Multiple sequence alignment - TraesCS2D01G484600

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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 TraesCS2D01G484600 chr2D 100.000 4577 0 0 1 4577 585678747 585683323 0.000000e+00 8453.0
1 TraesCS2D01G484600 chr2D 82.216 731 59 37 643 1355 619711928 619711251 8.600000e-157 564.0
2 TraesCS2D01G484600 chr2D 83.168 606 63 19 1507 2103 619711124 619710549 6.790000e-143 518.0
3 TraesCS2D01G484600 chr2D 74.386 1343 153 112 3107 4332 619709697 619708429 9.230000e-107 398.0
4 TraesCS2D01G484600 chr2D 76.739 460 59 34 2323 2753 619710452 619710012 3.590000e-51 213.0
5 TraesCS2D01G484600 chr2D 93.939 99 5 1 3005 3103 619709837 619709740 1.030000e-31 148.0
6 TraesCS2D01G484600 chr2D 97.917 48 0 1 495 541 585679194 585679241 1.060000e-11 82.4
7 TraesCS2D01G484600 chr2D 97.917 48 0 1 448 495 585679241 585679287 1.060000e-11 82.4
8 TraesCS2D01G484600 chr2B 92.614 2031 75 32 2546 4530 706725936 706727937 0.000000e+00 2850.0
9 TraesCS2D01G484600 chr2B 93.286 1564 57 16 561 2119 706724080 706725600 0.000000e+00 2263.0
10 TraesCS2D01G484600 chr2B 94.350 354 16 2 2 351 706723402 706723755 1.450000e-149 540.0
11 TraesCS2D01G484600 chr2B 82.702 607 65 20 1507 2103 759450060 759449484 1.900000e-138 503.0
12 TraesCS2D01G484600 chr2B 80.893 717 61 36 661 1355 759450849 759450187 3.180000e-136 496.0
13 TraesCS2D01G484600 chr2B 90.560 339 13 12 2231 2560 706725597 706725925 9.100000e-117 431.0
14 TraesCS2D01G484600 chr2B 80.271 517 54 23 3107 3584 759448629 759448122 3.390000e-91 346.0
15 TraesCS2D01G484600 chr2B 76.606 607 69 45 3725 4306 759447951 759447393 2.710000e-67 267.0
16 TraesCS2D01G484600 chr2B 97.479 119 3 0 2118 2236 349929132 349929014 2.160000e-48 204.0
17 TraesCS2D01G484600 chr2B 93.939 99 5 1 3005 3103 759448763 759448666 1.030000e-31 148.0
18 TraesCS2D01G484600 chr2B 83.636 165 15 8 2596 2753 759449094 759448935 1.330000e-30 145.0
19 TraesCS2D01G484600 chr2B 93.671 79 5 0 415 493 706723771 706723849 8.040000e-23 119.0
20 TraesCS2D01G484600 chr2A 93.447 1816 68 21 2253 4045 719722176 719723963 0.000000e+00 2647.0
21 TraesCS2D01G484600 chr2A 92.436 1613 60 17 495 2106 719720624 719722175 0.000000e+00 2246.0
22 TraesCS2D01G484600 chr2A 90.101 495 25 6 2 495 719720200 719720671 5.030000e-174 621.0
23 TraesCS2D01G484600 chr2A 80.341 763 65 41 618 1355 751384034 751383332 2.460000e-137 499.0
24 TraesCS2D01G484600 chr2A 81.683 606 70 21 1508 2102 751383201 751382626 2.490000e-127 466.0
25 TraesCS2D01G484600 chr2A 75.540 1251 143 93 3180 4332 751381710 751380525 8.970000e-127 464.0
26 TraesCS2D01G484600 chr2A 96.350 274 10 0 4103 4376 719724297 719724570 6.980000e-123 451.0
27 TraesCS2D01G484600 chr2A 91.489 188 4 1 4402 4577 719724568 719724755 9.830000e-62 248.0
28 TraesCS2D01G484600 chr2A 76.524 443 61 34 2330 2753 751382516 751382098 7.760000e-48 202.0
29 TraesCS2D01G484600 chr2A 92.929 99 6 1 3005 3103 751381923 751381826 4.770000e-30 143.0
30 TraesCS2D01G484600 chr2A 98.000 50 1 0 4052 4101 719724225 719724274 2.270000e-13 87.9
31 TraesCS2D01G484600 chr3D 97.436 117 3 0 2118 2234 337959509 337959625 2.790000e-47 200.0
32 TraesCS2D01G484600 chr3D 96.639 119 4 0 2116 2234 607000656 607000538 1.000000e-46 198.0
33 TraesCS2D01G484600 chr5D 93.893 131 8 0 2106 2236 363303577 363303707 1.000000e-46 198.0
34 TraesCS2D01G484600 chr5D 81.818 99 14 3 322 420 196857665 196857571 3.800000e-11 80.5
35 TraesCS2D01G484600 chr1A 95.200 125 5 1 2110 2234 266770373 266770496 3.610000e-46 196.0
36 TraesCS2D01G484600 chr1A 92.029 138 8 3 2118 2252 23099107 23098970 1.680000e-44 191.0
37 TraesCS2D01G484600 chr6A 91.971 137 8 3 2100 2234 448220927 448220792 6.040000e-44 189.0
38 TraesCS2D01G484600 chr6A 91.241 137 10 2 2100 2236 432877793 432877659 7.820000e-43 185.0
39 TraesCS2D01G484600 chr6A 81.522 92 13 1 325 416 7323644 7323731 6.350000e-09 73.1
40 TraesCS2D01G484600 chr6A 80.412 97 14 4 324 420 534926044 534925953 8.220000e-08 69.4
41 TraesCS2D01G484600 chr4D 95.726 117 5 0 2118 2234 507908136 507908252 6.040000e-44 189.0
