Multiple sequence alignment - TraesCS3A01G372700

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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 TraesCS3A01G372700 chr3A 100.000 2882 0 0 1 2882 623189642 623192523 0.000000e+00 5323.0
1 TraesCS3A01G372700 chr3A 82.026 918 146 6 990 1892 623197004 623197917 0.000000e+00 763.0
2 TraesCS3A01G372700 chr3A 81.433 921 149 10 990 1893 623200409 623201324 0.000000e+00 734.0
3 TraesCS3A01G372700 chr3A 83.299 491 79 1 990 1480 623605111 623605598 1.570000e-122 449.0
4 TraesCS3A01G372700 chr3A 75.940 399 88 5 1073 1467 623610117 623610511 6.300000e-47 198.0
5 TraesCS3A01G372700 chr3A 91.379 116 10 0 2188 2303 369399208 369399093 2.970000e-35 159.0
6 TraesCS3A01G372700 chr3A 72.881 354 75 15 1532 1870 598553970 598554317 5.080000e-18 102.0
7 TraesCS3A01G372700 chr3B 93.307 1270 66 7 919 2188 640659318 640660568 0.000000e+00 1857.0
8 TraesCS3A01G372700 chr3B 92.787 818 43 8 1 810 640658377 640659186 0.000000e+00 1170.0
9 TraesCS3A01G372700 chr3B 82.139 907 144 8 995 1886 640664572 640665475 0.000000e+00 761.0
10 TraesCS3A01G372700 chr3B 90.550 582 37 6 2302 2882 640660560 640661124 0.000000e+00 754.0
11 TraesCS3A01G372700 chr3B 81.271 913 153 8 990 1887 640832253 640833162 0.000000e+00 723.0
12 TraesCS3A01G372700 chr3B 83.707 491 77 1 990 1480 641653973 641654460 7.280000e-126 460.0
13 TraesCS3A01G372700 chr3B 84.694 98 11 3 1532 1627 602331721 602331816 8.500000e-16 95.3
14 TraesCS3A01G372700 chr3B 84.694 98 11 3 1532 1627 602352803 602352898 8.500000e-16 95.3
15 TraesCS3A01G372700 chr3B 83.099 71 8 3 830 896 640659183 640659253 8.620000e-06 62.1
16 TraesCS3A01G372700 chr3D 94.843 989 41 1 923 1911 480120487 480121465 0.000000e+00 1535.0
17 TraesCS3A01G372700 chr3D 92.885 773 31 12 1 769 480119597 480120349 0.000000e+00 1101.0
18 TraesCS3A01G372700 chr3D 93.139 583 33 5 2302 2882 480121871 480122448 0.000000e+00 848.0
19 TraesCS3A01G372700 chr3D 84.318 491 74 1 990 1480 480837015 480837502 7.220000e-131 477.0
20 TraesCS3A01G372700 chr3D 84.097 371 56 2 1520 1887 480837651 480838021 3.530000e-94 355.0
21 TraesCS3A01G372700 chr3D 88.987 227 21 2 1942 2167 480121465 480121688 7.860000e-71 278.0
22 TraesCS3A01G372700 chr3D 74.573 586 114 20 1073 1627 480842443 480843024 1.040000e-54 224.0
23 TraesCS3A01G372700 chr3D 72.599 354 76 16 1532 1870 455870206 455870553 2.360000e-16 97.1
24 TraesCS3A01G372700 chr1D 93.519 108 7 0 2188 2295 480894243 480894350 8.260000e-36 161.0
25 TraesCS3A01G372700 chrUn 91.379 116 10 0 2188 2303 11913434 11913549 2.970000e-35 159.0
26 TraesCS3A01G372700 chr6B 91.379 116 10 0 2188 2303 705314832 705314717 2.970000e-35 159.0
27 TraesCS3A01G372700 chr1A 91.379 116 10 0 2188 2303 516162913 516163028 2.970000e-35 159.0
28 TraesCS3A01G372700 chr4B 91.304 115 10 0 2188 2302 352167101 352166987 1.070000e-34 158.0
29 TraesCS3A01G372700 chr4A 90.678 118 10 1 2188 2304 546255920 546256037 3.840000e-34 156.0
30 TraesCS3A01G372700 chr2B 90.598 117 11 0 2188 2304 731020293 731020177 3.840000e-34 156.0
31 TraesCS3A01G372700 chr4D 91.150 113 10 0 2191 2303 497502267 497502155 1.380000e-33 154.0


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 TraesCS3A01G372700 chr3A 623189642 623192523 2881 False 5323.00 5323 100.0000 1 2882 1 chr3A.!!$F2 2881
1 TraesCS3A01G372700 chr3A 623197004 623201324 4320 False 748.50 763 81.7295 990 1893 2 chr3A.!!$F5 903
2 TraesCS3A01G372700 chr3B 640658377 640665475 7098 False 920.82 1857 88.3764 1 2882 5 chr3B.!!$F5 2881
3 TraesCS3A01G372700 chr3B 640832253 640833162 909 False 723.00 723 81.2710 990 1887 1 chr3B.!!$F3 897
4 TraesCS3A01G372700 chr3D 480119597 480122448 2851 False 940.50 1535 92.4635 1 2882 4 chr3D.!!$F3 2881
5 TraesCS3A01G372700 chr3D 480837015 480838021 1006 False 416.00 477 84.2075 990 1887 2 chr3D.!!$F4 897
6 TraesCS3A01G372700 chr3D 480842443 480843024 581 False 224.00 224 74.5730 1073 1627 1 chr3D.!!$F2 554

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
264 265 0.184933 TATGTTATGTGCCCCCTGCC 59.815 55.0 0.0 0.0 40.16 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2027 2221 0.107654 AGTGATTAGGACAAGGCGGC 60.108 55.0 0.0 0.0 0.0 6.53 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
