Multiple sequence alignment - TraesCS3D01G298500

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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 TraesCS3D01G298500 chr3D 100.000 2327 0 0 1 2327 412780528 412778202 0.000000e+00 4298
1 TraesCS3D01G298500 chr3B 96.248 1146 35 7 610 1751 539467744 539466603 0.000000e+00 1871
2 TraesCS3D01G298500 chr3B 83.537 328 51 3 2 327 539468476 539468150 1.040000e-78 303
3 TraesCS3D01G298500 chr3B 85.308 211 13 7 1954 2164 539466500 539466308 3.920000e-48 202
4 TraesCS3D01G298500 chr3B 88.889 144 10 4 2169 2310 539465972 539465833 3.070000e-39 172
5 TraesCS3D01G298500 chr3A 94.691 1149 38 15 611 1751 537512856 537513989 0.000000e+00 1762
6 TraesCS3D01G298500 chr3A 93.939 165 7 2 2163 2327 537514309 537514470 1.790000e-61 246
7 TraesCS3D01G298500 chr3A 89.815 108 8 1 1954 2061 537514088 537514192 4.030000e-28 135


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 TraesCS3D01G298500 chr3D 412778202 412780528 2326 True 4298.000000 4298 100.0000 1 2327 1 chr3D.!!$R1 2326
1 TraesCS3D01G298500 chr3B 539465833 539468476 2643 True 637.000000 1871 88.4955 2 2310 4 chr3B.!!$R1 2308
2 TraesCS3D01G298500 chr3A 537512856 537514470 1614 False 714.333333 1762 92.8150 611 2327 3 chr3A.!!$F1 1716

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
408 579 0.03213 GACACACGTTGGCTGAGAGA 59.968 55.0 0.0 0.0 0.0 3.1 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1873 2070 0.033504 TCCCAGCAGACGTCAAGAAC 59.966 55.0 19.5 1.73 0.0 3.01 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
22 23 0.106819 CCCAGAGATGAGCCAAAGGG 60.107 60.000 0.00 0.00 37.18 3.95
25 26 1.280133 CAGAGATGAGCCAAAGGGTGA 59.720 52.381 0.00 0.00 36.17 4.02
30 31 4.273318 AGATGAGCCAAAGGGTGATAAAC 58.727 43.478 0.00 0.00 36.17 2.01
46 47 2.754946 AAACAGAGGCGTCCGATTTA 57.245 45.000 2.06 0.00 0.00 1.40
66 68 1.281867 AGCGGAAGGTGATTCAATCCA 59.718 47.619 12.36 0.00 42.35 3.41
69 71 3.813443 CGGAAGGTGATTCAATCCATCT 58.187 45.455 12.36 0.00 39.91 2.90
71 73 3.812053 GGAAGGTGATTCAATCCATCTCG 59.188 47.826 0.00 0.00 39.91 4.04
73 75 4.494091 AGGTGATTCAATCCATCTCGTT 57.506 40.909 0.00 0.00 0.00 3.85
75 77 4.080919 AGGTGATTCAATCCATCTCGTTGA 60.081 41.667 0.00 0.00 0.00 3.18
78 80 6.483307 GGTGATTCAATCCATCTCGTTGATAA 59.517 38.462 0.00 0.00 33.36 1.75
81 83 4.380531 TCAATCCATCTCGTTGATAAGGC 58.619 43.478 0.00 0.00 33.36 4.35
87 89 1.467875 CTCGTTGATAAGGCGAGTCG 58.532 55.000 8.54 8.54 44.69 4.18
106 108 2.047830 CGAAGGGGGCTAAATAGAGGT 58.952 52.381 0.00 0.00 0.00 3.85
111 113 3.209152 AGGGGGCTAAATAGAGGTGTCTA 59.791 47.826 0.00 0.00 39.70 2.59
119 121 5.353394 AAATAGAGGTGTCTAATTCGGCA 57.647 39.130 0.00 0.00 38.82 5.69
151 153 1.129058 ATCCCTCCCGTCGCTTTTAT 58.871 50.000 0.00 0.00 0.00 1.40
185 356 1.965754 GCATTCCTCGGAGGTGAGCT 61.966 60.000 22.88 0.00 36.53 4.09
206 377 0.771127 AAGGGTGCTAAACAGAGGCA 59.229 50.000 0.00 0.00 0.00 4.75
208 379 1.355720 AGGGTGCTAAACAGAGGCATT 59.644 47.619 0.00 0.00 38.27 3.56
210 381 1.398390 GGTGCTAAACAGAGGCATTCG 59.602 52.381 0.00 0.00 38.27 3.34
223 394 0.248621 GCATTCGATTTGGCGGAAGG 60.249 55.000 0.00 0.00 0.00 3.46
234 405 0.819666 GGCGGAAGGTGATCCAATCC 60.820 60.000 0.00 0.00 39.61 3.01
244 415 0.819666 GATCCAATCCCTCCCGTTGC 60.820 60.000 0.00 0.00 0.00 4.17
247 418 0.179045 CCAATCCCTCCCGTTGCTAG 60.179 60.000 0.00 0.00 0.00 3.42
251 422 1.987855 CCCTCCCGTTGCTAGGTGA 60.988 63.158 0.00 0.00 0.00 4.02
273 444 2.963782 GTCGAAGGGGGCTAAATAGAGA 59.036 50.000 0.00 0.00 0.00 3.10
275 446 2.698797 CGAAGGGGGCTAAATAGAGACA 59.301 50.000 0.00 0.00 0.00 3.41
283 454 6.466470 GGGGGCTAAATAGAGACATCTGATTT 60.466 42.308 0.00 0.00 36.96 2.17
305 476 2.674754 GGAGGCGACCAAATCCCA 59.325 61.111 0.00 0.00 0.00 4.37
311 482 1.302993 CGACCAAATCCCACCCGTT 60.303 57.895 0.00 0.00 0.00 4.44
318 489 3.322541 CCAAATCCCACCCGTTACTTTTT 59.677 43.478 0.00 0.00 0.00 1.94
326 497 1.261089 CCCGTTACTTTTTCGCGAACA 59.739 47.619 23.33 13.29 0.00 3.18