42 TraesCS2D01G484600 chr1B 83.146 89 9 2 328 416 123988524 123988442 4.910000e-10 76.8
43 TraesCS2D01G484600 chr7D 100.000 29 0 0 324 352 47438534 47438562 2.000000e-03 54.7
44 TraesCS2D01G484600 chr3B 100.000 29 0 0 323 351 806152941 806152969 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 TraesCS2D01G484600 chr2D 585678747 585683323 4576 False 8453.00 8453 100.000000 1 4577 1 chr2D.!!$F1 4576
1 TraesCS2D01G484600 chr2D 619708429 619711928 3499 True 368.20 564 82.089600 643 4332 5 chr2D.!!$R1 3689
2 TraesCS2D01G484600 chr2B 706723402 706727937 4535 False 1240.60 2850 92.896200 2 4530 5 chr2B.!!$F1 4528
3 TraesCS2D01G484600 chr2B 759447393 759450849 3456 True 317.50 503 83.007833 661 4306 6 chr2B.!!$R2 3645
4 TraesCS2D01G484600 chr2A 719720200 719724755 4555 False 1050.15 2647 93.637167 2 4577 6 chr2A.!!$F1 4575
5 TraesCS2D01G484600 chr2A 751380525 751384034 3509 True 354.80 499 81.403400 618 4332 5 chr2A.!!$R1 3714

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
718 933 0.321564 TACCAAGCTGACGCAATGCT 60.322 50.0 2.94 0.0 39.10 3.79 F
907 1132 0.398318 AAGCACTCACCACTCCCTTC 59.602 55.0 0.00 0.0 0.00 3.46 F
2134 2401 0.702902 AGTACTCCCTCCGTCTGGAA 59.297 55.0 0.00 0.0 45.87 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2211 2478 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.0 5.23 0.00 44.66 2.12 R
2213 2480 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.0 5.23 0.00 44.66 1.40 R
3622 4252 0.108329 ATCGATCAAGGAACGCCGTT 60.108 50.0 0.16 0.16 39.96 4.44 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
205 209 4.946784 ATATTGGTCAAAGTTGCTCGAC 57.053 40.909 0.00 0.00 0.00 4.20
265 269 2.637872 TGGAACAAAGGGACTAGGTCTG 59.362 50.000 0.00 0.00 38.49 3.51
305 310 2.224606 AGGATCATAAAGCATGCACGG 58.775 47.619 21.98 4.49 34.35 4.94
331 336 7.122204 GCAAAACCCTAAGACCATAATGTACTT 59.878 37.037 0.00 0.00 0.00 2.24
351 356 7.676893 TGTACTTCCTCCGTCCCATAATATAAT 59.323 37.037 0.00 0.00 0.00 1.28
352 357 7.569599 ACTTCCTCCGTCCCATAATATAATT 57.430 36.000 0.00 0.00 0.00 1.40
353 358 8.674925 ACTTCCTCCGTCCCATAATATAATTA 57.325 34.615 0.00 0.00 0.00 1.40
354 359 9.108111 ACTTCCTCCGTCCCATAATATAATTAA 57.892 33.333 0.00 0.00 0.00 1.40
355 360 9.601217 CTTCCTCCGTCCCATAATATAATTAAG 57.399 37.037 0.00 0.00 0.00 1.85
356 361 8.904648 TCCTCCGTCCCATAATATAATTAAGA 57.095 34.615 0.00 0.00 0.00 2.10
357 362 8.978472 TCCTCCGTCCCATAATATAATTAAGAG 58.022 37.037 0.00 0.00 0.00 2.85
358 363 7.711339 CCTCCGTCCCATAATATAATTAAGAGC 59.289 40.741 0.00 0.00 0.00 4.09
359 364 7.562135 TCCGTCCCATAATATAATTAAGAGCC 58.438 38.462 0.00 0.00 0.00 4.70
393 398 5.931441 AGTGTAGTGTCAAAAATGCTCTC 57.069 39.130 0.00 0.00 0.00 3.20
403 408 8.623903 GTGTCAAAAATGCTCTCATATTATGGA 58.376 33.333 3.89 0.44 31.46 3.41
406 411 9.187996 TCAAAAATGCTCTCATATTATGGAACA 57.812 29.630 3.89 3.19 35.63 3.18
409 414 8.618702 AAATGCTCTCATATTATGGAACAGAG 57.381 34.615 12.51 12.51 34.85 3.35
424 429 5.141910 GGAACAGAGGGAGTAGCTTACTAT 58.858 45.833 0.00 0.00 39.59 2.12
461 466 8.443937 AGACAATCGAGTTAAAGAAATTACAGC 58.556 33.333 0.00 0.00 0.00 4.40
462 467 7.527457 ACAATCGAGTTAAAGAAATTACAGCC 58.473 34.615 0.00 0.00 0.00 4.85
463 468 6.679327 ATCGAGTTAAAGAAATTACAGCCC 57.321 37.500 0.00 0.00 0.00 5.19
464 469 5.553123 TCGAGTTAAAGAAATTACAGCCCA 58.447 37.500 0.00 0.00 0.00 5.36
465 470 5.998981 TCGAGTTAAAGAAATTACAGCCCAA 59.001 36.000 0.00 0.00 0.00 4.12
466 471 6.148811 TCGAGTTAAAGAAATTACAGCCCAAG 59.851 38.462 0.00 0.00 0.00 3.61
467 472 6.072673 CGAGTTAAAGAAATTACAGCCCAAGT 60.073 38.462 0.00 0.00 0.00 3.16
468 473 7.118680 CGAGTTAAAGAAATTACAGCCCAAGTA 59.881 37.037 0.00 0.00 0.00 2.24
469 474 8.336801 AGTTAAAGAAATTACAGCCCAAGTAG 57.663 34.615 0.00 0.00 0.00 2.57
470 475 7.942894 AGTTAAAGAAATTACAGCCCAAGTAGT 59.057 33.333 0.00 0.00 0.00 2.73
471 476 6.575162 AAAGAAATTACAGCCCAAGTAGTG 57.425 37.500 0.00 0.00 0.00 2.74
472 477 4.010349 AGAAATTACAGCCCAAGTAGTGC 58.990 43.478 0.00 0.00 0.00 4.40
473 478 3.433306 AATTACAGCCCAAGTAGTGCA 57.567 42.857 0.00 0.00 0.00 4.57
474 479 2.472695 TTACAGCCCAAGTAGTGCAG 57.527 50.000 0.00 0.00 0.00 4.41