24 25 7.263100 TGTTACTACTCTTGTTCTTACGTGA 57.737 36.000 0.00 0.00 0.00 4.35
234 235 4.861210 TCGTCTCTCTGTTGAAGAAGAAC 58.139 43.478 0.00 0.00 33.37 3.01
250 251 4.578928 AGAAGAACTGGCAAAACGTATGTT 59.421 37.500 0.00 0.00 40.98 2.71
259 260 3.765026 CAAAACGTATGTTATGTGCCCC 58.235 45.455 0.00 0.00 37.31 5.80
264 265 0.184933 TATGTTATGTGCCCCCTGCC 59.815 55.000 0.00 0.00 40.16 4.85
273 274 3.419580 CCCCCTGCCATACCTGCA 61.420 66.667 0.00 0.00 37.17 4.41
388 391 1.153289 CCTGAAGAGCACGATGGGG 60.153 63.158 0.00 0.00 0.00 4.96
490 493 5.398169 TCAATTATCAAATTTTCGTGCGCT 58.602 33.333 9.73 0.00 32.87 5.92
493 496 2.314561 TCAAATTTTCGTGCGCTGAG 57.685 45.000 9.73 0.00 0.00 3.35
524 527 7.978982 ACAATTATTGTCTTGTACTGAGATGC 58.021 34.615 4.56 0.00 40.56 3.91
578 581 1.122632 TCCGTTGTCCCTGTGCCTTA 61.123 55.000 0.00 0.00 0.00 2.69
625 634 7.555965 TCAGCTTAACACTAGATTCAGCATTA 58.444 34.615 15.33 3.37 0.00 1.90
626 635 7.492669 TCAGCTTAACACTAGATTCAGCATTAC 59.507 37.037 15.33 0.00 0.00 1.89
630 639 6.552445 AACACTAGATTCAGCATTACTCCT 57.448 37.500 0.00 0.00 0.00 3.69
632 641 6.578023 ACACTAGATTCAGCATTACTCCTTC 58.422 40.000 0.00 0.00 0.00 3.46
666 675 5.969423 ACCGTCAGAATCTTATTTTACCGA 58.031 37.500 0.00 0.00 0.00 4.69
671 680 7.462856 CGTCAGAATCTTATTTTACCGAGTGTG 60.463 40.741 0.00 0.00 0.00 3.82
672 681 7.331193 GTCAGAATCTTATTTTACCGAGTGTGT 59.669 37.037 0.00 0.00 0.00 3.72
673 682 7.544566 TCAGAATCTTATTTTACCGAGTGTGTC 59.455 37.037 0.00 0.00 0.00 3.67
707 716 2.513897 GTGTATCCGTGCTGCCCC 60.514 66.667 0.00 0.00 0.00 5.80
769 778 1.070776 GCACGGACGAGTTTTGTCTTC 60.071 52.381 0.00 0.00 36.58 2.87
770 779 2.198406 CACGGACGAGTTTTGTCTTCA 58.802 47.619 0.00 0.00 36.58 3.02
790 799 7.174946 GTCTTCAGATCACACCCAATTCTTTTA 59.825 37.037 0.00 0.00 0.00 1.52
791 800 7.890127 TCTTCAGATCACACCCAATTCTTTTAT 59.110 33.333 0.00 0.00 0.00 1.40
795 804 6.438425 AGATCACACCCAATTCTTTTATGCTT 59.562 34.615 0.00 0.00 0.00 3.91
796 805 6.418057 TCACACCCAATTCTTTTATGCTTT 57.582 33.333 0.00 0.00 0.00 3.51
797 806 6.454795 TCACACCCAATTCTTTTATGCTTTC 58.545 36.000 0.00 0.00 0.00 2.62
798 807 6.041409 TCACACCCAATTCTTTTATGCTTTCA 59.959 34.615 0.00 0.00 0.00 2.69
799 808 6.146021 CACACCCAATTCTTTTATGCTTTCAC 59.854 38.462 0.00 0.00 0.00 3.18
800 809 6.183360 ACACCCAATTCTTTTATGCTTTCACA 60.183 34.615 0.00 0.00 0.00 3.58
801 810 6.146021 CACCCAATTCTTTTATGCTTTCACAC 59.854 38.462 0.00 0.00 0.00 3.82
802 811 5.639082 CCCAATTCTTTTATGCTTTCACACC 59.361 40.000 0.00 0.00 0.00 4.16
803 812 5.639082 CCAATTCTTTTATGCTTTCACACCC 59.361 40.000 0.00 0.00 0.00 4.61
804 813 6.222389 CAATTCTTTTATGCTTTCACACCCA 58.778 36.000 0.00 0.00 0.00 4.51
805 814 5.860941 TTCTTTTATGCTTTCACACCCAA 57.139 34.783 0.00 0.00 0.00 4.12
806 815 6.418057 TTCTTTTATGCTTTCACACCCAAT 57.582 33.333 0.00 0.00 0.00 3.16
807 816 6.418057 TCTTTTATGCTTTCACACCCAATT 57.582 33.333 0.00 0.00 0.00 2.32
808 817 6.454795 TCTTTTATGCTTTCACACCCAATTC 58.545 36.000 0.00 0.00 0.00 2.17
809 818 6.267471 TCTTTTATGCTTTCACACCCAATTCT 59.733 34.615 0.00 0.00 0.00 2.40
810 819 6.418057 TTTATGCTTTCACACCCAATTCTT 57.582 33.333 0.00 0.00 0.00 2.52
811 820 4.961438 ATGCTTTCACACCCAATTCTTT 57.039 36.364 0.00 0.00 0.00 2.52
812 821 4.751767 TGCTTTCACACCCAATTCTTTT 57.248 36.364 0.00 0.00 0.00 2.27
813 822 5.860941 TGCTTTCACACCCAATTCTTTTA 57.139 34.783 0.00 0.00 0.00 1.52
814 823 6.418057 TGCTTTCACACCCAATTCTTTTAT 57.582 33.333 0.00 0.00 0.00 1.40
815 824 6.222389 TGCTTTCACACCCAATTCTTTTATG 58.778 36.000 0.00 0.00 0.00 1.90
816 825 5.120674 GCTTTCACACCCAATTCTTTTATGC 59.879 40.000 0.00 0.00 0.00 3.14
817 826 6.418057 TTTCACACCCAATTCTTTTATGCT 57.582 33.333 0.00 0.00 0.00 3.79
821 830 6.041409 TCACACCCAATTCTTTTATGCTTTCA 59.959 34.615 0.00 0.00 0.00 2.69
828 837 5.860941 TTCTTTTATGCTTTCACACCCAA 57.139 34.783 0.00 0.00 0.00 4.12
861 871 1.899437 ATCGACGTTGCCCATCTGGT 61.899 55.000 0.00 0.00 36.04 4.00
864 874 1.303317 ACGTTGCCCATCTGGTTCC 60.303 57.895 0.00 0.00 36.04 3.62
865 875 1.002134 CGTTGCCCATCTGGTTCCT 60.002 57.895 0.00 0.00 36.04 3.36
