Multiple sequence alignment - TraesCS7B01G130600

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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 TraesCS7B01G130600 chr7B 100.000 4702 0 0 1 4702 157220565 157215864 0.000000e+00 8684.0
1 TraesCS7B01G130600 chr7B 84.783 92 13 1 182 273 50898294 50898204 1.800000e-14 91.6
2 TraesCS7B01G130600 chr7A 88.704 3010 205 63 1799 4702 203041392 203038412 0.000000e+00 3550.0
3 TraesCS7B01G130600 chr7A 91.413 1316 69 26 462 1765 203042788 203041505 0.000000e+00 1764.0
4 TraesCS7B01G130600 chr7A 81.183 372 37 14 75 439 203043116 203042771 7.760000e-68 268.0
5 TraesCS7B01G130600 chr7D 93.738 1533 37 23 1799 3273 193586362 193584831 0.000000e+00 2244.0
6 TraesCS7B01G130600 chr7D 93.344 1307 66 13 462 1767 193587752 193586466 0.000000e+00 1912.0
7 TraesCS7B01G130600 chr7D 84.338 1443 144 40 3308 4690 193584833 193583413 0.000000e+00 1338.0
8 TraesCS7B01G130600 chr7D 87.045 440 40 9 4 439 193588161 193587735 9.150000e-132 481.0
9 TraesCS7B01G130600 chr7D 79.739 153 24 6 182 330 10927830 10927979 2.310000e-18 104.0
10 TraesCS7B01G130600 chr4D 92.666 709 50 2 1860 2567 3611496 3610789 0.000000e+00 1020.0
11 TraesCS7B01G130600 chr4D 84.205 937 88 32 2567 3468 3610720 3609809 0.000000e+00 856.0
12 TraesCS7B01G130600 chr4D 86.835 395 40 7 3500 3891 3609361 3608976 9.350000e-117 431.0
13 TraesCS7B01G130600 chr4D 87.549 257 29 3 1166 1421 3612748 3612494 1.280000e-75 294.0
14 TraesCS7B01G130600 chr4D 100.000 29 0 0 1206 1234 283886819 283886847 2.000000e-03 54.7
15 TraesCS7B01G130600 chr4B 91.465 703 54 5 1860 2561 59232528 59233225 0.000000e+00 961.0
16 TraesCS7B01G130600 chr4B 87.101 814 68 17 2567 3346 59233300 59234110 0.000000e+00 887.0
17 TraesCS7B01G130600 chr4B 92.035 226 16 2 3561 3786 59234141 59234364 2.730000e-82 316.0
18 TraesCS7B01G130600 chr4B 85.338 266 36 3 1157 1421 59231464 59231727 6.000000e-69 272.0
19 TraesCS7B01G130600 chr2D 79.225 284 36 13 4047 4314 2043393 2043669 4.840000e-40 176.0
20 TraesCS7B01G130600 chr2D 82.639 144 21 4 183 324 279056799 279056658 1.780000e-24 124.0
21 TraesCS7B01G130600 chr2D 83.077 130 19 2 183 312 610045243 610045117 1.070000e-21 115.0
22 TraesCS7B01G130600 chr6A 83.929 168 27 0 1179 1346 501791969 501792136 1.350000e-35 161.0
23 TraesCS7B01G130600 chr6D 83.234 167 28 0 1180 1346 360680990 360681156 2.270000e-33 154.0
24 TraesCS7B01G130600 chr6D 100.000 29 0 0 1206 1234 435374028 435374056 2.000000e-03 54.7
25 TraesCS7B01G130600 chr6B 82.635 167 29 0 1180 1346 542223761 542223927 1.050000e-31 148.0
26 TraesCS7B01G130600 chr2B 87.023 131 12 4 184 312 744218290 744218417 4.900000e-30 143.0
27 TraesCS7B01G130600 chr2B 78.431 204 39 5 138 338 793184225 793184426 1.370000e-25 128.0
28 TraesCS7B01G130600 chr2B 85.714 98 11 3 186 282 318210486 318210391 2.990000e-17 100.0
29 TraesCS7B01G130600 chr2B 91.667 48 4 0 291 338 318207264 318207217 3.040000e-07 67.6
30 TraesCS7B01G130600 chr2B 100.000 28 0 0 305 332 766243421 766243448 9.000000e-03 52.8
31 TraesCS7B01G130600 chr3A 81.879 149 20 5 191 338 681407317 681407175 8.270000e-23 119.0
32 TraesCS7B01G130600 chr1B 86.458 96 12 1 177 272 363042429 363042335 2.310000e-18 104.0
33 TraesCS7B01G130600 chr2A 79.720 143 16 4 4050 4190 277070846 277070715 1.800000e-14 91.6
34 TraesCS7B01G130600 chr5B 97.059 34 1 0 305 338 326088475 326088442 1.830000e-04 58.4
35 TraesCS7B01G130600 chr3B 96.970 33 0 1 4265 4297 706021759 706021790 2.000000e-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 TraesCS7B01G130600 chr7B 157215864 157220565 4701 True 8684.000000 8684 100.00000 1 4702 1 chr7B.!!$R2 4701
1 TraesCS7B01G130600 chr7A 203038412 203043116 4704 True 1860.666667 3550 87.10000 75 4702 3 chr7A.!!$R1 4627
2 TraesCS7B01G130600 chr7D 193583413 193588161 4748 True 1493.750000 2244 89.61625 4 4690 4 chr7D.!!$R1 4686
3 TraesCS7B01G130600 chr4D 3608976 3612748 3772 True 650.250000 1020 87.81375 1166 3891 4 chr4D.!!$R1 2725
4 TraesCS7B01G130600 chr4B 59231464 59234364 2900 False 609.000000 961 88.98475 1157 3786 4 chr4B.!!$F1 2629

