Multiple sequence alignment - TraesCS7D01G305500

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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 TraesCS7D01G305500 chr7D 100.000 2868 0 0 1 2868 386849349 386846482 0.000000e+00 5297.0
1 TraesCS7D01G305500 chr7D 92.683 41 3 0 109 149 28278254 28278294 3.090000e-05 60.2
2 TraesCS7D01G305500 chr7B 86.371 2935 174 89 3 2868 382135174 382132397 0.000000e+00 2996.0
3 TraesCS7D01G305500 chr7B 96.970 33 1 0 2253 2285 730395407 730395439 3.990000e-04 56.5
4 TraesCS7D01G305500 chr7A 84.746 1003 53 42 822 1767 436885178 436884219 0.000000e+00 913.0
5 TraesCS7D01G305500 chr7A 91.194 670 42 9 1791 2456 436884227 436883571 0.000000e+00 894.0
6 TraesCS7D01G305500 chr7A 94.737 266 10 3 2604 2868 436883485 436883223 7.400000e-111 411.0
7 TraesCS7D01G305500 chr7A 91.837 49 4 0 571 619 717565767 717565815 5.130000e-08 69.4
8 TraesCS7D01G305500 chr6B 82.857 105 16 2 121 224 26506894 26506997 3.040000e-15 93.5
9 TraesCS7D01G305500 chr2B 82.955 88 14 1 112 199 183180297 183180211 8.520000e-11 78.7
10 TraesCS7D01G305500 chr1B 97.500 40 1 0 571 610 47389914 47389953 5.130000e-08 69.4
11 TraesCS7D01G305500 chr1B 100.000 29 0 0 2255 2283 173123471 173123443 1.000000e-03 54.7
12 TraesCS7D01G305500 chr1B 96.774 31 1 0 541 571 553426347 553426377 5.000000e-03 52.8
13 TraesCS7D01G305500 chr1B 100.000 28 0 0 544 571 556180861 556180888 5.000000e-03 52.8
14 TraesCS7D01G305500 chr3B 91.667 48 4 0 577 624 223658636 223658589 1.840000e-07 67.6
15 TraesCS7D01G305500 chr1A 90.000 50 5 0 571 620 431980381 431980430 6.630000e-07 65.8
16 TraesCS7D01G305500 chr5D 94.872 39 2 0 571 609 59886278 59886316 8.580000e-06 62.1
17 TraesCS7D01G305500 chr5D 100.000 28 0 0 544 571 98735417 98735390 5.000000e-03 52.8
18 TraesCS7D01G305500 chr4D 100.000 31 0 0 2253 2283 113929685 113929715 1.110000e-04 58.4
19 TraesCS7D01G305500 chr4D 100.000 28 0 0 546 573 506768800 506768827 5.000000e-03 52.8
20 TraesCS7D01G305500 chr3A 100.000 29 0 0 546 574 459070989 459070961 1.000000e-03 54.7
21 TraesCS7D01G305500 chr3A 100.000 28 0 0 2256 2283 431818540 431818513 5.000000e-03 52.8
22 TraesCS7D01G305500 chr2A 100.000 29 0 0 546 574 103213476 103213504 1.000000e-03 54.7
23 TraesCS7D01G305500 chr5A 100.000 28 0 0 544 571 388932419 388932392 5.000000e-03 52.8
24 TraesCS7D01G305500 chr1D 100.000 28 0 0 544 571 328139302 328139329 5.000000e-03 52.8


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 TraesCS7D01G305500 chr7D 386846482 386849349 2867 True 5297.000000 5297 100.000000 1 2868 1 chr7D.!!$R1 2867
1 TraesCS7D01G305500 chr7B 382132397 382135174 2777 True 2996.000000 2996 86.371000 3 2868 1 chr7B.!!$R1 2865
2 TraesCS7D01G305500 chr7A 436883223 436885178 1955 True 739.333333 913 90.225667 822 2868 3 chr7A.!!$R1 2046

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
491 497 0.036388 TTGATGGAGTGGAGCGGTTC 60.036 55.0 0.0 0.0 0.0 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1880 1994 0.034896 TTCTCGGCTTCAGTGAACCC 59.965 55.0 7.1 7.1 0.0 4.11 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
18 19 3.019003 ATCGGAACTCCAGTGGCGG 62.019 63.158 3.51 2.13 35.14 6.13
51 52 1.625818 GGGCCAACAGAGAAGAGAAGA 59.374 52.381 4.39 0.00 0.00 2.87
54 55 2.934801 GCCAACAGAGAAGAGAAGAGGC 60.935 54.545 0.00 0.00 0.00 4.70
81 82 1.968540 GCAAGGGGCGGATATGAGC 60.969 63.158 0.00 0.00 0.00 4.26
109 110 2.760385 AGGCCCTAGCGGTCAGTC 60.760 66.667 0.00 0.00 39.53 3.51
175 176 0.108774 GGCCTAGGAATGGTAGGTGC 59.891 60.000 14.75 0.00 39.56 5.01
177 178 1.807814 CCTAGGAATGGTAGGTGCCT 58.192 55.000 1.05 0.00 33.51 4.75
185 186 1.192146 TGGTAGGTGCCTGTCAGTCC 61.192 60.000 0.12 0.00 0.00 3.85