866 876 1.308069 CGTTGCCCATCTGGTTCCTG 61.308 60.000 0.00 0.00 36.04 3.86
868 878 1.002069 TTGCCCATCTGGTTCCTGAT 58.998 50.000 5.58 5.58 36.04 2.90
869 879 0.548031 TGCCCATCTGGTTCCTGATC 59.452 55.000 8.00 0.00 36.04 2.92
870 880 0.548031 GCCCATCTGGTTCCTGATCA 59.452 55.000 8.00 0.00 36.04 2.92
871 881 1.144503 GCCCATCTGGTTCCTGATCAT 59.855 52.381 0.00 0.00 36.04 2.45
874 896 1.871676 CATCTGGTTCCTGATCATGCG 59.128 52.381 0.00 0.00 0.00 4.73
876 898 1.012086 CTGGTTCCTGATCATGCGTG 58.988 55.000 0.00 0.00 0.00 5.34
880 902 1.588404 GTTCCTGATCATGCGTGTACG 59.412 52.381 5.68 0.00 43.27 3.67
896 918 7.837505 TGCGTGTACGAATTTTATATTCTCTG 58.162 34.615 8.82 0.00 43.02 3.35
897 919 7.042992 TGCGTGTACGAATTTTATATTCTCTGG 60.043 37.037 8.82 0.00 43.02 3.86
946 1010 3.057806 ACCGCTATAAAAACAACAGCCAC 60.058 43.478 0.00 0.00 0.00 5.01
1050 1114 2.191641 GCTGCCATCCTCCTGGTC 59.808 66.667 0.00 0.00 38.63 4.02
1279 1346 1.293498 GACATCCACTCGTGCCAGT 59.707 57.895 0.00 0.00 0.00 4.00
1311 1378 2.123640 GTCCTCCTCTCCCTCGGG 60.124 72.222 0.00 0.00 0.00 5.14
1569 1760 1.990060 CCCTGACCAGTGGGACGAT 60.990 63.158 15.21 0.00 46.15 3.73
1584 1775 2.106938 GATGGCGCGATCAGGACA 59.893 61.111 25.21 4.29 0.00 4.02
1630 1821 2.036733 CAGTTCTACAACAACCCGGAGA 59.963 50.000 0.73 0.00 34.60 3.71
1644 1835 2.498248 GAGAGCCAGATCAGCGCA 59.502 61.111 11.47 0.00 34.64 6.09
1870 2064 2.419297 GGATATAGCTCCGCCATCAAGG 60.419 54.545 0.00 0.00 41.84 3.61
1893 2087 1.548719 CACGTGTGATTCTCCCTGGTA 59.451 52.381 7.58 0.00 0.00 3.25
1918 2112 2.099062 GCTTGATTGGCGCTGTCG 59.901 61.111 7.64 0.00 39.07 4.35
2027 2221 5.107065 GGATCACGGTGTAGTTTCTTTGAAG 60.107 44.000 8.17 0.00 0.00 3.02
2033 2227 2.152016 GTAGTTTCTTTGAAGCCGCCT 58.848 47.619 0.00 0.00 0.00 5.52
2039 2233 0.890996 CTTTGAAGCCGCCTTGTCCT 60.891 55.000 0.00 0.00 0.00 3.85
2154 2357 3.885901 ACTATAGCTCGAGTTCAGCATCA 59.114 43.478 15.13 0.00 39.56 3.07
2157 2360 2.277969 AGCTCGAGTTCAGCATCAATG 58.722 47.619 15.13 0.00 39.56 2.82
2178 2551 9.461312 TCAATGCTAAATTTGAATACCACTACT 57.539 29.630 0.00 0.00 0.00 2.57
2181 2554 8.856153 TGCTAAATTTGAATACCACTACTTGA 57.144 30.769 0.00 0.00 0.00 3.02
2182 2555 8.726988 TGCTAAATTTGAATACCACTACTTGAC 58.273 33.333 0.00 0.00 0.00 3.18
2183 2556 8.726988 GCTAAATTTGAATACCACTACTTGACA 58.273 33.333 0.00 0.00 0.00 3.58
2185 2558 8.691661 AAATTTGAATACCACTACTTGACAGT 57.308 30.769 0.00 0.00 36.99 3.55
2186 2559 9.787435 AAATTTGAATACCACTACTTGACAGTA 57.213 29.630 0.00 0.00 34.06 2.74
2187 2560 9.959721 AATTTGAATACCACTACTTGACAGTAT 57.040 29.630 0.00 0.00 34.83 2.12
2188 2561 8.771920 TTTGAATACCACTACTTGACAGTATG 57.228 34.615 0.00 0.00 46.00 2.39
2189 2562 6.338146 TGAATACCACTACTTGACAGTATGC 58.662 40.000 0.00 0.00 42.53 3.14
2190 2563 6.154534 TGAATACCACTACTTGACAGTATGCT 59.845 38.462 0.00 0.00 42.53 3.79
2191 2564 7.340999 TGAATACCACTACTTGACAGTATGCTA 59.659 37.037 0.00 0.00 42.53 3.49
2192 2565 7.841282 ATACCACTACTTGACAGTATGCTAT 57.159 36.000 0.00 0.00 42.53 2.97
2193 2566 6.150396 ACCACTACTTGACAGTATGCTATC 57.850 41.667 0.00 0.00 42.53 2.08
2194 2567 5.069251 ACCACTACTTGACAGTATGCTATCC 59.931 44.000 0.00 0.00 42.53 2.59
2195 2568 5.069119 CCACTACTTGACAGTATGCTATCCA 59.931 44.000 0.00 0.00 42.53 3.41
2196 2569 6.239430 CCACTACTTGACAGTATGCTATCCAT 60.239 42.308 0.00 0.00 42.53 3.41
2197 2570 7.039714 CCACTACTTGACAGTATGCTATCCATA 60.040 40.741 0.00 0.00 42.53 2.74
2198 2571 8.526978 CACTACTTGACAGTATGCTATCCATAT 58.473 37.037 0.00 0.00 42.53 1.78
2199 2572 8.526978 ACTACTTGACAGTATGCTATCCATATG 58.473 37.037 0.00 0.00 42.53 1.78
2200 2573 6.169094 ACTTGACAGTATGCTATCCATATGC 58.831 40.000 0.00 0.00 42.53 3.14
2201 2574 5.089970 TGACAGTATGCTATCCATATGCC 57.910 43.478 0.00 0.00 42.53 4.40
2202 2575 4.531732 TGACAGTATGCTATCCATATGCCA 59.468 41.667 0.00 0.00 42.53 4.92
2203 2576 5.095145 ACAGTATGCTATCCATATGCCAG 57.905 43.478 0.00 0.00 42.53 4.85
2204 2577 4.779489 ACAGTATGCTATCCATATGCCAGA 59.221 41.667 0.00 0.00 42.53 3.86
2205 2578 5.105023 ACAGTATGCTATCCATATGCCAGAG 60.105 44.000 0.00 0.00 42.53 3.35
2206 2579 2.775911 TGCTATCCATATGCCAGAGC 57.224 50.000 10.93 10.93 40.48 4.09
2207 2580 1.280133 TGCTATCCATATGCCAGAGCC 59.720 52.381 13.85 1.79 38.69 4.70