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
566 580 0.179070 GATCCTTCGCCACCCTTCTC 60.179 60.0 0.00 0.00 0.00 2.87 F
1005 1035 0.105760 ATCTCTCCGTCTCCATGGCT 60.106 55.0 6.96 0.00 0.00 4.75 F
1823 2675 1.171308 GAGCTTTGCTGCAGGATCAA 58.829 50.0 17.12 8.53 39.88 2.57 F
2173 3050 0.036010 CAGTGGCTGAGGTTACTGGG 60.036 60.0 0.00 0.00 37.48 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1779 2551 0.802494 AACACGGCCGCTTATTCAAG 59.198 50.0 28.58 6.34 34.66 3.02 R
2173 3050 2.035961 TGCCACAGAGACAGTGTTACTC 59.964 50.0 0.00 0.00 35.24 2.59 R
3545 4942 0.110486 AGAAACATGGCCGGTCAGTT 59.890 50.0 16.89 15.92 0.00 3.16 R
4056 5473 0.036010 CGTCCAGGCATCCCCATATC 60.036 60.0 0.00 0.00 35.39 1.63 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
62 63 3.739613 GGGTGGGGAGGCCGAATT 61.740 66.667 0.00 0.00 0.00 2.17
84 85 2.187946 GATGTGGTGCGGAGGGAG 59.812 66.667 0.00 0.00 0.00 4.30
85 86 2.607750 ATGTGGTGCGGAGGGAGT 60.608 61.111 0.00 0.00 0.00 3.85
168 171 0.250597 GGGTGGCCGTCAGTTTTACT 60.251 55.000 0.00 0.00 0.00 2.24
178 181 4.262335 CCGTCAGTTTTACTTCTAGGGTGT 60.262 45.833 0.00 0.00 0.00 4.16
345 358 8.984891 CATCATCTATTAGTGATGGAACTCTC 57.015 38.462 18.63 0.00 44.94 3.20
387 401 7.874528 AGCTAATGAATTGAAAAAGGAGTTTGG 59.125 33.333 0.00 0.00 0.00 3.28
388 402 7.118245 GCTAATGAATTGAAAAAGGAGTTTGGG 59.882 37.037 0.00 0.00 0.00 4.12
389 403 5.289083 TGAATTGAAAAAGGAGTTTGGGG 57.711 39.130 0.00 0.00 0.00 4.96
390 404 3.769739 ATTGAAAAAGGAGTTTGGGGC 57.230 42.857 0.00 0.00 0.00 5.80
391 405 2.166907 TGAAAAAGGAGTTTGGGGCA 57.833 45.000 0.00 0.00 0.00 5.36
392 406 1.760029 TGAAAAAGGAGTTTGGGGCAC 59.240 47.619 0.00 0.00 0.00 5.01
393 407 1.760029 GAAAAAGGAGTTTGGGGCACA 59.240 47.619 0.00 0.00 0.00 4.57
434 448 0.588233 CGCTTGAAGATCATGCACGC 60.588 55.000 15.60 0.00 44.74 5.34
435 449 0.448990 GCTTGAAGATCATGCACGCA 59.551 50.000 11.87 0.00 44.16 5.24
436 450 1.065102 GCTTGAAGATCATGCACGCAT 59.935 47.619 11.87 0.00 44.16 4.73
452 466 0.304705 GCATGATTTGCGTACCCTCG 59.695 55.000 0.00 0.00 42.54 4.63
453 467 1.934589 CATGATTTGCGTACCCTCGA 58.065 50.000 0.00 0.00 0.00 4.04
454 468 2.276201 CATGATTTGCGTACCCTCGAA 58.724 47.619 0.00 0.00 0.00 3.71
455 469 2.459060 TGATTTGCGTACCCTCGAAA 57.541 45.000 0.00 0.00 0.00 3.46
456 470 2.768698 TGATTTGCGTACCCTCGAAAA 58.231 42.857 0.00 0.00 41.60 2.29
457 471 2.739913 TGATTTGCGTACCCTCGAAAAG 59.260 45.455 0.00 0.00 40.86 2.27
458 472 2.529780 TTTGCGTACCCTCGAAAAGA 57.470 45.000 0.00 0.00 34.05 2.52
459 473 2.529780 TTGCGTACCCTCGAAAAGAA 57.470 45.000 0.00 0.00 0.00 2.52
460 474 2.529780 TGCGTACCCTCGAAAAGAAA 57.470 45.000 0.00 0.00 0.00 2.52
461 475 2.836262 TGCGTACCCTCGAAAAGAAAA 58.164 42.857 0.00 0.00 0.00 2.29
462 476 3.204526 TGCGTACCCTCGAAAAGAAAAA 58.795 40.909 0.00 0.00 0.00 1.94
463 477 3.249080 TGCGTACCCTCGAAAAGAAAAAG 59.751 43.478 0.00 0.00 0.00 2.27
464 478 3.495753 GCGTACCCTCGAAAAGAAAAAGA 59.504 43.478 0.00 0.00 0.00 2.52
465 479 4.153655 GCGTACCCTCGAAAAGAAAAAGAT 59.846 41.667 0.00 0.00 0.00 2.40
466 480 5.670588 GCGTACCCTCGAAAAGAAAAAGATC 60.671 44.000 0.00 0.00 0.00 2.75
467 481 5.407387 CGTACCCTCGAAAAGAAAAAGATCA 59.593 40.000 0.00 0.00 0.00 2.92
468 482 6.092259 CGTACCCTCGAAAAGAAAAAGATCAT 59.908 38.462 0.00 0.00 0.00 2.45
469 483 6.259550 ACCCTCGAAAAGAAAAAGATCATG 57.740 37.500 0.00 0.00 0.00 3.07
470 484 5.098211 CCCTCGAAAAGAAAAAGATCATGC 58.902 41.667 0.00 0.00 0.00 4.06
471 485 5.335897 CCCTCGAAAAGAAAAAGATCATGCA 60.336 40.000 0.00 0.00 0.00 3.96
472 486 5.570589 CCTCGAAAAGAAAAAGATCATGCAC 59.429 40.000 0.00 0.00 0.00 4.57
473 487 5.146460 TCGAAAAGAAAAAGATCATGCACG 58.854 37.500 0.00 0.00 0.00 5.34
487 501 1.223417 TGCACGCATGACTCACACAG 61.223 55.000 0.00 0.00 0.00 3.66
560 574 0.672401 TTCGTTGATCCTTCGCCACC 60.672 55.000 0.00 0.00 0.00 4.61
561 575 2.106683 CGTTGATCCTTCGCCACCC 61.107 63.158 0.00 0.00 0.00 4.61
562 576 1.299976 GTTGATCCTTCGCCACCCT 59.700 57.895 0.00 0.00 0.00 4.34
563 577 0.322546 GTTGATCCTTCGCCACCCTT 60.323 55.000 0.00 0.00 0.00 3.95
566 580 0.179070 GATCCTTCGCCACCCTTCTC 60.179 60.000 0.00 0.00 0.00 2.87