195 196 0.606401 CTGTCAGTCCGGGCATTTGT 60.606 55.000 9.71 0.00 0.00 2.83
206 207 0.314935 GGCATTTGTGGCGGATATGG 59.685 55.000 0.00 0.00 0.00 2.74
232 233 1.256812 CAGTTGGGTGGTGATTTCCC 58.743 55.000 0.00 0.00 41.41 3.97
233 234 0.251165 AGTTGGGTGGTGATTTCCCG 60.251 55.000 0.00 0.00 43.75 5.14
245 246 1.847890 ATTTCCCGTCCGTGCGTTTG 61.848 55.000 0.00 0.00 0.00 2.93
258 259 2.042333 GTTTGGGGGTATGGGGGC 60.042 66.667 0.00 0.00 0.00 5.80
286 287 3.133542 TGTAGATGCTCTCATGGAGTTGG 59.866 47.826 11.37 0.00 43.62 3.77
292 293 1.209019 CTCTCATGGAGTTGGGTGGAG 59.791 57.143 0.00 0.00 37.30 3.86
313 314 0.899253 TTACCCACCGATGTCACCGA 60.899 55.000 0.00 0.00 0.00 4.69
336 340 8.276325 CCGATAAGTGCATACTCTGTTTTATTC 58.724 37.037 0.00 0.00 35.69 1.75
337 341 8.276325 CGATAAGTGCATACTCTGTTTTATTCC 58.724 37.037 0.00 0.00 35.69 3.01
342 346 4.338400 GCATACTCTGTTTTATTCCCCCAC 59.662 45.833 0.00 0.00 0.00 4.61
343 347 3.067684 ACTCTGTTTTATTCCCCCACG 57.932 47.619 0.00 0.00 0.00 4.94
344 348 1.743394 CTCTGTTTTATTCCCCCACGC 59.257 52.381 0.00 0.00 0.00 5.34
347 351 0.528924 GTTTTATTCCCCCACGCCAC 59.471 55.000 0.00 0.00 0.00 5.01
349 353 2.823376 TTTATTCCCCCACGCCACCG 62.823 60.000 0.00 0.00 41.14 4.94
359 363 1.095228 CACGCCACCGAGCCAAATAT 61.095 55.000 0.00 0.00 38.29 1.28
361 365 1.071699 ACGCCACCGAGCCAAATATAT 59.928 47.619 0.00 0.00 38.29 0.86
398 402 7.622893 AATTTCTGATTCTTGAAGGTAGAGC 57.377 36.000 0.00 0.00 0.00 4.09
442 446 2.590821 ACTGCTTTTTGATGGAGCTGT 58.409 42.857 0.00 0.00 41.67 4.40
491 497 0.036388 TTGATGGAGTGGAGCGGTTC 60.036 55.000 0.00 0.00 0.00 3.62
508 514 2.296190 GGTTCCAAACAAGGCCTAACTG 59.704 50.000 5.16 2.75 0.00 3.16
531 537 5.818857 TGTGGTAGTCTTGTTGGAAGTTTAC 59.181 40.000 0.00 0.00 0.00 2.01
532 538 6.053650 GTGGTAGTCTTGTTGGAAGTTTACT 58.946 40.000 0.00 0.00 0.00 2.24
533 539 7.147689 TGTGGTAGTCTTGTTGGAAGTTTACTA 60.148 37.037 0.00 0.00 0.00 1.82
539 545 8.322091 AGTCTTGTTGGAAGTTTACTAGCATAT 58.678 33.333 0.00 0.00 0.00 1.78
556 562 7.832187 ACTAGCATATCTGATAAGTACTCCCTC 59.168 40.741 0.81 0.00 0.00 4.30
557 563 5.955355 AGCATATCTGATAAGTACTCCCTCC 59.045 44.000 0.81 0.00 0.00 4.30
572 578 9.273137 AGTACTCCCTCCATTCCTAAATATATG 57.727 37.037 0.00 0.00 0.00 1.78
574 580 8.757307 ACTCCCTCCATTCCTAAATATATGAA 57.243 34.615 0.00 0.00 0.00 2.57
629 635 8.433421 ACATCCGAATATAGTTTTTACAGTGG 57.567 34.615 0.00 0.00 0.00 4.00
695 719 3.448686 ACTGACAGAACTGAGTTTGTCG 58.551 45.455 22.87 20.36 36.90 4.35
751 779 2.051423 GCTTTTTCTAACCGTGCTTGC 58.949 47.619 0.00 0.00 0.00 4.01
752 780 2.287608 GCTTTTTCTAACCGTGCTTGCT 60.288 45.455 0.00 0.00 0.00 3.91
753 781 3.300009 CTTTTTCTAACCGTGCTTGCTG 58.700 45.455 0.00 0.00 0.00 4.41
754 782 1.961793 TTTCTAACCGTGCTTGCTGT 58.038 45.000 0.00 0.00 0.00 4.40
755 783 1.508632 TTCTAACCGTGCTTGCTGTC 58.491 50.000 0.00 0.00 0.00 3.51
756 784 0.666274 TCTAACCGTGCTTGCTGTCG 60.666 55.000 0.00 0.00 0.00 4.35
757 785 0.944311 CTAACCGTGCTTGCTGTCGT 60.944 55.000 0.00 0.00 0.00 4.34
762 790 1.003331 CCGTGCTTGCTGTCGTTTTTA 60.003 47.619 0.00 0.00 0.00 1.52
782 810 2.304751 TATTTTCGCGTCCCTTCTCC 57.695 50.000 5.77 0.00 0.00 3.71
783 811 0.739813 ATTTTCGCGTCCCTTCTCCG 60.740 55.000 5.77 0.00 0.00 4.63
784 812 2.091102 TTTTCGCGTCCCTTCTCCGT 62.091 55.000 5.77 0.00 0.00 4.69
785 813 1.243342 TTTCGCGTCCCTTCTCCGTA 61.243 55.000 5.77 0.00 0.00 4.02
786 814 1.243342 TTCGCGTCCCTTCTCCGTAA 61.243 55.000 5.77 0.00 0.00 3.18
787 815 1.213537 CGCGTCCCTTCTCCGTAAA 59.786 57.895 0.00 0.00 0.00 2.01
788 816 0.388907 CGCGTCCCTTCTCCGTAAAA 60.389 55.000 0.00 0.00 0.00 1.52
789 817 1.356938 GCGTCCCTTCTCCGTAAAAG 58.643 55.000 0.00 0.00 0.00 2.27
790 818 1.356938 CGTCCCTTCTCCGTAAAAGC 58.643 55.000 0.00 0.00 0.00 3.51
791 819 1.337447 CGTCCCTTCTCCGTAAAAGCA 60.337 52.381 0.00 0.00 0.00 3.91