327 498 2.292237 CCGTTACTTTTTCGCGAACAC 58.708 47.619 23.33 10.24 0.00 3.32
337 508 4.122515 GCGAACACGTGCGAGCTC 62.123 66.667 17.22 2.73 0.00 4.09
338 509 2.729491 CGAACACGTGCGAGCTCA 60.729 61.111 17.22 0.00 0.00 4.26
339 510 2.846918 GAACACGTGCGAGCTCAC 59.153 61.111 17.22 4.30 0.00 3.51
353 524 1.276421 AGCTCACGCAATCCACTACTT 59.724 47.619 0.00 0.00 39.10 2.24
355 526 2.688507 CTCACGCAATCCACTACTTGT 58.311 47.619 0.00 0.00 0.00 3.16
358 529 4.180817 TCACGCAATCCACTACTTGTATG 58.819 43.478 0.00 0.00 0.00 2.39
359 530 4.081917 TCACGCAATCCACTACTTGTATGA 60.082 41.667 0.00 0.00 0.00 2.15
360 531 4.268644 CACGCAATCCACTACTTGTATGAG 59.731 45.833 0.00 0.00 0.00 2.90
365 536 2.688446 TCCACTACTTGTATGAGCTCGG 59.312 50.000 9.64 0.00 0.00 4.63
366 537 2.427453 CCACTACTTGTATGAGCTCGGT 59.573 50.000 9.64 2.75 0.00 4.69
367 538 3.439293 CACTACTTGTATGAGCTCGGTG 58.561 50.000 9.64 3.32 0.00 4.94
371 542 2.962253 GTATGAGCTCGGTGCCGC 60.962 66.667 9.64 0.00 44.23 6.53
392 563 1.000163 GTTCCTCTTCTCTGCACGACA 60.000 52.381 0.00 0.00 0.00 4.35
394 565 0.315251 CCTCTTCTCTGCACGACACA 59.685 55.000 0.00 0.00 0.00 3.72
395 566 1.413382 CTCTTCTCTGCACGACACAC 58.587 55.000 0.00 0.00 0.00 3.82
407 578 1.278172 CGACACACGTTGGCTGAGAG 61.278 60.000 0.00 0.00 37.22 3.20
408 579 0.032130 GACACACGTTGGCTGAGAGA 59.968 55.000 0.00 0.00 0.00 3.10
413 584 1.070577 CACGTTGGCTGAGAGAAAACG 60.071 52.381 4.84 4.84 46.64 3.60
415 586 1.594331 GTTGGCTGAGAGAAAACGGT 58.406 50.000 0.00 0.00 0.00 4.83
416 587 1.531578 GTTGGCTGAGAGAAAACGGTC 59.468 52.381 0.00 0.00 0.00 4.79
418 589 0.319641 GGCTGAGAGAAAACGGTCGT 60.320 55.000 0.00 0.00 0.00 4.34
432 603 1.226746 GGTCGTTTTCAGTGGACCTG 58.773 55.000 7.93 0.00 44.35 4.00
441 612 3.475566 TCAGTGGACCTGACTGAAAAG 57.524 47.619 11.32 0.00 45.38 2.27
445 616 1.843851 TGGACCTGACTGAAAAGGTGT 59.156 47.619 0.00 0.00 46.97 4.16
452 623 7.417456 GGACCTGACTGAAAAGGTGTTTTAAAT 60.417 37.037 0.00 0.00 46.97 1.40
455 626 8.817100 CCTGACTGAAAAGGTGTTTTAAATTTC 58.183 33.333 0.00 3.74 35.94 2.17
462 633 9.220635 GAAAAGGTGTTTTAAATTTCATGTTGC 57.779 29.630 0.00 0.00 35.94 4.17
473 645 2.168326 TCATGTTGCGCGGATCATAT 57.832 45.000 21.41 1.59 0.00 1.78
483 655 4.235360 GCGCGGATCATATAGTAAACACT 58.765 43.478 8.83 0.00 0.00 3.55
493 665 9.899661 ATCATATAGTAAACACTTGCTACCAAA 57.100 29.630 0.00 0.00 33.25 3.28
525 697 2.765807 ATACAGCAGGCCTCGGCT 60.766 61.111 11.74 11.74 44.99 5.52
526 698 2.801631 ATACAGCAGGCCTCGGCTC 61.802 63.158 14.49 0.00 42.34 4.70
533 705 2.136878 AGGCCTCGGCTCATACAGG 61.137 63.158 0.00 0.00 41.60 4.00
534 706 2.423446 GCCTCGGCTCATACAGGG 59.577 66.667 0.00 0.00 38.26 4.45
537 709 1.051812 CCTCGGCTCATACAGGGAAT 58.948 55.000 0.00 0.00 0.00 3.01
539 711 1.688735 CTCGGCTCATACAGGGAATCA 59.311 52.381 0.00 0.00 0.00 2.57
540 712 2.103094 CTCGGCTCATACAGGGAATCAA 59.897 50.000 0.00 0.00 0.00 2.57
541 713 2.503765 TCGGCTCATACAGGGAATCAAA 59.496 45.455 0.00 0.00 0.00 2.69
542 714 3.054728 TCGGCTCATACAGGGAATCAAAA 60.055 43.478 0.00 0.00 0.00 2.44
543 715 3.694072 CGGCTCATACAGGGAATCAAAAA 59.306 43.478 0.00 0.00 0.00 1.94
544 716 4.201950 CGGCTCATACAGGGAATCAAAAAG 60.202 45.833 0.00 0.00 0.00 2.27
545 717 4.706962 GGCTCATACAGGGAATCAAAAAGT 59.293 41.667 0.00 0.00 0.00 2.66
546 718 5.393461 GGCTCATACAGGGAATCAAAAAGTG 60.393 44.000 0.00 0.00 0.00 3.16
547 719 5.415701 GCTCATACAGGGAATCAAAAAGTGA 59.584 40.000 0.00 0.00 41.67 3.41
548 720 6.623767 GCTCATACAGGGAATCAAAAAGTGAC 60.624 42.308 0.00 0.00 39.72 3.67
549 721 6.303054 TCATACAGGGAATCAAAAAGTGACA 58.697 36.000 0.00 0.00 39.72 3.58
550 722 6.947733 TCATACAGGGAATCAAAAAGTGACAT 59.052 34.615 0.00 0.00 39.72 3.06
551 723 7.451255 TCATACAGGGAATCAAAAAGTGACATT 59.549 33.333 0.00 0.00 39.72 2.71
552 724 6.484364 ACAGGGAATCAAAAAGTGACATTT 57.516 33.333 0.00 0.00 39.72 2.32
553 725 6.282930 ACAGGGAATCAAAAAGTGACATTTG 58.717 36.000 7.33 7.33 39.72 2.32
554 726 5.697633 CAGGGAATCAAAAAGTGACATTTGG 59.302 40.000 12.00 0.00 39.72 3.28
555 727 5.366477 AGGGAATCAAAAAGTGACATTTGGT 59.634 36.000 12.00 4.45 39.72 3.67