600 618 3.082579 GCTAGCTAGCCACGGCACT 62.083 63.158 31.67 7.14 43.39 4.40
633 651 1.250328 TCTCGCCCACTTTTCGAGTA 58.750 50.000 10.10 0.00 46.76 2.59
702 732 3.694043 AAAGCCAAAACAAACCACTGT 57.306 38.095 0.00 0.00 0.00 3.55
707 737 2.611473 CCAAAACAAACCACTGTGCACA 60.611 45.455 20.37 20.37 0.00 4.57
709 739 0.530288 AACAAACCACTGTGCACACC 59.470 50.000 17.42 0.00 0.00 4.16
718 748 3.584618 GTGCACACCACACACACA 58.415 55.556 13.17 0.00 44.06 3.72
759 789 2.439156 GCAGGCCCACAGGTCATC 60.439 66.667 0.00 0.00 41.85 2.92
763 793 1.152881 GGCCCACAGGTCATCCATC 60.153 63.158 0.00 0.00 37.86 3.51
766 796 0.990282 CCCACAGGTCATCCATCCCT 60.990 60.000 0.00 0.00 35.89 4.20
776 806 0.911769 ATCCATCCCTTCACGCTTCA 59.088 50.000 0.00 0.00 0.00 3.02
846 876 4.436998 GAGGCGGTCCACCTGTCG 62.437 72.222 2.18 0.00 37.77 4.35
870 900 4.104143 CGGCGCGGAGTCTTTATT 57.896 55.556 9.72 0.00 0.00 1.40
883 913 2.931969 GTCTTTATTTACCCGTCCCGTG 59.068 50.000 0.00 0.00 0.00 4.94
997 1027 2.519780 GCCGGGATCTCTCCGTCT 60.520 66.667 2.18 0.00 45.51 4.18
1005 1035 0.105760 ATCTCTCCGTCTCCATGGCT 60.106 55.000 6.96 0.00 0.00 4.75
1014 1044 2.825387 TCCATGGCTGCGATGTGC 60.825 61.111 20.71 0.00 46.70 4.57
1093 1123 3.837669 TTTTTCTCGCTCGGTTTGC 57.162 47.368 0.00 0.00 0.00 3.68
1280 1310 2.358737 GTCGGCTGTGTTGAGGGG 60.359 66.667 0.00 0.00 0.00 4.79
1362 1392 1.966451 GAGGGGTTGAACAGCGGTG 60.966 63.158 14.13 14.13 0.00 4.94
1395 1427 6.645790 AATCATACCCAATTCTTCTCATGC 57.354 37.500 0.00 0.00 0.00 4.06
1401 1433 5.544650 ACCCAATTCTTCTCATGCTTTTTG 58.455 37.500 0.00 0.00 0.00 2.44
1403 1435 6.013984 ACCCAATTCTTCTCATGCTTTTTGAT 60.014 34.615 0.00 0.00 0.00 2.57
1462 2143 6.028146 TGTAATGCAATTCATGTGCTTCTT 57.972 33.333 8.11 2.94 42.69 2.52
1464 2145 6.587226 TGTAATGCAATTCATGTGCTTCTTTC 59.413 34.615 8.11 0.16 42.69 2.62
1710 2480 9.594478 TGATGACAGCGAAGAGTAATTTTTATA 57.406 29.630 0.00 0.00 0.00 0.98
1771 2543 5.390613 GCTAAGCAGCGTATTTTGAAAGAA 58.609 37.500 0.00 0.00 38.22 2.52
1772 2544 5.283953 GCTAAGCAGCGTATTTTGAAAGAAC 59.716 40.000 0.00 0.00 38.22 3.01
1774 2546 4.537015 AGCAGCGTATTTTGAAAGAACAC 58.463 39.130 0.00 0.00 0.00 3.32
1775 2547 4.036262 AGCAGCGTATTTTGAAAGAACACA 59.964 37.500 0.00 0.00 0.00 3.72
1776 2548 4.737765 GCAGCGTATTTTGAAAGAACACAA 59.262 37.500 0.00 0.00 0.00 3.33
1777 2549 5.231147 GCAGCGTATTTTGAAAGAACACAAA 59.769 36.000 0.00 0.00 34.80 2.83
1779 2551 7.493313 CAGCGTATTTTGAAAGAACACAAATC 58.507 34.615 0.00 0.00 36.21 2.17
1790 2562 7.591057 TGAAAGAACACAAATCTTGAATAAGCG 59.409 33.333 0.00 0.00 37.22 4.68
1823 2675 1.171308 GAGCTTTGCTGCAGGATCAA 58.829 50.000 17.12 8.53 39.88 2.57
1875 2727 4.792704 GCTTGTATGTTTGAACCCTGTGTG 60.793 45.833 0.00 0.00 0.00 3.82
1882 2757 3.485463 TTGAACCCTGTGTGAGTAAGG 57.515 47.619 0.00 0.00 0.00 2.69
1953 2830 8.735315 TGATTGTTGTTTTCTTGACTCTTAACA 58.265 29.630 0.00 0.00 0.00 2.41
2173 3050 0.036010 CAGTGGCTGAGGTTACTGGG 60.036 60.000 0.00 0.00 37.48 4.45
2359 3236 1.009829 GTCGTATTGGCAGGCTCTTG 58.990 55.000 0.00 0.00 0.00 3.02
2785 3733 3.386543 GCACCAGTATGCTGTAGGG 57.613 57.895 10.09 0.00 42.62 3.53
2795 3743 4.962995 AGTATGCTGTAGGGTGTGTATCTT 59.037 41.667 0.00 0.00 0.00 2.40
2810 3759 4.081642 GTGTATCTTACTCTTGCTGTGGGA 60.082 45.833 0.00 0.00 0.00 4.37
2950 3906 8.564574 TGCCAGTTTGTAGTTAACTATTTCTTG 58.435 33.333 18.03 13.27 34.22 3.02
3033 3991 4.568956 GCCATGGCACTTGTTTCTTTATT 58.431 39.130 32.08 0.00 41.49 1.40
3037 4019 7.334171 GCCATGGCACTTGTTTCTTTATTATTT 59.666 33.333 32.08 0.00 41.49 1.40
3272 4262 6.542370 TGTTTTTATCTCAGCATAGGCCTTAC 59.458 38.462 12.58 0.00 42.56 2.34
3297 4287 4.201685 GCGTATCATCGTTTACAGCACTTT 60.202 41.667 0.00 0.00 0.00 2.66
3364 4359 7.750769 ACGAATTCTAGTCACTAGTCAGTTAC 58.249 38.462 11.77 0.00 35.72 2.50
3435 4640 9.007901 CATAAGTGGAGAATCAAGGAATAATCC 57.992 37.037 0.00 0.00 41.42 3.01
3451 4656 7.769220 GGAATAATCCATATCAAGAGCAATGG 58.231 38.462 0.00 0.00 45.79 3.16
3460 4665 7.013559 CCATATCAAGAGCAATGGACATACAAA 59.986 37.037 0.00 0.00 41.20 2.83
3525 4921 7.308229 GCCTAGATCAGTTTATGCCTGTTTATG 60.308 40.741 0.00 0.00 0.00 1.90
