Multiple sequence alignment - TraesCS5A01G084900

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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 TraesCS5A01G084900 chr5A 100.000 3035 0 0 1 3035 111552950 111555984 0.000000e+00 5605.0
1 TraesCS5A01G084900 chr5A 75.052 485 87 26 38 504 359018059 359017591 8.590000e-46 195.0
2 TraesCS5A01G084900 chr5A 96.460 113 4 0 654 766 370194641 370194529 1.440000e-43 187.0
3 TraesCS5A01G084900 chr5D 92.226 1325 58 17 804 2097 108086242 108087552 0.000000e+00 1834.0
4 TraesCS5A01G084900 chr5D 89.717 778 44 13 2111 2881 108087775 108088523 0.000000e+00 961.0
5 TraesCS5A01G084900 chr5D 85.913 646 73 6 1 645 108085601 108086229 0.000000e+00 673.0
6 TraesCS5A01G084900 chr5D 94.118 153 9 0 652 804 394217940 394218092 1.820000e-57 233.0
7 TraesCS5A01G084900 chr5D 90.000 150 13 2 2887 3035 108088572 108088720 3.090000e-45 193.0
8 TraesCS5A01G084900 chr5B 91.847 1337 60 23 804 2114 118420177 118421490 0.000000e+00 1820.0
9 TraesCS5A01G084900 chr5B 88.758 765 40 16 2119 2881 118421550 118422270 0.000000e+00 894.0
10 TraesCS5A01G084900 chr5B 84.351 639 78 11 1 634 118419531 118420152 9.310000e-170 606.0
11 TraesCS5A01G084900 chr5B 93.960 149 9 0 656 804 513798068 513797920 3.040000e-55 226.0
12 TraesCS5A01G084900 chr5B 76.808 401 75 14 117 504 306421411 306421016 3.070000e-50 209.0
13 TraesCS5A01G084900 chr5B 76.559 401 76 14 117 504 306419935 306419540 1.430000e-48 204.0
14 TraesCS5A01G084900 chr5B 76.559 401 76 14 117 504 306420673 306420278 1.430000e-48 204.0
15 TraesCS5A01G084900 chr5B 76.559 401 76 14 117 504 306422149 306421754 1.430000e-48 204.0
16 TraesCS5A01G084900 chr5B 89.333 150 16 0 2886 3035 118422318 118422467 3.990000e-44 189.0
17 TraesCS5A01G084900 chr3B 95.333 150 7 0 655 804 25486175 25486026 3.910000e-59 239.0
18 TraesCS5A01G084900 chr3D 93.590 156 9 1 652 807 550743493 550743339 6.540000e-57 231.0
19 TraesCS5A01G084900 chr1A 94.079 152 9 0 653 804 437719818 437719969 6.540000e-57 231.0
20 TraesCS5A01G084900 chr2B 92.667 150 11 0 655 804 741989250 741989101 1.830000e-52 217.0
21 TraesCS5A01G084900 chr6D 95.918 98 3 1 670 766 450345792 450345695 1.130000e-34 158.0
22 TraesCS5A01G084900 chr2A 94.186 86 5 0 655 740 276054554 276054469 6.830000e-27 132.0
23 TraesCS5A01G084900 chr7A 73.684 285 59 14 192 462 697129085 697128803 2.490000e-16 97.1
24 TraesCS5A01G084900 chr6A 74.737 190 44 4 38 225 422321478 422321665 6.970000e-12 82.4


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 TraesCS5A01G084900 chr5A 111552950 111555984 3034 False 5605.00 5605 100.00000 1 3035 1 chr5A.!!$F1 3034
1 TraesCS5A01G084900 chr5D 108085601 108088720 3119 False 915.25 1834 89.46400 1 3035 4 chr5D.!!$F2 3034
2 TraesCS5A01G084900 chr5B 118419531 118422467 2936 False 877.25 1820 88.57225 1 3035 4 chr5B.!!$F1 3034
3 TraesCS5A01G084900 chr5B 306419540 306422149 2609 True 205.25 209 76.62125 117 504 4 chr5B.!!$R2 387

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
658 2036 0.106419 AAGGGGAGTGGCAAACGAAA 60.106 50.0 0.0 0.0 0.0 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2501 4158 0.034863 TTGCCCCCTTACATTCGGTC 60.035 55.0 0.0 0.0 0.0 4.79 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
17 18 3.308660 CGCGCGCAGTATCAATGA 58.691 55.556 32.61 0.00 0.00 2.57
30 31 5.633601 CAGTATCAATGACAGTACGTGTGTT 59.366 40.000 0.00 0.00 40.56 3.32
61 62 1.079127 CGGCGTCAACTTCTCCCAT 60.079 57.895 0.00 0.00 0.00 4.00
74 75 1.538629 TCCCATGACTGGCACCTCA 60.539 57.895 0.00 0.00 41.64 3.86
83 84 3.897122 GGCACCTCAACCCCCACA 61.897 66.667 0.00 0.00 0.00 4.17
90 91 2.362889 CAACCCCCACAGCATCCC 60.363 66.667 0.00 0.00 0.00 3.85
143 766 2.185350 CGAAGGAGGTGCGCAGAT 59.815 61.111 12.22 0.67 0.00 2.90
167 790 2.754658 CCCTCCTGACGCCGTAGT 60.755 66.667 0.00 0.00 0.00 2.73
168 791 2.490217 CCTCCTGACGCCGTAGTG 59.510 66.667 0.00 0.00 0.00 2.74
399 1037 1.373999 CGCTCTAGCTAGGCATGGC 60.374 63.158 24.67 12.14 39.32 4.40
425 1063 2.667199 TCCAGCTGTCGACGACGA 60.667 61.111 22.06 5.75 46.56 4.20
443 1820 2.778850 ACGAGGACTATGTCTACCCTCT 59.221 50.000 0.00 0.00 40.82 3.69
479 1857 2.282391 TGAAACAGCGCCAGCCAT 60.282 55.556 2.29 0.00 46.67 4.40