2208 2581 1.280133 GCTATCCATATGCCAGAGCCA 59.720 52.381 7.85 0.00 38.69 4.75
2209 2582 2.092538 GCTATCCATATGCCAGAGCCAT 60.093 50.000 7.85 0.00 38.69 4.40
2210 2583 2.509166 ATCCATATGCCAGAGCCATG 57.491 50.000 0.00 0.00 38.69 3.66
2211 2584 1.437397 TCCATATGCCAGAGCCATGA 58.563 50.000 0.00 0.00 38.69 3.07
2212 2585 1.350019 TCCATATGCCAGAGCCATGAG 59.650 52.381 0.00 0.00 38.69 2.90
2213 2586 1.073444 CCATATGCCAGAGCCATGAGT 59.927 52.381 0.00 0.00 38.69 3.41
2214 2587 2.488528 CCATATGCCAGAGCCATGAGTT 60.489 50.000 0.00 0.00 38.69 3.01
2215 2588 2.336945 TATGCCAGAGCCATGAGTTG 57.663 50.000 0.00 0.00 38.69 3.16
2228 2601 5.458041 CCATGAGTTGGTCACAAGATTTT 57.542 39.130 0.00 0.00 40.99 1.82
2229 2602 6.573664 CCATGAGTTGGTCACAAGATTTTA 57.426 37.500 0.00 0.00 40.99 1.52
2230 2603 7.161773 CCATGAGTTGGTCACAAGATTTTAT 57.838 36.000 0.00 0.00 40.99 1.40
2231 2604 7.031372 CCATGAGTTGGTCACAAGATTTTATG 58.969 38.462 0.00 0.00 40.99 1.90
2232 2605 6.573664 TGAGTTGGTCACAAGATTTTATGG 57.426 37.500 0.00 0.00 37.25 2.74
2233 2606 5.476599 TGAGTTGGTCACAAGATTTTATGGG 59.523 40.000 0.00 0.00 37.25 4.00
2234 2607 5.393866 AGTTGGTCACAAGATTTTATGGGT 58.606 37.500 0.00 0.00 37.25 4.51
2235 2608 5.838521 AGTTGGTCACAAGATTTTATGGGTT 59.161 36.000 0.00 0.00 37.25 4.11
2236 2609 6.326323 AGTTGGTCACAAGATTTTATGGGTTT 59.674 34.615 0.00 0.00 37.25 3.27
2237 2610 6.339587 TGGTCACAAGATTTTATGGGTTTC 57.660 37.500 0.00 0.00 0.00 2.78
2238 2611 5.835819 TGGTCACAAGATTTTATGGGTTTCA 59.164 36.000 0.00 0.00 0.00 2.69
2239 2612 6.156519 GGTCACAAGATTTTATGGGTTTCAC 58.843 40.000 0.00 0.00 0.00 3.18
2240 2613 6.156519 GTCACAAGATTTTATGGGTTTCACC 58.843 40.000 0.00 0.00 37.60 4.02
2241 2614 6.015434 GTCACAAGATTTTATGGGTTTCACCT 60.015 38.462 0.00 0.00 38.64 4.00
2242 2615 6.208599 TCACAAGATTTTATGGGTTTCACCTC 59.791 38.462 0.00 0.00 38.64 3.85
2243 2616 6.209391 CACAAGATTTTATGGGTTTCACCTCT 59.791 38.462 0.00 0.00 38.64 3.69
2244 2617 7.393234 CACAAGATTTTATGGGTTTCACCTCTA 59.607 37.037 0.00 0.00 38.64 2.43
2245 2618 7.611855 ACAAGATTTTATGGGTTTCACCTCTAG 59.388 37.037 0.00 0.00 38.64 2.43
2246 2619 6.122964 AGATTTTATGGGTTTCACCTCTAGC 58.877 40.000 0.00 0.00 38.64 3.42
2247 2620 3.926058 TTATGGGTTTCACCTCTAGCC 57.074 47.619 0.00 0.00 38.64 3.93
2248 2621 1.972588 ATGGGTTTCACCTCTAGCCT 58.027 50.000 0.00 0.00 38.64 4.58
2249 2622 2.634639 TGGGTTTCACCTCTAGCCTA 57.365 50.000 0.00 0.00 38.64 3.93
2250 2623 3.130734 TGGGTTTCACCTCTAGCCTAT 57.869 47.619 0.00 0.00 38.64 2.57
2251 2624 3.039011 TGGGTTTCACCTCTAGCCTATC 58.961 50.000 0.00 0.00 38.64 2.08
2252 2625 3.310193 GGGTTTCACCTCTAGCCTATCT 58.690 50.000 0.00 0.00 38.64 1.98
2253 2626 3.712218 GGGTTTCACCTCTAGCCTATCTT 59.288 47.826 0.00 0.00 38.64 2.40
2254 2627 4.900054 GGGTTTCACCTCTAGCCTATCTTA 59.100 45.833 0.00 0.00 38.64 2.10
2255 2628 5.365895 GGGTTTCACCTCTAGCCTATCTTAA 59.634 44.000 0.00 0.00 38.64 1.85
2256 2629 6.282167 GGTTTCACCTCTAGCCTATCTTAAC 58.718 44.000 0.00 0.00 34.73 2.01
2257 2630 6.098552 GGTTTCACCTCTAGCCTATCTTAACT 59.901 42.308 0.00 0.00 34.73 2.24
2258 2631 7.364851 GGTTTCACCTCTAGCCTATCTTAACTT 60.365 40.741 0.00 0.00 34.73 2.66
2259 2632 6.716934 TCACCTCTAGCCTATCTTAACTTG 57.283 41.667 0.00 0.00 0.00 3.16
2260 2633 6.195700 TCACCTCTAGCCTATCTTAACTTGT 58.804 40.000 0.00 0.00 0.00 3.16
2261 2634 6.668283 TCACCTCTAGCCTATCTTAACTTGTT 59.332 38.462 0.00 0.00 0.00 2.83
2262 2635 7.180408 TCACCTCTAGCCTATCTTAACTTGTTT 59.820 37.037 0.00 0.00 0.00 2.83
2263 2636 7.278868 CACCTCTAGCCTATCTTAACTTGTTTG 59.721 40.741 0.00 0.00 0.00 2.93
2264 2637 6.763610 CCTCTAGCCTATCTTAACTTGTTTGG 59.236 42.308 0.00 0.00 0.00 3.28
2265 2638 6.650120 TCTAGCCTATCTTAACTTGTTTGGG 58.350 40.000 0.00 0.00 0.00 4.12
2266 2639 5.514500 AGCCTATCTTAACTTGTTTGGGA 57.486 39.130 0.00 0.00 0.00 4.37
2267 2640 5.254115 AGCCTATCTTAACTTGTTTGGGAC 58.746 41.667 0.00 0.00 0.00 4.46
2268 2641 5.014228 AGCCTATCTTAACTTGTTTGGGACT 59.986 40.000 0.00 0.00 0.00 3.85
2269 2642 6.214819 AGCCTATCTTAACTTGTTTGGGACTA 59.785 38.462 0.00 0.00 0.00 2.59
2270 2643 6.882678 GCCTATCTTAACTTGTTTGGGACTAA 59.117 38.462 0.00 0.00 0.00 2.24
2271 2644 7.392393 GCCTATCTTAACTTGTTTGGGACTAAA 59.608 37.037 0.00 0.00 0.00 1.85