646 834 0.389556 ACTCATGAGCACAGCAGTCG 60.390 55.000 22.83 0.00 0.00 4.18
684 873 2.138596 TGGTGAACTCCGTCGTAAAC 57.861 50.000 0.00 0.00 0.00 2.01
810 999 0.032815 GGCGAATCTCCTCAGTAGGC 59.967 60.000 0.00 0.00 43.31 3.93
883 1076 2.433664 CCTTCCGACGAAACCCCG 60.434 66.667 0.00 0.00 0.00 5.73
884 1077 3.116531 CTTCCGACGAAACCCCGC 61.117 66.667 0.00 0.00 0.00 6.13
885 1078 4.685467 TTCCGACGAAACCCCGCC 62.685 66.667 0.00 0.00 0.00 6.13
897 1092 2.844839 CCCGCCCCTCTCCCTAAG 60.845 72.222 0.00 0.00 0.00 2.18
912 1107 0.255890 CTAAGCCAAAGCCCTAGCCA 59.744 55.000 0.00 0.00 41.25 4.75
1487 1683 3.524606 GCCGTGGCTAGCGTAGGA 61.525 66.667 20.56 0.00 38.26 2.94
1599 1795 1.679032 GGTACCACTGGTGCTCCAATC 60.679 57.143 15.16 0.00 43.81 2.67
1678 1874 1.675483 GCGAGAGATCAGAGCTGAAGA 59.325 52.381 4.06 0.00 43.58 2.87
1686 1882 2.185608 GAGCTGAAGACCCGAGGC 59.814 66.667 0.00 0.00 0.00 4.70
1690 1887 1.604378 CTGAAGACCCGAGGCCAAT 59.396 57.895 5.01 0.00 0.00 3.16
1723 1920 3.821841 CCGAACCTCGAATTTCTTTTGG 58.178 45.455 0.00 0.00 43.74 3.28
1736 1933 7.550906 CGAATTTCTTTTGGAGAATCTACCTCT 59.449 37.037 0.00 0.00 43.65 3.69
1738 1935 5.584253 TCTTTTGGAGAATCTACCTCTCG 57.416 43.478 0.00 0.00 40.29 4.04
1739 1936 3.802948 TTTGGAGAATCTACCTCTCGC 57.197 47.619 0.00 0.00 40.29 5.03
1742 1939 1.883926 GGAGAATCTACCTCTCGCCTC 59.116 57.143 0.00 0.00 40.29 4.70
1743 1940 2.488347 GGAGAATCTACCTCTCGCCTCT 60.488 54.545 0.00 0.00 40.29 3.69
1744 1941 3.219281 GAGAATCTACCTCTCGCCTCTT 58.781 50.000 0.00 0.00 30.60 2.85
1745 1942 3.219281 AGAATCTACCTCTCGCCTCTTC 58.781 50.000 0.00 0.00 0.00 2.87
1746 1943 3.117663 AGAATCTACCTCTCGCCTCTTCT 60.118 47.826 0.00 0.00 0.00 2.85
1747 1944 2.810870 TCTACCTCTCGCCTCTTCTT 57.189 50.000 0.00 0.00 0.00 2.52
1748 1945 3.088789 TCTACCTCTCGCCTCTTCTTT 57.911 47.619 0.00 0.00 0.00 2.52
1749 1946 3.432378 TCTACCTCTCGCCTCTTCTTTT 58.568 45.455 0.00 0.00 0.00 2.27
1750 1947 2.464157 ACCTCTCGCCTCTTCTTTTG 57.536 50.000 0.00 0.00 0.00 2.44
1751 1948 1.002544 ACCTCTCGCCTCTTCTTTTGG 59.997 52.381 0.00 0.00 0.00 3.28
1752 1949 1.276421 CCTCTCGCCTCTTCTTTTGGA 59.724 52.381 0.00 0.00 0.00 3.53
1753 1950 2.615869 CTCTCGCCTCTTCTTTTGGAG 58.384 52.381 0.00 0.00 0.00 3.86
1754 1951 2.232452 CTCTCGCCTCTTCTTTTGGAGA 59.768 50.000 0.00 0.00 0.00 3.71
1755 1952 2.632996 TCTCGCCTCTTCTTTTGGAGAA 59.367 45.455 0.00 0.00 42.03 2.87
1756 1953 3.261897 TCTCGCCTCTTCTTTTGGAGAAT 59.738 43.478 0.00 0.00 43.23 2.40
1757 1954 3.600388 TCGCCTCTTCTTTTGGAGAATC 58.400 45.455 0.00 0.00 43.23 2.52
1758 1955 3.261897 TCGCCTCTTCTTTTGGAGAATCT 59.738 43.478 0.00 0.00 43.23 2.40
1759 1956 4.466370 TCGCCTCTTCTTTTGGAGAATCTA 59.534 41.667 0.00 0.00 43.23 1.98
1760 1957 4.568760 CGCCTCTTCTTTTGGAGAATCTAC 59.431 45.833 0.00 0.00 43.23 2.59
1761 1958 4.878971 GCCTCTTCTTTTGGAGAATCTACC 59.121 45.833 0.00 0.00 43.23 3.18
1762 1959 5.338789 GCCTCTTCTTTTGGAGAATCTACCT 60.339 44.000 0.00 0.00 43.23 3.08
1763 1960 6.345298 CCTCTTCTTTTGGAGAATCTACCTC 58.655 44.000 0.00 0.00 43.23 3.85
1764 1961 6.156083 CCTCTTCTTTTGGAGAATCTACCTCT 59.844 42.308 0.00 0.00 43.23 3.69
1765 1962 7.176589 TCTTCTTTTGGAGAATCTACCTCTC 57.823 40.000 0.00 0.00 43.23 3.20
1766 1963 5.584253 TCTTTTGGAGAATCTACCTCTCG 57.416 43.478 0.00 0.00 40.29 4.04
1767 1964 3.802948 TTTGGAGAATCTACCTCTCGC 57.197 47.619 0.00 0.00 40.29 5.03
1768 1965 1.693627 TGGAGAATCTACCTCTCGCC 58.306 55.000 0.00 0.00 40.29 5.54
1769 1966 1.215673 TGGAGAATCTACCTCTCGCCT 59.784 52.381 0.00 0.00 40.29 5.52
1770 1967 1.883926 GGAGAATCTACCTCTCGCCTC 59.116 57.143 0.00 0.00 40.29 4.70
1771 1968 2.488347 GGAGAATCTACCTCTCGCCTCT 60.488 54.545 0.00 0.00 40.29 3.69
1772 1969 3.219281 GAGAATCTACCTCTCGCCTCTT 58.781 50.000 0.00 0.00 30.60 2.85
1773 1970 3.219281 AGAATCTACCTCTCGCCTCTTC 58.781 50.000 0.00 0.00 0.00 2.87
1774 1971 3.117663 AGAATCTACCTCTCGCCTCTTCT 60.118 47.826 0.00 0.00 0.00 2.85
1775 1972 2.810870 TCTACCTCTCGCCTCTTCTT 57.189 50.000 0.00 0.00 0.00 2.52
1776 1973 3.928005 TCTACCTCTCGCCTCTTCTTA 57.072 47.619 0.00 0.00 0.00 2.10
