Multiple sequence alignment - TraesCS1B01G265800

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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 TraesCS1B01G265800 chr1B 100.000 3709 0 0 1 3709 466289753 466286045 0.000000e+00 6850
1 TraesCS1B01G265800 chr1B 87.241 1928 203 26 832 2725 465964483 465966401 0.000000e+00 2158
2 TraesCS1B01G265800 chr1B 86.977 215 24 2 2871 3083 454893883 454893671 4.790000e-59 239
3 TraesCS1B01G265800 chr1A 94.764 1967 57 10 808 2729 443869869 443871834 0.000000e+00 3020
4 TraesCS1B01G265800 chr1A 87.389 1919 196 25 832 2725 444421902 444420005 0.000000e+00 2161
5 TraesCS1B01G265800 chr1A 81.257 1702 246 39 1030 2672 99318670 99320357 0.000000e+00 1308
6 TraesCS1B01G265800 chr1A 91.579 95 7 1 2766 2859 443871830 443871924 3.010000e-26 130
7 TraesCS1B01G265800 chr1D 94.586 1958 60 13 808 2720 344283929 344285885 0.000000e+00 2987
8 TraesCS1B01G265800 chr1D 87.966 1878 184 25 879 2725 344676326 344674460 0.000000e+00 2178
9 TraesCS1B01G265800 chr1D 89.660 793 76 6 6 797 480998664 480997877 0.000000e+00 1005
10 TraesCS1B01G265800 chr1D 94.000 150 8 1 2711 2859 344286293 344286442 3.730000e-55 226
11 TraesCS1B01G265800 chr1D 85.204 196 28 1 2868 3062 391646113 391645918 2.260000e-47 200
12 TraesCS1B01G265800 chr7B 81.144 1713 279 28 1020 2694 34168285 34169991 0.000000e+00 1334
13 TraesCS1B01G265800 chr7B 80.669 1733 290 24 996 2690 157687796 157689521 0.000000e+00 1303
14 TraesCS1B01G265800 chr7B 88.325 197 21 1 2870 3064 706233647 706233843 6.190000e-58 235
15 TraesCS1B01G265800 chr7B 85.514 214 27 2 2869 3080 659255833 659255622 1.730000e-53 220
16 TraesCS1B01G265800 chr5A 81.235 1716 267 37 996 2671 538349074 538350774 0.000000e+00 1334
17 TraesCS1B01G265800 chr5A 80.233 1715 289 27 996 2671 138430560 138428857 0.000000e+00 1243
18 TraesCS1B01G265800 chr7D 80.974 1724 283 31 1020 2705 84422141 84420425 0.000000e+00 1325
19 TraesCS1B01G265800 chr7D 80.807 1709 283 23 996 2666 193935024 193936725 0.000000e+00 1297
20 TraesCS1B01G265800 chrUn 80.839 1717 275 35 1034 2705 82637354 82635647 0.000000e+00 1299
21 TraesCS1B01G265800 chr7A 80.575 1704 286 23 1001 2666 203525537 203527233 0.000000e+00 1271
22 TraesCS1B01G265800 chr5B 80.047 1714 293 26 997 2671 137112709 137111006 0.000000e+00 1225
23 TraesCS1B01G265800 chr5B 93.398 621 40 1 3089 3709 440290701 440290082 0.000000e+00 918
24 TraesCS1B01G265800 chr5B 91.528 661 55 1 3049 3709 513988679 513989338 0.000000e+00 909
25 TraesCS1B01G265800 chr5B 91.948 621 48 2 3089 3709 8526548 8525930 0.000000e+00 869
26 TraesCS1B01G265800 chr5B 80.492 569 104 4 2109 2671 137109925 137109358 2.650000e-116 429
27 TraesCS1B01G265800 chr3D 90.314 795 75 2 1 794 398413089 398412296 0.000000e+00 1040