2272 2645 8.947115 CCTATCTTAACTTGTTTGGGACTAAAG 58.053 37.037 0.00 0.00 0.00 1.85
2273 2646 9.720769 CTATCTTAACTTGTTTGGGACTAAAGA 57.279 33.333 0.00 0.00 0.00 2.52
2274 2647 7.797038 TCTTAACTTGTTTGGGACTAAAGAC 57.203 36.000 0.00 0.00 0.00 3.01
2275 2648 7.571025 TCTTAACTTGTTTGGGACTAAAGACT 58.429 34.615 0.00 0.00 0.00 3.24
2276 2649 8.050930 TCTTAACTTGTTTGGGACTAAAGACTT 58.949 33.333 0.00 0.00 0.00 3.01
2277 2650 8.584063 TTAACTTGTTTGGGACTAAAGACTTT 57.416 30.769 5.62 5.62 0.00 2.66
2278 2651 6.451064 ACTTGTTTGGGACTAAAGACTTTG 57.549 37.500 10.80 3.65 0.00 2.77
2279 2652 5.949952 ACTTGTTTGGGACTAAAGACTTTGT 59.050 36.000 10.80 6.70 0.00 2.83
2280 2653 6.436218 ACTTGTTTGGGACTAAAGACTTTGTT 59.564 34.615 10.80 0.00 0.00 2.83
2281 2654 6.202516 TGTTTGGGACTAAAGACTTTGTTG 57.797 37.500 10.80 3.73 0.00 3.33
2282 2655 5.712917 TGTTTGGGACTAAAGACTTTGTTGT 59.287 36.000 10.80 6.72 0.00 3.32
2283 2656 6.209788 TGTTTGGGACTAAAGACTTTGTTGTT 59.790 34.615 10.80 0.00 0.00 2.83
2284 2657 7.393796 TGTTTGGGACTAAAGACTTTGTTGTTA 59.606 33.333 10.80 0.00 0.00 2.41
2285 2658 8.410912 GTTTGGGACTAAAGACTTTGTTGTTAT 58.589 33.333 10.80 0.00 0.00 1.89
2286 2659 8.528044 TTGGGACTAAAGACTTTGTTGTTATT 57.472 30.769 10.80 0.00 0.00 1.40
2287 2660 7.936584 TGGGACTAAAGACTTTGTTGTTATTG 58.063 34.615 10.80 0.00 0.00 1.90
2288 2661 7.558444 TGGGACTAAAGACTTTGTTGTTATTGT 59.442 33.333 10.80 0.00 0.00 2.71
2289 2662 8.410912 GGGACTAAAGACTTTGTTGTTATTGTT 58.589 33.333 10.80 0.00 0.00 2.83
2290 2663 9.233232 GGACTAAAGACTTTGTTGTTATTGTTG 57.767 33.333 10.80 0.00 0.00 3.33
2291 2664 9.783256 GACTAAAGACTTTGTTGTTATTGTTGT 57.217 29.630 10.80 0.00 0.00 3.32
2294 2667 6.885735 AGACTTTGTTGTTATTGTTGTTGC 57.114 33.333 0.00 0.00 0.00 4.17
2295 2668 6.630071 AGACTTTGTTGTTATTGTTGTTGCT 58.370 32.000 0.00 0.00 0.00 3.91
2296 2669 6.531240 AGACTTTGTTGTTATTGTTGTTGCTG 59.469 34.615 0.00 0.00 0.00 4.41
2297 2670 6.162777 ACTTTGTTGTTATTGTTGTTGCTGT 58.837 32.000 0.00 0.00 0.00 4.40
2298 2671 6.648725 ACTTTGTTGTTATTGTTGTTGCTGTT 59.351 30.769 0.00 0.00 0.00 3.16
2299 2672 6.400579 TTGTTGTTATTGTTGTTGCTGTTG 57.599 33.333 0.00 0.00 0.00 3.33
2300 2673 5.473931 TGTTGTTATTGTTGTTGCTGTTGT 58.526 33.333 0.00 0.00 0.00 3.32
2352 2725 1.628846 GACAACTTTGGGCCTCTCCTA 59.371 52.381 4.53 0.00 34.39 2.94
2453 2835 9.535878 TCACAACAATGGTTAAATAAGGAAAAC 57.464 29.630 0.00 0.00 34.87 2.43
2454 2836 9.541143 CACAACAATGGTTAAATAAGGAAAACT 57.459 29.630 0.00 0.00 34.87 2.66
2455 2837 9.541143 ACAACAATGGTTAAATAAGGAAAACTG 57.459 29.630 0.00 0.00 34.87 3.16
2456 2838 9.757227 CAACAATGGTTAAATAAGGAAAACTGA 57.243 29.630 0.00 0.00 34.87 3.41
2578 2960 8.458843 CACGAAACCTTAGGAATTATTTGTGAT 58.541 33.333 4.77 0.00 0.00 3.06
2605 2987 5.488341 TCTCTATTTTCTCTGGGTTTTCCG 58.512 41.667 0.00 0.00 41.82 4.30
2621 3003 7.550196 TGGGTTTTCCGTTATACTTATGACTTC 59.450 37.037 0.00 0.00 41.82 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 6.272822 GGAAACTTTCCTGCAGTTGATTAT 57.727 37.500 13.81 0.00 46.57 1.28
234 235 3.851403 GCACATAACATACGTTTTGCCAG 59.149 43.478 0.00 0.00 37.52 4.85
259 260 0.541392 TAGTGTGCAGGTATGGCAGG 59.459 55.000 0.00 0.00 42.85 4.85
264 265 6.682423 TGATGAAAATAGTGTGCAGGTATG 57.318 37.500 0.00 0.00 0.00 2.39
273 274 6.996509 AGCCAAATGTTGATGAAAATAGTGT 58.003 32.000 0.00 0.00 0.00 3.55
344 347 3.428532 AGCATCTCACCTGCAAGAAATT 58.571 40.909 0.00 0.00 42.15 1.82
388 391 2.538512 AGAACAACCGGTACACCTTC 57.461 50.000 8.00 4.54 0.00 3.46
524 527 7.496529 TCAAGTTCCAGACAATAGAACAAAG 57.503 36.000 5.07 0.00 41.86 2.77
578 581 1.190833 ACAGCAGGCAGAGCAGTAGT 61.191 55.000 0.00 0.00 29.49 2.73
610 619 5.837437 CGAAGGAGTAATGCTGAATCTAGT 58.163 41.667 0.00 0.00 0.00 2.57
666 675 1.469335 ATTCCACCGTCCGACACACT 61.469 55.000 0.00 0.00 0.00 3.55
671 680 1.226603 CGAGATTCCACCGTCCGAC 60.227 63.158 0.00 0.00 0.00 4.79
672 681 2.412323 CCGAGATTCCACCGTCCGA 61.412 63.158 0.00 0.00 0.00 4.55
673 682 2.104331 CCGAGATTCCACCGTCCG 59.896 66.667 0.00 0.00 0.00 4.79
674 683 1.153628 CACCGAGATTCCACCGTCC 60.154 63.158 0.00 0.00 0.00 4.79
675 684 0.813184 TACACCGAGATTCCACCGTC 59.187 55.000 0.00 0.00 0.00 4.79