1777 1974 4.232188 TCTACCTCTCGCCTCTTCTTAA 57.768 45.455 0.00 0.00 0.00 1.85
1778 1975 4.597004 TCTACCTCTCGCCTCTTCTTAAA 58.403 43.478 0.00 0.00 0.00 1.52
1779 1976 5.014858 TCTACCTCTCGCCTCTTCTTAAAA 58.985 41.667 0.00 0.00 0.00 1.52
1780 1977 3.927854 ACCTCTCGCCTCTTCTTAAAAC 58.072 45.455 0.00 0.00 0.00 2.43
1781 1978 2.924290 CCTCTCGCCTCTTCTTAAAACG 59.076 50.000 0.00 0.00 0.00 3.60
1782 1979 2.334838 TCTCGCCTCTTCTTAAAACGC 58.665 47.619 0.00 0.00 0.00 4.84
1783 1980 2.029290 TCTCGCCTCTTCTTAAAACGCT 60.029 45.455 0.00 0.00 0.00 5.07
1784 1981 2.334838 TCGCCTCTTCTTAAAACGCTC 58.665 47.619 0.00 0.00 0.00 5.03
1785 1982 1.059264 CGCCTCTTCTTAAAACGCTCG 59.941 52.381 0.00 0.00 0.00 5.03
1786 1983 1.201932 GCCTCTTCTTAAAACGCTCGC 60.202 52.381 0.00 0.00 0.00 5.03
1787 1984 2.338500 CCTCTTCTTAAAACGCTCGCT 58.662 47.619 0.00 0.00 0.00 4.93
1788 1985 3.508762 CCTCTTCTTAAAACGCTCGCTA 58.491 45.455 0.00 0.00 0.00 4.26
1789 1986 4.113354 CCTCTTCTTAAAACGCTCGCTAT 58.887 43.478 0.00 0.00 0.00 2.97
1790 1987 4.567159 CCTCTTCTTAAAACGCTCGCTATT 59.433 41.667 0.00 0.00 0.00 1.73
1791 1988 5.276442 CCTCTTCTTAAAACGCTCGCTATTC 60.276 44.000 0.00 0.00 0.00 1.75
1792 1989 4.264614 TCTTCTTAAAACGCTCGCTATTCG 59.735 41.667 0.00 0.00 40.15 3.34
1793 1990 3.504863 TCTTAAAACGCTCGCTATTCGT 58.495 40.909 0.00 0.00 39.67 3.85
1794 1991 4.661125 TCTTAAAACGCTCGCTATTCGTA 58.339 39.130 0.00 0.00 39.67 3.43
1795 1992 5.094812 TCTTAAAACGCTCGCTATTCGTAA 58.905 37.500 0.00 0.00 39.67 3.18
1796 1993 5.745294 TCTTAAAACGCTCGCTATTCGTAAT 59.255 36.000 0.00 0.00 39.67 1.89
1797 1994 4.852609 AAAACGCTCGCTATTCGTAATT 57.147 36.364 0.00 0.00 39.67 1.40
1798 1995 4.852609 AAACGCTCGCTATTCGTAATTT 57.147 36.364 0.00 0.00 39.67 1.82
1799 1996 4.852609 AACGCTCGCTATTCGTAATTTT 57.147 36.364 0.00 0.00 39.67 1.82
1800 1997 4.433382 ACGCTCGCTATTCGTAATTTTC 57.567 40.909 0.00 0.00 39.67 2.29
1801 1998 4.110482 ACGCTCGCTATTCGTAATTTTCT 58.890 39.130 0.00 0.00 39.67 2.52
1802 1999 5.276270 ACGCTCGCTATTCGTAATTTTCTA 58.724 37.500 0.00 0.00 39.67 2.10
1803 2000 5.919141 ACGCTCGCTATTCGTAATTTTCTAT 59.081 36.000 0.00 0.00 39.67 1.98
1828 2025 3.764237 TGAAAAAGACCTCGGTAAGCT 57.236 42.857 0.00 0.00 0.00 3.74
1831 2028 6.534475 TGAAAAAGACCTCGGTAAGCTATA 57.466 37.500 0.00 0.00 0.00 1.31
1832 2029 7.120923 TGAAAAAGACCTCGGTAAGCTATAT 57.879 36.000 0.00 0.00 0.00 0.86
1835 2032 4.115398 AGACCTCGGTAAGCTATATGGT 57.885 45.455 0.00 0.00 0.00 3.55
1836 2033 3.827302 AGACCTCGGTAAGCTATATGGTG 59.173 47.826 0.00 0.00 0.00 4.17
1837 2034 3.573110 GACCTCGGTAAGCTATATGGTGT 59.427 47.826 0.00 0.00 0.00 4.16
1838 2035 4.733165 ACCTCGGTAAGCTATATGGTGTA 58.267 43.478 0.00 0.00 0.00 2.90
1840 2037 5.008331 CCTCGGTAAGCTATATGGTGTAGA 58.992 45.833 0.00 0.00 0.00 2.59
1841 2038 5.652891 CCTCGGTAAGCTATATGGTGTAGAT 59.347 44.000 0.00 0.00 0.00 1.98
1842 2039 6.827251 CCTCGGTAAGCTATATGGTGTAGATA 59.173 42.308 0.00 0.00 0.00 1.98
1843 2040 7.012515 CCTCGGTAAGCTATATGGTGTAGATAG 59.987 44.444 0.00 0.00 34.43 2.08
1844 2041 7.627311 TCGGTAAGCTATATGGTGTAGATAGA 58.373 38.462 0.00 0.00 33.36 1.98
1845 2042 7.769507 TCGGTAAGCTATATGGTGTAGATAGAG 59.230 40.741 0.00 0.00 33.36 2.43
1846 2043 7.769507 CGGTAAGCTATATGGTGTAGATAGAGA 59.230 40.741 0.00 0.00 33.36 3.10
1869 2066 7.145323 AGAACAATAAACCTCATTTCAAACCG 58.855 34.615 0.00 0.00 0.00 4.44
1870 2067 6.642707 ACAATAAACCTCATTTCAAACCGA 57.357 33.333 0.00 0.00 0.00 4.69
1871 2068 6.443792 ACAATAAACCTCATTTCAAACCGAC 58.556 36.000 0.00 0.00 0.00 4.79
1873 2070 1.519408 ACCTCATTTCAAACCGACCG 58.481 50.000 0.00 0.00 0.00 4.79
1874 2071 1.202722 ACCTCATTTCAAACCGACCGT 60.203 47.619 0.00 0.00 0.00 4.83
1880 2079 2.312722 TTCAAACCGACCGTTCTTGA 57.687 45.000 0.00 0.00 31.78 3.02
1913 2115 5.356426 GGAACACTGTAAAGCCAAAAATGT 58.644 37.500 0.00 0.00 0.00 2.71
1929 2131 8.139989 GCCAAAAATGTGATAGATTGATAGCTT 58.860 33.333 0.00 0.00 0.00 3.74
1966 2168 9.445878 TTTTGATGAGGATGATAGATTGATAGC 57.554 33.333 0.00 0.00 0.00 2.97