792 820 2.677037 CGTCCCTTCTCCGTAAAAGCAT 60.677 50.000 0.00 0.00 0.00 3.79
794 822 2.017049 CCCTTCTCCGTAAAAGCATGG 58.983 52.381 0.00 0.00 0.00 3.66
795 823 2.618045 CCCTTCTCCGTAAAAGCATGGT 60.618 50.000 0.00 0.00 0.00 3.55
796 824 2.678336 CCTTCTCCGTAAAAGCATGGTC 59.322 50.000 0.00 0.00 0.00 4.02
797 825 2.004583 TCTCCGTAAAAGCATGGTCG 57.995 50.000 0.00 0.00 0.00 4.79
798 826 1.274167 TCTCCGTAAAAGCATGGTCGT 59.726 47.619 0.00 0.00 0.00 4.34
799 827 1.393539 CTCCGTAAAAGCATGGTCGTG 59.606 52.381 0.00 0.00 0.00 4.35
800 828 1.001068 TCCGTAAAAGCATGGTCGTGA 59.999 47.619 0.00 0.00 0.00 4.35
801 829 1.127951 CCGTAAAAGCATGGTCGTGAC 59.872 52.381 0.00 0.00 0.00 3.67
802 830 2.066262 CGTAAAAGCATGGTCGTGACT 58.934 47.619 0.00 0.00 0.00 3.41
803 831 2.159841 CGTAAAAGCATGGTCGTGACTG 60.160 50.000 0.00 0.00 0.00 3.51
804 832 2.254546 AAAAGCATGGTCGTGACTGA 57.745 45.000 0.00 0.00 0.00 3.41
805 833 2.479566 AAAGCATGGTCGTGACTGAT 57.520 45.000 0.00 0.00 0.00 2.90
806 834 2.015736 AAGCATGGTCGTGACTGATC 57.984 50.000 0.00 0.00 0.00 2.92
807 835 0.176680 AGCATGGTCGTGACTGATCC 59.823 55.000 0.00 0.00 0.00 3.36
808 836 1.148157 GCATGGTCGTGACTGATCCG 61.148 60.000 0.00 0.00 0.00 4.18
809 837 0.173481 CATGGTCGTGACTGATCCGT 59.827 55.000 0.00 0.00 0.00 4.69
810 838 0.456221 ATGGTCGTGACTGATCCGTC 59.544 55.000 10.11 10.11 34.52 4.79
811 839 1.139095 GGTCGTGACTGATCCGTCC 59.861 63.158 13.91 5.50 32.97 4.79
812 840 1.139095 GTCGTGACTGATCCGTCCC 59.861 63.158 13.91 2.45 32.97 4.46
813 841 2.050350 TCGTGACTGATCCGTCCCC 61.050 63.158 13.91 4.77 32.97 4.81
814 842 2.052690 CGTGACTGATCCGTCCCCT 61.053 63.158 13.91 0.00 32.97 4.79
815 843 1.517832 GTGACTGATCCGTCCCCTG 59.482 63.158 13.91 0.00 32.97 4.45
816 844 0.970937 GTGACTGATCCGTCCCCTGA 60.971 60.000 13.91 0.00 32.97 3.86
817 845 0.684479 TGACTGATCCGTCCCCTGAG 60.684 60.000 13.91 0.00 32.97 3.35
818 846 0.395862 GACTGATCCGTCCCCTGAGA 60.396 60.000 6.01 0.00 0.00 3.27
861 891 1.602191 GGCGAAATATAAATGCGGCG 58.398 50.000 0.51 0.51 37.76 6.46
881 911 1.887344 AACCCGCAATCAATGGTGGC 61.887 55.000 0.00 0.00 33.31 5.01
952 982 0.884704 GCACACCCTTTCTGCTTCGA 60.885 55.000 0.00 0.00 0.00 3.71
970 1004 0.108089 GACTTCCCCCTCTTCTTCGC 60.108 60.000 0.00 0.00 0.00 4.70
981 1015 4.564406 CCCTCTTCTTCGCCTGCATATATT 60.564 45.833 0.00 0.00 0.00 1.28
1003 1037 2.738139 CACACACCGCGAGCATGA 60.738 61.111 8.23 0.00 0.00 3.07
1004 1038 2.030412 ACACACCGCGAGCATGAA 59.970 55.556 8.23 0.00 0.00 2.57
1005 1039 2.317609 ACACACCGCGAGCATGAAC 61.318 57.895 8.23 0.00 0.00 3.18
1006 1040 2.029288 CACACCGCGAGCATGAACT 61.029 57.895 8.23 0.00 0.00 3.01
1111 1150 2.103263 ACAGTTTCTTGCGTCCTCTCTT 59.897 45.455 0.00 0.00 0.00 2.85
1199 1238 1.293179 TGCTACTGACGCACTGCAT 59.707 52.632 1.11 0.00 31.40 3.96
1217 1256 2.029244 GCATTCACGGTACAATCACTCG 59.971 50.000 0.00 0.00 0.00 4.18
1276 1349 4.267349 TGTACTTTACTGCTTGGTCTCC 57.733 45.455 0.00 0.00 0.00 3.71
1325 1407 2.476185 CGATTGTTCTGTGGCGAATTCC 60.476 50.000 0.00 0.00 0.00 3.01
1370 1452 1.155042 CAGCAGAAACAGGTGAGAGC 58.845 55.000 0.00 0.00 36.64 4.09
1373 1455 1.517242 CAGAAACAGGTGAGAGCCAC 58.483 55.000 0.00 0.00 44.95 5.01
1414 1513 5.693104 CAGCATCTATCTTCTTCAGCTCTTC 59.307 44.000 0.00 0.00 0.00 2.87
1711 1813 0.828022 CACCGACCCCAGTAAGCATA 59.172 55.000 0.00 0.00 0.00 3.14
1712 1814 0.828677 ACCGACCCCAGTAAGCATAC 59.171 55.000 0.00 0.00 0.00 2.39
1713 1815 0.828022 CCGACCCCAGTAAGCATACA 59.172 55.000 1.44 0.00 34.29 2.29
1714 1816 1.416401 CCGACCCCAGTAAGCATACAT 59.584 52.381 1.44 0.00 34.29 2.29
1715 1817 2.548067 CCGACCCCAGTAAGCATACATC 60.548 54.545 1.44 0.00 34.29 3.06
1716 1818 2.755650 GACCCCAGTAAGCATACATCG 58.244 52.381 1.44 0.00 34.29 3.84