28 TraesCS1B01G265800 chr3D 89.560 795 74 6 4 794 523637442 523638231 0.000000e+00 1000
29 TraesCS1B01G265800 chr3D 89.098 798 86 1 1 797 98610066 98610863 0.000000e+00 990
30 TraesCS1B01G265800 chr3D 89.281 793 80 5 4 794 361735340 361734551 0.000000e+00 989
31 TraesCS1B01G265800 chr3D 79.835 243 34 12 2869 3101 358570235 358569998 2.960000e-36 163
32 TraesCS1B01G265800 chr5D 90.327 796 72 5 4 797 458109561 458108769 0.000000e+00 1038
33 TraesCS1B01G265800 chr5D 89.686 795 78 2 4 797 407010201 407009410 0.000000e+00 1011
34 TraesCS1B01G265800 chr5D 89.529 191 19 1 2869 3059 25466389 25466578 1.330000e-59 241
35 TraesCS1B01G265800 chr2A 89.434 795 83 1 1 794 199711447 199712241 0.000000e+00 1002
36 TraesCS1B01G265800 chr2A 83.246 191 27 3 2874 3059 646989152 646989342 1.770000e-38 171
37 TraesCS1B01G265800 chr6A 89.223 798 76 5 4 797 108938094 108937303 0.000000e+00 989
38 TraesCS1B01G265800 chr2B 92.121 660 51 1 3050 3709 418650946 418650288 0.000000e+00 929
39 TraesCS1B01G265800 chr2B 92.444 622 43 4 3089 3709 526381927 526382545 0.000000e+00 885
40 TraesCS1B01G265800 chr3B 93.559 621 39 1 3089 3709 777022070 777021451 0.000000e+00 924
41 TraesCS1B01G265800 chr3B 86.667 195 20 3 2869 3059 821007069 821007261 1.040000e-50 211
42 TraesCS1B01G265800 chr3A 91.974 623 46 3 3089 3709 661835841 661836461 0.000000e+00 870
43 TraesCS1B01G265800 chr6B 91.948 621 49 1 3089 3709 499885446 499884827 0.000000e+00 869
44 TraesCS1B01G265800 chr6B 91.787 621 50 1 3089 3709 674564023 674563404 0.000000e+00 863
45 TraesCS1B01G265800 chr2D 84.536 194 25 4 2869 3057 13881375 13881568 1.760000e-43 187


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 TraesCS1B01G265800 chr1B 466286045 466289753 3708 True 6850.0 6850 100.0000 1 3709 1 chr1B.!!$R2 3708
1 TraesCS1B01G265800 chr1B 465964483 465966401 1918 False 2158.0 2158 87.2410 832 2725 1 chr1B.!!$F1 1893
2 TraesCS1B01G265800 chr1A 444420005 444421902 1897 True 2161.0 2161 87.3890 832 2725 1 chr1A.!!$R1 1893
3 TraesCS1B01G265800 chr1A 443869869 443871924 2055 False 1575.0 3020 93.1715 808 2859 2 chr1A.!!$F2 2051
4 TraesCS1B01G265800 chr1A 99318670 99320357 1687 False 1308.0 1308 81.2570 1030 2672 1 chr1A.!!$F1 1642
5 TraesCS1B01G265800 chr1D 344674460 344676326 1866 True 2178.0 2178 87.9660 879 2725 1 chr1D.!!$R1 1846
6 TraesCS1B01G265800 chr1D 344283929 344286442 2513 False 1606.5 2987 94.2930 808 2859 2 chr1D.!!$F1 2051
7 TraesCS1B01G265800 chr1D 480997877 480998664 787 True 1005.0 1005 89.6600 6 797 1 chr1D.!!$R3 791
8 TraesCS1B01G265800 chr7B 34168285 34169991 1706 False 1334.0 1334 81.1440 1020 2694 1 chr7B.!!$F1 1674
9 TraesCS1B01G265800 chr7B 157687796 157689521 1725 False 1303.0 1303 80.6690 996 2690 1 chr7B.!!$F2 1694