1967 2169 7.974730 TGATGAGGATGATAGATTGATAGCT 57.025 36.000 0.00 0.00 0.00 3.32
1968 2170 9.484806 TTGATGAGGATGATAGATTGATAGCTA 57.515 33.333 0.00 0.00 0.00 3.32
1969 2171 8.911965 TGATGAGGATGATAGATTGATAGCTAC 58.088 37.037 0.00 0.00 0.00 3.58
1970 2172 9.135189 GATGAGGATGATAGATTGATAGCTACT 57.865 37.037 0.00 0.00 0.00 2.57
1972 2174 9.625747 TGAGGATGATAGATTGATAGCTACTAG 57.374 37.037 0.00 0.00 0.00 2.57
1973 2175 8.995027 AGGATGATAGATTGATAGCTACTAGG 57.005 38.462 0.00 0.00 0.00 3.02
1974 2176 8.786838 AGGATGATAGATTGATAGCTACTAGGA 58.213 37.037 0.00 0.00 0.00 2.94
1975 2177 8.846211 GGATGATAGATTGATAGCTACTAGGAC 58.154 40.741 0.00 0.00 0.00 3.85
2061 2263 7.485277 CACAGTAGTATCACCGAAGTAGAAAAG 59.515 40.741 0.00 0.00 0.00 2.27
2062 2264 6.472808 CAGTAGTATCACCGAAGTAGAAAAGC 59.527 42.308 0.00 0.00 0.00 3.51
2063 2265 4.421948 AGTATCACCGAAGTAGAAAAGCG 58.578 43.478 0.00 0.00 0.00 4.68
2068 2270 1.366854 CGAAGTAGAAAAGCGCCCCC 61.367 60.000 2.29 0.00 0.00 5.40
2111 2313 3.424433 GCCGTTCATTTTTCTCGTACCAG 60.424 47.826 0.00 0.00 0.00 4.00
2113 2315 4.143179 CCGTTCATTTTTCTCGTACCAGTC 60.143 45.833 0.00 0.00 0.00 3.51
2165 2739 6.783963 CTGGAAGAAGAATCGGGTGATCCC 62.784 54.167 0.00 0.00 43.85 3.85
2234 2808 1.153353 TTCTTTTTACCGCGAGCAGG 58.847 50.000 8.23 0.00 0.00 4.85
2244 2818 1.269166 CGCGAGCAGGTACTAAACTG 58.731 55.000 0.00 0.00 36.02 3.16
2248 2822 3.128242 GCGAGCAGGTACTAAACTGTCTA 59.872 47.826 0.00 0.00 36.02 2.59
2293 2868 3.119101 GCTAGCCTAGTTAGTTGCTGTCA 60.119 47.826 2.29 0.00 35.34 3.58
2309 2884 6.513806 TGCTGTCACCGTACTAGTAAATTA 57.486 37.500 3.61 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.091994 CCTTTGGCTCATCTCTGGGAAT 60.092 50.000 0.00 0.00 0.00 3.01
2 3 0.914644 CCTTTGGCTCATCTCTGGGA 59.085 55.000 0.00 0.00 0.00 4.37
5 6 1.280133 TCACCCTTTGGCTCATCTCTG 59.720 52.381 0.00 0.00 33.59 3.35
7 8 2.725221 ATCACCCTTTGGCTCATCTC 57.275 50.000 0.00 0.00 33.59 2.75
10 11 4.019174 CTGTTTATCACCCTTTGGCTCAT 58.981 43.478 0.00 0.00 33.59 2.90
14 15 2.755103 CCTCTGTTTATCACCCTTTGGC 59.245 50.000 0.00 0.00 33.59 4.52
17 18 2.039879 ACGCCTCTGTTTATCACCCTTT 59.960 45.455 0.00 0.00 0.00 3.11
22 23 1.135199 TCGGACGCCTCTGTTTATCAC 60.135 52.381 0.00 0.00 0.00 3.06
25 26 2.981859 AATCGGACGCCTCTGTTTAT 57.018 45.000 0.00 0.00 0.00 1.40
30 31 1.209275 CGCTAAATCGGACGCCTCTG 61.209 60.000 0.00 0.00 0.00 3.35
46 47 1.281867 TGGATTGAATCACCTTCCGCT 59.718 47.619 7.56 0.00 32.49 5.52
50 52 4.446371 ACGAGATGGATTGAATCACCTTC 58.554 43.478 7.56 0.00 0.00 3.46
59 61 4.380531 GCCTTATCAACGAGATGGATTGA 58.619 43.478 0.00 0.00 37.57 2.57
69 71 1.089112 TCGACTCGCCTTATCAACGA 58.911 50.000 0.00 0.00 0.00 3.85
71 73 2.194271 CCTTCGACTCGCCTTATCAAC 58.806 52.381 0.00 0.00 0.00 3.18
73 75 0.744874 CCCTTCGACTCGCCTTATCA 59.255 55.000 0.00 0.00 0.00 2.15
75 77 1.400530 CCCCCTTCGACTCGCCTTAT 61.401 60.000 0.00 0.00 0.00 1.73
81 83 0.464452 ATTTAGCCCCCTTCGACTCG 59.536 55.000 0.00 0.00 0.00 4.18
87 89 2.778270 ACACCTCTATTTAGCCCCCTTC 59.222 50.000 0.00 0.00 0.00 3.46
106 108 0.178068 GCCTCCTGCCGAATTAGACA 59.822 55.000 0.00 0.00 0.00 3.41
111 113 2.125106 GTCGCCTCCTGCCGAATT 60.125 61.111 0.00 0.00 36.24 2.17
119 121 1.002274 AGGGATTGAGTCGCCTCCT 59.998 57.895 0.00 0.00 40.47 3.69
160 162 1.821332 CTCCGAGGAATGCAAGGGC 60.821 63.158 0.00 0.00 41.68 5.19
173 344 1.984570 CCCTTCAGCTCACCTCCGA 60.985 63.158 0.00 0.00 0.00 4.55
175 346 1.298014 CACCCTTCAGCTCACCTCC 59.702 63.158 0.00 0.00 0.00 4.30
185 356 1.271379 GCCTCTGTTTAGCACCCTTCA 60.271 52.381 0.00 0.00 0.00 3.02
206 377 1.094785 CACCTTCCGCCAAATCGAAT 58.905 50.000 0.00 0.00 0.00 3.34
208 379 0.251916 ATCACCTTCCGCCAAATCGA 59.748 50.000 0.00 0.00 0.00 3.59
210 381 1.025041 GGATCACCTTCCGCCAAATC 58.975 55.000 0.00 0.00 0.00 2.17
223 394 0.546598 AACGGGAGGGATTGGATCAC 59.453 55.000 0.00 0.00 0.00 3.06
234 405 1.258445 ACTCACCTAGCAACGGGAGG 61.258 60.000 1.73 0.00 36.36 4.30
244 415 1.677637 GCCCCCTTCGACTCACCTAG 61.678 65.000 0.00 0.00 0.00 3.02
247 418 1.262640 TTAGCCCCCTTCGACTCACC 61.263 60.000 0.00 0.00 0.00 4.02