480 1858 2.180017 GAAACAGCGCCAGCCATG 59.820 61.111 2.29 0.00 46.67 3.66
518 1896 0.675522 AGGCCACGTTGGAATTACCG 60.676 55.000 5.01 0.00 40.96 4.02
536 1914 2.521224 GCCGTCGGGGAGAGGTAT 60.521 66.667 14.38 0.00 38.47 2.73
548 1926 3.577919 GGAGAGGTATATGTGGACTGGT 58.422 50.000 0.00 0.00 0.00 4.00
549 1927 4.448787 GGGAGAGGTATATGTGGACTGGTA 60.449 50.000 0.00 0.00 0.00 3.25
581 1959 2.672996 GTGAGTGCACCGGCCATT 60.673 61.111 14.63 0.00 39.14 3.16
583 1961 1.530419 TGAGTGCACCGGCCATTTT 60.530 52.632 14.63 0.00 40.13 1.82
596 1974 2.496871 GGCCATTTTGATGACATCCACA 59.503 45.455 12.90 0.00 0.00 4.17
639 2017 1.293498 GAGCAGTGAAAGGCGGAGA 59.707 57.895 0.00 0.00 34.54 3.71
647 2025 1.539124 AAAGGCGGAGAAGGGGAGT 60.539 57.895 0.00 0.00 0.00 3.85
649 2027 3.787001 GGCGGAGAAGGGGAGTGG 61.787 72.222 0.00 0.00 0.00 4.00
653 2031 1.767692 GGAGAAGGGGAGTGGCAAA 59.232 57.895 0.00 0.00 0.00 3.68
655 2033 0.955919 GAGAAGGGGAGTGGCAAACG 60.956 60.000 0.00 0.00 0.00 3.60
656 2034 1.072505 GAAGGGGAGTGGCAAACGA 59.927 57.895 0.00 0.00 0.00 3.85
658 2036 0.106419 AAGGGGAGTGGCAAACGAAA 60.106 50.000 0.00 0.00 0.00 3.46
659 2037 0.822121 AGGGGAGTGGCAAACGAAAC 60.822 55.000 0.00 0.00 0.00 2.78
660 2038 0.822121 GGGGAGTGGCAAACGAAACT 60.822 55.000 0.00 0.00 0.00 2.66
665 2043 3.059120 GGAGTGGCAAACGAAACTACTTC 60.059 47.826 0.00 0.00 0.00 3.01
666 2044 3.537580 AGTGGCAAACGAAACTACTTCA 58.462 40.909 0.00 0.00 33.17 3.02
667 2045 3.311596 AGTGGCAAACGAAACTACTTCAC 59.688 43.478 0.00 0.00 33.17 3.18
668 2046 3.064271 GTGGCAAACGAAACTACTTCACA 59.936 43.478 0.00 0.00 33.17 3.58
669 2047 3.311322 TGGCAAACGAAACTACTTCACAG 59.689 43.478 0.00 0.00 33.17 3.66
670 2048 3.289076 GCAAACGAAACTACTTCACAGC 58.711 45.455 0.00 0.00 33.17 4.40
671 2049 3.848554 GCAAACGAAACTACTTCACAGCC 60.849 47.826 0.00 0.00 33.17 4.85
672 2050 1.779569 ACGAAACTACTTCACAGCCG 58.220 50.000 0.00 0.00 33.17 5.52
673 2051 1.338973 ACGAAACTACTTCACAGCCGA 59.661 47.619 0.00 0.00 33.17 5.54
674 2052 1.719780 CGAAACTACTTCACAGCCGAC 59.280 52.381 0.00 0.00 33.17 4.79
675 2053 2.067013 GAAACTACTTCACAGCCGACC 58.933 52.381 0.00 0.00 33.86 4.79
676 2054 0.320697 AACTACTTCACAGCCGACCC 59.679 55.000 0.00 0.00 0.00 4.46
677 2055 0.830444 ACTACTTCACAGCCGACCCA 60.830 55.000 0.00 0.00 0.00 4.51
678 2056 0.537188 CTACTTCACAGCCGACCCAT 59.463 55.000 0.00 0.00 0.00 4.00
679 2057 0.535335 TACTTCACAGCCGACCCATC 59.465 55.000 0.00 0.00 0.00 3.51
680 2058 1.296392 CTTCACAGCCGACCCATCA 59.704 57.895 0.00 0.00 0.00 3.07
681 2059 0.107508 CTTCACAGCCGACCCATCAT 60.108 55.000 0.00 0.00 0.00 2.45
682 2060 0.392863 TTCACAGCCGACCCATCATG 60.393 55.000 0.00 0.00 0.00 3.07
683 2061 2.124570 ACAGCCGACCCATCATGC 60.125 61.111 0.00 0.00 0.00 4.06
684 2062 2.124612 CAGCCGACCCATCATGCA 60.125 61.111 0.00 0.00 0.00 3.96
685 2063 2.124570 AGCCGACCCATCATGCAC 60.125 61.111 0.00 0.00 0.00 4.57
686 2064 3.576356 GCCGACCCATCATGCACG 61.576 66.667 0.00 0.00 0.00 5.34
687 2065 2.186644 CCGACCCATCATGCACGA 59.813 61.111 0.00 0.00 0.00 4.35
688 2066 1.227645 CCGACCCATCATGCACGAT 60.228 57.895 0.00 0.00 0.00 3.73
689 2067 1.501337 CCGACCCATCATGCACGATG 61.501 60.000 15.70 15.70 42.09 3.84
690 2068 1.650912 GACCCATCATGCACGATGC 59.349 57.895 17.14 0.18 45.29 3.91
700 2078 3.903876 GCACGATGCATGAACGATT 57.096 47.368 2.46 0.00 44.26 3.34
701 2079 1.459756 GCACGATGCATGAACGATTG 58.540 50.000 2.46 0.00 44.26 2.67
702 2080 1.062440 GCACGATGCATGAACGATTGA 59.938 47.619 2.46 0.00 44.26 2.57
703 2081 2.697363 CACGATGCATGAACGATTGAC 58.303 47.619 2.46 0.00 0.00 3.18
704 2082 1.665679 ACGATGCATGAACGATTGACC 59.334 47.619 2.46 0.00 0.00 4.02
705 2083 1.665169 CGATGCATGAACGATTGACCA 59.335 47.619 2.46 0.00 0.00 4.02
706 2084 2.288729 CGATGCATGAACGATTGACCAT 59.711 45.455 2.46 0.00 0.00 3.55
707 2085 3.605461 CGATGCATGAACGATTGACCATC 60.605 47.826 2.46 0.00 0.00 3.51
708 2086 2.989909 TGCATGAACGATTGACCATCT 58.010 42.857 0.00 0.00 0.00 2.90
709 2087 2.679336 TGCATGAACGATTGACCATCTG 59.321 45.455 0.00 0.00 0.00 2.90
710 2088 2.938451 GCATGAACGATTGACCATCTGA 59.062 45.455 0.00 0.00 0.00 3.27
711 2089 3.562973 GCATGAACGATTGACCATCTGAT 59.437 43.478 0.00 0.00 0.00 2.90
712 2090 4.751600 GCATGAACGATTGACCATCTGATA 59.248 41.667 0.00 0.00 0.00 2.15