10 TraesCS1B01G265800 chr5A 538349074 538350774 1700 False 1334.0 1334 81.2350 996 2671 1 chr5A.!!$F1 1675
11 TraesCS1B01G265800 chr5A 138428857 138430560 1703 True 1243.0 1243 80.2330 996 2671 1 chr5A.!!$R1 1675
12 TraesCS1B01G265800 chr7D 84420425 84422141 1716 True 1325.0 1325 80.9740 1020 2705 1 chr7D.!!$R1 1685
13 TraesCS1B01G265800 chr7D 193935024 193936725 1701 False 1297.0 1297 80.8070 996 2666 1 chr7D.!!$F1 1670
14 TraesCS1B01G265800 chrUn 82635647 82637354 1707 True 1299.0 1299 80.8390 1034 2705 1 chrUn.!!$R1 1671
15 TraesCS1B01G265800 chr7A 203525537 203527233 1696 False 1271.0 1271 80.5750 1001 2666 1 chr7A.!!$F1 1665
16 TraesCS1B01G265800 chr5B 440290082 440290701 619 True 918.0 918 93.3980 3089 3709 1 chr5B.!!$R2 620
17 TraesCS1B01G265800 chr5B 513988679 513989338 659 False 909.0 909 91.5280 3049 3709 1 chr5B.!!$F1 660
18 TraesCS1B01G265800 chr5B 8525930 8526548 618 True 869.0 869 91.9480 3089 3709 1 chr5B.!!$R1 620
19 TraesCS1B01G265800 chr5B 137109358 137112709 3351 True 827.0 1225 80.2695 997 2671 2 chr5B.!!$R3 1674
20 TraesCS1B01G265800 chr3D 398412296 398413089 793 True 1040.0 1040 90.3140 1 794 1 chr3D.!!$R3 793
21 TraesCS1B01G265800 chr3D 523637442 523638231 789 False 1000.0 1000 89.5600 4 794 1 chr3D.!!$F2 790
22 TraesCS1B01G265800 chr3D 98610066 98610863 797 False 990.0 990 89.0980 1 797 1 chr3D.!!$F1 796
23 TraesCS1B01G265800 chr3D 361734551 361735340 789 True 989.0 989 89.2810 4 794 1 chr3D.!!$R2 790
24 TraesCS1B01G265800 chr5D 458108769 458109561 792 True 1038.0 1038 90.3270 4 797 1 chr5D.!!$R2 793
25 TraesCS1B01G265800 chr5D 407009410 407010201 791 True 1011.0 1011 89.6860 4 797 1 chr5D.!!$R1 793
26 TraesCS1B01G265800 chr2A 199711447 199712241 794 False 1002.0 1002 89.4340 1 794 1 chr2A.!!$F1 793
27 TraesCS1B01G265800 chr6A 108937303 108938094 791 True 989.0 989 89.2230 4 797 1 chr6A.!!$R1 793
28 TraesCS1B01G265800 chr2B 418650288 418650946 658 True 929.0 929 92.1210 3050 3709 1 chr2B.!!$R1 659
29 TraesCS1B01G265800 chr2B 526381927 526382545 618 False 885.0 885 92.4440 3089 3709 1 chr2B.!!$F1 620
30 TraesCS1B01G265800 chr3B 777021451 777022070 619 True 924.0 924 93.5590 3089 3709 1 chr3B.!!$R1 620
31 TraesCS1B01G265800 chr3A 661835841 661836461 620 False 870.0 870 91.9740 3089 3709 1 chr3A.!!$F1 620
32 TraesCS1B01G265800 chr6B 499884827 499885446 619 True 869.0 869 91.9480 3089 3709 1 chr6B.!!$R1 620
33 TraesCS1B01G265800 chr6B 674563404 674564023 619 True 863.0 863 91.7870 3089 3709 1 chr6B.!!$R2 620

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
515 516 0.031994 CCCAAGAACAAAAGGGTGCG 59.968 55.0 0.0 0.0 36.52 5.34 F
984 1028 0.529337 CGATGTCGCAAGGAGAGCAT 60.529 55.0 0.0 0.0 38.47 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2010 2081 0.591659 CTGTGAAGGAGACGACGTCA 59.408 55.0 28.31 5.73 34.60 4.35 R