251 422 2.966516 CTCTATTTAGCCCCCTTCGACT 59.033 50.000 0.00 0.00 0.00 4.18
273 444 0.107017 CCTCCCGCCAAATCAGATGT 60.107 55.000 0.00 0.00 0.00 3.06
275 446 1.152881 GCCTCCCGCCAAATCAGAT 60.153 57.895 0.00 0.00 0.00 2.90
298 469 3.253921 CGAAAAAGTAACGGGTGGGATTT 59.746 43.478 0.00 0.00 0.00 2.17
300 471 2.429478 CGAAAAAGTAACGGGTGGGAT 58.571 47.619 0.00 0.00 0.00 3.85
305 476 1.261354 GTTCGCGAAAAAGTAACGGGT 59.739 47.619 25.24 0.00 40.01 5.28
311 482 1.332202 GCACGTGTTCGCGAAAAAGTA 60.332 47.619 26.44 8.32 41.18 2.24
335 506 2.688507 ACAAGTAGTGGATTGCGTGAG 58.311 47.619 0.00 0.00 0.00 3.51
336 507 2.831685 ACAAGTAGTGGATTGCGTGA 57.168 45.000 0.00 0.00 0.00 4.35
337 508 4.180817 TCATACAAGTAGTGGATTGCGTG 58.819 43.478 0.00 0.00 0.00 5.34
338 509 4.433615 CTCATACAAGTAGTGGATTGCGT 58.566 43.478 0.00 0.00 0.00 5.24
339 510 3.246226 GCTCATACAAGTAGTGGATTGCG 59.754 47.826 0.00 0.00 0.00 4.85
340 511 4.446371 AGCTCATACAAGTAGTGGATTGC 58.554 43.478 0.00 0.00 30.96 3.56
341 512 4.742167 CGAGCTCATACAAGTAGTGGATTG 59.258 45.833 15.40 0.00 0.00 2.67
342 513 4.202161 CCGAGCTCATACAAGTAGTGGATT 60.202 45.833 15.40 0.00 0.00 3.01
347 518 2.159226 GCACCGAGCTCATACAAGTAGT 60.159 50.000 15.40 0.00 41.15 2.73
353 524 2.494445 CGGCACCGAGCTCATACA 59.506 61.111 15.40 0.00 44.79 2.29
355 526 4.569023 CGCGGCACCGAGCTCATA 62.569 66.667 14.43 0.00 44.79 2.15
365 536 2.048127 AGAAGAGGAACGCGGCAC 60.048 61.111 12.47 0.00 0.00 5.01
366 537 2.261671 GAGAAGAGGAACGCGGCA 59.738 61.111 12.47 0.00 0.00 5.69
367 538 1.807573 CAGAGAAGAGGAACGCGGC 60.808 63.158 12.47 0.92 0.00 6.53
371 542 0.241213 TCGTGCAGAGAAGAGGAACG 59.759 55.000 0.00 0.00 0.00 3.95
392 563 1.940613 GTTTTCTCTCAGCCAACGTGT 59.059 47.619 0.00 0.00 0.00 4.49
394 565 1.217882 CGTTTTCTCTCAGCCAACGT 58.782 50.000 0.00 0.00 36.37 3.99
395 566 0.512952 CCGTTTTCTCTCAGCCAACG 59.487 55.000 0.00 0.00 39.90 4.10
397 568 1.872237 CGACCGTTTTCTCTCAGCCAA 60.872 52.381 0.00 0.00 0.00 4.52
413 584 3.700198 AGGTCCACTGAAAACGACC 57.300 52.632 0.00 0.00 44.31 4.79
440 611 5.050431 GCGCAACATGAAATTTAAAACACCT 60.050 36.000 0.30 0.00 0.00 4.00
441 612 5.136711 GCGCAACATGAAATTTAAAACACC 58.863 37.500 0.30 0.00 0.00 4.16
445 616 4.299155 TCCGCGCAACATGAAATTTAAAA 58.701 34.783 8.75 0.00 0.00 1.52
452 623 1.093972 ATGATCCGCGCAACATGAAA 58.906 45.000 8.75 0.00 0.00 2.69
455 626 2.995939 ACTATATGATCCGCGCAACATG 59.004 45.455 8.75 0.00 0.00 3.21
461 632 4.235360 AGTGTTTACTATATGATCCGCGC 58.765 43.478 0.00 0.00 34.74 6.86
462 633 5.388475 GCAAGTGTTTACTATATGATCCGCG 60.388 44.000 0.00 0.00 35.69 6.46
473 645 6.811253 CCATTTGGTAGCAAGTGTTTACTA 57.189 37.500 23.30 1.53 35.69 1.82
507 679 2.590007 GCCGAGGCCTGCTGTATG 60.590 66.667 12.00 0.00 34.56 2.39
513 685 2.280457 GTATGAGCCGAGGCCTGC 60.280 66.667 12.00 8.96 43.17 4.85
517 689 1.686325 TTCCCTGTATGAGCCGAGGC 61.686 60.000 5.89 5.89 42.33 4.70
521 693 2.620251 TTGATTCCCTGTATGAGCCG 57.380 50.000 0.00 0.00 0.00 5.52
525 697 6.303054 TGTCACTTTTTGATTCCCTGTATGA 58.697 36.000 0.00 0.00 36.32 2.15
526 698 6.573664 TGTCACTTTTTGATTCCCTGTATG 57.426 37.500 0.00 0.00 36.32 2.39
533 705 5.402270 CGACCAAATGTCACTTTTTGATTCC 59.598 40.000 5.62 0.00 44.71 3.01
534 706 6.205784 TCGACCAAATGTCACTTTTTGATTC 58.794 36.000 5.62 2.29 44.71 2.52
537 709 5.298026 TCATCGACCAAATGTCACTTTTTGA 59.702 36.000 5.62 0.00 44.71 2.69
539 711 5.766150 TCATCGACCAAATGTCACTTTTT 57.234 34.783 0.00 0.00 44.71 1.94
540 712 5.964958 ATCATCGACCAAATGTCACTTTT 57.035 34.783 0.00 0.00 44.71 2.27
541 713 7.447374 TTTATCATCGACCAAATGTCACTTT 57.553 32.000 0.00 0.00 44.71 2.66
542 714 7.630242 ATTTATCATCGACCAAATGTCACTT 57.370 32.000 0.00 0.00 44.71 3.16
543 715 8.731275 TTATTTATCATCGACCAAATGTCACT 57.269 30.769 0.00 0.00 44.71 3.41
544 716 9.781834 TTTTATTTATCATCGACCAAATGTCAC 57.218 29.630 0.00 0.00 44.71 3.67
591 763 6.821160 TGCTCCACACGAATTCTTAATATTCA 59.179 34.615 3.52 0.00 32.72 2.57
592 764 7.246674 TGCTCCACACGAATTCTTAATATTC 57.753 36.000 3.52 0.00 0.00 1.75