713 2091 5.107182 GCATGAACGATTGACCATCTGATAG 60.107 44.000 0.00 0.00 0.00 2.08
714 2092 5.852282 TGAACGATTGACCATCTGATAGA 57.148 39.130 0.00 0.00 0.00 1.98
715 2093 6.410942 TGAACGATTGACCATCTGATAGAT 57.589 37.500 0.00 0.00 34.74 1.98
727 2105 6.229561 CATCTGATAGATGTGATGCACTTG 57.770 41.667 10.00 0.00 45.33 3.16
728 2106 4.700700 TCTGATAGATGTGATGCACTTGG 58.299 43.478 0.00 0.00 35.11 3.61
729 2107 4.162888 TCTGATAGATGTGATGCACTTGGT 59.837 41.667 0.00 0.00 35.11 3.67
730 2108 4.847198 TGATAGATGTGATGCACTTGGTT 58.153 39.130 0.00 0.00 35.11 3.67
731 2109 4.877823 TGATAGATGTGATGCACTTGGTTC 59.122 41.667 0.00 0.00 35.11 3.62
732 2110 2.440409 AGATGTGATGCACTTGGTTCC 58.560 47.619 0.00 0.00 35.11 3.62
733 2111 2.040813 AGATGTGATGCACTTGGTTCCT 59.959 45.455 0.00 0.00 35.11 3.36
734 2112 2.363306 TGTGATGCACTTGGTTCCTT 57.637 45.000 0.00 0.00 35.11 3.36
735 2113 3.500448 TGTGATGCACTTGGTTCCTTA 57.500 42.857 0.00 0.00 35.11 2.69
736 2114 3.826524 TGTGATGCACTTGGTTCCTTAA 58.173 40.909 0.00 0.00 35.11 1.85
737 2115 4.406456 TGTGATGCACTTGGTTCCTTAAT 58.594 39.130 0.00 0.00 35.11 1.40
738 2116 4.832266 TGTGATGCACTTGGTTCCTTAATT 59.168 37.500 0.00 0.00 35.11 1.40
739 2117 5.048083 TGTGATGCACTTGGTTCCTTAATTC 60.048 40.000 0.00 0.00 35.11 2.17
740 2118 4.155826 TGATGCACTTGGTTCCTTAATTCG 59.844 41.667 0.00 0.00 0.00 3.34
741 2119 3.745799 TGCACTTGGTTCCTTAATTCGA 58.254 40.909 0.00 0.00 0.00 3.71
742 2120 4.331968 TGCACTTGGTTCCTTAATTCGAT 58.668 39.130 0.00 0.00 0.00 3.59
743 2121 4.155826 TGCACTTGGTTCCTTAATTCGATG 59.844 41.667 0.00 0.00 0.00 3.84
744 2122 4.438744 GCACTTGGTTCCTTAATTCGATGG 60.439 45.833 0.00 0.00 0.00 3.51
745 2123 3.694566 ACTTGGTTCCTTAATTCGATGGC 59.305 43.478 0.00 0.00 0.00 4.40
746 2124 3.644966 TGGTTCCTTAATTCGATGGCT 57.355 42.857 0.00 0.00 0.00 4.75
747 2125 3.278574 TGGTTCCTTAATTCGATGGCTG 58.721 45.455 0.00 0.00 0.00 4.85
748 2126 2.618709 GGTTCCTTAATTCGATGGCTGG 59.381 50.000 0.00 0.00 0.00 4.85
749 2127 3.541632 GTTCCTTAATTCGATGGCTGGA 58.458 45.455 0.00 0.00 0.00 3.86
750 2128 4.137543 GTTCCTTAATTCGATGGCTGGAT 58.862 43.478 0.00 0.00 0.00 3.41
751 2129 3.743521 TCCTTAATTCGATGGCTGGATG 58.256 45.455 0.00 0.00 0.00 3.51
752 2130 3.136443 TCCTTAATTCGATGGCTGGATGT 59.864 43.478 0.00 0.00 0.00 3.06
753 2131 3.251729 CCTTAATTCGATGGCTGGATGTG 59.748 47.826 0.00 0.00 0.00 3.21
754 2132 2.715749 AATTCGATGGCTGGATGTGA 57.284 45.000 0.00 0.00 0.00 3.58
755 2133 2.715749 ATTCGATGGCTGGATGTGAA 57.284 45.000 0.00 0.00 0.00 3.18
756 2134 1.737838 TTCGATGGCTGGATGTGAAC 58.262 50.000 0.00 0.00 0.00 3.18
757 2135 0.107703 TCGATGGCTGGATGTGAACC 60.108 55.000 0.00 0.00 0.00 3.62
758 2136 0.392863 CGATGGCTGGATGTGAACCA 60.393 55.000 0.00 0.00 35.96 3.67
759 2137 1.748244 CGATGGCTGGATGTGAACCAT 60.748 52.381 0.00 0.00 43.72 3.55
770 2148 2.704725 GTGAACCATCGTGCACAAAT 57.295 45.000 18.64 6.78 46.58 2.32
771 2149 2.584791 GTGAACCATCGTGCACAAATC 58.415 47.619 18.64 6.40 46.58 2.17
772 2150 1.196581 TGAACCATCGTGCACAAATCG 59.803 47.619 18.64 1.94 0.00 3.34
773 2151 1.196808 GAACCATCGTGCACAAATCGT 59.803 47.619 18.64 5.67 0.00 3.73
782 2160 2.234613 CACAAATCGTGCGTGGAGT 58.765 52.632 0.00 0.00 39.19 3.85
783 2161 0.110688 CACAAATCGTGCGTGGAGTG 60.111 55.000 0.00 0.00 39.19 3.51
784 2162 0.531974 ACAAATCGTGCGTGGAGTGT 60.532 50.000 0.00 0.00 0.00 3.55
785 2163 0.163788 CAAATCGTGCGTGGAGTGTC 59.836 55.000 0.00 0.00 0.00 3.67
786 2164 1.282248 AAATCGTGCGTGGAGTGTCG 61.282 55.000 0.00 0.00 0.00 4.35
787 2165 2.416244 AATCGTGCGTGGAGTGTCGT 62.416 55.000 0.00 0.00 0.00 4.34
788 2166 3.394874 CGTGCGTGGAGTGTCGTG 61.395 66.667 0.00 0.00 0.00 4.35
789 2167 2.279252 GTGCGTGGAGTGTCGTGT 60.279 61.111 0.00 0.00 0.00 4.49
790 2168 2.279186 TGCGTGGAGTGTCGTGTG 60.279 61.111 0.00 0.00 0.00 3.82
791 2169 2.279252 GCGTGGAGTGTCGTGTGT 60.279 61.111 0.00 0.00 0.00 3.72
792 2170 1.008194 GCGTGGAGTGTCGTGTGTA 60.008 57.895 0.00 0.00 0.00 2.90
793 2171 0.388134 GCGTGGAGTGTCGTGTGTAT 60.388 55.000 0.00 0.00 0.00 2.29
794 2172 1.135603 GCGTGGAGTGTCGTGTGTATA 60.136 52.381 0.00 0.00 0.00 1.47
795 2173 2.782163 CGTGGAGTGTCGTGTGTATAG 58.218 52.381 0.00 0.00 0.00 1.31
796 2174 2.527100 GTGGAGTGTCGTGTGTATAGC 58.473 52.381 0.00 0.00 0.00 2.97