1717 1819 1.202651 ACCCCAGTAAGCATACATCGC 60.203 52.381 1.44 0.00 34.29 4.58
1758 1861 0.171007 CATGCCGCCGTTTCTCAAAT 59.829 50.000 0.00 0.00 0.00 2.32
1759 1862 0.451783 ATGCCGCCGTTTCTCAAATC 59.548 50.000 0.00 0.00 0.00 2.17
1760 1863 0.605319 TGCCGCCGTTTCTCAAATCT 60.605 50.000 0.00 0.00 0.00 2.40
1761 1864 0.097150 GCCGCCGTTTCTCAAATCTC 59.903 55.000 0.00 0.00 0.00 2.75
1762 1865 1.726853 CCGCCGTTTCTCAAATCTCT 58.273 50.000 0.00 0.00 0.00 3.10
1763 1866 1.661112 CCGCCGTTTCTCAAATCTCTC 59.339 52.381 0.00 0.00 0.00 3.20
1764 1867 2.611518 CGCCGTTTCTCAAATCTCTCT 58.388 47.619 0.00 0.00 0.00 3.10
1765 1868 2.600867 CGCCGTTTCTCAAATCTCTCTC 59.399 50.000 0.00 0.00 0.00 3.20
1766 1869 3.674682 CGCCGTTTCTCAAATCTCTCTCT 60.675 47.826 0.00 0.00 0.00 3.10
1767 1870 3.862845 GCCGTTTCTCAAATCTCTCTCTC 59.137 47.826 0.00 0.00 0.00 3.20
1768 1871 4.381505 GCCGTTTCTCAAATCTCTCTCTCT 60.382 45.833 0.00 0.00 0.00 3.10
1769 1872 5.339990 CCGTTTCTCAAATCTCTCTCTCTC 58.660 45.833 0.00 0.00 0.00 3.20
1770 1873 5.125417 CCGTTTCTCAAATCTCTCTCTCTCT 59.875 44.000 0.00 0.00 0.00 3.10
1771 1874 6.258160 CGTTTCTCAAATCTCTCTCTCTCTC 58.742 44.000 0.00 0.00 0.00 3.20
1772 1875 6.094048 CGTTTCTCAAATCTCTCTCTCTCTCT 59.906 42.308 0.00 0.00 0.00 3.10
1773 1876 7.475840 GTTTCTCAAATCTCTCTCTCTCTCTC 58.524 42.308 0.00 0.00 0.00 3.20
1774 1877 6.566079 TCTCAAATCTCTCTCTCTCTCTCT 57.434 41.667 0.00 0.00 0.00 3.10
1775 1878 6.586344 TCTCAAATCTCTCTCTCTCTCTCTC 58.414 44.000 0.00 0.00 0.00 3.20
1776 1879 6.385176 TCTCAAATCTCTCTCTCTCTCTCTCT 59.615 42.308 0.00 0.00 0.00 3.10
1777 1880 6.586344 TCAAATCTCTCTCTCTCTCTCTCTC 58.414 44.000 0.00 0.00 0.00 3.20
1778 1881 6.385176 TCAAATCTCTCTCTCTCTCTCTCTCT 59.615 42.308 0.00 0.00 0.00 3.10
1779 1882 6.418057 AATCTCTCTCTCTCTCTCTCTCTC 57.582 45.833 0.00 0.00 0.00 3.20
1780 1883 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
1781 1884 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1782 1885 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1783 1886 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1784 1887 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1785 1888 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1786 1889 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1787 1890 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1788 1891 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1789 1892 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1880 1994 1.222936 GCATGAGTCCAGTCCAGGG 59.777 63.158 0.00 0.00 0.00 4.45
1883 1997 2.122954 GAGTCCAGTCCAGGGGGT 59.877 66.667 0.00 0.00 34.93 4.95
1941 2055 7.996644 GGATATATGTGTTTGTCCCCTAGAAAA 59.003 37.037 0.00 0.00 0.00 2.29
1954 2068 7.229907 TGTCCCCTAGAAAATTTAGTGTGTTTC 59.770 37.037 0.00 0.00 0.00 2.78
1967 2081 5.248870 AGTGTGTTTCTTTTCACCATCAC 57.751 39.130 0.00 0.00 34.14 3.06
2010 2125 3.503748 GGCATAGCTTCAGTGTTTGAGTT 59.496 43.478 0.00 0.00 37.07 3.01
2012 2127 5.181245 GGCATAGCTTCAGTGTTTGAGTTAA 59.819 40.000 0.00 0.00 37.07 2.01
2077 2192 7.940850 TGAATTATCATTTTAGTTGCCCTAGC 58.059 34.615 0.00 0.00 40.48 3.42
2081 2196 3.938963 TCATTTTAGTTGCCCTAGCGAAG 59.061 43.478 0.00 0.00 44.31 3.79
2232 2351 6.590292 ACAACATTACTGTCGACAAATCTAGG 59.410 38.462 20.49 8.42 33.36 3.02
2317 2436 6.183309 GGCTTGTACAAGACATTTTAGAGG 57.817 41.667 34.43 8.78 45.69 3.69
2364 2483 2.358957 TGCTGGAAATTCATGTCTCCG 58.641 47.619 0.00 0.00 0.00 4.63
2374 2493 1.672356 ATGTCTCCGCCAACACAGC 60.672 57.895 0.00 0.00 0.00 4.40
2392 2511 2.024176 GCTTCGGCTACCTGAAATGA 57.976 50.000 0.00 0.00 38.08 2.57
2393 2512 2.356135 GCTTCGGCTACCTGAAATGAA 58.644 47.619 0.00 0.00 38.08 2.57
2398 2517 3.751175 TCGGCTACCTGAAATGAAACAAG 59.249 43.478 0.00 0.00 0.00 3.16