475 480 1.348064 TACAGCCCAAGTAGTGCAGT 58.652 50.000 0.00 0.00 0.00 4.40
476 481 0.474184 ACAGCCCAAGTAGTGCAGTT 59.526 50.000 0.00 0.00 0.00 3.16
477 482 0.877071 CAGCCCAAGTAGTGCAGTTG 59.123 55.000 0.00 0.00 37.33 3.16
478 483 0.890996 AGCCCAAGTAGTGCAGTTGC 60.891 55.000 0.00 0.00 36.40 4.17
479 484 0.890996 GCCCAAGTAGTGCAGTTGCT 60.891 55.000 0.00 0.00 42.66 3.91
480 485 1.160137 CCCAAGTAGTGCAGTTGCTC 58.840 55.000 0.00 1.78 42.66 4.26
481 486 1.271054 CCCAAGTAGTGCAGTTGCTCT 60.271 52.381 12.61 12.61 45.49 4.09
482 487 2.498167 CCAAGTAGTGCAGTTGCTCTT 58.502 47.619 13.15 6.38 41.50 2.85
483 488 2.481952 CCAAGTAGTGCAGTTGCTCTTC 59.518 50.000 13.15 8.88 41.50 2.87
484 489 3.133691 CAAGTAGTGCAGTTGCTCTTCA 58.866 45.455 13.15 0.00 41.50 3.02
485 490 3.692257 AGTAGTGCAGTTGCTCTTCAT 57.308 42.857 13.15 0.00 41.50 2.57
486 491 4.013267 AGTAGTGCAGTTGCTCTTCATT 57.987 40.909 13.15 0.00 41.50 2.57
487 492 3.750130 AGTAGTGCAGTTGCTCTTCATTG 59.250 43.478 13.15 0.00 41.50 2.82
488 493 2.579873 AGTGCAGTTGCTCTTCATTGT 58.420 42.857 5.62 0.00 41.50 2.71
489 494 3.743521 AGTGCAGTTGCTCTTCATTGTA 58.256 40.909 5.62 0.00 41.50 2.41
490 495 4.136796 AGTGCAGTTGCTCTTCATTGTAA 58.863 39.130 5.62 0.00 41.50 2.41
491 496 4.763793 AGTGCAGTTGCTCTTCATTGTAAT 59.236 37.500 5.62 0.00 41.50 1.89
492 497 5.242393 AGTGCAGTTGCTCTTCATTGTAATT 59.758 36.000 5.62 0.00 41.50 1.40
493 498 5.570589 GTGCAGTTGCTCTTCATTGTAATTC 59.429 40.000 5.62 0.00 42.66 2.17
494 499 5.474532 TGCAGTTGCTCTTCATTGTAATTCT 59.525 36.000 5.62 0.00 42.66 2.40
495 500 6.654582 TGCAGTTGCTCTTCATTGTAATTCTA 59.345 34.615 5.62 0.00 42.66 2.10
496 501 7.174772 TGCAGTTGCTCTTCATTGTAATTCTAA 59.825 33.333 5.62 0.00 42.66 2.10
497 502 8.023128 GCAGTTGCTCTTCATTGTAATTCTAAA 58.977 33.333 0.00 0.00 38.21 1.85
498 503 9.897744 CAGTTGCTCTTCATTGTAATTCTAAAA 57.102 29.630 0.00 0.00 0.00 1.52
546 551 4.870426 GCTCTTCATTGTAATTCTGGTCGA 59.130 41.667 0.00 0.00 0.00 4.20
558 563 4.963276 TTCTGGTCGATTAATGGCTTTG 57.037 40.909 0.00 0.00 0.00 2.77
581 795 3.882888 TCAATTCAAAGACTTGGCTCGTT 59.117 39.130 0.00 0.00 33.01 3.85
718 933 0.321564 TACCAAGCTGACGCAATGCT 60.322 50.000 2.94 0.00 39.10 3.79
907 1132 0.398318 AAGCACTCACCACTCCCTTC 59.602 55.000 0.00 0.00 0.00 3.46
939 1164 0.746063 CTTGCATCTCGCTCCTCTCT 59.254 55.000 0.00 0.00 43.06 3.10
979 1207 4.038080 CAAGAAACGGGGCGGCAC 62.038 66.667 12.47 6.09 0.00 5.01
1147 1378 2.357517 AGCTCGCAGGGTTCAACG 60.358 61.111 0.00 0.00 0.00 4.10
1328 1565 1.653151 GGCTTCACCGACTGGAATAC 58.347 55.000 0.00 0.00 39.21 1.89
1390 1631 3.562176 CCCTTTGCTGGATCAGTTTACCT 60.562 47.826 0.00 0.00 33.43 3.08
1403 1652 5.710984 TCAGTTTACCTTTCGTGATCTCTC 58.289 41.667 0.00 0.00 0.00 3.20
1405 1654 6.657966 TCAGTTTACCTTTCGTGATCTCTCTA 59.342 38.462 0.00 0.00 0.00 2.43
1407 1656 7.646130 CAGTTTACCTTTCGTGATCTCTCTATC 59.354 40.741 0.00 0.00 0.00 2.08
1408 1657 7.339721 AGTTTACCTTTCGTGATCTCTCTATCA 59.660 37.037 0.00 0.00 33.48 2.15
1409 1658 7.825331 TTACCTTTCGTGATCTCTCTATCAT 57.175 36.000 0.00 0.00 38.13 2.45
1410 1659 6.723298 ACCTTTCGTGATCTCTCTATCATT 57.277 37.500 0.00 0.00 38.13 2.57
1411 1660 6.744112 ACCTTTCGTGATCTCTCTATCATTC 58.256 40.000 0.00 0.00 38.13 2.67
1454 1704 6.183361 GCATGGGGATGATGATGATAGATACT 60.183 42.308 0.00 0.00 0.00 2.12
1490 1740 4.526650 TGCATACATATGTACTCCCGTGAT 59.473 41.667 17.69 0.00 36.11 3.06
1492 1742 6.034591 GCATACATATGTACTCCCGTGATAC 58.965 44.000 17.69 0.00 36.11 2.24
1493 1743 6.561614 CATACATATGTACTCCCGTGATACC 58.438 44.000 17.69 0.00 32.72 2.73
1494 1744 4.476297 ACATATGTACTCCCGTGATACCA 58.524 43.478 6.56 0.00 0.00 3.25
1496 1746 5.364446 ACATATGTACTCCCGTGATACCAAA 59.636 40.000 6.56 0.00 0.00 3.28
1497 1747 4.829872 ATGTACTCCCGTGATACCAAAA 57.170 40.909 0.00 0.00 0.00 2.44
1498 1748 4.829872 TGTACTCCCGTGATACCAAAAT 57.170 40.909 0.00 0.00 0.00 1.82
1499 1749 5.168647 TGTACTCCCGTGATACCAAAATT 57.831 39.130 0.00 0.00 0.00 1.82
1500 1750 4.938832 TGTACTCCCGTGATACCAAAATTG 59.061 41.667 0.00 0.00 0.00 2.32
1502 1752 4.855340 ACTCCCGTGATACCAAAATTGAT 58.145 39.130 0.00 0.00 0.00 2.57
1503 1753 5.261216 ACTCCCGTGATACCAAAATTGATT 58.739 37.500 0.00 0.00 0.00 2.57