797 2175 2.094906 GTGGAGTGTCGTGTGTATAGCA 60.095 50.000 0.00 0.00 0.00 3.49
798 2176 2.163613 TGGAGTGTCGTGTGTATAGCAG 59.836 50.000 0.00 0.00 0.00 4.24
799 2177 2.186076 GAGTGTCGTGTGTATAGCAGC 58.814 52.381 0.00 0.00 0.00 5.25
800 2178 0.914551 GTGTCGTGTGTATAGCAGCG 59.085 55.000 0.00 0.00 0.00 5.18
801 2179 0.524414 TGTCGTGTGTATAGCAGCGT 59.476 50.000 0.00 0.00 0.00 5.07
802 2180 1.068125 TGTCGTGTGTATAGCAGCGTT 60.068 47.619 0.00 0.00 0.00 4.84
803 2181 1.320555 GTCGTGTGTATAGCAGCGTTG 59.679 52.381 0.00 0.00 0.00 4.10
804 2182 0.645355 CGTGTGTATAGCAGCGTTGG 59.355 55.000 0.16 0.00 0.00 3.77
805 2183 0.373716 GTGTGTATAGCAGCGTTGGC 59.626 55.000 0.16 0.00 40.37 4.52
899 2279 2.522836 ATTGGATACTCAGCTCAGCG 57.477 50.000 0.00 0.00 37.61 5.18
1071 2451 2.511373 GACATCATGGCCGCGTCA 60.511 61.111 4.92 3.20 0.00 4.35
1411 2823 4.806330 TCTTAGAACATGTCTGTCGGTTC 58.194 43.478 0.00 0.00 39.83 3.62
1414 2826 2.132762 GAACATGTCTGTCGGTTCGTT 58.867 47.619 0.00 0.00 33.36 3.85
1415 2827 1.497991 ACATGTCTGTCGGTTCGTTG 58.502 50.000 0.00 0.00 0.00 4.10
1441 2875 4.328440 GCTGCTGCTTAATCGGATATACTG 59.672 45.833 8.53 0.00 36.03 2.74
1459 2893 6.932356 ATACTGATGGTTAGTGAATTGCAG 57.068 37.500 0.00 0.00 0.00 4.41
1462 2896 4.406456 TGATGGTTAGTGAATTGCAGGTT 58.594 39.130 0.00 0.00 0.00 3.50
1563 2998 3.251571 AGATTTTTGAGCGGACGTCTAC 58.748 45.455 16.46 7.89 0.00 2.59
1588 3023 8.355169 ACTAGTGTTGAGTTGACGACTAATTAA 58.645 33.333 0.00 0.00 39.19 1.40
1590 3025 8.018677 AGTGTTGAGTTGACGACTAATTAATG 57.981 34.615 0.00 0.00 39.19 1.90
1599 3034 6.270815 TGACGACTAATTAATGCTAGTGGAC 58.729 40.000 13.27 9.24 30.81 4.02
1616 3051 8.962679 GCTAGTGGACTTAGCTATATAATCACT 58.037 37.037 14.67 14.67 36.07 3.41
1725 3160 1.131315 GAGAAATGAGAGGCGCCAAAC 59.869 52.381 31.54 19.23 0.00 2.93
1775 3210 5.122396 GGATTTTCGCTTAGTGTGACAGAAT 59.878 40.000 0.00 0.00 34.56 2.40
1781 3216 4.675408 CGCTTAGTGTGACAGAATGCTCTA 60.675 45.833 0.00 0.00 42.53 2.43
1858 3298 6.756074 TCATTCATTGGTGTCTTTTTGTTGTC 59.244 34.615 0.00 0.00 0.00 3.18
2156 3813 5.762711 TGAACTTGCTAGCTTGTGTTTATGA 59.237 36.000 17.23 0.00 0.00 2.15
2197 3854 3.190744 CAGCGAGAGTGGTTAGTGTTAGA 59.809 47.826 0.00 0.00 0.00 2.10
2246 3903 8.091449 CCTTCGCAGATTCCTTATAGATTAACT 58.909 37.037 0.00 0.00 35.04 2.24
2298 3955 6.151144 GTGTATTGCTTGGATTGGACTAGTTT 59.849 38.462 0.00 0.00 0.00 2.66
2310 3967 5.476950 TGGACTAGTTTAGACATCCCCTA 57.523 43.478 0.00 0.00 0.00 3.53
2320 3977 7.348274 AGTTTAGACATCCCCTATGAAAGATCA 59.652 37.037 0.00 0.00 39.07 2.92
2334 3991 5.554070 TGAAAGATCATCTCAGTGCAGAAA 58.446 37.500 0.00 0.00 0.00 2.52
2343 4000 3.058708 TCTCAGTGCAGAAAATTGCTTCG 60.059 43.478 0.00 0.00 44.38 3.79
2480 4137 3.947910 AACAAATGGCCAGACAGATTG 57.052 42.857 13.05 11.49 0.00 2.67
2638 4300 0.730834 CCGTCACTCTCTGCGACAAG 60.731 60.000 0.00 0.00 0.00 3.16
2655 4317 5.592054 CGACAAGGAATCTTAGCATCTACA 58.408 41.667 0.00 0.00 0.00 2.74
2688 4351 3.629438 AAAAATGCTGCAATGCAAACC 57.371 38.095 9.92 1.23 46.61 3.27
2690 4353 2.483014 AATGCTGCAATGCAAACCAT 57.517 40.000 9.92 9.38 46.61 3.55
2691 4354 1.732941 ATGCTGCAATGCAAACCATG 58.267 45.000 9.92 0.00 46.61 3.66
2693 4356 1.070289 TGCTGCAATGCAAACCATGAA 59.930 42.857 9.92 0.00 40.29 2.57
2694 4357 2.144730 GCTGCAATGCAAACCATGAAA 58.855 42.857 9.92 0.00 38.41 2.69
2695 4358 2.745281 GCTGCAATGCAAACCATGAAAT 59.255 40.909 9.92 0.00 38.41 2.17
2696 4359 3.425625 GCTGCAATGCAAACCATGAAATG 60.426 43.478 9.92 0.00 40.66 2.32
2697 4360 3.741249 TGCAATGCAAACCATGAAATGT 58.259 36.364 5.01 0.00 38.03 2.71
2698 4361 4.135306 TGCAATGCAAACCATGAAATGTT 58.865 34.783 5.01 0.00 38.03 2.71
2699 4362 5.303165 TGCAATGCAAACCATGAAATGTTA 58.697 33.333 5.01 0.00 38.03 2.41
2700 4363 5.178996 TGCAATGCAAACCATGAAATGTTAC 59.821 36.000 5.01 0.00 38.03 2.50
2701 4364 5.178996 GCAATGCAAACCATGAAATGTTACA 59.821 36.000 0.00 0.00 44.81 2.41
2702 4365 6.293298 GCAATGCAAACCATGAAATGTTACAA 60.293 34.615 0.00 0.00 44.81 2.41
2703 4366 7.573469 GCAATGCAAACCATGAAATGTTACAAT 60.573 33.333 0.00 0.00 44.81 2.71
2704 4367 7.982761 ATGCAAACCATGAAATGTTACAATT 57.017 28.000 0.00 0.00 44.81 2.32
2705 4368 7.798596 TGCAAACCATGAAATGTTACAATTT 57.201 28.000 0.00 0.00 44.81 1.82