3545 4942 4.998400 TGCCGCGCTTTGCTACCA 62.998 61.111 5.56 0.00 43.27 3.25
3557 4954 3.065306 CTACCAACTGACCGGCCA 58.935 61.111 0.00 0.00 0.00 5.36
3565 4962 0.110486 ACTGACCGGCCATGTTTCTT 59.890 50.000 0.00 0.00 0.00 2.52
3570 4967 2.354821 GACCGGCCATGTTTCTTATGTC 59.645 50.000 0.00 0.00 0.00 3.06
3576 4973 3.876914 GCCATGTTTCTTATGTCGATGGA 59.123 43.478 0.00 0.00 32.20 3.41
3584 4981 7.335673 TGTTTCTTATGTCGATGGAAATTGCTA 59.664 33.333 0.00 0.00 0.00 3.49
3713 5116 3.584406 AGTACAAGTAGTAACCCAACCCC 59.416 47.826 0.00 0.00 33.72 4.95
3714 5117 2.709966 ACAAGTAGTAACCCAACCCCT 58.290 47.619 0.00 0.00 0.00 4.79
3715 5118 2.641321 ACAAGTAGTAACCCAACCCCTC 59.359 50.000 0.00 0.00 0.00 4.30
3719 5122 1.919816 GTAACCCAACCCCTCCGGA 60.920 63.158 2.93 2.93 34.64 5.14
3728 5131 3.710722 CCCTCCGGAGCTGCTTGT 61.711 66.667 26.87 0.00 0.00 3.16
3729 5132 2.125350 CCTCCGGAGCTGCTTGTC 60.125 66.667 26.87 0.00 0.00 3.18
3846 5249 6.686630 TGCAACCATGGTAGTGAATAAAAAG 58.313 36.000 20.12 0.00 0.00 2.27
3847 5250 6.491745 TGCAACCATGGTAGTGAATAAAAAGA 59.508 34.615 20.12 0.00 0.00 2.52
3892 5297 6.539649 TTGTGATGTGTACTGCTAGTTTTC 57.460 37.500 0.00 0.00 0.00 2.29
3900 5305 8.149973 TGTGTACTGCTAGTTTTCCTTTTTAG 57.850 34.615 0.00 0.00 0.00 1.85
3901 5306 7.227910 TGTGTACTGCTAGTTTTCCTTTTTAGG 59.772 37.037 0.00 0.00 0.00 2.69
3902 5307 7.443272 GTGTACTGCTAGTTTTCCTTTTTAGGA 59.557 37.037 0.00 0.00 35.93 2.94
3903 5308 7.994334 TGTACTGCTAGTTTTCCTTTTTAGGAA 59.006 33.333 2.57 2.57 45.37 3.36
3950 5357 0.535335 GAGCATCTACAACCGGACCA 59.465 55.000 9.46 0.00 0.00 4.02
3984 5391 2.812178 CGGACGTTTACCGGGCAG 60.812 66.667 6.32 0.00 45.65 4.85
3996 5413 1.300775 CGGGCAGCACAAAATTGCA 60.301 52.632 0.00 0.00 45.62 4.08
3997 5414 1.559149 CGGGCAGCACAAAATTGCAC 61.559 55.000 0.00 0.00 45.62 4.57
4030 5447 1.402107 GGCAAATCCGGCCCAATCAT 61.402 55.000 0.00 0.00 45.87 2.45
4031 5448 0.032540 GCAAATCCGGCCCAATCATC 59.967 55.000 0.00 0.00 0.00 2.92
4032 5449 1.696063 CAAATCCGGCCCAATCATCT 58.304 50.000 0.00 0.00 0.00 2.90
4033 5450 2.862541 CAAATCCGGCCCAATCATCTA 58.137 47.619 0.00 0.00 0.00 1.98
4038 5455 2.158370 TCCGGCCCAATCATCTAGACTA 60.158 50.000 0.00 0.00 0.00 2.59
4045 5462 3.309388 CAATCATCTAGACTAACCGGCG 58.691 50.000 0.00 0.00 0.00 6.46
4047 5464 2.860009 TCATCTAGACTAACCGGCGAT 58.140 47.619 9.30 0.00 0.00 4.58
4048 5465 2.812591 TCATCTAGACTAACCGGCGATC 59.187 50.000 9.30 0.00 0.00 3.69
4049 5466 2.634815 TCTAGACTAACCGGCGATCT 57.365 50.000 9.30 1.90 0.00 2.75
4050 5467 2.219458 TCTAGACTAACCGGCGATCTG 58.781 52.381 9.30 0.00 0.00 2.90
4051 5468 1.267261 CTAGACTAACCGGCGATCTGG 59.733 57.143 9.30 0.00 44.58 3.86
4052 5469 1.067582 GACTAACCGGCGATCTGGG 59.932 63.158 9.30 0.00 43.28 4.45
4053 5470 2.365095 GACTAACCGGCGATCTGGGG 62.365 65.000 9.30 0.00 43.28 4.96
4054 5471 2.364579 TAACCGGCGATCTGGGGT 60.365 61.111 9.30 0.00 43.28 4.95
4055 5472 2.644555 CTAACCGGCGATCTGGGGTG 62.645 65.000 9.30 0.00 43.28 4.61
4095 5519 3.770040 CCCGCCACGTCAGATCCA 61.770 66.667 0.00 0.00 0.00 3.41
4098 5522 2.581354 GCCACGTCAGATCCAGCT 59.419 61.111 0.00 0.00 0.00 4.24
4111 5535 2.670934 CAGCTCACTGTGGCCCAC 60.671 66.667 7.01 7.01 39.22 4.61
4113 5537 3.958860 GCTCACTGTGGCCCACCT 61.959 66.667 12.25 0.00 36.63 4.00
4116 5540 2.281761 CACTGTGGCCCACCTGAC 60.282 66.667 12.25 0.00 36.63 3.51
4133 5557 4.141251 ACCTGACCCCACATATATTCAACC 60.141 45.833 0.00 0.00 0.00 3.77
4162 5586 0.459759 CTCCGGACGAAACCTTAGCC 60.460 60.000 0.00 0.00 0.00 3.93
4181 5615 1.821061 CGCACTCCACTCACTTCCCT 61.821 60.000 0.00 0.00 0.00 4.20
4192 5626 4.020218 CACTCACTTCCCTCAGTATCCAAA 60.020 45.833 0.00 0.00 0.00 3.28
4212 5646 1.304217 TCCTCTCCGGCGAGTTTCT 60.304 57.895 19.70 0.00 37.40 2.52
4249 5683 2.192979 GCATTGGATCCGGCTCCA 59.807 61.111 23.10 23.10 43.62 3.86
4258 5697 0.179073 ATCCGGCTCCAAGATGTTCG 60.179 55.000 0.00 0.00 0.00 3.95
4267 5706 2.632996 TCCAAGATGTTCGGAGAACTGT 59.367 45.455 13.17 3.46 45.90 3.55
4269 5708 3.554960 CCAAGATGTTCGGAGAACTGTGA 60.555 47.826 13.17 0.00 45.90 3.58
4295 5734 2.125350 CTTGCAGTCCCGAGGAGC 60.125 66.667 0.00 0.00 29.39 4.70