1504 1754 6.419791 ACTCCCGTGATACCAAAATTGATTA 58.580 36.000 0.00 0.00 0.00 1.75
1505 1755 6.317893 ACTCCCGTGATACCAAAATTGATTAC 59.682 38.462 0.00 0.00 0.00 1.89
1540 1790 4.705337 TCTATGTGTATGTGCGTGTGTA 57.295 40.909 0.00 0.00 0.00 2.90
1712 1962 2.987547 CTGCAAGGCCACCACCAG 60.988 66.667 5.01 0.00 0.00 4.00
1715 1965 2.987547 CAAGGCCACCACCAGCAG 60.988 66.667 5.01 0.00 0.00 4.24
1721 1971 2.675423 CACCACCAGCAGCAGCAT 60.675 61.111 3.17 0.00 45.49 3.79
1796 2052 3.385384 CCCGAGCTGCTCCTGTCA 61.385 66.667 22.97 0.00 0.00 3.58
2048 2310 1.069935 TGCGGTGAAACGACCATCA 59.930 52.632 0.00 0.00 38.12 3.07
2108 2375 4.669318 GCTTGTGCTAGTGATTACTCGTA 58.331 43.478 0.00 0.00 38.36 3.43
2109 2376 4.499758 GCTTGTGCTAGTGATTACTCGTAC 59.500 45.833 0.00 0.00 38.36 3.67
2110 2377 5.676584 GCTTGTGCTAGTGATTACTCGTACT 60.677 44.000 10.63 0.00 36.58 2.73
2111 2378 6.457934 GCTTGTGCTAGTGATTACTCGTACTA 60.458 42.308 10.63 3.96 36.58 1.82
2112 2379 6.600246 TGTGCTAGTGATTACTCGTACTAG 57.400 41.667 10.63 0.00 43.32 2.57
2119 2386 9.128107 CTAGTGATTACTCGTACTAGCTAGTAC 57.872 40.741 37.89 37.89 44.14 2.73
2127 2394 2.934886 ACTAGCTAGTACTCCCTCCG 57.065 55.000 24.97 0.00 34.13 4.63
2128 2395 2.126057 ACTAGCTAGTACTCCCTCCGT 58.874 52.381 24.97 0.00 34.13 4.69
2131 2398 1.134037 AGCTAGTACTCCCTCCGTCTG 60.134 57.143 0.00 0.00 0.00 3.51
2132 2399 1.970092 CTAGTACTCCCTCCGTCTGG 58.030 60.000 0.00 0.00 0.00 3.86
2133 2400 1.489649 CTAGTACTCCCTCCGTCTGGA 59.510 57.143 0.00 0.00 43.88 3.86
2134 2401 0.702902 AGTACTCCCTCCGTCTGGAA 59.297 55.000 0.00 0.00 45.87 3.53
2135 2402 1.076677 AGTACTCCCTCCGTCTGGAAA 59.923 52.381 0.00 0.00 45.87 3.13
2136 2403 2.108970 GTACTCCCTCCGTCTGGAAAT 58.891 52.381 0.00 0.00 45.87 2.17
2137 2404 2.544844 ACTCCCTCCGTCTGGAAATA 57.455 50.000 0.00 0.00 45.87 1.40
2138 2405 2.108970 ACTCCCTCCGTCTGGAAATAC 58.891 52.381 0.00 0.00 45.87 1.89
2139 2406 2.292323 ACTCCCTCCGTCTGGAAATACT 60.292 50.000 0.00 0.00 45.87 2.12
2140 2407 2.766828 CTCCCTCCGTCTGGAAATACTT 59.233 50.000 0.00 0.00 45.87 2.24
2141 2408 2.500098 TCCCTCCGTCTGGAAATACTTG 59.500 50.000 0.00 0.00 45.87 3.16
2142 2409 2.236395 CCCTCCGTCTGGAAATACTTGT 59.764 50.000 0.00 0.00 45.87 3.16
2143 2410 3.522553 CCTCCGTCTGGAAATACTTGTC 58.477 50.000 0.00 0.00 45.87 3.18
2144 2411 3.522553 CTCCGTCTGGAAATACTTGTCC 58.477 50.000 0.00 0.00 45.87 4.02
2145 2412 2.094390 TCCGTCTGGAAATACTTGTCCG 60.094 50.000 0.00 0.00 42.85 4.79
2146 2413 2.094390 CCGTCTGGAAATACTTGTCCGA 60.094 50.000 0.00 0.00 36.65 4.55
2147 2414 3.179830 CGTCTGGAAATACTTGTCCGAG 58.820 50.000 0.00 0.00 36.65 4.63
2148 2415 3.522553 GTCTGGAAATACTTGTCCGAGG 58.477 50.000 0.00 0.00 36.65 4.63
2149 2416 3.194968 GTCTGGAAATACTTGTCCGAGGA 59.805 47.826 0.00 0.00 36.65 3.71
2150 2417 3.835978 TCTGGAAATACTTGTCCGAGGAA 59.164 43.478 0.00 0.00 36.65 3.36
2151 2418 4.469945 TCTGGAAATACTTGTCCGAGGAAT 59.530 41.667 0.00 0.00 36.65 3.01
2152 2419 4.513442 TGGAAATACTTGTCCGAGGAATG 58.487 43.478 0.00 0.00 36.65 2.67
2153 2420 3.877508 GGAAATACTTGTCCGAGGAATGG 59.122 47.826 0.00 0.00 0.00 3.16
2154 2421 4.383770 GGAAATACTTGTCCGAGGAATGGA 60.384 45.833 0.00 0.00 0.00 3.41
2155 2422 5.368989 GAAATACTTGTCCGAGGAATGGAT 58.631 41.667 0.00 0.00 37.93 3.41
2156 2423 2.698855 ACTTGTCCGAGGAATGGATG 57.301 50.000 0.00 0.00 37.93 3.51
2157 2424 1.909302 ACTTGTCCGAGGAATGGATGT 59.091 47.619 0.00 0.00 37.93 3.06
2158 2425 3.104512 ACTTGTCCGAGGAATGGATGTA 58.895 45.455 0.00 0.00 37.93 2.29
2159 2426 3.711704 ACTTGTCCGAGGAATGGATGTAT 59.288 43.478 0.00 0.00 37.93 2.29
2160 2427 4.202264 ACTTGTCCGAGGAATGGATGTATC 60.202 45.833 0.00 0.00 37.93 2.24
2161 2428 3.576861 TGTCCGAGGAATGGATGTATCT 58.423 45.455 0.00 0.00 37.93 1.98
2162 2429 4.736473 TGTCCGAGGAATGGATGTATCTA 58.264 43.478 0.00 0.00 37.93 1.98
2163 2430 4.767409 TGTCCGAGGAATGGATGTATCTAG 59.233 45.833 0.00 0.00 37.93 2.43
2164 2431 5.010933 GTCCGAGGAATGGATGTATCTAGA 58.989 45.833 0.00 0.00 37.93 2.43
2165 2432 5.654650 GTCCGAGGAATGGATGTATCTAGAT 59.345 44.000 10.73 10.73 37.93 1.98
2166 2433 5.654209 TCCGAGGAATGGATGTATCTAGATG 59.346 44.000 15.79 0.00 0.00 2.90
