATATCCCATAGTT 59.953 38.462 0.00 0.00 0.00 2.24
437 589 5.557138 ACAATCCCATTCCATATCCCATAGT 59.443 40.000 0.00 0.00 0.00 2.12
439 591 6.255287 CAACAATCCCATTCCATATCCCATA 58.745 40.000 0.00 0.00 0.00 2.74
440 592 5.088730 CAACAATCCCATTCCATATCCCAT 58.911 41.667 0.00 0.00 0.00 4.00
442 594 3.834231 CCAACAATCCCATTCCATATCCC 59.166 47.826 0.00 0.00 0.00 3.85
445 604 6.627209 AGATTCCAACAATCCCATTCCATAT 58.373 36.000 0.00 0.00 0.00 1.78
498 657 3.193691 ACAAATAGAGACAGACAGGGACG 59.806 47.826 0.00 0.00 0.00 4.79
544 703 1.896660 GCGGCTTTCCTGTGTTCCA 60.897 57.895 0.00 0.00 0.00 3.53
545 704 2.626780 GGCGGCTTTCCTGTGTTCC 61.627 63.158 0.00 0.00 0.00 3.62
589 1033 1.450025 CTGCCCATCCATCATCATCG 58.550 55.000 0.00 0.00 0.00 3.84
720 1170 0.536460 GCTCCTTTGGTTTCGGTGGA 60.536 55.000 0.00 0.00 0.00 4.02
994 1478 2.573609 GAAGCATCGCGTACAGGGGT 62.574 60.000 5.77 0.00 0.00 4.95
996 1480 1.883084 GGAAGCATCGCGTACAGGG 60.883 63.158 5.77 0.00 0.00 4.45
999 1491 0.459585 GGAAGGAAGCATCGCGTACA 60.460 55.000 5.77 0.00 0.00 2.90
1060 1552 1.076995 GAACGGGAATGGAAGGGGG 60.077 63.158 0.00 0.00 0.00 5.40
1166 1670 1.000717 CGGCGTGGATTTTGAAAAGGT 60.001 47.619 0.00 0.00 0.00 3.50
1169 1673 0.385751 TGCGGCGTGGATTTTGAAAA 59.614 45.000 9.37 0.00 0.00 2.29
1170 1674 0.385751 TTGCGGCGTGGATTTTGAAA 59.614 45.000 9.37 0.00 0.00 2.69
1213 1717 1.601171 CAGAGCAGCAGCCTAACCT 59.399 57.895 0.00 0.00 43.56 3.50
1254 1774 2.697761 CGAGAGGCGAGACCGGAAA 61.698 63.158 9.46 0.00 46.52 3.13
1300 1820 1.227823 CCAACTTGAGACACCGCCA 60.228 57.895 0.00 0.00 0.00 5.69
1313 1833 2.822399 GATCGCCGGATCCCAACT 59.178 61.111 5.05 0.00 42.72 3.16
1344 1864 2.178912 ACCTACACACCAAATCACCG 57.821 50.000 0.00 0.00 0.00 4.94
1428 1948 2.098680 CTCGTCGCTGTCGTCTCC 59.901 66.667 0.00 0.00 36.96 3.71
1429 1949 2.098680 CCTCGTCGCTGTCGTCTC 59.901 66.667 0.00 0.00 36.96 3.36
1430 1950 2.358369 TCCTCGTCGCTGTCGTCT 60.358 61.111 0.00 0.00 36.96 4.18
1431 1951 1.357258 TACTCCTCGTCGCTGTCGTC 61.357 60.000 0.00 0.00 36.96 4.20
1432 1952 0.743701 ATACTCCTCGTCGCTGTCGT 60.744 55.000 0.00 0.00 36.96 4.34
1433 1953 0.316278 CATACTCCTCGTCGCTGTCG 60.316 60.000 0.00 0.00 0.00 4.35
1434 1954 0.733729 ACATACTCCTCGTCGCTGTC 59.266 55.000 0.00 0.00 0.00 3.51
1435 1955 0.733729 GACATACTCCTCGTCGCTGT 59.266 55.000 0.00 0.00 0.00 4.40
1436 1956 1.018148 AGACATACTCCTCGTCGCTG 58.982 55.000 0.00 0.00 34.80 5.18
1469 1989 2.621055 CTCGTCGATTTCCTCCTCATCT 59.379 50.000 0.00 0.00 0.00 2.90
1481 2001 0.377554 CGTACTCCAGCTCGTCGATT 59.622 55.000 0.00 0.00 0.00 3.34
1482 2002 1.437772 CCGTACTCCAGCTCGTCGAT 61.438 60.000 0.00 0.00 0.00 3.59
1526 2046 2.361992 TCCTCGCCGGCACTAGAA 60.362 61.111 28.98 0.19 0.00 2.10