676 685 1.407979 GATACACCGAGATTCCACCGT 59.592 52.381 0.00 0.00 0.00 4.83
677 686 1.269621 GGATACACCGAGATTCCACCG 60.270 57.143 0.00 0.00 0.00 4.94
704 713 2.124570 CCAAGGATGTCAGCGGGG 60.125 66.667 0.00 0.00 0.00 5.73
707 716 0.463295 ATGCTCCAAGGATGTCAGCG 60.463 55.000 0.00 0.00 34.68 5.18
712 721 0.549950 CTGGGATGCTCCAAGGATGT 59.450 55.000 4.85 0.00 38.64 3.06
713 722 0.549950 ACTGGGATGCTCCAAGGATG 59.450 55.000 10.32 0.00 42.12 3.51
733 742 2.613977 CCGTGCAGACTCCAAAGAGATT 60.614 50.000 0.00 0.00 43.39 2.40
736 745 0.318441 TCCGTGCAGACTCCAAAGAG 59.682 55.000 0.00 0.00 46.36 2.85
769 778 6.038356 GCATAAAAGAATTGGGTGTGATCTG 58.962 40.000 0.00 0.00 0.00 2.90
770 779 5.954150 AGCATAAAAGAATTGGGTGTGATCT 59.046 36.000 0.00 0.00 0.00 2.75
790 799 4.961438 AAAGAATTGGGTGTGAAAGCAT 57.039 36.364 0.00 0.00 0.00 3.79
791 800 4.751767 AAAAGAATTGGGTGTGAAAGCA 57.248 36.364 0.00 0.00 0.00 3.91
795 804 6.418057 AAGCATAAAAGAATTGGGTGTGAA 57.582 33.333 0.00 0.00 0.00 3.18
796 805 6.041409 TGAAAGCATAAAAGAATTGGGTGTGA 59.959 34.615 0.00 0.00 0.00 3.58
797 806 6.146021 GTGAAAGCATAAAAGAATTGGGTGTG 59.854 38.462 0.00 0.00 0.00 3.82
798 807 6.183360 TGTGAAAGCATAAAAGAATTGGGTGT 60.183 34.615 0.00 0.00 0.00 4.16
799 808 6.146021 GTGTGAAAGCATAAAAGAATTGGGTG 59.854 38.462 0.00 0.00 0.00 4.61
800 809 6.223120 GTGTGAAAGCATAAAAGAATTGGGT 58.777 36.000 0.00 0.00 0.00 4.51
801 810 5.639082 GGTGTGAAAGCATAAAAGAATTGGG 59.361 40.000 0.00 0.00 0.00 4.12
802 811 5.639082 GGGTGTGAAAGCATAAAAGAATTGG 59.361 40.000 0.00 0.00 0.00 3.16
803 812 6.222389 TGGGTGTGAAAGCATAAAAGAATTG 58.778 36.000 0.00 0.00 0.00 2.32
804 813 6.418057 TGGGTGTGAAAGCATAAAAGAATT 57.582 33.333 0.00 0.00 0.00 2.17
805 814 6.418057 TTGGGTGTGAAAGCATAAAAGAAT 57.582 33.333 0.00 0.00 0.00 2.40
806 815 5.860941 TTGGGTGTGAAAGCATAAAAGAA 57.139 34.783 0.00 0.00 0.00 2.52
807 816 6.267471 AGAATTGGGTGTGAAAGCATAAAAGA 59.733 34.615 0.00 0.00 0.00 2.52
808 817 6.458210 AGAATTGGGTGTGAAAGCATAAAAG 58.542 36.000 0.00 0.00 0.00 2.27
809 818 6.267471 AGAGAATTGGGTGTGAAAGCATAAAA 59.733 34.615 0.00 0.00 0.00 1.52
810 819 5.774690 AGAGAATTGGGTGTGAAAGCATAAA 59.225 36.000 0.00 0.00 0.00 1.40
811 820 5.183713 CAGAGAATTGGGTGTGAAAGCATAA 59.816 40.000 0.00 0.00 0.00 1.90
812 821 4.701651 CAGAGAATTGGGTGTGAAAGCATA 59.298 41.667 0.00 0.00 0.00 3.14
813 822 3.508793 CAGAGAATTGGGTGTGAAAGCAT 59.491 43.478 0.00 0.00 0.00 3.79
814 823 2.886523 CAGAGAATTGGGTGTGAAAGCA 59.113 45.455 0.00 0.00 0.00 3.91
815 824 2.229784 CCAGAGAATTGGGTGTGAAAGC 59.770 50.000 0.00 0.00 34.46 3.51
816 825 3.754965 TCCAGAGAATTGGGTGTGAAAG 58.245 45.455 0.00 0.00 38.81 2.62
817 826 3.874383 TCCAGAGAATTGGGTGTGAAA 57.126 42.857 0.00 0.00 38.81 2.69
821 830 1.420138 ACGTTCCAGAGAATTGGGTGT 59.580 47.619 0.00 0.00 38.81 4.16
828 837 3.335786 CGTCGATACGTTCCAGAGAAT 57.664 47.619 0.00 0.00 44.21 2.40
861 871 1.474879 TCGTACACGCATGATCAGGAA 59.525 47.619 12.39 0.00 39.60 3.36
864 874 4.520743 AAATTCGTACACGCATGATCAG 57.479 40.909 0.09 0.00 39.60 2.90
865 875 4.937696 AAAATTCGTACACGCATGATCA 57.062 36.364 0.00 0.00 39.60 2.92
866 876 9.250986 GAATATAAAATTCGTACACGCATGATC 57.749 33.333 0.00 0.00 39.60 2.92
868 878 8.360325 AGAATATAAAATTCGTACACGCATGA 57.640 30.769 0.00 0.00 39.60 3.07
869 879 8.487970 AGAGAATATAAAATTCGTACACGCATG 58.512 33.333 0.00 0.00 39.60 4.06
870 880 8.487970 CAGAGAATATAAAATTCGTACACGCAT 58.512 33.333 0.00 0.00 39.60 4.73
871 881 7.042992 CCAGAGAATATAAAATTCGTACACGCA 60.043 37.037 0.00 0.00 39.60 5.24
874 896 8.138365 TGCCAGAGAATATAAAATTCGTACAC 57.862 34.615 0.00 0.00 33.51 2.90
896 918 4.988540 GGAAACAGAAACCAAACTTATGCC 59.011 41.667 0.00 0.00 0.00 4.40
897 919 4.988540 GGGAAACAGAAACCAAACTTATGC 59.011 41.667 0.00 0.00 0.00 3.14
906 941 2.112190 GGTTTGGGGAAACAGAAACCA 58.888 47.619 0.00 0.00 45.58 3.67
970 1034 5.163405 GGATCAGTAGCTAGTGACAATGGAA 60.163 44.000 29.23 8.82 38.37 3.53
971 1035 4.342378 GGATCAGTAGCTAGTGACAATGGA 59.658 45.833 29.23 9.50 38.37 3.41
976 1040 3.291584 CTGGGATCAGTAGCTAGTGACA 58.708 50.000 29.23 21.69 38.37 3.58
1224 1288 2.989639 CCGCCAGATGAAGGGTCA 59.010 61.111 0.00 0.00 38.41 4.02
1488 1555 0.768221 AGTTCTTGAGGTCCCTGGCA 60.768 55.000 0.00 0.00 0.00 4.92