2167 2434 5.420421 CCGAGGAATGGATGTATCTAGATGT 59.580 44.000 15.79 1.25 0.00 3.06
2168 2435 6.603599 CCGAGGAATGGATGTATCTAGATGTA 59.396 42.308 15.79 4.44 0.00 2.29
2169 2436 7.286546 CCGAGGAATGGATGTATCTAGATGTAT 59.713 40.741 15.79 9.11 0.00 2.29
2170 2437 8.690884 CGAGGAATGGATGTATCTAGATGTATT 58.309 37.037 15.79 6.57 0.00 1.89
2209 2476 9.436957 ACATCCATTTATATCCATTTCTACGAC 57.563 33.333 0.00 0.00 0.00 4.34
2210 2477 9.435688 CATCCATTTATATCCATTTCTACGACA 57.564 33.333 0.00 0.00 0.00 4.35
2212 2479 9.489084 TCCATTTATATCCATTTCTACGACAAG 57.511 33.333 0.00 0.00 0.00 3.16
2213 2480 9.273016 CCATTTATATCCATTTCTACGACAAGT 57.727 33.333 0.00 0.00 0.00 3.16
2219 2486 7.787725 ATCCATTTCTACGACAAGTATTTCC 57.212 36.000 0.00 0.00 34.34 3.13
2220 2487 5.808540 TCCATTTCTACGACAAGTATTTCCG 59.191 40.000 0.00 0.00 34.34 4.30
2221 2488 5.006358 CCATTTCTACGACAAGTATTTCCGG 59.994 44.000 0.00 0.00 34.34 5.14
2222 2489 5.389859 TTTCTACGACAAGTATTTCCGGA 57.610 39.130 0.00 0.00 34.34 5.14
2223 2490 4.361451 TCTACGACAAGTATTTCCGGAC 57.639 45.455 1.83 0.00 34.34 4.79
2224 2491 1.986698 ACGACAAGTATTTCCGGACG 58.013 50.000 1.83 3.25 0.00 4.79
2225 2492 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
2226 2493 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
2227 2494 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
2228 2495 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
2229 2496 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
2271 2541 5.887214 TGGTAGCATGGAGTACACAATAT 57.113 39.130 0.00 0.00 0.00 1.28
2282 2552 6.653320 TGGAGTACACAATATCACAAGGAAAC 59.347 38.462 0.00 0.00 0.00 2.78
2284 2554 8.038944 GGAGTACACAATATCACAAGGAAACTA 58.961 37.037 0.00 0.00 42.68 2.24
2285 2555 9.088512 GAGTACACAATATCACAAGGAAACTAG 57.911 37.037 0.00 0.00 42.68 2.57
2286 2556 8.594550 AGTACACAATATCACAAGGAAACTAGT 58.405 33.333 0.00 0.00 42.68 2.57
2287 2557 9.865321 GTACACAATATCACAAGGAAACTAGTA 57.135 33.333 0.00 0.00 42.68 1.82
2289 2559 9.959721 ACACAATATCACAAGGAAACTAGTAAT 57.040 29.630 0.00 0.00 42.68 1.89
2464 2742 1.912043 AGGTAGGCATCATCCCATAGC 59.088 52.381 0.00 0.00 0.00 2.97
2472 2755 1.275666 TCATCCCATAGCCCCATACG 58.724 55.000 0.00 0.00 0.00 3.06
2488 2771 6.421485 CCCCATACGTACCTATGTATCTACT 58.579 44.000 0.00 0.00 36.52 2.57
2489 2772 6.888632 CCCCATACGTACCTATGTATCTACTT 59.111 42.308 0.00 0.00 36.52 2.24
2490 2773 7.066766 CCCCATACGTACCTATGTATCTACTTC 59.933 44.444 0.00 0.00 36.52 3.01
2491 2774 7.828223 CCCATACGTACCTATGTATCTACTTCT 59.172 40.741 0.00 0.00 36.52 2.85
2492 2775 9.881649 CCATACGTACCTATGTATCTACTTCTA 57.118 37.037 0.00 0.00 36.52 2.10
2571 2934 5.221402 ACACACATTATTTGGTGCATGTTGA 60.221 36.000 0.00 0.00 38.57 3.18
2632 3021 6.092122 TGAGATTATTAAAGTTGCTCCACACG 59.908 38.462 0.00 0.00 0.00 4.49
2635 3025 7.604927 AGATTATTAAAGTTGCTCCACACGTAA 59.395 33.333 0.00 0.00 0.00 3.18
2847 3307 5.140747 AGTAGAGTACTGCTTGGAAGTTG 57.859 43.478 0.00 0.00 35.67 3.16
2851 3311 3.991121 GAGTACTGCTTGGAAGTTGAGTC 59.009 47.826 0.00 0.00 0.00 3.36
3097 3587 0.523072 GCTGGTGTAAGTGCATGTGG 59.477 55.000 0.00 0.00 0.00 4.17
3159 3688 3.797184 GCACGAGCTCTATCGATTTCCTT 60.797 47.826 12.85 0.00 45.56 3.36
3193 3730 3.737663 GCTAGATGTTGGAGACTGAGCTG 60.738 52.174 0.00 0.00 0.00 4.24
3200 3737 1.203287 TGGAGACTGAGCTGATGAACG 59.797 52.381 0.00 0.00 0.00 3.95
3368 3946 3.286629 TGGATACTGCCATCTCCTGGTC 61.287 54.545 0.00 0.00 42.50 4.02
3376 3960 1.747355 CCATCTCCTGGTCAAATGCAC 59.253 52.381 0.00 0.00 40.49 4.57
3457 4049 2.034879 AAGTCGTGCAAGGATGGCG 61.035 57.895 0.00 0.00 38.51 5.69
3622 4252 4.950062 GCGGCGCAGATCGATCCA 62.950 66.667 29.21 0.00 41.67 3.41
3837 4483 0.396417 GGGACCAGCTAGCTGAGAGA 60.396 60.000 40.03 0.00 46.30 3.10
4193 5143 6.338146 GTGTCCTTTTCCTTAAATATTGCCC 58.662 40.000 0.00 0.00 0.00 5.36
4275 5226 7.371936 AGTTCTTCGCAGACATATTCTATACC 58.628 38.462 0.00 0.00 34.32 2.73
4307 5258 5.204409 TCTTGTTATGTGGTCTACGTTGT 57.796 39.130 0.00 0.00 0.00 3.32
4308 5259 4.986034 TCTTGTTATGTGGTCTACGTTGTG 59.014 41.667 0.00 0.00 0.00 3.33
4378 5331 6.370166 GGGTAAGAAAGATGAACTCAACAGAG 59.630 42.308 0.00 0.00 35.49 3.35