2423 2542 2.403252 ATGGGAGTCAACTAAAGCCG 57.597 50.000 0.00 0.00 0.00 5.52
2444 2563 7.384477 AGCCGTACCTTCAATATTTAGGATAC 58.616 38.462 16.70 13.56 33.21 2.24
2538 2657 6.493458 AGTCCCATGCTAAAAACACAATAACT 59.507 34.615 0.00 0.00 0.00 2.24
2590 2719 7.744087 GATACCATCCAAACTTACATGCATA 57.256 36.000 0.00 0.00 0.00 3.14
2591 2720 8.165239 GATACCATCCAAACTTACATGCATAA 57.835 34.615 0.00 0.00 0.00 1.90
2592 2721 6.849085 ACCATCCAAACTTACATGCATAAA 57.151 33.333 0.00 0.00 0.00 1.40
2593 2722 7.422465 ACCATCCAAACTTACATGCATAAAT 57.578 32.000 0.00 0.00 0.00 1.40
2594 2723 7.850193 ACCATCCAAACTTACATGCATAAATT 58.150 30.769 0.00 0.00 0.00 1.82
2595 2724 7.765360 ACCATCCAAACTTACATGCATAAATTG 59.235 33.333 0.00 0.20 0.00 2.32
2672 2803 6.682861 GCTTCATTAAACAACACTTCAACCCT 60.683 38.462 0.00 0.00 0.00 4.34
2857 2988 6.624423 AGTTTACATGATTTGATTGCAGGAC 58.376 36.000 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.579201 CGCCACTGGAGTTCCGAT 59.421 61.111 0.00 0.00 39.43 4.18
1 2 3.691342 CCGCCACTGGAGTTCCGA 61.691 66.667 0.00 0.00 39.43 4.55
18 19 4.416738 GGCCCTCCTCCACACAGC 62.417 72.222 0.00 0.00 0.00 4.40
70 71 0.166814 GCCAATTCGCTCATATCCGC 59.833 55.000 0.00 0.00 0.00 5.54
71 72 0.439985 CGCCAATTCGCTCATATCCG 59.560 55.000 0.00 0.00 0.00 4.18
124 125 2.521958 GATATGGGGATGCCCGGACG 62.522 65.000 18.66 0.00 46.66 4.79
129 130 1.000396 GGCAGATATGGGGATGCCC 60.000 63.158 16.99 16.99 44.51 5.36
132 133 0.330604 CTGGGGCAGATATGGGGATG 59.669 60.000 0.00 0.00 32.44 3.51
175 176 1.002134 AAATGCCCGGACTGACAGG 60.002 57.895 0.73 0.00 0.00 4.00
177 178 0.888736 CACAAATGCCCGGACTGACA 60.889 55.000 0.73 0.00 0.00 3.58
185 186 1.172180 ATATCCGCCACAAATGCCCG 61.172 55.000 0.00 0.00 0.00 6.13
222 223 2.396157 GCACGGACGGGAAATCACC 61.396 63.158 0.00 0.00 0.00 4.02
223 224 2.736682 CGCACGGACGGGAAATCAC 61.737 63.158 0.00 0.00 0.00 3.06
233 234 2.808181 ATACCCCCAAACGCACGGAC 62.808 60.000 0.00 0.00 0.00 4.79
292 293 1.805120 CGGTGACATCGGTGGGTAATC 60.805 57.143 0.00 0.00 0.00 1.75
301 302 1.209128 GCACTTATCGGTGACATCGG 58.791 55.000 8.51 0.00 39.34 4.18
302 303 1.921243 TGCACTTATCGGTGACATCG 58.079 50.000 0.39 0.39 39.34 3.84
313 314 7.502561 GGGGAATAAAACAGAGTATGCACTTAT 59.497 37.037 0.00 0.00 34.21 1.73
342 346 1.808411 ATATATTTGGCTCGGTGGCG 58.192 50.000 0.00 0.00 45.14 5.69
343 347 5.897377 AAATATATATTTGGCTCGGTGGC 57.103 39.130 17.95 0.00 42.18 5.01
344 348 7.807907 GTGAAAAATATATATTTGGCTCGGTGG 59.192 37.037 19.08 0.00 36.14 4.61
347 351 7.881142 TGGTGAAAAATATATATTTGGCTCGG 58.119 34.615 19.08 0.00 36.14 4.63
398 402 9.620660 AGTTTACTGTGTTTTGTTTTCAACTAG 57.379 29.630 0.00 0.00 39.73 2.57
418 422 4.919754 CAGCTCCATCAAAAAGCAGTTTAC 59.080 41.667 0.00 0.00 38.51 2.01
436 440 6.545504 TCAGTTTCATTCAAGTTACAGCTC 57.454 37.500 0.00 0.00 0.00 4.09
464 470 3.099905 CTCCACTCCATCAAGTCCAGTA 58.900 50.000 0.00 0.00 0.00 2.74
471 477 0.036010 AACCGCTCCACTCCATCAAG 60.036 55.000 0.00 0.00 0.00 3.02
491 497 1.613437 CCACAGTTAGGCCTTGTTTGG 59.387 52.381 12.58 8.21 0.00 3.28
508 514 6.053650 AGTAAACTTCCAACAAGACTACCAC 58.946 40.000 0.00 0.00 0.00 4.16
531 537 7.284489 GGAGGGAGTACTTATCAGATATGCTAG 59.716 44.444 0.00 0.00 0.00 3.42
532 538 7.120051 GGAGGGAGTACTTATCAGATATGCTA 58.880 42.308 0.00 0.00 0.00 3.49
533 539 5.955355 GGAGGGAGTACTTATCAGATATGCT 59.045 44.000 0.00 0.00 0.00 3.79
539 545 5.103043 AGGAATGGAGGGAGTACTTATCAGA 60.103 44.000 0.00 0.00 0.00 3.27
642 648 7.390162 GCTAGCAAGCTTGGAGATATAATTCTT 59.610 37.037 27.10 0.46 45.85 2.52
644 650 7.071014 GCTAGCAAGCTTGGAGATATAATTC 57.929 40.000 27.10 6.40 45.85 2.17
660 684 3.315470 TCTGTCAGTATACCGCTAGCAAG 59.685 47.826 16.45 7.92 0.00 4.01
669 693 6.456501 ACAAACTCAGTTCTGTCAGTATACC 58.543 40.000 0.00 0.00 0.00 2.73