2706 4369 8.218338 TGCAAACCATGAAATGTTACAATTTT 57.782 26.923 0.00 0.00 44.81 1.82
2707 4370 8.680903 TGCAAACCATGAAATGTTACAATTTTT 58.319 25.926 0.00 0.00 44.81 1.94
2711 4374 9.553064 AACCATGAAATGTTACAATTTTTAGCA 57.447 25.926 0.00 0.00 44.81 3.49
2712 4375 9.723601 ACCATGAAATGTTACAATTTTTAGCAT 57.276 25.926 0.00 0.00 44.81 3.79
2718 4381 8.614994 AATGTTACAATTTTTAGCATCTACGC 57.385 30.769 0.00 0.00 0.00 4.42
2730 4393 9.542462 TTTTAGCATCTACGCAAATCTTATAGT 57.458 29.630 0.00 0.00 0.00 2.12
2835 4499 2.645730 TTTGTATTGGCAATCCACGC 57.354 45.000 17.41 4.12 43.33 5.34
2841 4505 1.610363 TTGGCAATCCACGCTTTGTA 58.390 45.000 0.00 0.00 43.33 2.41
2867 4531 1.063341 AGCTCCTATCTGCCACTCTCA 60.063 52.381 0.00 0.00 0.00 3.27
2872 4536 1.001487 CTATCTGCCACTCTCAGCGAG 60.001 57.143 0.00 0.00 45.56 5.03
2901 4682 1.028905 GTTGTGCCACAAGCCAGTTA 58.971 50.000 11.21 0.00 39.00 2.24
2964 4745 2.800250 AGAACCAAAGCCAGATCCAAG 58.200 47.619 0.00 0.00 0.00 3.61
2967 4748 1.272872 ACCAAAGCCAGATCCAAGCAT 60.273 47.619 2.49 0.00 0.00 3.79
3023 4806 5.151632 ACGTGAATGTTATATGAAACGCC 57.848 39.130 0.00 0.00 33.31 5.68
3025 4808 5.122554 ACGTGAATGTTATATGAAACGCCAA 59.877 36.000 0.00 0.00 33.31 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 3.787785 ACAACACACGTACTGTCATTGA 58.212 40.909 16.99 0.00 33.10 2.57
17 18 1.663643 CTGCAACAACACACGTACTGT 59.336 47.619 0.00 0.00 0.00 3.55
61 62 2.829384 GGGGTTGAGGTGCCAGTCA 61.829 63.158 0.00 0.00 0.00 3.41
74 75 4.047125 CGGGATGCTGTGGGGGTT 62.047 66.667 0.00 0.00 0.00 4.11
90 91 4.771356 ACGACATCGACGGCACCG 62.771 66.667 8.54 7.71 43.02 4.94
98 99 1.880894 GTGGAGACCACGACATCGA 59.119 57.895 8.54 0.00 44.95 3.59
119 120 3.869272 CACCTCCTTCGCATGCGC 61.869 66.667 34.45 0.00 39.59 6.09
120 121 3.869272 GCACCTCCTTCGCATGCG 61.869 66.667 33.61 33.61 41.35 4.73
142 765 2.982130 GTCAGGAGGGCACGACAT 59.018 61.111 0.00 0.00 0.00 3.06
143 766 3.680786 CGTCAGGAGGGCACGACA 61.681 66.667 0.00 0.00 35.49 4.35
164 787 2.665089 CCGGGTCATGGTGCCACTA 61.665 63.158 0.00 0.00 0.00 2.74
171 794 2.975536 CGTACACCGGGTCATGGT 59.024 61.111 6.32 0.00 41.47 3.55
299 932 1.971505 TATGTTGCCTCCGCCTCCTG 61.972 60.000 0.00 0.00 0.00 3.86
313 946 0.036388 CGAGTGTGGCCTGGTATGTT 60.036 55.000 3.32 0.00 0.00 2.71
314 947 0.902984 TCGAGTGTGGCCTGGTATGT 60.903 55.000 3.32 0.00 0.00 2.29
356 989 2.503061 CTCGCATGGGGACTCCTG 59.497 66.667 10.21 0.00 36.20 3.86
425 1063 2.425102 GGCAGAGGGTAGACATAGTCCT 60.425 54.545 0.00 0.00 32.18 3.85
507 1885 1.448189 CGACGGCCGGTAATTCCAA 60.448 57.895 31.76 0.00 35.57 3.53
518 1896 2.703675 TATACCTCTCCCCGACGGCC 62.704 65.000 8.86 0.00 0.00 6.13
536 1914 1.686587 CGCAGGATACCAGTCCACATA 59.313 52.381 0.00 0.00 40.90 2.29
548 1926 2.758327 ACCCACTCGCGCAGGATA 60.758 61.111 8.75 0.00 0.00 2.59
549 1927 4.457496 CACCCACTCGCGCAGGAT 62.457 66.667 8.75 0.00 0.00 3.24
581 1959 1.349357 TCCGGTGTGGATGTCATCAAA 59.651 47.619 14.72 0.00 43.74 2.69
583 1961 2.677508 TCCGGTGTGGATGTCATCA 58.322 52.632 14.72 0.00 43.74 3.07
603 1981 3.231298 GAGGTATGCCGCCTCCTT 58.769 61.111 6.96 0.00 45.05 3.36
614 1992 1.134670 GCCTTTCACTGCTCGAGGTAT 60.135 52.381 15.58 0.00 0.00 2.73
639 2017 0.106419 TTTCGTTTGCCACTCCCCTT 60.106 50.000 0.00 0.00 0.00 3.95
647 2025 3.271729 TGTGAAGTAGTTTCGTTTGCCA 58.728 40.909 0.00 0.00 38.71 4.92
649 2027 3.289076 GCTGTGAAGTAGTTTCGTTTGC 58.711 45.455 0.00 0.00 38.71 3.68
653 2031 1.338973 TCGGCTGTGAAGTAGTTTCGT 59.661 47.619 0.00 0.00 38.71 3.85
655 2033 2.067013 GGTCGGCTGTGAAGTAGTTTC 58.933 52.381 0.00 0.00 36.29 2.78
656 2034 1.270678 GGGTCGGCTGTGAAGTAGTTT 60.271 52.381 0.00 0.00 0.00 2.66
658 2036 0.830444 TGGGTCGGCTGTGAAGTAGT 60.830 55.000 0.00 0.00 0.00 2.73
659 2037 0.537188 ATGGGTCGGCTGTGAAGTAG 59.463 55.000 0.00 0.00 0.00 2.57
660 2038 0.535335 GATGGGTCGGCTGTGAAGTA 59.465 55.000 0.00 0.00 0.00 2.24
665 2043 2.475466 GCATGATGGGTCGGCTGTG 61.475 63.158 0.00 0.00 0.00 3.66
666 2044 2.124570 GCATGATGGGTCGGCTGT 60.125 61.111 0.00 0.00 0.00 4.40
667 2045 2.124612 TGCATGATGGGTCGGCTG 60.125 61.111 0.00 0.00 0.00 4.85
668 2046 2.124570 GTGCATGATGGGTCGGCT 60.125 61.111 0.00 0.00 0.00 5.52
669 2047 3.576356 CGTGCATGATGGGTCGGC 61.576 66.667 0.00 0.00 0.00 5.54