4297 5736 2.249413 CTTGCAGTCCCGAGGAGCAT 62.249 60.000 7.39 0.00 33.86 3.79
4301 5740 1.332195 CAGTCCCGAGGAGCATATGA 58.668 55.000 6.97 0.00 29.39 2.15
4308 5759 0.039074 GAGGAGCATATGACCGTCCG 60.039 60.000 6.97 0.00 32.14 4.79
4339 5790 2.725312 GGAGTGCATCCTCCTGCGA 61.725 63.158 14.62 0.00 46.34 5.10
4371 5822 1.227383 GACGGGATTCCATTGGGCT 59.773 57.895 4.80 0.00 0.00 5.19
4372 5823 0.395724 GACGGGATTCCATTGGGCTT 60.396 55.000 4.80 0.00 0.00 4.35
4387 5838 2.040545 TGGGCTTTAGGATTCCGTTGAA 59.959 45.455 0.00 0.00 34.33 2.69
4404 5855 3.777106 TGAAGGAGTGTCATGAGCTTT 57.223 42.857 0.00 0.00 0.00 3.51
4407 5858 3.902881 AGGAGTGTCATGAGCTTTAGG 57.097 47.619 0.00 0.00 0.00 2.69
4469 5920 5.883685 TCAGAGTTGAAGATGGCAGATAT 57.116 39.130 0.00 0.00 0.00 1.63
4494 5945 1.002134 CAAGGTTGGCGATGAGGGT 60.002 57.895 0.00 0.00 0.00 4.34
4498 5949 1.450312 GTTGGCGATGAGGGTGAGG 60.450 63.158 0.00 0.00 0.00 3.86
4519 5970 2.447244 AAGCTTCGAGAGTGGTCTTG 57.553 50.000 0.00 0.00 35.67 3.02
4535 5986 4.780554 TGGTCTTGGTATCCACAACTATCA 59.219 41.667 0.00 0.00 30.78 2.15
4536 5987 5.249622 TGGTCTTGGTATCCACAACTATCAA 59.750 40.000 0.00 0.00 30.78 2.57
4549 6000 7.397476 TCCACAACTATCAACTTCTCTATCTGT 59.603 37.037 0.00 0.00 0.00 3.41
4550 6001 8.037758 CCACAACTATCAACTTCTCTATCTGTT 58.962 37.037 0.00 0.00 0.00 3.16
4588 6039 6.279882 CAAAAGGTGAGGTGAATAAGCAAAA 58.720 36.000 0.00 0.00 0.00 2.44
4594 6045 6.446318 GTGAGGTGAATAAGCAAAACATTCA 58.554 36.000 0.00 0.00 36.57 2.57
4623 6074 2.742372 CCGAGTTTCCTGGCGTGG 60.742 66.667 0.00 0.00 0.00 4.94
4653 6104 2.408271 TGCTAGGATGTGCTTTCTGG 57.592 50.000 0.00 0.00 0.00 3.86
4683 6134 0.165295 GGTCGGCGAGTACTTTTTGC 59.835 55.000 11.20 0.00 0.00 3.68
4691 6142 1.534163 GAGTACTTTTTGCGTCCACCC 59.466 52.381 0.00 0.00 0.00 4.61
4693 6144 2.369532 AGTACTTTTTGCGTCCACCCTA 59.630 45.455 0.00 0.00 0.00 3.53
4694 6145 1.892209 ACTTTTTGCGTCCACCCTAG 58.108 50.000 0.00 0.00 0.00 3.02
4695 6146 1.165270 CTTTTTGCGTCCACCCTAGG 58.835 55.000 0.06 0.06 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.434319 CGCTGCCTGCAAATCGGT 61.434 61.111 0.00 0.00 43.06 4.69
1 2 4.183686 CCGCTGCCTGCAAATCGG 62.184 66.667 11.03 11.03 43.06 4.18
2 3 2.198906 TTTCCGCTGCCTGCAAATCG 62.199 55.000 0.00 0.00 43.06 3.34
12 13 4.481112 CCGCCACATTTCCGCTGC 62.481 66.667 0.00 0.00 0.00 5.25
59 60 1.212490 CGCACCACATCGCCAAATT 59.788 52.632 0.00 0.00 0.00 1.82
62 63 4.321966 TCCGCACCACATCGCCAA 62.322 61.111 0.00 0.00 0.00 4.52
69 70 3.311110 GACTCCCTCCGCACCACA 61.311 66.667 0.00 0.00 0.00 4.17
84 85 2.432628 CGCGACCACCTCCTTGAC 60.433 66.667 0.00 0.00 0.00 3.18
85 86 4.373116 GCGCGACCACCTCCTTGA 62.373 66.667 12.10 0.00 0.00 3.02
156 159 4.879598 ACACCCTAGAAGTAAAACTGACG 58.120 43.478 0.00 0.00 0.00 4.35
168 171 8.792830 AATATACATCACCTAACACCCTAGAA 57.207 34.615 0.00 0.00 0.00 2.10
331 344 5.022122 TCATCTCTTGAGAGTTCCATCACT 58.978 41.667 7.82 0.00 42.60 3.41
345 358 7.149569 TCATTAGCTTTGGTTTCATCTCTTG 57.850 36.000 0.00 0.00 0.00 3.02
403 417 2.125106 CAAGCGGGGGAGTAGTGC 60.125 66.667 0.00 0.00 0.00 4.40
407 421 1.120530 GATCTTCAAGCGGGGGAGTA 58.879 55.000 0.00 0.00 0.00 2.59
434 448 1.934589 TCGAGGGTACGCAAATCATG 58.065 50.000 12.95 0.00 0.00 3.07
435 449 2.684001 TTCGAGGGTACGCAAATCAT 57.316 45.000 12.95 0.00 0.00 2.45
436 450 2.459060 TTTCGAGGGTACGCAAATCA 57.541 45.000 12.95 0.00 0.00 2.57
437 451 2.997986 TCTTTTCGAGGGTACGCAAATC 59.002 45.455 12.95 0.21 29.90 2.17
438 452 3.048337 TCTTTTCGAGGGTACGCAAAT 57.952 42.857 12.95 0.00 29.90 2.32
439 453 2.529780 TCTTTTCGAGGGTACGCAAA 57.470 45.000 12.95 1.40 0.00 3.68
440 454 2.529780 TTCTTTTCGAGGGTACGCAA 57.470 45.000 12.95 0.00 0.00 4.85
441 455 2.529780 TTTCTTTTCGAGGGTACGCA 57.470 45.000 12.95 0.00 0.00 5.24
442 456 3.495753 TCTTTTTCTTTTCGAGGGTACGC 59.504 43.478 0.77 0.77 0.00 4.42
443 457 5.407387 TGATCTTTTTCTTTTCGAGGGTACG 59.593 40.000 0.00 0.00 0.00 3.67
444 458 6.796705 TGATCTTTTTCTTTTCGAGGGTAC 57.203 37.500 0.00 0.00 0.00 3.34
445 459 6.128007 GCATGATCTTTTTCTTTTCGAGGGTA 60.128 38.462 0.00 0.00 0.00 3.69