2905 3845 0.036765 TCGCTGGAGCACGGTAAAAT 60.037 50.0 0.00 0.00 42.21 1.82 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
62 63 0.899717 TGATTGCTCTGTTTGGCCCC 60.900 55.000 0.00 0.00 0.00 5.80
85 86 2.085320 GTACTTGAGAGAGCCGACTGA 58.915 52.381 0.00 0.00 0.00 3.41
104 105 3.531538 TGATCAAGATACAACCCGCTTC 58.468 45.455 0.00 0.00 0.00 3.86
174 175 1.002990 TGCATGCACTGAGAGTGGG 60.003 57.895 18.46 0.00 46.01 4.61
176 177 0.321919 GCATGCACTGAGAGTGGGAA 60.322 55.000 14.21 0.00 46.01 3.97
215 216 2.356741 GCAAGGGCAGTATAAGGGTCAA 60.357 50.000 0.00 0.00 40.72 3.18
216 217 3.279434 CAAGGGCAGTATAAGGGTCAAC 58.721 50.000 0.00 0.00 0.00 3.18
221 222 3.197983 GGCAGTATAAGGGTCAACTCAGT 59.802 47.826 0.00 0.00 0.00 3.41
268 269 1.134551 GGCCTCACAAGATCTCTGGAC 60.135 57.143 0.00 0.00 0.00 4.02
276 277 0.980231 AGATCTCTGGACCTGGCACC 60.980 60.000 0.00 0.00 0.00 5.01
324 325 5.735892 CACAATGATATCAACGTGCTTCAAG 59.264 40.000 19.21 1.70 0.00 3.02
461 462 6.691491 AGTGGACCACTATTGTGAAGACAATT 60.691 38.462 26.08 0.00 42.11 2.32
462 463 8.126041 AGTGGACCACTATTGTGAAGACAATTT 61.126 37.037 26.08 0.00 42.11 1.82
479 480 4.041198 ACAATTTCTAACCCTGTCGGAGAA 59.959 41.667 0.00 0.00 39.69 2.87
480 481 3.955650 TTTCTAACCCTGTCGGAGAAG 57.044 47.619 0.00 0.00 39.69 2.85
510 511 7.864108 AAAAGATTTTCCCAAGAACAAAAGG 57.136 32.000 0.00 0.00 0.00 3.11
515 516 0.031994 CCCAAGAACAAAAGGGTGCG 59.968 55.000 0.00 0.00 36.52 5.34
546 548 1.225376 CGAGCGTGCCTTTGGTGTTA 61.225 55.000 0.00 0.00 0.00 2.41
577 579 1.663702 GGGGCATCGTTCGGTATCG 60.664 63.158 0.00 0.00 37.82 2.92
578 580 2.308039 GGGCATCGTTCGGTATCGC 61.308 63.158 0.00 0.00 36.13 4.58
654 659 6.423776 TCATGCACAATATGACCATAGAGA 57.576 37.500 0.00 0.00 30.03 3.10
704 710 2.243736 AGGGTTTCAGTTTCAGGGTGAA 59.756 45.455 0.00 0.00 34.03 3.18
715 721 5.539955 AGTTTCAGGGTGAAAATGTTATGCT 59.460 36.000 3.71 0.00 46.53 3.79
735 741 1.148723 GAGCATGGAGGAGCAGCAT 59.851 57.895 0.00 0.00 0.00 3.79
745 751 0.593128 GGAGCAGCATCAACGTTTGT 59.407 50.000 0.00 0.00 0.00 2.83
788 794 4.159377 TGAAATGCGTGATTGAGAAACC 57.841 40.909 0.00 0.00 0.00 3.27
789 795 3.567585 TGAAATGCGTGATTGAGAAACCA 59.432 39.130 0.00 0.00 0.00 3.67
790 796 3.559238 AATGCGTGATTGAGAAACCAC 57.441 42.857 0.00 0.00 0.00 4.16
791 797 1.960417 TGCGTGATTGAGAAACCACA 58.040 45.000 0.00 0.00 0.00 4.17
792 798 2.503331 TGCGTGATTGAGAAACCACAT 58.497 42.857 0.00 0.00 0.00 3.21
793 799 2.226200 TGCGTGATTGAGAAACCACATG 59.774 45.455 0.00 0.00 0.00 3.21
794 800 2.414559 GCGTGATTGAGAAACCACATGG 60.415 50.000 0.00 0.00 42.17 3.66
795 801 3.073678 CGTGATTGAGAAACCACATGGA 58.926 45.455 4.53 0.00 38.94 3.41
796 802 3.125829 CGTGATTGAGAAACCACATGGAG 59.874 47.826 4.53 0.00 38.94 3.86