1577 2097 0.677098 CTTCCTCCTCGTCCTCGTCA 60.677 60.000 0.00 0.00 38.33 4.35
1664 2184 0.731417 CGTCGTCGTCCTCATACCTT 59.269 55.000 0.00 0.00 0.00 3.50
1673 2193 0.315706 CCGAGTAATCGTCGTCGTCC 60.316 60.000 12.03 0.00 35.59 4.79
1705 2225 2.179427 AGTCACCAATCTCGTCATCCA 58.821 47.619 0.00 0.00 0.00 3.41
1724 2253 2.546368 CTCGTCGAGATCTTCCTGGTAG 59.454 54.545 17.52 0.00 0.00 3.18
1725 2254 2.562635 CTCGTCGAGATCTTCCTGGTA 58.437 52.381 17.52 0.00 0.00 3.25
1726 2255 1.384525 CTCGTCGAGATCTTCCTGGT 58.615 55.000 17.52 0.00 0.00 4.00
1727 2256 0.665835 CCTCGTCGAGATCTTCCTGG 59.334 60.000 23.74 0.14 0.00 4.45
1728 2257 1.669604 TCCTCGTCGAGATCTTCCTG 58.330 55.000 23.74 4.27 0.00 3.86
1729 2258 2.092861 TCTTCCTCGTCGAGATCTTCCT 60.093 50.000 23.74 0.00 0.00 3.36
1730 2259 2.289547 CTCTTCCTCGTCGAGATCTTCC 59.710 54.545 23.74 0.00 0.00 3.46
1731 2260 2.289547 CCTCTTCCTCGTCGAGATCTTC 59.710 54.545 23.74 0.00 0.00 2.87
1732 2261 2.092861 TCCTCTTCCTCGTCGAGATCTT 60.093 50.000 23.74 0.00 0.00 2.40
1757 2286 0.469331 TCTCACAGTTGGACCCTCGT 60.469 55.000 0.00 0.00 0.00 4.18
1761 2290 0.391597 TTCGTCTCACAGTTGGACCC 59.608 55.000 0.00 0.00 0.00 4.46
1843 2372 3.473647 CCTCCTCCTCCGCATGCA 61.474 66.667 19.57 0.00 0.00 3.96
1967 2496 1.668151 GTGGCTGACACCGAGTTCC 60.668 63.158 1.02 0.00 44.49 3.62
2141 2685 1.751437 AGTCGTCGTCATCATCCTCA 58.249 50.000 0.00 0.00 0.00 3.86
2179 2723 3.387374 TGAGTTACGGTTTACCTTCACCA 59.613 43.478 0.00 0.00 31.84 4.17
2183 2727 4.886579 TCCTTGAGTTACGGTTTACCTTC 58.113 43.478 0.00 0.00 0.00 3.46
2198 2742 0.695347 ACCTGGCCTTCTTCCTTGAG 59.305 55.000 3.32 0.00 0.00 3.02
2441 2985 7.166851 TCTTCGTCTTAACCTCTTCTTCTCTA 58.833 38.462 0.00 0.00 0.00 2.43
2518 3062 4.433615 TCTGACATCGCTCAATTCCTTAC 58.566 43.478 0.00 0.00 0.00 2.34
2555 3099 1.142474 CGCGTACCCTTTTCTTCGTT 58.858 50.000 0.00 0.00 0.00 3.85
2690 3234 3.204526 GTCTGAGGCATGGAATTCAGAG 58.795 50.000 7.93 0.00 44.68 3.35
2766 3310 4.283978 AGAATCTGAGGATGATTGCGAGAT 59.716 41.667 0.00 0.00 31.75 2.75
2870 3414 2.290071 TGTAAAAGAAAGCCTCCTCGGG 60.290 50.000 0.00 0.00 0.00 5.14
3053 3597 0.243907 ATGGACACCTTGACTCGACG 59.756 55.000 0.00 0.00 0.00 5.12
3271 3816 7.884877 AGAATGACAATGAAGATGTCTACCAAA 59.115 33.333 8.01 0.00 45.81 3.28
3278 3823 4.093998 ACGCAGAATGACAATGAAGATGTC 59.906 41.667 0.00 0.00 45.82 3.06
3422 3967 5.409643 ACATATGTTAGCGATGCACTTTC 57.590 39.130 1.41 0.00 0.00 2.62
3711 4256 7.678947 TTCAAAAAGGTTGCTGAAAATTGAA 57.321 28.000 0.00 0.00 33.36 2.69
3823 4368 4.897509 AAAGTACAGTACCCCCTACAAC 57.102 45.455 7.13 0.00 0.00 3.32
4233 4815 4.568072 AATGTGCTAATGGGTACAGTCA 57.432 40.909 0.00 0.00 35.51 3.41