446 460 5.335976 GCATGATCTTTTTCTTTTCGAGGGT 60.336 40.000 0.00 0.00 0.00 4.34
447 461 5.098211 GCATGATCTTTTTCTTTTCGAGGG 58.902 41.667 0.00 0.00 0.00 4.30
448 462 5.570589 GTGCATGATCTTTTTCTTTTCGAGG 59.429 40.000 0.00 0.00 0.00 4.63
449 463 5.282310 CGTGCATGATCTTTTTCTTTTCGAG 59.718 40.000 0.00 0.00 0.00 4.04
450 464 5.146460 CGTGCATGATCTTTTTCTTTTCGA 58.854 37.500 0.00 0.00 0.00 3.71
451 465 4.201428 GCGTGCATGATCTTTTTCTTTTCG 60.201 41.667 10.93 0.00 0.00 3.46
452 466 4.681025 TGCGTGCATGATCTTTTTCTTTTC 59.319 37.500 10.93 0.00 0.00 2.29
453 467 4.619973 TGCGTGCATGATCTTTTTCTTTT 58.380 34.783 10.93 0.00 0.00 2.27
454 468 4.241590 TGCGTGCATGATCTTTTTCTTT 57.758 36.364 10.93 0.00 0.00 2.52
455 469 3.921119 TGCGTGCATGATCTTTTTCTT 57.079 38.095 10.93 0.00 0.00 2.52
467 481 0.603439 TGTGTGAGTCATGCGTGCAT 60.603 50.000 0.51 0.51 37.08 3.96
468 482 1.223417 CTGTGTGAGTCATGCGTGCA 61.223 55.000 0.00 0.00 0.00 4.57
469 483 0.945743 TCTGTGTGAGTCATGCGTGC 60.946 55.000 0.00 0.00 0.00 5.34
470 484 0.786581 GTCTGTGTGAGTCATGCGTG 59.213 55.000 0.00 0.00 0.00 5.34
471 485 0.389025 TGTCTGTGTGAGTCATGCGT 59.611 50.000 0.00 0.00 0.00 5.24
472 486 1.718396 ATGTCTGTGTGAGTCATGCG 58.282 50.000 0.00 0.00 30.26 4.73
473 487 2.417933 GGAATGTCTGTGTGAGTCATGC 59.582 50.000 0.00 0.00 31.64 4.06
487 501 2.586357 GCCGCCTCGAGGAATGTC 60.586 66.667 35.69 15.61 37.39 3.06
600 618 0.528466 GCGAGAAGATGCCGTGATCA 60.528 55.000 0.00 0.00 0.00 2.92
633 651 3.838244 TGAAAGTGCCAGTAGTTGTCT 57.162 42.857 0.00 0.00 0.00 3.41
702 732 1.024046 GTCTGTGTGTGTGGTGTGCA 61.024 55.000 0.00 0.00 0.00 4.57
707 737 0.739462 CACGTGTCTGTGTGTGTGGT 60.739 55.000 7.58 0.00 35.12 4.16
709 739 1.428370 CCCACGTGTCTGTGTGTGTG 61.428 60.000 15.65 0.00 38.20 3.82
717 747 2.034879 GTGATGCCCCACGTGTCTG 61.035 63.158 15.65 3.27 0.00 3.51
718 748 2.347490 GTGATGCCCCACGTGTCT 59.653 61.111 15.65 0.00 0.00 3.41
744 774 1.620589 ATGGATGACCTGTGGGCCT 60.621 57.895 4.53 0.00 37.04 5.19
759 789 0.036010 ACTGAAGCGTGAAGGGATGG 60.036 55.000 0.00 0.00 0.00 3.51
763 793 1.738099 CGGACTGAAGCGTGAAGGG 60.738 63.158 0.00 0.00 0.00 3.95
766 796 2.204461 TCCCGGACTGAAGCGTGAA 61.204 57.895 0.73 0.00 0.00 3.18
997 1027 2.825387 GCACATCGCAGCCATGGA 60.825 61.111 18.40 0.00 41.79 3.41
1079 1109 1.374252 GGAAGCAAACCGAGCGAGA 60.374 57.895 0.00 0.00 37.01 4.04
1093 1123 1.600413 GCAACCGAAACTTGCAGGAAG 60.600 52.381 1.40 0.00 43.04 3.46
1372 1402 6.371278 AGCATGAGAAGAATTGGGTATGATT 58.629 36.000 0.00 0.00 0.00 2.57
1378 1408 5.305128 TCAAAAAGCATGAGAAGAATTGGGT 59.695 36.000 0.00 0.00 0.00 4.51
1710 2480 1.074727 TCCCCATTTCACACGGAACAT 59.925 47.619 0.00 0.00 34.56 2.71
1741 2511 5.424121 AAATACGCTGCTTAGCCAAATAG 57.576 39.130 0.29 0.00 0.00 1.73
1767 2539 6.381801 CCGCTTATTCAAGATTTGTGTTCTT 58.618 36.000 0.00 0.00 33.20 2.52
1768 2540 5.619981 GCCGCTTATTCAAGATTTGTGTTCT 60.620 40.000 0.00 0.00 33.20 3.01
1769 2541 4.558860 GCCGCTTATTCAAGATTTGTGTTC 59.441 41.667 0.00 0.00 33.20 3.18
1771 2543 3.119495 GGCCGCTTATTCAAGATTTGTGT 60.119 43.478 0.00 0.00 33.20 3.72
1772 2544 3.438360 GGCCGCTTATTCAAGATTTGTG 58.562 45.455 0.00 0.00 33.20 3.33
1774 2546 2.097466 ACGGCCGCTTATTCAAGATTTG 59.903 45.455 28.58 0.00 33.20 2.32
1775 2547 2.097466 CACGGCCGCTTATTCAAGATTT 59.903 45.455 28.58 0.00 33.20 2.17
1776 2548 1.670811 CACGGCCGCTTATTCAAGATT 59.329 47.619 28.58 0.00 33.20 2.40
1777 2549 1.299541 CACGGCCGCTTATTCAAGAT 58.700 50.000 28.58 0.00 33.20 2.40
1779 2551 0.802494 AACACGGCCGCTTATTCAAG 59.198 50.000 28.58 6.34 34.66 3.02
1790 2562 1.237285 AAGCTCACATGAACACGGCC 61.237 55.000 0.00 0.00 0.00 6.13
1932 2809 8.181573 TCACATGTTAAGAGTCAAGAAAACAAC 58.818 33.333 0.00 0.00 31.33 3.32
1953 2830 8.308931 ACAAGAACAGCAATCATTTATTCACAT 58.691 29.630 0.00 0.00 0.00 3.21
2173 3050 2.035961 TGCCACAGAGACAGTGTTACTC 59.964 50.000 0.00 0.00 35.24 2.59
2359 3236 2.794621 GGCTTAAGGCGCTGAAGC 59.205 61.111 24.02 24.02 43.92 3.86
2512 3389 7.060421 TGAATGGAAACCTAGTTTTCTCAGTT 58.940 34.615 11.95 3.40 35.77 3.16
2785 3733 4.627467 CCACAGCAAGAGTAAGATACACAC 59.373 45.833 0.00 0.00 0.00 3.82