4386 5339 1.620819 GAACTCAACAGAGCTCTCCCA 59.379 52.381 14.96 0.00 32.51 4.37
4459 5412 3.573489 GAAAGCGAACCGTGGCACG 62.573 63.158 31.78 31.78 42.11 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.456995 ACGTTTGTTTGTTGTGCCCG 60.457 50.000 0.00 0.00 0.00 6.13
205 209 3.191371 GGGTTTTGCACAATCTCTAGTGG 59.809 47.826 0.00 0.00 36.29 4.00
305 310 5.914898 ACATTATGGTCTTAGGGTTTTGC 57.085 39.130 0.00 0.00 0.00 3.68
331 336 8.904648 TCTTAATTATATTATGGGACGGAGGA 57.095 34.615 0.00 0.00 0.00 3.71
368 373 6.525629 AGAGCATTTTTGACACTACACTAGT 58.474 36.000 0.00 0.00 40.28 2.57
369 374 6.646653 TGAGAGCATTTTTGACACTACACTAG 59.353 38.462 0.00 0.00 0.00 2.57
370 375 6.521162 TGAGAGCATTTTTGACACTACACTA 58.479 36.000 0.00 0.00 0.00 2.74
371 376 5.368145 TGAGAGCATTTTTGACACTACACT 58.632 37.500 0.00 0.00 0.00 3.55
372 377 5.673337 TGAGAGCATTTTTGACACTACAC 57.327 39.130 0.00 0.00 0.00 2.90
373 378 8.565896 AATATGAGAGCATTTTTGACACTACA 57.434 30.769 0.00 0.00 35.94 2.74
376 381 8.627403 CCATAATATGAGAGCATTTTTGACACT 58.373 33.333 1.10 0.00 35.94 3.55
377 382 8.623903 TCCATAATATGAGAGCATTTTTGACAC 58.376 33.333 1.10 0.00 35.94 3.67
378 383 8.750515 TCCATAATATGAGAGCATTTTTGACA 57.249 30.769 1.10 0.00 35.94 3.58
379 384 9.455847 GTTCCATAATATGAGAGCATTTTTGAC 57.544 33.333 1.10 0.00 35.94 3.18
380 385 9.187996 TGTTCCATAATATGAGAGCATTTTTGA 57.812 29.630 1.10 0.00 35.94 2.69
381 386 9.459640 CTGTTCCATAATATGAGAGCATTTTTG 57.540 33.333 1.10 0.00 35.94 2.44
393 398 6.212388 AGCTACTCCCTCTGTTCCATAATATG 59.788 42.308 0.00 0.00 0.00 1.78
403 408 7.355890 AGTAATAGTAAGCTACTCCCTCTGTT 58.644 38.462 0.00 0.00 40.14 3.16
406 411 8.278988 AGTAGTAATAGTAAGCTACTCCCTCT 57.721 38.462 0.00 0.00 39.69 3.69
409 414 9.566432 TTGTAGTAGTAATAGTAAGCTACTCCC 57.434 37.037 12.14 7.65 41.95 4.30
461 466 1.160137 GAGCAACTGCACTACTTGGG 58.840 55.000 4.22 0.00 45.16 4.12
462 467 2.175878 AGAGCAACTGCACTACTTGG 57.824 50.000 4.22 0.00 45.16 3.61
463 468 3.133691 TGAAGAGCAACTGCACTACTTG 58.866 45.455 4.22 0.00 41.01 3.16
464 469 3.475566 TGAAGAGCAACTGCACTACTT 57.524 42.857 4.22 4.20 41.01 2.24
465 470 3.692257 ATGAAGAGCAACTGCACTACT 57.308 42.857 4.22 0.00 41.01 2.57
466 471 3.499918 ACAATGAAGAGCAACTGCACTAC 59.500 43.478 4.22 0.00 41.01 2.73
467 472 3.743521 ACAATGAAGAGCAACTGCACTA 58.256 40.909 4.22 0.00 41.01 2.74
468 473 2.579873 ACAATGAAGAGCAACTGCACT 58.420 42.857 4.22 0.00 43.66 4.40
469 474 4.488126 TTACAATGAAGAGCAACTGCAC 57.512 40.909 4.22 0.00 45.16 4.57
470 475 5.474532 AGAATTACAATGAAGAGCAACTGCA 59.525 36.000 4.22 0.00 45.16 4.41
471 476 5.947443 AGAATTACAATGAAGAGCAACTGC 58.053 37.500 0.00 0.00 42.49 4.40
472 477 9.897744 TTTTAGAATTACAATGAAGAGCAACTG 57.102 29.630 0.00 0.00 0.00 3.16
496 501 5.134202 GCACTACTTGGGCTGTAATTTTT 57.866 39.130 0.00 0.00 43.01 1.94
497 502 4.783764 GCACTACTTGGGCTGTAATTTT 57.216 40.909 0.00 0.00 43.01 1.82
558 563 3.251004 ACGAGCCAAGTCTTTGAATTGAC 59.749 43.478 8.96 0.00 39.55 3.18
658 872 0.511653 CTGATCATGATCCAAGCGCG 59.488 55.000 28.61 0.00 37.02 6.86
659 873 1.590932 ACTGATCATGATCCAAGCGC 58.409 50.000 28.61 0.00 37.02 5.92
718 933 4.373116 GTCGCTGGCGGTCTTCCA 62.373 66.667 14.94 0.00 40.25 3.53
907 1132 1.327690 ATGCAAGCAAGCTGGGATGG 61.328 55.000 2.39 0.00 34.99 3.51
939 1164 2.835701 GATCTTCTCGGTGTGCGGCA 62.836 60.000 0.00 0.00 0.00 5.69
1059 1287 3.051210 CCGTGTGAGACAGCTCCA 58.949 61.111 0.00 0.00 40.55 3.86
1328 1565 2.742053 CGAACAACTCACATGTAAGGGG 59.258 50.000 0.00 0.00 0.00 4.79
1390 1631 9.289782 TGATAGAATGATAGAGAGATCACGAAA 57.710 33.333 0.00 0.00 38.64 3.46
1430 1680 7.376335 AGTATCTATCATCATCATCCCCATG 57.624 40.000 0.00 0.00 0.00 3.66
1431 1681 9.156940 CTAAGTATCTATCATCATCATCCCCAT 57.843 37.037 0.00 0.00 0.00 4.00
1432 1682 8.346828 TCTAAGTATCTATCATCATCATCCCCA 58.653 37.037 0.00 0.00 0.00 4.96
1433 1683 8.774546 TCTAAGTATCTATCATCATCATCCCC 57.225 38.462 0.00 0.00 0.00 4.81
1474 1724 6.488769 TTTTGGTATCACGGGAGTACATAT 57.511 37.500 0.00 0.00 44.67 1.78
1540 1790 5.507315 CCGTTGCTCCTGTGAAAAAGTTAAT 60.507 40.000 0.00 0.00 0.00 1.40
1712 1962 4.194720 GCCTGCTGATGCTGCTGC 62.195 66.667 8.89 8.89 40.48 5.25
1753 2009 0.036577 CAGGCTAGACAACAGCTGCT 60.037 55.000 15.27 5.12 39.09 4.24