4239 4821 4.264172 ACCTTCCAAATGTGCTAATGGGTA 60.264 41.667 0.00 0.00 33.66 3.69
4266 4848 3.446873 AGTTTGCCAAGTGTTGATTGACA 59.553 39.130 0.00 0.00 0.00 3.58
4311 4893 1.638529 AGGAATCTCCCTAGGCGATG 58.361 55.000 2.05 0.00 37.19 3.84
4428 5010 6.183347 AGCCTTTGTCTATCTAGCAAAATGT 58.817 36.000 0.00 0.00 32.87 2.71
4452 5034 3.824443 TCCAGTGTCTTGACTAATCACGA 59.176 43.478 2.35 0.00 33.38 4.35
4453 5035 3.921021 GTCCAGTGTCTTGACTAATCACG 59.079 47.826 2.35 0.00 33.38 4.35
4454 5036 4.883083 TGTCCAGTGTCTTGACTAATCAC 58.117 43.478 2.35 0.00 33.38 3.06
4548 5130 1.881973 TGTGCTGCAAAGAGTTGGATC 59.118 47.619 2.77 0.00 34.22 3.36
4575 5157 5.236047 CGATTTGGTTCAATTCTTGGCAAAA 59.764 36.000 0.00 0.00 0.00 2.44
4648 5230 1.154205 GCTGGTCCCGAATGTCATCG 61.154 60.000 0.00 0.00 42.37 3.84
4681 5263 4.376146 AGTTTCTCTGAGCTTGAACAGAC 58.624 43.478 0.00 0.00 38.08 3.51
5034 5645 0.739462 TGGTAAGAAGCGCATGTCCG 60.739 55.000 11.47 0.00 0.00 4.79
5068 5679 5.939764 AGAGCATTATCACAGTTACTGGA 57.060 39.130 17.21 11.07 35.51 3.86
5120 5731 1.818959 TTGAAGCACAATGGCCAGCC 61.819 55.000 13.05 0.38 33.18 4.85
5151 5762 7.169645 ACATTTTCATTTTTCTGTCATTGACCG 59.830 33.333 14.05 8.05 0.00 4.79
5252 5864 2.143122 GGTCATTGCTGAACTTCGTGA 58.857 47.619 0.00 0.00 36.10 4.35
5541 6160 4.129737 CATCGACGAGCCGGTGGT 62.130 66.667 1.90 0.00 37.04 4.16
5551 6183 1.874019 CGTCCAGGCTTCATCGACG 60.874 63.158 0.00 0.00 40.15 5.12
5591 6228 0.961753 CAAGCGCTTTCTCCCCTTTT 59.038 50.000 22.51 0.00 0.00 2.27
5629 6266 6.322712 CCGATCCCAAACATTTCCCTAAAATA 59.677 38.462 0.00 0.00 35.77 1.40
5631 6268 4.464597 CCGATCCCAAACATTTCCCTAAAA 59.535 41.667 0.00 0.00 0.00 1.52
5635 6272 1.357761 ACCGATCCCAAACATTTCCCT 59.642 47.619 0.00 0.00 0.00 4.20
5636 6273 1.476488 CACCGATCCCAAACATTTCCC 59.524 52.381 0.00 0.00 0.00 3.97
5637 6274 1.476488 CCACCGATCCCAAACATTTCC 59.524 52.381 0.00 0.00 0.00 3.13
5638 6275 1.476488 CCCACCGATCCCAAACATTTC 59.524 52.381 0.00 0.00 0.00 2.17
5639 6276 1.555967 CCCACCGATCCCAAACATTT 58.444 50.000 0.00 0.00 0.00 2.32
5640 6277 0.970427 GCCCACCGATCCCAAACATT 60.970 55.000 0.00 0.00 0.00 2.71
5641 6278 1.379843 GCCCACCGATCCCAAACAT 60.380 57.895 0.00 0.00 0.00 2.71
5642 6279 2.034999 GCCCACCGATCCCAAACA 59.965 61.111 0.00 0.00 0.00 2.83
5643 6280 2.754254 GGCCCACCGATCCCAAAC 60.754 66.667 0.00 0.00 0.00 2.93
5673 6310 1.210870 GAAAACACAGCGGACACGTA 58.789 50.000 0.00 0.00 43.45 3.57
5677 6314 2.034053 GGAAATGAAAACACAGCGGACA 59.966 45.455 0.00 0.00 0.00 4.02
5693 6330 2.684001 TTACATGTCGCCTCGGAAAT 57.316 45.000 0.00 0.00 0.00 2.17
5697 6334 1.772182 GAGATTACATGTCGCCTCGG 58.228 55.000 0.00 0.00 0.00 4.63
5769 6407 2.813754 GCAATGGATAAGGATTGCGCTA 59.186 45.455 9.73 0.00 43.59 4.26