2795 3743 4.546674 TCATAGATCCCACAGCAAGAGTA 58.453 43.478 0.00 0.00 0.00 2.59
2895 3845 7.827819 TGAGTACTTGACATTACTGCATTAC 57.172 36.000 0.00 0.00 0.00 1.89
2950 3906 4.991687 TCAACCTTTGTTTTTGTCAACACC 59.008 37.500 0.00 0.00 36.36 4.16
3037 4019 5.824624 GCATCATTCTCCTAATCTTGGACAA 59.175 40.000 0.00 0.00 0.00 3.18
3272 4262 1.189446 GCTGTAAACGATGATACGCCG 59.811 52.381 0.00 0.00 36.70 6.46
3297 4287 5.436175 CATATGGTTGGGTATCAGAACACA 58.564 41.667 0.00 0.00 0.00 3.72
3435 4640 7.500720 TTGTATGTCCATTGCTCTTGATATG 57.499 36.000 0.00 0.00 0.00 1.78
3451 4656 6.346096 TGCCCTACTGTCTTATTTGTATGTC 58.654 40.000 0.00 0.00 0.00 3.06
3460 4665 5.338953 GGTTAAGGTTGCCCTACTGTCTTAT 60.339 44.000 0.00 0.00 41.56 1.73
3545 4942 0.110486 AGAAACATGGCCGGTCAGTT 59.890 50.000 16.89 15.92 0.00 3.16
3557 4954 6.974622 GCAATTTCCATCGACATAAGAAACAT 59.025 34.615 0.00 0.00 29.89 2.71
3565 4962 4.511454 GCTGTAGCAATTTCCATCGACATA 59.489 41.667 0.00 0.00 41.59 2.29
3570 4967 2.938451 TCAGCTGTAGCAATTTCCATCG 59.062 45.455 14.67 0.00 45.16 3.84
3576 4973 3.262420 CGTACCTCAGCTGTAGCAATTT 58.738 45.455 14.67 0.00 45.16 1.82
3584 4981 4.436998 GCCGCGTACCTCAGCTGT 62.437 66.667 14.67 0.00 0.00 4.40
3713 5116 1.004560 TTGACAAGCAGCTCCGGAG 60.005 57.895 27.83 27.83 0.00 4.63
3714 5117 1.301716 GTTGACAAGCAGCTCCGGA 60.302 57.895 2.93 2.93 0.00 5.14
3715 5118 0.957395 ATGTTGACAAGCAGCTCCGG 60.957 55.000 0.00 0.00 0.00 5.14
3719 5122 4.212143 TCAGATATGTTGACAAGCAGCT 57.788 40.909 0.00 0.00 0.00 4.24
3725 5128 4.183865 CCTCGCTTCAGATATGTTGACAA 58.816 43.478 0.00 0.00 0.00 3.18
3728 5131 3.785486 CACCTCGCTTCAGATATGTTGA 58.215 45.455 0.00 0.00 0.00 3.18
3729 5132 2.286294 GCACCTCGCTTCAGATATGTTG 59.714 50.000 0.00 0.00 37.77 3.33
3796 5199 4.209538 CCAGGCAGACATCCATTATTTCA 58.790 43.478 0.00 0.00 0.00 2.69
3833 5236 9.581289 TTGATCCCAAAGTCTTTTTATTCACTA 57.419 29.630 0.00 0.00 0.00 2.74
3846 5249 5.028549 TCAGATAGCTTGATCCCAAAGTC 57.971 43.478 0.00 0.00 0.00 3.01
3847 5250 5.643421 ATCAGATAGCTTGATCCCAAAGT 57.357 39.130 0.00 0.00 0.00 2.66
3911 5316 9.846248 GATGCTCTAAGACACAAAATTAACAAT 57.154 29.630 0.00 0.00 0.00 2.71
3912 5317 9.066892 AGATGCTCTAAGACACAAAATTAACAA 57.933 29.630 0.00 0.00 0.00 2.83
3913 5318 8.621532 AGATGCTCTAAGACACAAAATTAACA 57.378 30.769 0.00 0.00 0.00 2.41
3914 5319 9.974750 GTAGATGCTCTAAGACACAAAATTAAC 57.025 33.333 0.00 0.00 29.58 2.01
3918 5323 7.119846 GGTTGTAGATGCTCTAAGACACAAAAT 59.880 37.037 0.00 0.00 29.58 1.82
3928 5333 2.429610 GGTCCGGTTGTAGATGCTCTAA 59.570 50.000 0.00 0.00 29.58 2.10
3970 5377 2.667199 GTGCTGCCCGGTAAACGT 60.667 61.111 0.00 0.00 42.24 3.99
3973 5380 1.333177 ATTTTGTGCTGCCCGGTAAA 58.667 45.000 0.00 0.00 0.00 2.01
3974 5381 1.000283 CAATTTTGTGCTGCCCGGTAA 60.000 47.619 0.00 0.00 0.00 2.85
3975 5382 0.600557 CAATTTTGTGCTGCCCGGTA 59.399 50.000 0.00 0.00 0.00 4.02
3976 5383 1.367102 CAATTTTGTGCTGCCCGGT 59.633 52.632 0.00 0.00 0.00 5.28
3977 5384 2.028733 GCAATTTTGTGCTGCCCGG 61.029 57.895 0.00 0.00 41.51 5.73
3979 5386 1.229975 GGTGCAATTTTGTGCTGCCC 61.230 55.000 0.00 0.00 45.17 5.36
3980 5387 1.229975 GGGTGCAATTTTGTGCTGCC 61.230 55.000 0.00 1.50 45.17 4.85
3982 5389 0.106335 TGGGGTGCAATTTTGTGCTG 59.894 50.000 0.00 0.00 45.17 4.41
3983 5390 0.835941 TTGGGGTGCAATTTTGTGCT 59.164 45.000 0.00 0.00 45.17 4.40
3984 5391 0.943673 GTTGGGGTGCAATTTTGTGC 59.056 50.000 0.00 0.00 45.15 4.57
3996 5413 4.360405 GCCATGTCCGGTTGGGGT 62.360 66.667 18.21 0.00 36.01 4.95
3997 5414 3.877344 TTGCCATGTCCGGTTGGGG 62.877 63.158 18.21 10.64 36.01 4.96
4020 5437 3.555168 CGGTTAGTCTAGATGATTGGGCC 60.555 52.174 0.00 0.00 0.00 5.80
4027 5444 2.336945 TCGCCGGTTAGTCTAGATGA 57.663 50.000 1.90 0.00 0.00 2.92
4030 5447 2.219458 CAGATCGCCGGTTAGTCTAGA 58.781 52.381 1.90 0.00 0.00 2.43
4031 5448 1.267261 CCAGATCGCCGGTTAGTCTAG 59.733 57.143 1.90 0.00 0.00 2.43
4032 5449 1.315690 CCAGATCGCCGGTTAGTCTA 58.684 55.000 1.90 0.00 0.00 2.59
4033 5450 1.392710 CCCAGATCGCCGGTTAGTCT 61.393 60.000 1.90 0.00 0.00 3.24
4038 5455 4.096003 CACCCCAGATCGCCGGTT 62.096 66.667 1.90 0.00 0.00 4.44
4045 5462 0.995024 CCCCATATCCACCCCAGATC 59.005 60.000 0.00 0.00 0.00 2.75