598 770 5.000591 TGATTTGCTCCACACGAATTCTTA 58.999 37.500 3.52 0.00 0.00 2.10
608 780 0.250252 TCGCTGTGATTTGCTCCACA 60.250 50.000 0.00 0.00 40.56 4.17
612 784 1.432514 TGAGTCGCTGTGATTTGCTC 58.567 50.000 0.00 0.00 0.00 4.26
810 999 1.340248 AGCGTGGGGTTATCTCATACG 59.660 52.381 0.00 0.00 0.00 3.06
883 1076 1.571773 TTTGGCTTAGGGAGAGGGGC 61.572 60.000 0.00 0.00 0.00 5.80
884 1077 0.548510 CTTTGGCTTAGGGAGAGGGG 59.451 60.000 0.00 0.00 0.00 4.79
885 1078 0.106967 GCTTTGGCTTAGGGAGAGGG 60.107 60.000 0.00 0.00 35.22 4.30
887 1080 0.106967 GGGCTTTGGCTTAGGGAGAG 60.107 60.000 0.00 0.00 38.73 3.20
888 1081 0.550147 AGGGCTTTGGCTTAGGGAGA 60.550 55.000 0.00 0.00 38.73 3.71
893 1088 0.255890 TGGCTAGGGCTTTGGCTTAG 59.744 55.000 6.20 6.03 38.73 2.18
894 1089 0.701731 TTGGCTAGGGCTTTGGCTTA 59.298 50.000 6.20 0.00 38.73 3.09
897 1092 2.054453 CCTTGGCTAGGGCTTTGGC 61.054 63.158 7.14 0.00 40.67 4.52
1599 1795 2.808543 CTCCACCTGAAAACGGAAGAAG 59.191 50.000 0.00 0.00 0.00 2.85
1723 1920 2.858745 AGAGGCGAGAGGTAGATTCTC 58.141 52.381 0.00 0.00 38.14 2.87
1736 1933 3.261897 AGATTCTCCAAAAGAAGAGGCGA 59.738 43.478 0.00 0.00 46.95 5.54
1738 1935 4.878971 GGTAGATTCTCCAAAAGAAGAGGC 59.121 45.833 0.00 0.00 46.95 4.70
1739 1936 6.156083 AGAGGTAGATTCTCCAAAAGAAGAGG 59.844 42.308 0.00 0.00 46.95 3.69
1742 1939 6.039616 CGAGAGGTAGATTCTCCAAAAGAAG 58.960 44.000 0.00 0.00 46.95 2.85
1744 1941 4.142138 GCGAGAGGTAGATTCTCCAAAAGA 60.142 45.833 0.00 0.00 38.24 2.52
1745 1942 4.116238 GCGAGAGGTAGATTCTCCAAAAG 58.884 47.826 0.00 0.00 38.24 2.27
1746 1943 3.118738 GGCGAGAGGTAGATTCTCCAAAA 60.119 47.826 0.00 0.00 38.24 2.44
1747 1944 2.431057 GGCGAGAGGTAGATTCTCCAAA 59.569 50.000 0.00 0.00 38.24 3.28
1748 1945 2.032620 GGCGAGAGGTAGATTCTCCAA 58.967 52.381 0.00 0.00 38.24 3.53
1749 1946 1.215673 AGGCGAGAGGTAGATTCTCCA 59.784 52.381 0.00 0.00 38.24 3.86
1750 1947 1.883926 GAGGCGAGAGGTAGATTCTCC 59.116 57.143 0.00 0.00 38.24 3.71
1751 1948 2.858745 AGAGGCGAGAGGTAGATTCTC 58.141 52.381 0.00 0.00 38.14 2.87
1752 1949 3.117663 AGAAGAGGCGAGAGGTAGATTCT 60.118 47.826 0.00 0.00 0.00 2.40
1753 1950 3.219281 AGAAGAGGCGAGAGGTAGATTC 58.781 50.000 0.00 0.00 0.00 2.52
1754 1951 3.306472 AGAAGAGGCGAGAGGTAGATT 57.694 47.619 0.00 0.00 0.00 2.40
1755 1952 3.306472 AAGAAGAGGCGAGAGGTAGAT 57.694 47.619 0.00 0.00 0.00 1.98
1756 1953 2.810870 AAGAAGAGGCGAGAGGTAGA 57.189 50.000 0.00 0.00 0.00 2.59
1757 1954 4.985538 TTTAAGAAGAGGCGAGAGGTAG 57.014 45.455 0.00 0.00 0.00 3.18
1758 1955 4.380233 CGTTTTAAGAAGAGGCGAGAGGTA 60.380 45.833 0.00 0.00 0.00 3.08
1759 1956 3.614390 CGTTTTAAGAAGAGGCGAGAGGT 60.614 47.826 0.00 0.00 0.00 3.85
1760 1957 2.924290 CGTTTTAAGAAGAGGCGAGAGG 59.076 50.000 0.00 0.00 0.00 3.69
1761 1958 2.345942 GCGTTTTAAGAAGAGGCGAGAG 59.654 50.000 0.00 0.00 0.00 3.20
1762 1959 2.029290 AGCGTTTTAAGAAGAGGCGAGA 60.029 45.455 0.00 0.00 0.00 4.04
1763 1960 2.338500 AGCGTTTTAAGAAGAGGCGAG 58.662 47.619 0.00 0.00 0.00 5.03
1764 1961 2.334838 GAGCGTTTTAAGAAGAGGCGA 58.665 47.619 0.00 0.00 0.00 5.54
1765 1962 1.059264 CGAGCGTTTTAAGAAGAGGCG 59.941 52.381 0.00 0.00 0.00 5.52
1766 1963 1.201932 GCGAGCGTTTTAAGAAGAGGC 60.202 52.381 0.00 0.00 0.00 4.70
1767 1964 2.338500 AGCGAGCGTTTTAAGAAGAGG 58.662 47.619 0.00 0.00 0.00 3.69
1768 1965 5.552841 CGAATAGCGAGCGTTTTAAGAAGAG 60.553 44.000 0.00 0.00 44.57 2.85
1769 1966 4.264614 CGAATAGCGAGCGTTTTAAGAAGA 59.735 41.667 0.00 0.00 44.57 2.87
1770 1967 4.031426 ACGAATAGCGAGCGTTTTAAGAAG 59.969 41.667 0.00 0.00 44.57 2.85
1771 1968 3.922240 ACGAATAGCGAGCGTTTTAAGAA 59.078 39.130 0.00 0.00 44.57 2.52
1772 1969 3.504863 ACGAATAGCGAGCGTTTTAAGA 58.495 40.909 0.00 0.00 44.57 2.10
1773 1970 3.901667 ACGAATAGCGAGCGTTTTAAG 57.098 42.857 0.00 0.00 44.57 1.85
1774 1971 5.954434 ATTACGAATAGCGAGCGTTTTAA 57.046 34.783 3.16 0.00 44.57 1.52
1775 1972 5.954434 AATTACGAATAGCGAGCGTTTTA 57.046 34.783 3.16 0.00 44.57 1.52
1776 1973 4.852609 AATTACGAATAGCGAGCGTTTT 57.147 36.364 3.16 0.00 44.57 2.43
1777 1974 4.852609 AAATTACGAATAGCGAGCGTTT 57.147 36.364 3.16 0.00 44.57 3.60