670 2048 1.227645 ATCGTGCATGATGGGTCGG 60.228 57.895 20.60 0.00 0.00 4.79
671 2049 1.936658 CATCGTGCATGATGGGTCG 59.063 57.895 32.63 13.55 41.63 4.79
672 2050 1.650912 GCATCGTGCATGATGGGTC 59.349 57.895 37.45 23.68 44.72 4.46
673 2051 3.831883 GCATCGTGCATGATGGGT 58.168 55.556 37.45 11.93 44.72 4.51
682 2060 1.062440 TCAATCGTTCATGCATCGTGC 59.938 47.619 0.00 3.44 45.29 5.34
683 2061 2.537529 GGTCAATCGTTCATGCATCGTG 60.538 50.000 0.00 0.00 0.00 4.35
684 2062 1.665679 GGTCAATCGTTCATGCATCGT 59.334 47.619 0.00 0.00 0.00 3.73
685 2063 1.665169 TGGTCAATCGTTCATGCATCG 59.335 47.619 0.00 0.00 0.00 3.84
686 2064 3.562973 AGATGGTCAATCGTTCATGCATC 59.437 43.478 0.00 0.00 40.54 3.91
687 2065 3.314357 CAGATGGTCAATCGTTCATGCAT 59.686 43.478 0.00 0.00 40.54 3.96
688 2066 2.679336 CAGATGGTCAATCGTTCATGCA 59.321 45.455 0.00 0.00 40.54 3.96
689 2067 2.938451 TCAGATGGTCAATCGTTCATGC 59.062 45.455 0.00 0.00 40.54 4.06
690 2068 6.218746 TCTATCAGATGGTCAATCGTTCATG 58.781 40.000 0.00 0.00 40.54 3.07
691 2069 6.410942 TCTATCAGATGGTCAATCGTTCAT 57.589 37.500 0.00 0.00 40.54 2.57
692 2070 5.852282 TCTATCAGATGGTCAATCGTTCA 57.148 39.130 0.00 0.00 40.54 3.18
693 2071 6.702972 CATCTATCAGATGGTCAATCGTTC 57.297 41.667 8.07 0.00 46.34 3.95
705 2083 5.163227 ACCAAGTGCATCACATCTATCAGAT 60.163 40.000 0.00 0.00 36.74 2.90
706 2084 4.162888 ACCAAGTGCATCACATCTATCAGA 59.837 41.667 0.00 0.00 36.74 3.27
707 2085 4.449131 ACCAAGTGCATCACATCTATCAG 58.551 43.478 0.00 0.00 36.74 2.90
708 2086 4.492494 ACCAAGTGCATCACATCTATCA 57.508 40.909 0.00 0.00 36.74 2.15
709 2087 4.274459 GGAACCAAGTGCATCACATCTATC 59.726 45.833 0.00 0.00 36.74 2.08
710 2088 4.080129 AGGAACCAAGTGCATCACATCTAT 60.080 41.667 0.00 0.00 36.74 1.98
711 2089 3.264193 AGGAACCAAGTGCATCACATCTA 59.736 43.478 0.00 0.00 36.74 1.98
712 2090 2.040813 AGGAACCAAGTGCATCACATCT 59.959 45.455 0.00 0.00 36.74 2.90
713 2091 2.440409 AGGAACCAAGTGCATCACATC 58.560 47.619 0.00 0.00 36.74 3.06
714 2092 2.592102 AGGAACCAAGTGCATCACAT 57.408 45.000 0.00 0.00 36.74 3.21
715 2093 2.363306 AAGGAACCAAGTGCATCACA 57.637 45.000 0.00 0.00 36.74 3.58
716 2094 5.391312 AATTAAGGAACCAAGTGCATCAC 57.609 39.130 0.00 0.00 34.10 3.06
717 2095 4.155826 CGAATTAAGGAACCAAGTGCATCA 59.844 41.667 0.00 0.00 0.00 3.07
718 2096 4.394920 TCGAATTAAGGAACCAAGTGCATC 59.605 41.667 0.00 0.00 0.00 3.91
719 2097 4.331968 TCGAATTAAGGAACCAAGTGCAT 58.668 39.130 0.00 0.00 0.00 3.96
720 2098 3.745799 TCGAATTAAGGAACCAAGTGCA 58.254 40.909 0.00 0.00 0.00 4.57
721 2099 4.438744 CCATCGAATTAAGGAACCAAGTGC 60.439 45.833 0.00 0.00 0.00 4.40
722 2100 4.438744 GCCATCGAATTAAGGAACCAAGTG 60.439 45.833 0.00 0.00 0.00 3.16
723 2101 3.694566 GCCATCGAATTAAGGAACCAAGT 59.305 43.478 0.00 0.00 0.00 3.16
724 2102 3.947834 AGCCATCGAATTAAGGAACCAAG 59.052 43.478 0.00 0.00 0.00 3.61
725 2103 3.694072 CAGCCATCGAATTAAGGAACCAA 59.306 43.478 0.00 0.00 0.00 3.67
726 2104 3.278574 CAGCCATCGAATTAAGGAACCA 58.721 45.455 0.00 0.00 0.00 3.67
727 2105 2.618709 CCAGCCATCGAATTAAGGAACC 59.381 50.000 0.00 0.00 0.00 3.62
728 2106 3.541632 TCCAGCCATCGAATTAAGGAAC 58.458 45.455 0.00 0.00 0.00 3.62
729 2107 3.924114 TCCAGCCATCGAATTAAGGAA 57.076 42.857 0.00 0.00 0.00 3.36
730 2108 3.136443 ACATCCAGCCATCGAATTAAGGA 59.864 43.478 0.00 0.00 0.00 3.36
731 2109 3.251729 CACATCCAGCCATCGAATTAAGG 59.748 47.826 0.00 0.00 0.00 2.69
732 2110 4.129380 TCACATCCAGCCATCGAATTAAG 58.871 43.478 0.00 0.00 0.00 1.85
733 2111 4.149511 TCACATCCAGCCATCGAATTAA 57.850 40.909 0.00 0.00 0.00 1.40
734 2112 3.836365 TCACATCCAGCCATCGAATTA 57.164 42.857 0.00 0.00 0.00 1.40
735 2113 2.684881 GTTCACATCCAGCCATCGAATT 59.315 45.455 0.00 0.00 0.00 2.17
736 2114 2.292267 GTTCACATCCAGCCATCGAAT 58.708 47.619 0.00 0.00 0.00 3.34
737 2115 1.678728 GGTTCACATCCAGCCATCGAA 60.679 52.381 0.00 0.00 0.00 3.71
738 2116 0.107703 GGTTCACATCCAGCCATCGA 60.108 55.000 0.00 0.00 0.00 3.59
739 2117 0.392863 TGGTTCACATCCAGCCATCG 60.393 55.000 0.00 0.00 0.00 3.84
740 2118 2.062971 ATGGTTCACATCCAGCCATC 57.937 50.000 0.00 0.00 38.42 3.51
748 2126 1.155889 TGTGCACGATGGTTCACATC 58.844 50.000 13.13 0.00 43.70 3.06
749 2127 1.603456 TTGTGCACGATGGTTCACAT 58.397 45.000 13.42 0.00 46.86 3.21
750 2128 1.383523 TTTGTGCACGATGGTTCACA 58.616 45.000 13.13 9.10 46.20 3.58