695 719 1.226888 GTATCTCCACGACACGCCC 60.227 63.158 0.00 0.00 0.00 6.13
715 739 2.436646 GCACTGCCATGTACGCCT 60.437 61.111 0.00 0.00 0.00 5.52
751 779 5.446899 GGACGCGAAAATATAAAAACGACAG 59.553 40.000 15.93 0.00 0.00 3.51
752 780 5.315195 GGACGCGAAAATATAAAAACGACA 58.685 37.500 15.93 0.00 0.00 4.35
753 781 4.725280 GGGACGCGAAAATATAAAAACGAC 59.275 41.667 15.93 0.00 0.00 4.34
754 782 4.630940 AGGGACGCGAAAATATAAAAACGA 59.369 37.500 15.93 0.00 0.00 3.85
755 783 4.900664 AGGGACGCGAAAATATAAAAACG 58.099 39.130 15.93 0.00 0.00 3.60
756 784 6.549061 AGAAGGGACGCGAAAATATAAAAAC 58.451 36.000 15.93 0.00 0.00 2.43
757 785 6.183360 GGAGAAGGGACGCGAAAATATAAAAA 60.183 38.462 15.93 0.00 0.00 1.94
762 790 2.802057 CGGAGAAGGGACGCGAAAATAT 60.802 50.000 15.93 0.00 0.00 1.28
782 810 2.066262 AGTCACGACCATGCTTTTACG 58.934 47.619 0.00 0.00 0.00 3.18
783 811 3.064207 TCAGTCACGACCATGCTTTTAC 58.936 45.455 0.00 0.00 0.00 2.01
784 812 3.394674 TCAGTCACGACCATGCTTTTA 57.605 42.857 0.00 0.00 0.00 1.52
785 813 2.254546 TCAGTCACGACCATGCTTTT 57.745 45.000 0.00 0.00 0.00 2.27
786 814 2.350522 GATCAGTCACGACCATGCTTT 58.649 47.619 0.00 0.00 0.00 3.51
787 815 1.406069 GGATCAGTCACGACCATGCTT 60.406 52.381 0.00 0.00 0.00 3.91
788 816 0.176680 GGATCAGTCACGACCATGCT 59.823 55.000 0.00 0.00 0.00 3.79
789 817 1.148157 CGGATCAGTCACGACCATGC 61.148 60.000 0.00 0.00 0.00 4.06
790 818 0.173481 ACGGATCAGTCACGACCATG 59.827 55.000 0.00 0.00 0.00 3.66
791 819 0.456221 GACGGATCAGTCACGACCAT 59.544 55.000 19.49 0.00 40.65 3.55
792 820 1.592400 GGACGGATCAGTCACGACCA 61.592 60.000 24.43 0.00 42.62 4.02
794 822 1.139095 GGGACGGATCAGTCACGAC 59.861 63.158 24.43 9.35 42.62 4.34
795 823 2.050350 GGGGACGGATCAGTCACGA 61.050 63.158 24.43 0.00 45.08 4.35
796 824 2.052690 AGGGGACGGATCAGTCACG 61.053 63.158 24.43 7.48 45.08 4.35
797 825 0.970937 TCAGGGGACGGATCAGTCAC 60.971 60.000 24.43 21.77 43.50 3.67
798 826 0.684479 CTCAGGGGACGGATCAGTCA 60.684 60.000 24.43 5.70 42.62 3.41
799 827 0.395862 TCTCAGGGGACGGATCAGTC 60.396 60.000 16.66 16.66 40.25 3.51
800 828 0.041238 TTCTCAGGGGACGGATCAGT 59.959 55.000 0.00 0.00 32.85 3.41
801 829 1.134670 GTTTCTCAGGGGACGGATCAG 60.135 57.143 0.00 0.00 32.85 2.90
802 830 0.902531 GTTTCTCAGGGGACGGATCA 59.097 55.000 0.00 0.00 32.85 2.92
803 831 0.902531 TGTTTCTCAGGGGACGGATC 59.097 55.000 0.00 0.00 32.85 3.36
804 832 0.905357 CTGTTTCTCAGGGGACGGAT 59.095 55.000 0.00 0.00 40.23 4.18
805 833 0.178944 TCTGTTTCTCAGGGGACGGA 60.179 55.000 0.00 0.00 43.76 4.69
806 834 0.685097 TTCTGTTTCTCAGGGGACGG 59.315 55.000 0.00 0.00 43.76 4.79
807 835 1.618837 TCTTCTGTTTCTCAGGGGACG 59.381 52.381 0.00 0.00 43.76 4.79
808 836 3.771577 TTCTTCTGTTTCTCAGGGGAC 57.228 47.619 0.00 0.00 43.76 4.46
809 837 3.494398 CGTTTCTTCTGTTTCTCAGGGGA 60.494 47.826 0.00 0.00 43.76 4.81
810 838 2.808543 CGTTTCTTCTGTTTCTCAGGGG 59.191 50.000 0.00 0.00 43.76 4.79
811 839 2.808543 CCGTTTCTTCTGTTTCTCAGGG 59.191 50.000 0.00 0.00 43.76 4.45
812 840 3.728845 TCCGTTTCTTCTGTTTCTCAGG 58.271 45.455 0.00 0.00 43.76 3.86
813 841 3.743396 CCTCCGTTTCTTCTGTTTCTCAG 59.257 47.826 0.00 0.00 44.85 3.35
814 842 3.728845 CCTCCGTTTCTTCTGTTTCTCA 58.271 45.455 0.00 0.00 0.00 3.27
815 843 2.480802 GCCTCCGTTTCTTCTGTTTCTC 59.519 50.000 0.00 0.00 0.00 2.87
816 844 2.495084 GCCTCCGTTTCTTCTGTTTCT 58.505 47.619 0.00 0.00 0.00 2.52
817 845 1.194772 CGCCTCCGTTTCTTCTGTTTC 59.805 52.381 0.00 0.00 0.00 2.78
818 846 1.226746 CGCCTCCGTTTCTTCTGTTT 58.773 50.000 0.00 0.00 0.00 2.83
847 875 1.533731 CGGGTTCGCCGCATTTATATT 59.466 47.619 0.00 0.00 38.45 1.28
861 891 0.173255 CCACCATTGATTGCGGGTTC 59.827 55.000 0.00 0.00 0.00 3.62
877 907 2.284952 GCAAATCCAATTTATGCGCCAC 59.715 45.455 4.18 0.00 0.00 5.01
881 911 6.925165 AGGAAATAGCAAATCCAATTTATGCG 59.075 34.615 0.00 0.00 35.62 4.73