5789 6428 1.794714 TTACCAGAGAGATGAGGGGC 58.205 55.000 0.00 0.00 0.00 5.80
5846 6502 1.153765 CGGAGCAGCAGATTGTCGA 60.154 57.895 0.00 0.00 0.00 4.20
5851 6507 3.729965 CTCGCCGGAGCAGCAGATT 62.730 63.158 5.05 0.00 39.83 2.40
6091 6764 1.396996 GTAGCAAAATCGTGATGCGGT 59.603 47.619 0.00 0.00 44.60 5.68
6097 6770 5.878332 ACATGATTGTAGCAAAATCGTGA 57.122 34.783 23.82 2.71 46.84 4.35
6124 6798 3.642848 ACATGGACTGGTTTCAGCAAAAT 59.357 39.130 0.00 0.00 44.59 1.82
6133 6807 4.404073 TGTAGCAAAAACATGGACTGGTTT 59.596 37.500 0.00 0.00 46.85 3.27
6165 6839 0.817654 GTGGTAGCAGATTTTGGGGC 59.182 55.000 0.00 0.00 0.00 5.80
6166 6840 2.094675 CAGTGGTAGCAGATTTTGGGG 58.905 52.381 0.00 0.00 0.00 4.96
6204 6878 3.577848 TGATTGTAGCAAAATGGCTTGGT 59.422 39.130 0.00 0.00 42.71 3.67
6205 6879 4.191033 TGATTGTAGCAAAATGGCTTGG 57.809 40.909 0.00 0.00 42.71 3.61
6207 6881 7.229106 ACAAAAATGATTGTAGCAAAATGGCTT 59.771 29.630 0.00 0.00 41.56 4.35
6224 6898 7.488471 CACCGGTAGTAACAAAAACAAAAATGA 59.512 33.333 6.87 0.00 0.00 2.57
6315 6997 1.974265 TCCAGCAAAAACGATGTCCA 58.026 45.000 0.00 0.00 0.00 4.02
6316 6998 2.034053 TGTTCCAGCAAAAACGATGTCC 59.966 45.455 0.00 0.00 0.00 4.02
6318 7000 3.791973 TTGTTCCAGCAAAAACGATGT 57.208 38.095 0.00 0.00 0.00 3.06
6322 7004 3.428534 GCCTAATTGTTCCAGCAAAAACG 59.571 43.478 0.00 0.00 31.63 3.60
6337 7019 4.441913 CCGATCCAGCAAAAATGCCTAATT 60.442 41.667 0.00 0.00 34.90 1.40
6340 7022 2.023673 CCGATCCAGCAAAAATGCCTA 58.976 47.619 0.00 0.00 34.90 3.93
6369 7051 3.991773 ACTGCTCGTCGCTTGTATAAAAA 59.008 39.130 0.00 0.00 40.11 1.94
6370 7052 3.581755 ACTGCTCGTCGCTTGTATAAAA 58.418 40.909 0.00 0.00 40.11 1.52
6371 7053 3.226346 ACTGCTCGTCGCTTGTATAAA 57.774 42.857 0.00 0.00 40.11 1.40
6372 7054 2.933495 ACTGCTCGTCGCTTGTATAA 57.067 45.000 0.00 0.00 40.11 0.98
6373 7055 2.933495 AACTGCTCGTCGCTTGTATA 57.067 45.000 0.00 0.00 40.11 1.47
6374 7056 2.080286 AAACTGCTCGTCGCTTGTAT 57.920 45.000 0.00 0.00 40.11 2.29
6375 7057 1.860676 AAAACTGCTCGTCGCTTGTA 58.139 45.000 0.00 0.00 40.11 2.41
6376 7058 1.014352 AAAAACTGCTCGTCGCTTGT 58.986 45.000 0.00 0.00 40.11 3.16
6377 7059 1.388888 CAAAAACTGCTCGTCGCTTG 58.611 50.000 0.00 0.00 40.11 4.01
6378 7060 3.825812 CAAAAACTGCTCGTCGCTT 57.174 47.368 0.00 0.00 40.11 4.68
6388 7070 6.076981 AGATACTGGTTGAAGCAAAAACTG 57.923 37.500 0.00 0.00 0.00 3.16
6389 7071 6.715347 AAGATACTGGTTGAAGCAAAAACT 57.285 33.333 0.00 0.00 0.00 2.66
6390 7072 7.770801 AAAAGATACTGGTTGAAGCAAAAAC 57.229 32.000 0.00 0.00 0.00 2.43
6413 7095 3.205815 ACACAGGCTCCAGCAAAAA 57.794 47.368 0.03 0.00 44.36 1.94


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

AutoCloner maintained by Alex Coulton.