751 2129 2.584791 GATTTGTGCACGATGGTTCAC 58.415 47.619 13.13 3.78 40.19 3.18
752 2130 1.196581 CGATTTGTGCACGATGGTTCA 59.803 47.619 13.13 0.00 0.00 3.18
753 2131 1.196808 ACGATTTGTGCACGATGGTTC 59.803 47.619 13.13 4.80 0.00 3.62
754 2132 1.069296 CACGATTTGTGCACGATGGTT 60.069 47.619 13.13 0.00 42.70 3.67
755 2133 0.516877 CACGATTTGTGCACGATGGT 59.483 50.000 13.13 12.86 42.70 3.55
756 2134 3.294908 CACGATTTGTGCACGATGG 57.705 52.632 13.13 12.23 42.70 3.51
765 2143 0.531974 ACACTCCACGCACGATTTGT 60.532 50.000 0.00 0.00 0.00 2.83
766 2144 0.163788 GACACTCCACGCACGATTTG 59.836 55.000 0.00 0.00 0.00 2.32
767 2145 1.282248 CGACACTCCACGCACGATTT 61.282 55.000 0.00 0.00 0.00 2.17
768 2146 1.733041 CGACACTCCACGCACGATT 60.733 57.895 0.00 0.00 0.00 3.34
769 2147 2.126463 CGACACTCCACGCACGAT 60.126 61.111 0.00 0.00 0.00 3.73
770 2148 3.588906 ACGACACTCCACGCACGA 61.589 61.111 0.00 0.00 0.00 4.35
771 2149 3.394874 CACGACACTCCACGCACG 61.395 66.667 0.00 0.00 0.00 5.34
772 2150 2.279252 ACACGACACTCCACGCAC 60.279 61.111 0.00 0.00 0.00 5.34
773 2151 1.726533 TACACACGACACTCCACGCA 61.727 55.000 0.00 0.00 0.00 5.24
774 2152 0.388134 ATACACACGACACTCCACGC 60.388 55.000 0.00 0.00 0.00 5.34
775 2153 2.782163 CTATACACACGACACTCCACG 58.218 52.381 0.00 0.00 0.00 4.94
776 2154 2.094906 TGCTATACACACGACACTCCAC 60.095 50.000 0.00 0.00 0.00 4.02
777 2155 2.163613 CTGCTATACACACGACACTCCA 59.836 50.000 0.00 0.00 0.00 3.86
778 2156 2.798680 CTGCTATACACACGACACTCC 58.201 52.381 0.00 0.00 0.00 3.85
779 2157 2.186076 GCTGCTATACACACGACACTC 58.814 52.381 0.00 0.00 0.00 3.51
780 2158 1.467543 CGCTGCTATACACACGACACT 60.468 52.381 0.00 0.00 0.00 3.55
781 2159 0.914551 CGCTGCTATACACACGACAC 59.085 55.000 0.00 0.00 0.00 3.67
782 2160 0.524414 ACGCTGCTATACACACGACA 59.476 50.000 0.00 0.00 0.00 4.35
783 2161 1.320555 CAACGCTGCTATACACACGAC 59.679 52.381 0.00 0.00 0.00 4.34
784 2162 1.624487 CAACGCTGCTATACACACGA 58.376 50.000 0.00 0.00 0.00 4.35
785 2163 0.645355 CCAACGCTGCTATACACACG 59.355 55.000 0.00 0.00 0.00 4.49
786 2164 0.373716 GCCAACGCTGCTATACACAC 59.626 55.000 0.00 0.00 0.00 3.82
787 2165 0.036858 TGCCAACGCTGCTATACACA 60.037 50.000 0.00 0.00 35.36 3.72
788 2166 1.083489 TTGCCAACGCTGCTATACAC 58.917 50.000 0.00 0.00 35.36 2.90
789 2167 1.670295 CATTGCCAACGCTGCTATACA 59.330 47.619 0.00 0.00 35.36 2.29
790 2168 1.597937 GCATTGCCAACGCTGCTATAC 60.598 52.381 0.00 0.00 34.28 1.47
791 2169 0.662619 GCATTGCCAACGCTGCTATA 59.337 50.000 0.00 0.00 34.28 1.31
792 2170 1.314534 TGCATTGCCAACGCTGCTAT 61.315 50.000 6.12 0.00 37.15 2.97
793 2171 1.925415 CTGCATTGCCAACGCTGCTA 61.925 55.000 6.12 0.00 37.15 3.49
794 2172 3.277211 CTGCATTGCCAACGCTGCT 62.277 57.895 6.12 0.00 37.15 4.24
795 2173 2.807895 CTGCATTGCCAACGCTGC 60.808 61.111 6.12 0.00 36.86 5.25
796 2174 2.126228 CCTGCATTGCCAACGCTG 60.126 61.111 6.12 0.00 35.36 5.18
797 2175 4.060038 GCCTGCATTGCCAACGCT 62.060 61.111 6.12 0.00 35.36 5.07
799 2177 4.781959 CCGCCTGCATTGCCAACG 62.782 66.667 6.12 6.74 0.00 4.10
800 2178 3.346631 CTCCGCCTGCATTGCCAAC 62.347 63.158 6.12 0.00 0.00 3.77
801 2179 3.063704 CTCCGCCTGCATTGCCAA 61.064 61.111 6.12 0.00 0.00 4.52
802 2180 4.349503 ACTCCGCCTGCATTGCCA 62.350 61.111 6.12 0.00 0.00 4.92
803 2181 3.818787 CACTCCGCCTGCATTGCC 61.819 66.667 6.12 0.00 0.00 4.52
804 2182 4.487412 GCACTCCGCCTGCATTGC 62.487 66.667 0.46 0.46 34.56 3.56
805 2183 4.170062 CGCACTCCGCCTGCATTG 62.170 66.667 0.00 0.00 37.30 2.82
860 2240 1.700955 ATCTTACCGAGTACCCGCAT 58.299 50.000 0.00 0.00 0.00 4.73
899 2279 1.434696 CCATGCGAATTGGCTGACC 59.565 57.895 13.84 0.00 0.00 4.02
1098 2478 3.553095 GAGAGGGCCAACCGTGCTT 62.553 63.158 6.18 0.00 46.96 3.91
1105 2485 2.436824 GCGGAAGAGAGGGCCAAC 60.437 66.667 6.18 0.00 0.00 3.77
1269 2681 1.884926 GAAGATGCCGAGGCCGAAG 60.885 63.158 12.05 0.00 41.09 3.79
1341 2753 2.287608 CGTATCGTTGATGGCTAGCAGA 60.288 50.000 18.24 2.09 0.00 4.26
1397 2809 1.192312 CACAACGAACCGACAGACATG 59.808 52.381 0.00 0.00 0.00 3.21
1411 2823 0.523072 ATTAAGCAGCAGCCACAACG 59.477 50.000 0.00 0.00 43.56 4.10
1414 2826 1.026182 CCGATTAAGCAGCAGCCACA 61.026 55.000 0.00 0.00 43.56 4.17
1415 2827 0.744414 TCCGATTAAGCAGCAGCCAC 60.744 55.000 0.00 0.00 43.56 5.01