797 803 3.441572 GTGATTGAGAAACCACATGGAGG 59.558 47.826 4.53 0.62 38.94 4.30
798 804 3.074390 TGATTGAGAAACCACATGGAGGT 59.926 43.478 4.53 6.30 42.34 3.85
889 902 7.121911 CGATGTGTCTAACCGTATATATACCG 58.878 42.308 15.70 12.20 0.00 4.02
890 903 7.010460 CGATGTGTCTAACCGTATATATACCGA 59.990 40.741 15.70 4.11 0.00 4.69
891 904 7.601073 TGTGTCTAACCGTATATATACCGAG 57.399 40.000 15.70 8.48 0.00 4.63
915 959 8.988546 AGCCTGTATATATCTGTAGTGGATAG 57.011 38.462 0.00 0.00 0.00 2.08
916 960 8.561769 AGCCTGTATATATCTGTAGTGGATAGT 58.438 37.037 0.00 0.00 0.00 2.12
917 961 9.848710 GCCTGTATATATCTGTAGTGGATAGTA 57.151 37.037 0.00 0.00 0.00 1.82
928 972 4.559862 AGTGGATAGTACAAGCAAGCTT 57.440 40.909 0.59 0.59 36.60 3.74
934 978 5.875359 GGATAGTACAAGCAAGCTTTAGTGT 59.125 40.000 4.24 3.48 33.42 3.55
952 996 4.265073 AGTGTAGGCCTTCATTCATTCAC 58.735 43.478 12.58 0.00 0.00 3.18
984 1028 0.529337 CGATGTCGCAAGGAGAGCAT 60.529 55.000 0.00 0.00 38.47 3.79
985 1029 1.216122 GATGTCGCAAGGAGAGCATC 58.784 55.000 0.00 0.00 38.47 3.91
1312 1363 3.502164 GGCACCATCATAAGCACCT 57.498 52.632 0.00 0.00 0.00 4.00
1705 1767 1.300697 AAGCGGTCAGTGACGTTCC 60.301 57.895 16.89 2.29 32.65 3.62
2010 2081 4.002797 GCCTTGGGCTTCACGAAT 57.997 55.556 0.80 0.00 46.69 3.34
2269 2366 1.139095 CTACGTCAAGGCGTCCTCC 59.861 63.158 1.83 0.00 44.55 4.30
2472 2572 1.175983 CGCAAGGTACCCAAAAGCCA 61.176 55.000 8.74 0.00 0.00 4.75
2675 2778 2.878526 GCCAGGGAAGGTTTACACGAAT 60.879 50.000 0.00 0.00 0.00 3.34
2682 2785 4.156008 GGAAGGTTTACACGAATGCAAGAT 59.844 41.667 0.00 0.00 0.00 2.40
2748 3485 7.502561 ACTTGTTGAACTTGTATTTCCTAGCTT 59.497 33.333 0.00 0.00 0.00 3.74
2803 3743 3.784338 AGCAAAATAAATGGCCATGTCG 58.216 40.909 21.63 5.13 0.00 4.35
2845 3785 0.891904 TGGCCCGGTAGTTTTTCAGC 60.892 55.000 0.00 0.00 0.00 4.26
2856 3796 7.362401 CCGGTAGTTTTTCAGCTAGTAGTTAGA 60.362 40.741 0.00 0.00 0.00 2.10
2857 3797 7.697291 CGGTAGTTTTTCAGCTAGTAGTTAGAG 59.303 40.741 0.00 0.00 0.00 2.43
2858 3798 7.488792 GGTAGTTTTTCAGCTAGTAGTTAGAGC 59.511 40.741 0.00 0.00 36.42 4.09
2859 3799 6.994221 AGTTTTTCAGCTAGTAGTTAGAGCA 58.006 36.000 0.00 0.00 38.73 4.26
2860 3800 7.616313 AGTTTTTCAGCTAGTAGTTAGAGCAT 58.384 34.615 0.00 0.00 38.73 3.79
2861 3801 7.762159 AGTTTTTCAGCTAGTAGTTAGAGCATC 59.238 37.037 0.00 0.00 38.73 3.91
2888 3828 3.053896 GCGCGGTAAACCCAGCTT 61.054 61.111 8.83 0.00 33.77 3.74
2889 3829 2.622962 GCGCGGTAAACCCAGCTTT 61.623 57.895 8.83 0.00 33.77 3.51
2890 3830 1.953772 CGCGGTAAACCCAGCTTTT 59.046 52.632 0.00 0.00 32.67 2.27
2891 3831 1.158434 CGCGGTAAACCCAGCTTTTA 58.842 50.000 0.00 0.00 32.67 1.52
2892 3832 1.129811 CGCGGTAAACCCAGCTTTTAG 59.870 52.381 0.00 0.00 32.67 1.85
2893 3833 1.135489 GCGGTAAACCCAGCTTTTAGC 60.135 52.381 8.03 8.03 42.84 3.09
2895 3835 4.625884 CGGTAAACCCAGCTTTTAGCGC 62.626 54.545 21.18 0.00 46.87 5.92