1569 1760 4.147449 CCTGTCCTGATCGCGCCA 62.147 66.667 0.00 0.20 0.00 5.69
1584 1775 1.006102 CACGAAGTCGAACAGCCCT 60.006 57.895 7.87 0.00 41.61 5.19
1630 1821 4.853050 GCCTGCGCTGATCTGGCT 62.853 66.667 16.65 0.00 42.85 4.75
1644 1835 1.305623 CAAGAATGCTCCAGGGCCT 59.694 57.895 0.00 0.00 0.00 5.19
1649 1840 2.768492 GCGGCCAAGAATGCTCCAG 61.768 63.158 2.24 0.00 0.00 3.86
1870 2064 1.745489 GGGAGAATCACACGTGGCC 60.745 63.158 21.57 0.00 39.41 5.36
1918 2112 2.027625 GTACAGGAGCGGCACACAC 61.028 63.158 1.45 0.00 0.00 3.82
2027 2221 0.107654 AGTGATTAGGACAAGGCGGC 60.108 55.000 0.00 0.00 0.00 6.53
2033 2227 7.831691 TCCAAATTTGAAGTGATTAGGACAA 57.168 32.000 19.86 0.00 0.00 3.18
2039 2233 9.567776 TGTAGAGTTCCAAATTTGAAGTGATTA 57.432 29.630 19.86 1.70 0.00 1.75
2118 2321 7.371159 TCGAGCTATAGTTCATTGACCAATAG 58.629 38.462 15.81 0.00 0.00 1.73
2157 2360 8.726988 TGTCAAGTAGTGGTATTCAAATTTAGC 58.273 33.333 0.00 0.00 0.00 3.09
2178 2551 5.012975 TGGCATATGGATAGCATACTGTCAA 59.987 40.000 4.56 0.00 35.83 3.18
2179 2552 4.531732 TGGCATATGGATAGCATACTGTCA 59.468 41.667 4.56 0.00 35.83 3.58
2180 2553 5.089970 TGGCATATGGATAGCATACTGTC 57.910 43.478 4.56 0.00 33.49 3.51
2181 2554 4.779489 TCTGGCATATGGATAGCATACTGT 59.221 41.667 4.56 0.00 0.00 3.55
2182 2555 5.349061 TCTGGCATATGGATAGCATACTG 57.651 43.478 4.56 0.00 0.00 2.74
2183 2556 4.141756 GCTCTGGCATATGGATAGCATACT 60.142 45.833 4.56 0.00 38.54 2.12
2184 2557 4.125703 GCTCTGGCATATGGATAGCATAC 58.874 47.826 4.56 0.00 38.54 2.39
2185 2558 3.135348 GGCTCTGGCATATGGATAGCATA 59.865 47.826 4.56 0.00 40.87 3.14
2186 2559 2.092538 GGCTCTGGCATATGGATAGCAT 60.093 50.000 4.56 0.00 40.87 3.79
2187 2560 1.280133 GGCTCTGGCATATGGATAGCA 59.720 52.381 4.56 0.00 40.87 3.49
2188 2561 1.280133 TGGCTCTGGCATATGGATAGC 59.720 52.381 4.56 0.00 40.87 2.97
2189 2562 3.199289 TCATGGCTCTGGCATATGGATAG 59.801 47.826 4.56 0.00 47.00 2.08
2190 2563 3.183801 TCATGGCTCTGGCATATGGATA 58.816 45.455 4.56 0.00 47.00 2.59
2191 2564 1.990327 TCATGGCTCTGGCATATGGAT 59.010 47.619 4.56 0.00 47.00 3.41
2192 2565 1.350019 CTCATGGCTCTGGCATATGGA 59.650 52.381 4.56 0.41 47.00 3.41
2193 2566 1.073444 ACTCATGGCTCTGGCATATGG 59.927 52.381 4.56 3.32 47.00 2.74
2194 2567 2.552743 CAACTCATGGCTCTGGCATATG 59.447 50.000 6.30 0.00 47.00 1.78
2195 2568 2.488528 CCAACTCATGGCTCTGGCATAT 60.489 50.000 6.30 0.00 47.00 1.78
2196 2569 1.134007 CCAACTCATGGCTCTGGCATA 60.134 52.381 6.30 0.00 47.00 3.14
2198 2571 1.001764 CCAACTCATGGCTCTGGCA 60.002 57.895 0.00 0.00 43.80 4.92
2199 2572 3.915575 CCAACTCATGGCTCTGGC 58.084 61.111 0.00 0.00 43.80 4.85
2207 2580 7.031372 CCATAAAATCTTGTGACCAACTCATG 58.969 38.462 0.00 0.00 0.00 3.07
2208 2581 6.153340 CCCATAAAATCTTGTGACCAACTCAT 59.847 38.462 0.00 0.00 0.00 2.90
2209 2582 5.476599 CCCATAAAATCTTGTGACCAACTCA 59.523 40.000 0.00 0.00 0.00 3.41
2210 2583 5.476945 ACCCATAAAATCTTGTGACCAACTC 59.523 40.000 0.00 0.00 0.00 3.01
2211 2584 5.393866 ACCCATAAAATCTTGTGACCAACT 58.606 37.500 0.00 0.00 0.00 3.16
2212 2585 5.722021 ACCCATAAAATCTTGTGACCAAC 57.278 39.130 0.00 0.00 0.00 3.77
2213 2586 6.325028 TGAAACCCATAAAATCTTGTGACCAA 59.675 34.615 0.00 0.00 0.00 3.67
2214 2587 5.835819 TGAAACCCATAAAATCTTGTGACCA 59.164 36.000 0.00 0.00 0.00 4.02
2215 2588 6.156519 GTGAAACCCATAAAATCTTGTGACC 58.843 40.000 0.00 0.00 0.00 4.02
2233 2606 7.114866 AGTTAAGATAGGCTAGAGGTGAAAC 57.885 40.000 0.00 0.00 0.00 2.78
2234 2607 7.180408 ACAAGTTAAGATAGGCTAGAGGTGAAA 59.820 37.037 0.00 0.00 0.00 2.69
2235 2608 6.668283 ACAAGTTAAGATAGGCTAGAGGTGAA 59.332 38.462 0.00 0.00 0.00 3.18
2236 2609 6.195700 ACAAGTTAAGATAGGCTAGAGGTGA 58.804 40.000 0.00 0.00 0.00 4.02
2237 2610 6.472686 ACAAGTTAAGATAGGCTAGAGGTG 57.527 41.667 0.00 0.00 0.00 4.00
2238 2611 7.331791 CAAACAAGTTAAGATAGGCTAGAGGT 58.668 38.462 0.00 0.00 0.00 3.85
2239 2612 6.763610 CCAAACAAGTTAAGATAGGCTAGAGG 59.236 42.308 0.00 0.00 0.00 3.69
2240 2613 6.763610 CCCAAACAAGTTAAGATAGGCTAGAG 59.236 42.308 0.00 0.00 0.00 2.43
2241 2614 6.442564 TCCCAAACAAGTTAAGATAGGCTAGA 59.557 38.462 0.00 0.00 0.00 2.43
2242 2615 6.539103 GTCCCAAACAAGTTAAGATAGGCTAG 59.461 42.308 0.00 0.00 0.00 3.42
2243 2616 6.214819 AGTCCCAAACAAGTTAAGATAGGCTA 59.785 38.462 0.00 0.00 0.00 3.93