1754 2010 1.023513 CCAGGCTAGACAACAGCTGC 61.024 60.000 15.27 0.00 39.09 5.25
1755 2011 0.392193 CCCAGGCTAGACAACAGCTG 60.392 60.000 13.48 13.48 39.09 4.24
1940 2202 4.072088 GCCGCGTCGTTGGTGAAG 62.072 66.667 4.92 0.00 0.00 3.02
2026 2288 4.696172 GTCGTTTCACCGCACGCG 62.696 66.667 3.53 3.53 36.32 6.01
2108 2375 2.104622 GACGGAGGGAGTACTAGCTAGT 59.895 54.545 28.50 28.50 40.24 2.57
2109 2376 2.369532 AGACGGAGGGAGTACTAGCTAG 59.630 54.545 19.44 19.44 0.00 3.42
2110 2377 2.104451 CAGACGGAGGGAGTACTAGCTA 59.896 54.545 0.00 0.00 0.00 3.32
2111 2378 1.134037 CAGACGGAGGGAGTACTAGCT 60.134 57.143 0.00 0.00 0.00 3.32
2112 2379 1.310904 CAGACGGAGGGAGTACTAGC 58.689 60.000 0.00 0.00 0.00 3.42
2113 2380 1.489649 TCCAGACGGAGGGAGTACTAG 59.510 57.143 0.00 0.00 35.91 2.57
2114 2381 1.588239 TCCAGACGGAGGGAGTACTA 58.412 55.000 0.00 0.00 35.91 1.82
2115 2382 0.702902 TTCCAGACGGAGGGAGTACT 59.297 55.000 0.00 0.00 44.10 2.73
2116 2383 1.553706 TTTCCAGACGGAGGGAGTAC 58.446 55.000 0.00 0.00 44.10 2.73
2117 2384 2.544844 ATTTCCAGACGGAGGGAGTA 57.455 50.000 0.00 0.00 44.10 2.59
2119 2386 2.389715 AGTATTTCCAGACGGAGGGAG 58.610 52.381 0.00 0.00 44.10 4.30
2121 2388 2.236395 ACAAGTATTTCCAGACGGAGGG 59.764 50.000 0.00 0.00 44.10 4.30
2123 2390 3.522553 GGACAAGTATTTCCAGACGGAG 58.477 50.000 0.00 0.00 44.10 4.63
2124 2391 2.094390 CGGACAAGTATTTCCAGACGGA 60.094 50.000 0.00 0.00 40.60 4.69
2125 2392 2.094390 TCGGACAAGTATTTCCAGACGG 60.094 50.000 0.00 0.00 0.00 4.79
2126 2393 3.179830 CTCGGACAAGTATTTCCAGACG 58.820 50.000 0.00 0.00 0.00 4.18
2127 2394 3.194968 TCCTCGGACAAGTATTTCCAGAC 59.805 47.826 0.00 0.00 0.00 3.51
2128 2395 3.437213 TCCTCGGACAAGTATTTCCAGA 58.563 45.455 0.00 0.00 0.00 3.86
2131 2398 3.877508 CCATTCCTCGGACAAGTATTTCC 59.122 47.826 0.00 0.00 0.00 3.13
2132 2399 4.766375 TCCATTCCTCGGACAAGTATTTC 58.234 43.478 0.00 0.00 0.00 2.17
2133 2400 4.837093 TCCATTCCTCGGACAAGTATTT 57.163 40.909 0.00 0.00 0.00 1.40
2134 2401 4.164221 ACATCCATTCCTCGGACAAGTATT 59.836 41.667 0.00 0.00 34.69 1.89
2135 2402 3.711704 ACATCCATTCCTCGGACAAGTAT 59.288 43.478 0.00 0.00 34.69 2.12
2136 2403 3.104512 ACATCCATTCCTCGGACAAGTA 58.895 45.455 0.00 0.00 34.69 2.24
2137 2404 1.909302 ACATCCATTCCTCGGACAAGT 59.091 47.619 0.00 0.00 34.69 3.16
2138 2405 2.698855 ACATCCATTCCTCGGACAAG 57.301 50.000 0.00 0.00 34.69 3.16
2139 2406 3.967326 AGATACATCCATTCCTCGGACAA 59.033 43.478 0.00 0.00 34.69 3.18
2140 2407 3.576861 AGATACATCCATTCCTCGGACA 58.423 45.455 0.00 0.00 34.69 4.02
2141 2408 5.010933 TCTAGATACATCCATTCCTCGGAC 58.989 45.833 0.00 0.00 34.69 4.79
2142 2409 5.256806 TCTAGATACATCCATTCCTCGGA 57.743 43.478 0.00 0.00 36.84 4.55
2143 2410 5.420421 ACATCTAGATACATCCATTCCTCGG 59.580 44.000 4.54 0.00 0.00 4.63
2144 2411 6.522625 ACATCTAGATACATCCATTCCTCG 57.477 41.667 4.54 0.00 0.00 4.63
2183 2450 9.436957 GTCGTAGAAATGGATATAAATGGATGT 57.563 33.333 0.00 0.00 39.69 3.06
2184 2451 9.435688 TGTCGTAGAAATGGATATAAATGGATG 57.564 33.333 0.00 0.00 39.69 3.51
2186 2453 9.489084 CTTGTCGTAGAAATGGATATAAATGGA 57.511 33.333 0.00 0.00 39.69 3.41
2187 2454 9.273016 ACTTGTCGTAGAAATGGATATAAATGG 57.727 33.333 0.00 0.00 39.69 3.16
2193 2460 9.490379 GGAAATACTTGTCGTAGAAATGGATAT 57.510 33.333 0.00 0.00 39.69 1.63
2194 2461 7.650504 CGGAAATACTTGTCGTAGAAATGGATA 59.349 37.037 0.00 0.00 39.69 2.59
2195 2462 6.479001 CGGAAATACTTGTCGTAGAAATGGAT 59.521 38.462 0.00 0.00 39.69 3.41
2196 2463 5.808540 CGGAAATACTTGTCGTAGAAATGGA 59.191 40.000 0.00 0.00 39.69 3.41
2197 2464 5.006358 CCGGAAATACTTGTCGTAGAAATGG 59.994 44.000 0.00 0.00 39.69 3.16
2198 2465 5.808540 TCCGGAAATACTTGTCGTAGAAATG 59.191 40.000 0.00 0.00 39.69 2.32
2199 2466 5.809051 GTCCGGAAATACTTGTCGTAGAAAT 59.191 40.000 5.23 0.00 39.69 2.17
2200 2467 5.163513 GTCCGGAAATACTTGTCGTAGAAA 58.836 41.667 5.23 0.00 39.69 2.52
2201 2468 4.672542 CGTCCGGAAATACTTGTCGTAGAA 60.673 45.833 5.23 0.00 39.69 2.10
2202 2469 3.181507 CGTCCGGAAATACTTGTCGTAGA 60.182 47.826 5.23 0.00 0.00 2.59
2203 2470 3.103738 CGTCCGGAAATACTTGTCGTAG 58.896 50.000 5.23 0.00 0.00 3.51
2204 2471 2.159393 CCGTCCGGAAATACTTGTCGTA 60.159 50.000 5.23 0.00 37.50 3.43