4047 5464 0.577916 ATCCCCATATCCACCCCAGA 59.422 55.000 0.00 0.00 0.00 3.86
4048 5465 0.700564 CATCCCCATATCCACCCCAG 59.299 60.000 0.00 0.00 0.00 4.45
4049 5466 1.434513 GCATCCCCATATCCACCCCA 61.435 60.000 0.00 0.00 0.00 4.96
4050 5467 1.384191 GCATCCCCATATCCACCCC 59.616 63.158 0.00 0.00 0.00 4.95
4051 5468 1.142688 AGGCATCCCCATATCCACCC 61.143 60.000 0.00 0.00 35.39 4.61
4052 5469 0.038744 CAGGCATCCCCATATCCACC 59.961 60.000 0.00 0.00 35.39 4.61
4053 5470 0.038744 CCAGGCATCCCCATATCCAC 59.961 60.000 0.00 0.00 35.39 4.02
4054 5471 0.103983 TCCAGGCATCCCCATATCCA 60.104 55.000 0.00 0.00 35.39 3.41
4055 5472 0.329596 GTCCAGGCATCCCCATATCC 59.670 60.000 0.00 0.00 35.39 2.59
4056 5473 0.036010 CGTCCAGGCATCCCCATATC 60.036 60.000 0.00 0.00 35.39 1.63
4089 5513 1.601171 GCCACAGTGAGCTGGATCT 59.399 57.895 0.62 0.00 46.62 2.75
4093 5517 3.957586 TGGGCCACAGTGAGCTGG 61.958 66.667 0.00 0.00 46.62 4.85
4095 5519 3.958860 GGTGGGCCACAGTGAGCT 61.959 66.667 35.69 0.00 35.86 4.09
4098 5522 2.447572 TCAGGTGGGCCACAGTGA 60.448 61.111 35.69 31.38 35.86 3.41
4111 5535 4.398319 GGTTGAATATATGTGGGGTCAGG 58.602 47.826 0.00 0.00 0.00 3.86
4113 5537 4.051478 AGGGTTGAATATATGTGGGGTCA 58.949 43.478 0.00 0.00 0.00 4.02
4116 5540 5.629133 CGGATAGGGTTGAATATATGTGGGG 60.629 48.000 0.00 0.00 0.00 4.96
4133 5557 2.728817 GTCCGGAGTGCGGATAGG 59.271 66.667 29.17 0.00 37.88 2.57
4162 5586 1.374758 GGGAAGTGAGTGGAGTGCG 60.375 63.158 0.00 0.00 0.00 5.34
4181 5615 3.024547 CGGAGAGGAGTTTGGATACTGA 58.975 50.000 0.00 0.00 37.61 3.41
4192 5626 1.596895 GAAACTCGCCGGAGAGGAGT 61.597 60.000 34.27 22.15 43.27 3.85
4249 5683 3.862642 GCTCACAGTTCTCCGAACATCTT 60.863 47.826 9.16 0.00 0.00 2.40
4258 5697 1.134551 GGGATGAGCTCACAGTTCTCC 60.135 57.143 20.97 19.99 0.00 3.71
4262 5701 1.612726 GCAAGGGATGAGCTCACAGTT 60.613 52.381 20.97 2.05 0.00 3.16
4267 5706 0.251354 GACTGCAAGGGATGAGCTCA 59.749 55.000 20.79 20.79 39.30 4.26
4269 5708 1.606531 GGACTGCAAGGGATGAGCT 59.393 57.895 0.00 0.00 39.30 4.09
4295 5734 3.917870 GCGTCGGACGGTCATATG 58.082 61.111 29.30 0.00 42.82 1.78
4327 5778 2.686235 GATGAAGATCGCAGGAGGATG 58.314 52.381 0.00 0.00 0.00 3.51
4328 5779 1.271934 CGATGAAGATCGCAGGAGGAT 59.728 52.381 0.00 0.00 44.75 3.24
4339 5790 0.598562 CCCGTCGGATCGATGAAGAT 59.401 55.000 14.39 0.00 44.49 2.40
4354 5805 0.041090 AAAGCCCAATGGAATCCCGT 59.959 50.000 0.00 0.00 34.29 5.28
4355 5806 1.956477 CTAAAGCCCAATGGAATCCCG 59.044 52.381 0.00 0.00 34.29 5.14
4371 5822 4.041198 ACACTCCTTCAACGGAATCCTAAA 59.959 41.667 0.00 0.00 31.44 1.85
4372 5823 3.581332 ACACTCCTTCAACGGAATCCTAA 59.419 43.478 0.00 0.00 31.44 2.69
4387 5838 2.093235 GCCTAAAGCTCATGACACTCCT 60.093 50.000 0.00 0.00 38.99 3.69
4407 5858 3.303329 GCAAACAAAAGGCTTAAAGCAGC 60.303 43.478 0.00 0.00 44.75 5.25
4409 5860 2.863137 CGCAAACAAAAGGCTTAAAGCA 59.137 40.909 0.00 0.00 44.75 3.91
4417 5868 1.258720 CTTGAAGCGCAAACAAAAGGC 59.741 47.619 11.47 0.00 35.74 4.35
4469 5920 0.984230 ATCGCCAACCTTGAGGAGAA 59.016 50.000 3.59 0.00 37.27 2.87
4494 5945 1.273606 CCACTCTCGAAGCTTTCCTCA 59.726 52.381 0.00 0.00 0.00 3.86
4498 5949 2.734079 CAAGACCACTCTCGAAGCTTTC 59.266 50.000 0.00 0.00 0.00 2.62
4519 5970 6.879400 AGAGAAGTTGATAGTTGTGGATACC 58.121 40.000 0.00 0.00 0.00 2.73
4549 6000 7.048629 TCACCTTTTGCATGAACATCTTAAA 57.951 32.000 0.00 0.00 0.00 1.52
4550 6001 6.294675 CCTCACCTTTTGCATGAACATCTTAA 60.295 38.462 0.00 0.00 0.00 1.85
4556 6007 2.361757 CACCTCACCTTTTGCATGAACA 59.638 45.455 0.00 0.00 0.00 3.18
4559 6010 2.655090 TCACCTCACCTTTTGCATGA 57.345 45.000 0.00 0.00 0.00 3.07
4562 6013 3.255642 GCTTATTCACCTCACCTTTTGCA 59.744 43.478 0.00 0.00 0.00 4.08
4588 6039 2.039216 TCGGGGTACAACATGTGAATGT 59.961 45.455 0.00 2.58 36.10 2.71
4594 6045 2.551504 GGAAACTCGGGGTACAACATGT 60.552 50.000 0.00 0.00 0.00 3.21
4606 6057 2.742372 CCACGCCAGGAAACTCGG 60.742 66.667 0.00 0.00 40.21 4.63
4623 6074 5.098211 GCACATCCTAGCAAAATTGAAGAC 58.902 41.667 0.00 0.00 0.00 3.01
4653 6104 2.126031 GCCGACCCTGACGTCTTC 60.126 66.667 17.92 7.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.