952 982 1.554583 GGCGAAGAAGAGGGGGAAGT 61.555 60.000 0.00 0.00 0.00 3.01
970 1004 2.871633 TGTGTGCGTGAATATATGCAGG 59.128 45.455 8.78 8.78 42.75 4.85
996 1030 3.059570 CGACTGTTTCGTAGTTCATGCTC 59.940 47.826 0.00 0.00 43.24 4.26
998 1032 3.354771 CGACTGTTTCGTAGTTCATGC 57.645 47.619 0.00 0.00 43.24 4.06
1047 1086 0.747255 TGCAGAGGAGAAGGCGATAC 59.253 55.000 0.00 0.00 0.00 2.24
1048 1087 1.615883 GATGCAGAGGAGAAGGCGATA 59.384 52.381 0.00 0.00 0.00 2.92
1049 1088 0.392336 GATGCAGAGGAGAAGGCGAT 59.608 55.000 0.00 0.00 0.00 4.58
1050 1089 1.680522 GGATGCAGAGGAGAAGGCGA 61.681 60.000 0.00 0.00 0.00 5.54
1051 1090 1.227497 GGATGCAGAGGAGAAGGCG 60.227 63.158 0.00 0.00 0.00 5.52
1052 1091 0.106521 GAGGATGCAGAGGAGAAGGC 59.893 60.000 0.00 0.00 0.00 4.35
1053 1092 1.138661 GTGAGGATGCAGAGGAGAAGG 59.861 57.143 0.00 0.00 0.00 3.46
1054 1093 1.829849 TGTGAGGATGCAGAGGAGAAG 59.170 52.381 0.00 0.00 0.00 2.85
1055 1094 1.942776 TGTGAGGATGCAGAGGAGAA 58.057 50.000 0.00 0.00 0.00 2.87
1111 1150 4.144297 CCCATCTCTTTCTTGTGACCAAA 58.856 43.478 0.00 0.00 0.00 3.28
1199 1238 2.293955 TGACGAGTGATTGTACCGTGAA 59.706 45.455 0.00 0.00 33.32 3.18
1217 1256 1.933853 CCACGGAATTCGGAGATTGAC 59.066 52.381 18.83 0.00 44.45 3.18
1370 1452 0.757188 ATAGGCGGTCAGGAGAGTGG 60.757 60.000 0.00 0.00 0.00 4.00
1373 1455 0.958091 CTGATAGGCGGTCAGGAGAG 59.042 60.000 12.51 0.00 39.48 3.20
1414 1513 5.180117 ACAGCAGCAAAACTATGAGTAACTG 59.820 40.000 0.00 0.00 0.00 3.16
1711 1813 0.386838 TGAGATGAGATGCGCGATGT 59.613 50.000 12.10 0.00 0.00 3.06
1712 1814 1.654602 GATGAGATGAGATGCGCGATG 59.345 52.381 12.10 0.00 0.00 3.84
1713 1815 1.545136 AGATGAGATGAGATGCGCGAT 59.455 47.619 12.10 0.00 0.00 4.58
1714 1816 0.957362 AGATGAGATGAGATGCGCGA 59.043 50.000 12.10 0.00 0.00 5.87
1715 1817 1.335689 TGAGATGAGATGAGATGCGCG 60.336 52.381 0.00 0.00 0.00 6.86
1716 1818 2.435533 TGAGATGAGATGAGATGCGC 57.564 50.000 0.00 0.00 0.00 6.09
1717 1819 4.082679 TGAGATGAGATGAGATGAGATGCG 60.083 45.833 0.00 0.00 0.00 4.73
1758 1861 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1759 1862 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1760 1863 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1761 1864 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1762 1865 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1763 1866 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1764 1867 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1765 1868 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1766 1869 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1767 1870 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1768 1871 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1769 1872 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1770 1873 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1771 1874 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1772 1875 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1773 1876 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1774 1877 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1775 1878 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1776 1879 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
1777 1880 5.128499 ACAAGAGAGAGAGAGAGAGAGAGAG 59.872 48.000 0.00 0.00 0.00 3.20
1778 1881 5.026121 ACAAGAGAGAGAGAGAGAGAGAGA 58.974 45.833 0.00 0.00 0.00 3.10
1779 1882 5.114780 CACAAGAGAGAGAGAGAGAGAGAG 58.885 50.000 0.00 0.00 0.00 3.20
1780 1883 4.623886 GCACAAGAGAGAGAGAGAGAGAGA 60.624 50.000 0.00 0.00 0.00 3.10
1781 1884 3.624861 GCACAAGAGAGAGAGAGAGAGAG 59.375 52.174 0.00 0.00 0.00 3.20
1782 1885 3.264193 AGCACAAGAGAGAGAGAGAGAGA 59.736 47.826 0.00 0.00 0.00 3.10