2205 2472 1.403249 CCGTCCGGAAATACTTGTCGT 60.403 52.381 5.23 0.00 37.50 4.34
2206 2473 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
2207 2474 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
2208 2475 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
2209 2476 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
2210 2477 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
2211 2478 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
2212 2479 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
2213 2480 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
2214 2481 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
2215 2482 0.682209 CTACTCCCTCCGTCCGGAAA 60.682 60.000 5.23 0.00 44.66 3.13
2216 2483 1.077212 CTACTCCCTCCGTCCGGAA 60.077 63.158 5.23 0.00 44.66 4.30
2217 2484 1.856539 AACTACTCCCTCCGTCCGGA 61.857 60.000 0.00 0.00 42.90 5.14
2218 2485 1.379576 AACTACTCCCTCCGTCCGG 60.380 63.158 0.00 0.00 0.00 5.14
2219 2486 1.807886 CAACTACTCCCTCCGTCCG 59.192 63.158 0.00 0.00 0.00 4.79
2220 2487 1.255667 TGCAACTACTCCCTCCGTCC 61.256 60.000 0.00 0.00 0.00 4.79
2221 2488 0.606604 TTGCAACTACTCCCTCCGTC 59.393 55.000 0.00 0.00 0.00 4.79
2222 2489 1.053424 TTTGCAACTACTCCCTCCGT 58.947 50.000 0.00 0.00 0.00 4.69
2223 2490 2.403252 ATTTGCAACTACTCCCTCCG 57.597 50.000 0.00 0.00 0.00 4.63
2224 2491 5.885912 TGAAATATTTGCAACTACTCCCTCC 59.114 40.000 5.17 0.00 0.00 4.30
2225 2492 7.420800 CATGAAATATTTGCAACTACTCCCTC 58.579 38.462 5.17 0.00 0.00 4.30
2226 2493 6.322201 CCATGAAATATTTGCAACTACTCCCT 59.678 38.462 5.17 0.00 0.00 4.20
2227 2494 6.096846 ACCATGAAATATTTGCAACTACTCCC 59.903 38.462 5.17 0.00 0.00 4.30
2228 2495 7.100458 ACCATGAAATATTTGCAACTACTCC 57.900 36.000 5.17 0.00 0.00 3.85
2229 2496 7.857885 GCTACCATGAAATATTTGCAACTACTC 59.142 37.037 5.17 0.00 0.00 2.59
2295 2565 5.926663 AGGTTAACTTATTAGCCACCTAGC 58.073 41.667 5.42 0.00 42.61 3.42
2296 2566 7.793036 AGAAGGTTAACTTATTAGCCACCTAG 58.207 38.462 5.42 0.00 42.61 3.02
2394 2672 2.079925 GTTCTCGGCTTCTTGAATGCT 58.920 47.619 0.00 0.00 0.00 3.79
2464 2742 6.421485 AGTAGATACATAGGTACGTATGGGG 58.579 44.000 29.46 12.94 35.08 4.96
2610 2998 6.178239 ACGTGTGGAGCAACTTTAATAATC 57.822 37.500 0.00 0.00 0.00 1.75
2611 2999 7.675962 TTACGTGTGGAGCAACTTTAATAAT 57.324 32.000 0.00 0.00 0.00 1.28
2632 3021 7.280428 GCTTCTCCTTCCTAACCTGTAATTTAC 59.720 40.741 0.00 0.00 0.00 2.01
2635 3025 5.489278 AGCTTCTCCTTCCTAACCTGTAATT 59.511 40.000 0.00 0.00 0.00 1.40
2851 3311 8.730680 TGACGATATATATATGATGTGGATCCG 58.269 37.037 10.03 5.93 0.00 4.18
2886 3360 1.134729 TGCAGCAGCGACAAGATCATA 60.135 47.619 0.00 0.00 46.23 2.15
3097 3587 1.997606 GCCATGATCAAAAGCACTTGC 59.002 47.619 0.00 0.00 42.49 4.01
3159 3688 5.104067 TCCAACATCTAGCTAGTCTCCTGTA 60.104 44.000 20.10 0.00 0.00 2.74
3193 3730 3.914364 GGATGCAGAAACAAACGTTCATC 59.086 43.478 0.00 7.49 0.00 2.92
3297 3854 3.357919 GCAGATGCAGCAACCACA 58.642 55.556 4.07 0.00 41.59 4.17
3368 3946 3.558829 AGCTATCATCAGACGTGCATTTG 59.441 43.478 0.00 0.00 0.00 2.32
3371 3951 3.465742 AAGCTATCATCAGACGTGCAT 57.534 42.857 0.00 0.00 0.00 3.96
3376 3960 4.510711 AGATGCAAAAGCTATCATCAGACG 59.489 41.667 15.25 0.00 38.15 4.18
3622 4252 0.108329 ATCGATCAAGGAACGCCGTT 60.108 50.000 0.16 0.16 39.96 4.44
3815 4457 0.908198 CTCAGCTAGCTGGTCCCTTT 59.092 55.000 37.60 3.02 43.75 3.11
3964 4622 8.160765 TCCATCACTGGATTAAAGTACTGAAAA 58.839 33.333 0.00 0.00 46.95 2.29
3965 4623 7.685481 TCCATCACTGGATTAAAGTACTGAAA 58.315 34.615 0.00 0.00 46.95 2.69
4193 5143 7.930217 TGGAATAATTTAGCCTGAAAGATTCG 58.070 34.615 0.00 0.00 34.07 3.34
4275 5226 4.201871 ACCACATAACAAGAAACACACACG 60.202 41.667 0.00 0.00 0.00 4.49
4307 5258 0.899720 GTTGGTACCGATCAGGACCA 59.100 55.000 9.13 9.13 43.58 4.02
4308 5259 0.177373 GGTTGGTACCGATCAGGACC 59.823 60.000 7.61 3.02 45.00 4.46
4407 5360 3.291584 TCGCTCATACCAGAAGAGACAT 58.708 45.455 0.00 0.00 0.00 3.06
4459 5412 4.143179 CGTGTCGAACTTACCTGAATTTCC 60.143 45.833 0.00 0.00 0.00 3.13
4555 5522 4.537135 AAACGTAAAGCAGAGGAGATGA 57.463 40.909 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.