1778 1975 4.565564 AGAAAATTACGAATAGCGAGCGTT 59.434 37.500 3.16 0.00 44.57 4.84
1779 1976 4.110482 AGAAAATTACGAATAGCGAGCGT 58.890 39.130 0.00 0.00 44.57 5.07
1780 1977 4.694012 AGAAAATTACGAATAGCGAGCG 57.306 40.909 0.00 0.00 44.57 5.03
1797 1994 9.292195 ACCGAGGTCTTTTTCAAATAATAGAAA 57.708 29.630 0.00 0.00 32.34 2.52
1798 1995 8.857694 ACCGAGGTCTTTTTCAAATAATAGAA 57.142 30.769 0.00 0.00 0.00 2.10
1799 1996 9.947433 TTACCGAGGTCTTTTTCAAATAATAGA 57.053 29.630 0.00 0.00 0.00 1.98
1801 1998 8.671028 GCTTACCGAGGTCTTTTTCAAATAATA 58.329 33.333 0.00 0.00 0.00 0.98
1802 1999 7.393515 AGCTTACCGAGGTCTTTTTCAAATAAT 59.606 33.333 0.00 0.00 0.00 1.28
1803 2000 6.713450 AGCTTACCGAGGTCTTTTTCAAATAA 59.287 34.615 0.00 0.00 0.00 1.40
1831 2028 8.993424 AGGTTTATTGTTCTCTATCTACACCAT 58.007 33.333 0.00 0.00 0.00 3.55
1832 2029 8.375493 AGGTTTATTGTTCTCTATCTACACCA 57.625 34.615 0.00 0.00 0.00 4.17
1842 2039 8.360390 GGTTTGAAATGAGGTTTATTGTTCTCT 58.640 33.333 0.00 0.00 0.00 3.10
1843 2040 7.326063 CGGTTTGAAATGAGGTTTATTGTTCTC 59.674 37.037 0.00 0.00 0.00 2.87
1844 2041 7.013846 TCGGTTTGAAATGAGGTTTATTGTTCT 59.986 33.333 0.00 0.00 0.00 3.01
1845 2042 7.114388 GTCGGTTTGAAATGAGGTTTATTGTTC 59.886 37.037 0.00 0.00 0.00 3.18
1846 2043 6.921307 GTCGGTTTGAAATGAGGTTTATTGTT 59.079 34.615 0.00 0.00 0.00 2.83
1873 2070 0.033504 TCCCAGCAGACGTCAAGAAC 59.966 55.000 19.50 1.73 0.00 3.01
1874 2071 0.756294 TTCCCAGCAGACGTCAAGAA 59.244 50.000 19.50 7.93 0.00 2.52
1880 2079 1.069765 CAGTGTTCCCAGCAGACGT 59.930 57.895 0.00 0.00 0.00 4.34
1940 2142 9.445878 GCTATCAATCTATCATCCTCATCAAAA 57.554 33.333 0.00 0.00 0.00 2.44
1941 2143 8.823794 AGCTATCAATCTATCATCCTCATCAAA 58.176 33.333 0.00 0.00 0.00 2.69
1942 2144 8.376803 AGCTATCAATCTATCATCCTCATCAA 57.623 34.615 0.00 0.00 0.00 2.57
1943 2145 7.974730 AGCTATCAATCTATCATCCTCATCA 57.025 36.000 0.00 0.00 0.00 3.07
1944 2146 9.135189 AGTAGCTATCAATCTATCATCCTCATC 57.865 37.037 0.00 0.00 0.00 2.92
1946 2148 9.625747 CTAGTAGCTATCAATCTATCATCCTCA 57.374 37.037 0.00 0.00 0.00 3.86
1947 2149 9.066892 CCTAGTAGCTATCAATCTATCATCCTC 57.933 40.741 0.00 0.00 0.00 3.71
1948 2150 8.786838 TCCTAGTAGCTATCAATCTATCATCCT 58.213 37.037 0.00 0.00 0.00 3.24
1949 2151 8.846211 GTCCTAGTAGCTATCAATCTATCATCC 58.154 40.741 0.00 0.00 0.00 3.51
1950 2152 8.556194 CGTCCTAGTAGCTATCAATCTATCATC 58.444 40.741 0.00 0.00 0.00 2.92
1951 2153 7.012894 GCGTCCTAGTAGCTATCAATCTATCAT 59.987 40.741 0.00 0.00 0.00 2.45
1952 2154 6.316640 GCGTCCTAGTAGCTATCAATCTATCA 59.683 42.308 0.00 0.00 0.00 2.15
1953 2155 6.316640 TGCGTCCTAGTAGCTATCAATCTATC 59.683 42.308 0.00 0.00 0.00 2.08
1954 2156 6.181190 TGCGTCCTAGTAGCTATCAATCTAT 58.819 40.000 0.00 0.00 0.00 1.98
1955 2157 5.557866 TGCGTCCTAGTAGCTATCAATCTA 58.442 41.667 0.00 0.00 0.00 1.98
1956 2158 4.399219 TGCGTCCTAGTAGCTATCAATCT 58.601 43.478 0.00 0.00 0.00 2.40
1957 2159 4.768130 TGCGTCCTAGTAGCTATCAATC 57.232 45.455 0.00 0.00 0.00 2.67
1958 2160 4.158764 GGATGCGTCCTAGTAGCTATCAAT 59.841 45.833 18.25 0.00 41.60 2.57
1959 2161 3.506455 GGATGCGTCCTAGTAGCTATCAA 59.494 47.826 18.25 0.00 41.60 2.57
1960 2162 3.082548 GGATGCGTCCTAGTAGCTATCA 58.917 50.000 18.25 0.00 41.60 2.15
1961 2163 3.768468 GGATGCGTCCTAGTAGCTATC 57.232 52.381 18.25 0.00 41.60 2.08
1991 2193 3.054582 TGCAGAAGAATCCATCTCTTGCT 60.055 43.478 12.35 0.00 42.97 3.91
2089 2291 2.481185 TGGTACGAGAAAAATGAACGGC 59.519 45.455 0.00 0.00 0.00 5.68
2111 2313 4.971125 GGGCTCGCGCTATGGGAC 62.971 72.222 5.56 0.00 35.42 4.46
2143 2386 2.170607 GGATCACCCGATTCTTCTTCCA 59.829 50.000 0.00 0.00 29.66 3.53
2165 2739 2.005960 GACATCGACGGGAGACTGGG 62.006 65.000 0.00 0.00 42.76 4.45
2234 2808 6.750963 CCAAGTCGGATTAGACAGTTTAGTAC 59.249 42.308 0.00 0.00 43.24 2.73
2244 2818 6.543736 GTTTTCATTCCAAGTCGGATTAGAC 58.456 40.000 0.00 0.00 45.80 2.59
2248 2822 4.069304 TCGTTTTCATTCCAAGTCGGATT 58.931 39.130 0.00 0.00 45.80 3.01
2262 2836 3.955650 AACTAGGCTAGCTCGTTTTCA 57.044 42.857 21.26 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.