1783 1886 3.614092 AGCACAAGAGAGAGAGAGAGAG 58.386 50.000 0.00 0.00 0.00 3.20
1784 1887 3.008923 TGAGCACAAGAGAGAGAGAGAGA 59.991 47.826 0.00 0.00 0.00 3.10
1785 1888 3.346315 TGAGCACAAGAGAGAGAGAGAG 58.654 50.000 0.00 0.00 0.00 3.20
1786 1889 3.431673 TGAGCACAAGAGAGAGAGAGA 57.568 47.619 0.00 0.00 0.00 3.10
1787 1890 3.949754 AGATGAGCACAAGAGAGAGAGAG 59.050 47.826 0.00 0.00 0.00 3.20
1788 1891 3.695556 CAGATGAGCACAAGAGAGAGAGA 59.304 47.826 0.00 0.00 0.00 3.10
1789 1892 3.695556 TCAGATGAGCACAAGAGAGAGAG 59.304 47.826 0.00 0.00 0.00 3.20
1869 1983 1.846124 GTGAACCCCCTGGACTGGA 60.846 63.158 0.00 0.00 34.81 3.86
1880 1994 0.034896 TTCTCGGCTTCAGTGAACCC 59.965 55.000 7.10 7.10 0.00 4.11
1883 1997 5.547465 TCTTATTTTCTCGGCTTCAGTGAA 58.453 37.500 5.25 5.25 0.00 3.18
1927 2041 6.607019 ACACACTAAATTTTCTAGGGGACAA 58.393 36.000 0.00 0.00 0.00 3.18
1941 2055 7.920682 GTGATGGTGAAAAGAAACACACTAAAT 59.079 33.333 0.00 0.00 38.57 1.40
1954 2068 2.361757 TGGCAGTTGTGATGGTGAAAAG 59.638 45.455 0.00 0.00 0.00 2.27
1967 2081 3.495193 CTGATTCGAACAATGGCAGTTG 58.505 45.455 0.00 2.94 35.25 3.16
2010 2125 5.545335 AGCATAGGATGGACATCTCATGTTA 59.455 40.000 18.69 5.09 45.03 2.41
2056 2171 5.676552 TCGCTAGGGCAACTAAAATGATAA 58.323 37.500 1.02 0.00 38.60 1.75
2065 2180 2.167075 GGTAACTTCGCTAGGGCAACTA 59.833 50.000 1.02 0.00 38.60 2.24
2075 2190 2.354805 GGATTGGTCTGGTAACTTCGCT 60.355 50.000 0.00 0.00 37.61 4.93
2077 2192 3.000727 GTGGATTGGTCTGGTAACTTCG 58.999 50.000 0.00 0.00 37.61 3.79
2081 2196 1.084289 GCGTGGATTGGTCTGGTAAC 58.916 55.000 0.00 0.00 0.00 2.50
2180 2299 5.627367 TGTTTTAACTTGCGTGCATTGATAC 59.373 36.000 0.00 0.00 0.00 2.24
2232 2351 5.763204 TCCTAATGTCTTGACAGTTTCCAAC 59.237 40.000 8.97 0.00 0.00 3.77
2283 2402 6.204688 TGTCTTGTACAAGCCTCTAAAATGTG 59.795 38.462 27.49 3.35 38.28 3.21
2300 2419 7.446769 TGTACAAGCCTCTAAAATGTCTTGTA 58.553 34.615 8.12 8.12 42.52 2.41
2317 2436 5.054477 TGGTGTTTACTCTCTTGTACAAGC 58.946 41.667 27.49 13.27 38.28 4.01
2374 2493 3.751175 TGTTTCATTTCAGGTAGCCGAAG 59.249 43.478 0.00 0.00 0.00 3.79
2392 2511 5.422012 AGTTGACTCCCATTCAAACTTGTTT 59.578 36.000 0.00 0.00 34.78 2.83
2393 2512 4.956075 AGTTGACTCCCATTCAAACTTGTT 59.044 37.500 0.00 0.00 34.78 2.83
2398 2517 5.461526 GCTTTAGTTGACTCCCATTCAAAC 58.538 41.667 0.00 0.00 34.78 2.93
2423 2542 8.989980 GCAGTGTATCCTAAATATTGAAGGTAC 58.010 37.037 13.99 14.42 0.00 3.34
2444 2563 6.256321 ACATTCAAGCTTTAGTTTTTGCAGTG 59.744 34.615 0.00 0.00 0.00 3.66
2460 2579 7.387673 AGCCCTTTGTAAAATTTACATTCAAGC 59.612 33.333 17.94 16.03 0.00 4.01
2593 2722 8.137437 GCCAGATTAGCAATTTAAGATTAGCAA 58.863 33.333 0.00 0.00 0.00 3.91
2594 2723 7.503566 AGCCAGATTAGCAATTTAAGATTAGCA 59.496 33.333 0.00 0.00 0.00 3.49
2595 2724 7.880105 AGCCAGATTAGCAATTTAAGATTAGC 58.120 34.615 0.00 0.00 0.00 3.09
2596 2725 9.890352 GAAGCCAGATTAGCAATTTAAGATTAG 57.110 33.333 0.00 0.00 0.00 1.73
2597 2726 9.632638 AGAAGCCAGATTAGCAATTTAAGATTA 57.367 29.630 0.00 0.00 0.00 1.75
2598 2727 8.530804 AGAAGCCAGATTAGCAATTTAAGATT 57.469 30.769 0.00 0.00 0.00 2.40
2599 2728 8.530804 AAGAAGCCAGATTAGCAATTTAAGAT 57.469 30.769 0.00 0.00 0.00 2.40
2600 2729 7.611467 TGAAGAAGCCAGATTAGCAATTTAAGA 59.389 33.333 0.00 0.00 0.00 2.10
2601 2730 7.765307 TGAAGAAGCCAGATTAGCAATTTAAG 58.235 34.615 0.00 0.00 0.00 1.85
2602 2731 7.701539 TGAAGAAGCCAGATTAGCAATTTAA 57.298 32.000 0.00 0.00 0.00 1.52
2603 2732 7.701539 TTGAAGAAGCCAGATTAGCAATTTA 57.298 32.000 0.00 0.00 0.00 1.40
2604 2733 6.594788 TTGAAGAAGCCAGATTAGCAATTT 57.405 33.333 0.00 0.00 0.00 1.82
2672 2803 4.998671 TTCACAGAACTGGAATTGCAAA 57.001 36.364 1.71 0.00 34.19 3.68
2728 2859 5.230182 TGCACTTCTTATCATGGTATAGCG 58.770 41.667 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.