1441 2875 5.048083 TCAAACCTGCAATTCACTAACCATC 60.048 40.000 0.00 0.00 0.00 3.51
1459 2893 2.292292 ACGGTACACATTTGCTCAAACC 59.708 45.455 0.00 0.00 32.51 3.27
1462 2896 4.998033 TCATTACGGTACACATTTGCTCAA 59.002 37.500 0.00 0.00 0.00 3.02
1547 2982 2.161012 CACTAGTAGACGTCCGCTCAAA 59.839 50.000 13.01 0.00 0.00 2.69
1563 2998 8.738199 TTAATTAGTCGTCAACTCAACACTAG 57.262 34.615 0.00 0.00 39.55 2.57
1588 3023 9.480861 TGATTATATAGCTAAGTCCACTAGCAT 57.519 33.333 0.00 0.13 39.16 3.79
1590 3025 8.962679 AGTGATTATATAGCTAAGTCCACTAGC 58.037 37.037 0.00 0.00 37.12 3.42
1674 3109 8.825667 AGTTGAAAAAGTTTTTGCTTAACTCA 57.174 26.923 18.07 4.83 34.88 3.41
1682 3117 9.301153 TCTCTATCAAGTTGAAAAAGTTTTTGC 57.699 29.630 18.07 10.11 0.00 3.68
1725 3160 4.398988 TGTAAAACCATATGCTCCTTGCTG 59.601 41.667 0.00 0.00 43.37 4.41
1736 3171 7.781056 AGCGAAAATCCATTGTAAAACCATAT 58.219 30.769 0.00 0.00 0.00 1.78
1737 3172 7.164230 AGCGAAAATCCATTGTAAAACCATA 57.836 32.000 0.00 0.00 0.00 2.74
1858 3298 6.025896 TCGTATAGAACTTAACAAGCTGACG 58.974 40.000 0.00 0.00 0.00 4.35
2044 3484 2.151202 GAATGCAACTCCCGTTCAAGA 58.849 47.619 0.00 0.00 0.00 3.02
2047 3487 2.270352 AAGAATGCAACTCCCGTTCA 57.730 45.000 0.00 0.00 0.00 3.18
2156 3813 1.303091 GCACAATCGCCCTACCGTTT 61.303 55.000 0.00 0.00 0.00 3.60
2197 3854 2.036256 GCCCTGGTGCCATTGAGT 59.964 61.111 0.00 0.00 0.00 3.41
2218 3875 3.898123 TCTATAAGGAATCTGCGAAGGCT 59.102 43.478 0.00 0.00 40.82 4.58
2255 3912 6.773583 ATACACCTAAGCCCCAAACATATA 57.226 37.500 0.00 0.00 0.00 0.86
2260 3917 2.165641 GCAATACACCTAAGCCCCAAAC 59.834 50.000 0.00 0.00 0.00 2.93
2272 3929 3.356290 AGTCCAATCCAAGCAATACACC 58.644 45.455 0.00 0.00 0.00 4.16
2298 3955 7.251936 AGATGATCTTTCATAGGGGATGTCTA 58.748 38.462 0.00 0.00 42.73 2.59
2310 3967 5.354842 TCTGCACTGAGATGATCTTTCAT 57.645 39.130 0.00 0.00 45.39 2.57
2320 3977 4.379186 CGAAGCAATTTTCTGCACTGAGAT 60.379 41.667 0.00 0.00 45.18 2.75
2480 4137 5.456822 GGTCGTCGCCGGAATATAAATATAC 59.543 44.000 5.05 0.00 33.95 1.47
2501 4158 0.034863 TTGCCCCCTTACATTCGGTC 60.035 55.000 0.00 0.00 0.00 4.79
2638 4300 5.819901 AGCTTTGTGTAGATGCTAAGATTCC 59.180 40.000 0.00 0.00 31.71 3.01
2686 4349 9.723601 ATGCTAAAAATTGTAACATTTCATGGT 57.276 25.926 0.00 0.00 33.60 3.55
2693 4356 8.240682 TGCGTAGATGCTAAAAATTGTAACATT 58.759 29.630 0.00 0.00 35.36 2.71
2694 4357 7.757526 TGCGTAGATGCTAAAAATTGTAACAT 58.242 30.769 0.00 0.00 35.36 2.71
2695 4358 7.135089 TGCGTAGATGCTAAAAATTGTAACA 57.865 32.000 0.00 0.00 35.36 2.41
2696 4359 8.442605 TTTGCGTAGATGCTAAAAATTGTAAC 57.557 30.769 0.00 0.00 35.36 2.50
2697 4360 9.284594 GATTTGCGTAGATGCTAAAAATTGTAA 57.715 29.630 0.00 0.00 33.55 2.41
2698 4361 8.673711 AGATTTGCGTAGATGCTAAAAATTGTA 58.326 29.630 0.00 0.00 33.55 2.41
2699 4362 7.538575 AGATTTGCGTAGATGCTAAAAATTGT 58.461 30.769 0.00 0.00 33.55 2.71
2700 4363 7.975866 AGATTTGCGTAGATGCTAAAAATTG 57.024 32.000 0.00 0.00 33.55 2.32
2704 4367 9.542462 ACTATAAGATTTGCGTAGATGCTAAAA 57.458 29.630 0.00 0.00 33.55 1.52
2708 4371 9.360093 GAATACTATAAGATTTGCGTAGATGCT 57.640 33.333 0.00 0.00 35.36 3.79
2709 4372 9.140286 TGAATACTATAAGATTTGCGTAGATGC 57.860 33.333 0.00 0.00 0.00 3.91
2715 4378 8.076178 GCCATTTGAATACTATAAGATTTGCGT 58.924 33.333 0.00 0.00 0.00 5.24
2716 4379 8.075574 TGCCATTTGAATACTATAAGATTTGCG 58.924 33.333 0.00 0.00 0.00 4.85
2717 4380 9.918630 ATGCCATTTGAATACTATAAGATTTGC 57.081 29.630 0.00 0.00 0.00 3.68
2730 4393 8.618702 AACATTTTGTCAATGCCATTTGAATA 57.381 26.923 0.00 0.00 37.36 1.75
2744 4407 7.208777 AGTGCATGAATTGTAACATTTTGTCA 58.791 30.769 0.00 0.00 0.00 3.58
2807 4471 5.585445 GGATTGCCAATACAAATTGCAATGA 59.415 36.000 13.82 0.00 42.82 2.57
2835 4499 3.906846 AGATAGGAGCTCCCCATACAAAG 59.093 47.826 29.54 0.00 36.42 2.77
2841 4505 0.839853 GGCAGATAGGAGCTCCCCAT 60.840 60.000 29.54 21.97 36.42 4.00
2867 4531 2.996621 GCACAACTAACAATCTCTCGCT 59.003 45.455 0.00 0.00 0.00 4.93
2872 4536 4.787598 CTTGTGGCACAACTAACAATCTC 58.212 43.478 28.09 0.00 44.16 2.75
2881 4545 0.684153 AACTGGCTTGTGGCACAACT 60.684 50.000 28.09 7.89 44.16 3.16
2884 4548 1.028905 GTTAACTGGCTTGTGGCACA 58.971 50.000 17.96 17.96 44.10 4.57
2901 4682 0.976641 TCAGGAATGCTCGACAGGTT 59.023 50.000 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.