2244 2617 5.014228 AGTCCCAAACAAGTTAAGATAGGCT 59.986 40.000 0.00 0.00 0.00 4.58
2245 2618 5.254115 AGTCCCAAACAAGTTAAGATAGGC 58.746 41.667 0.00 0.00 0.00 3.93
2246 2619 8.857694 TTTAGTCCCAAACAAGTTAAGATAGG 57.142 34.615 0.00 0.00 0.00 2.57
2247 2620 9.720769 TCTTTAGTCCCAAACAAGTTAAGATAG 57.279 33.333 0.00 0.00 0.00 2.08
2248 2621 9.498176 GTCTTTAGTCCCAAACAAGTTAAGATA 57.502 33.333 0.00 0.00 0.00 1.98
2249 2622 8.218488 AGTCTTTAGTCCCAAACAAGTTAAGAT 58.782 33.333 0.00 0.00 0.00 2.40
2250 2623 7.571025 AGTCTTTAGTCCCAAACAAGTTAAGA 58.429 34.615 0.00 0.00 0.00 2.10
2251 2624 7.803279 AGTCTTTAGTCCCAAACAAGTTAAG 57.197 36.000 0.00 0.00 0.00 1.85
2252 2625 8.463607 CAAAGTCTTTAGTCCCAAACAAGTTAA 58.536 33.333 0.00 0.00 0.00 2.01
2253 2626 7.612633 ACAAAGTCTTTAGTCCCAAACAAGTTA 59.387 33.333 0.00 0.00 0.00 2.24
2254 2627 6.436218 ACAAAGTCTTTAGTCCCAAACAAGTT 59.564 34.615 0.00 0.00 0.00 2.66
2255 2628 5.949952 ACAAAGTCTTTAGTCCCAAACAAGT 59.050 36.000 0.00 0.00 0.00 3.16
2256 2629 6.451064 ACAAAGTCTTTAGTCCCAAACAAG 57.549 37.500 0.00 0.00 0.00 3.16
2257 2630 6.209788 ACAACAAAGTCTTTAGTCCCAAACAA 59.790 34.615 0.00 0.00 0.00 2.83
2258 2631 5.712917 ACAACAAAGTCTTTAGTCCCAAACA 59.287 36.000 0.00 0.00 0.00 2.83
2259 2632 6.203808 ACAACAAAGTCTTTAGTCCCAAAC 57.796 37.500 0.00 0.00 0.00 2.93
2260 2633 6.844097 AACAACAAAGTCTTTAGTCCCAAA 57.156 33.333 0.00 0.00 0.00 3.28
2261 2634 8.410141 CAATAACAACAAAGTCTTTAGTCCCAA 58.590 33.333 0.00 0.00 0.00 4.12
2262 2635 7.558444 ACAATAACAACAAAGTCTTTAGTCCCA 59.442 33.333 0.00 0.00 0.00 4.37
2263 2636 7.937649 ACAATAACAACAAAGTCTTTAGTCCC 58.062 34.615 0.00 0.00 0.00 4.46
2264 2637 9.233232 CAACAATAACAACAAAGTCTTTAGTCC 57.767 33.333 0.00 0.00 0.00 3.85
2265 2638 9.783256 ACAACAATAACAACAAAGTCTTTAGTC 57.217 29.630 0.00 0.00 0.00 2.59
2268 2641 8.865001 GCAACAACAATAACAACAAAGTCTTTA 58.135 29.630 0.00 0.00 0.00 1.85
2269 2642 7.602265 AGCAACAACAATAACAACAAAGTCTTT 59.398 29.630 0.00 0.00 0.00 2.52
2270 2643 7.063308 CAGCAACAACAATAACAACAAAGTCTT 59.937 33.333 0.00 0.00 0.00 3.01
2271 2644 6.531240 CAGCAACAACAATAACAACAAAGTCT 59.469 34.615 0.00 0.00 0.00 3.24
2272 2645 6.310224 ACAGCAACAACAATAACAACAAAGTC 59.690 34.615 0.00 0.00 0.00 3.01
2273 2646 6.162777 ACAGCAACAACAATAACAACAAAGT 58.837 32.000 0.00 0.00 0.00 2.66
2274 2647 6.645700 ACAGCAACAACAATAACAACAAAG 57.354 33.333 0.00 0.00 0.00 2.77
2275 2648 6.425114 ACAACAGCAACAACAATAACAACAAA 59.575 30.769 0.00 0.00 0.00 2.83
2276 2649 5.928839 ACAACAGCAACAACAATAACAACAA 59.071 32.000 0.00 0.00 0.00 2.83
2277 2650 5.473931 ACAACAGCAACAACAATAACAACA 58.526 33.333 0.00 0.00 0.00 3.33
2278 2651 6.090088 TCAACAACAGCAACAACAATAACAAC 59.910 34.615 0.00 0.00 0.00 3.32
2279 2652 6.090088 GTCAACAACAGCAACAACAATAACAA 59.910 34.615 0.00 0.00 0.00 2.83
2280 2653 5.574830 GTCAACAACAGCAACAACAATAACA 59.425 36.000 0.00 0.00 0.00 2.41
2281 2654 5.574830 TGTCAACAACAGCAACAACAATAAC 59.425 36.000 0.00 0.00 32.81 1.89
2282 2655 5.714047 TGTCAACAACAGCAACAACAATAA 58.286 33.333 0.00 0.00 32.81 1.40
2283 2656 5.316327 TGTCAACAACAGCAACAACAATA 57.684 34.783 0.00 0.00 32.81 1.90
2284 2657 4.185467 TGTCAACAACAGCAACAACAAT 57.815 36.364 0.00 0.00 32.81 2.71
2285 2658 3.650070 TGTCAACAACAGCAACAACAA 57.350 38.095 0.00 0.00 32.81 2.83
2295 2668 8.846943 ATTGAGATGTTATACTGTCAACAACA 57.153 30.769 10.69 5.73 38.11 3.33
2328 2701 1.527433 GAGGCCCAAAGTTGTCCTGC 61.527 60.000 0.00 0.00 31.96 4.85
2352 2725 2.644798 ACCCATCAAACTGCTTCTAGGT 59.355 45.455 0.00 0.00 0.00 3.08
2518 2900 3.265791 CTTGTTTCCTCGCTCTGCTTAT 58.734 45.455 0.00 0.00 0.00 1.73
2523 2905 3.433615 CCTAAACTTGTTTCCTCGCTCTG 59.566 47.826 1.72 0.00 0.00 3.35
2528 2910 3.399330 TGCTCCTAAACTTGTTTCCTCG 58.601 45.455 1.72 0.00 0.00 4.63
2578 2960 6.688073 AAACCCAGAGAAAATAGAGAGTGA 57.312 37.500 0.00 0.00 0.00 3.41
2592 2974 7.224167 GTCATAAGTATAACGGAAAACCCAGAG 59.776 40.741 0.00 0.00 34.14 3.35
2706 3089 9.480861 TCACTTATTATGATATGGAGGGAGTAG 57.519 37.037 0.00 0.00 0.00 2.57
2708 3091 8.923838 ATCACTTATTATGATATGGAGGGAGT 57.076 34.615 0.00 0.00 34.99 3.85


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

AutoCloner maintained by Alex Coulton.