2902 3842 3.795342 GCTTTTAGCGCGCGGGAA 61.795 61.111 33.06 18.36 0.00 3.97
2903 3843 2.864589 CTTTTAGCGCGCGGGAAA 59.135 55.556 33.06 23.00 0.00 3.13
2904 3844 1.511254 CTTTTAGCGCGCGGGAAAC 60.511 57.895 33.06 14.56 0.00 2.78
2905 3845 2.177654 CTTTTAGCGCGCGGGAAACA 62.178 55.000 33.06 11.79 0.00 2.83
2906 3846 1.579084 TTTTAGCGCGCGGGAAACAT 61.579 50.000 33.06 8.09 0.00 2.71
2907 3847 1.579084 TTTAGCGCGCGGGAAACATT 61.579 50.000 33.06 7.25 0.00 2.71
2908 3848 1.579084 TTAGCGCGCGGGAAACATTT 61.579 50.000 33.06 6.40 0.00 2.32
2909 3849 1.579084 TAGCGCGCGGGAAACATTTT 61.579 50.000 33.06 5.80 0.00 1.82
2910 3850 1.154188 GCGCGCGGGAAACATTTTA 60.154 52.632 33.06 0.00 0.00 1.52
2911 3851 1.400246 GCGCGCGGGAAACATTTTAC 61.400 55.000 33.06 5.61 0.00 2.01
2912 3852 0.795358 CGCGCGGGAAACATTTTACC 60.795 55.000 24.84 0.00 0.00 2.85
2913 3853 0.795358 GCGCGGGAAACATTTTACCG 60.795 55.000 16.52 16.52 41.12 4.02
2914 3854 0.518195 CGCGGGAAACATTTTACCGT 59.482 50.000 20.61 0.00 40.64 4.83
2915 3855 1.726571 CGCGGGAAACATTTTACCGTG 60.727 52.381 20.61 19.64 41.43 4.94
2916 3856 1.971792 CGGGAAACATTTTACCGTGC 58.028 50.000 13.24 0.00 36.72 5.34
2917 3857 1.538075 CGGGAAACATTTTACCGTGCT 59.462 47.619 13.24 0.00 36.72 4.40
2918 3858 2.413634 CGGGAAACATTTTACCGTGCTC 60.414 50.000 13.24 0.00 36.72 4.26
2919 3859 2.094906 GGGAAACATTTTACCGTGCTCC 60.095 50.000 0.00 0.00 0.00 4.70
2920 3860 2.554893 GGAAACATTTTACCGTGCTCCA 59.445 45.455 0.00 0.00 0.00 3.86
2921 3861 3.365969 GGAAACATTTTACCGTGCTCCAG 60.366 47.826 0.00 0.00 0.00 3.86
2922 3862 1.165270 ACATTTTACCGTGCTCCAGC 58.835 50.000 0.00 0.00 42.50 4.85
2923 3863 0.096976 CATTTTACCGTGCTCCAGCG 59.903 55.000 0.00 0.00 45.83 5.18
2924 3864 0.036765 ATTTTACCGTGCTCCAGCGA 60.037 50.000 0.00 0.00 45.83 4.93
2925 3865 0.036765 TTTTACCGTGCTCCAGCGAT 60.037 50.000 0.00 0.00 45.83 4.58
2926 3866 0.739462 TTTACCGTGCTCCAGCGATG 60.739 55.000 0.00 0.00 45.83 3.84
2927 3867 2.572095 TTACCGTGCTCCAGCGATGG 62.572 60.000 15.12 15.12 45.83 3.51
2936 3876 3.864686 CAGCGATGGCGGGAAACG 61.865 66.667 0.00 0.00 46.35 3.60
2956 3896 3.124921 CCCGCGCGAAAAGGTGAT 61.125 61.111 34.63 0.00 0.00 3.06
2957 3897 1.812093 CCCGCGCGAAAAGGTGATA 60.812 57.895 34.63 0.00 0.00 2.15
2958 3898 1.636340 CCGCGCGAAAAGGTGATAG 59.364 57.895 34.63 5.49 0.00 2.08
2959 3899 1.082117 CCGCGCGAAAAGGTGATAGT 61.082 55.000 34.63 0.00 0.00 2.12
2960 3900 0.719465 CGCGCGAAAAGGTGATAGTT 59.281 50.000 28.94 0.00 0.00 2.24
2961 3901 1.266891 CGCGCGAAAAGGTGATAGTTC 60.267 52.381 28.94 0.00 0.00 3.01
2962 3902 1.266891 GCGCGAAAAGGTGATAGTTCG 60.267 52.381 12.10 0.00 44.29 3.95
2964 3904 2.696076 CGAAAAGGTGATAGTTCGCG 57.304 50.000 0.00 0.00 36.77 5.87
2965 3905 1.266891 CGAAAAGGTGATAGTTCGCGC 60.267 52.381 0.00 0.00 36.77 6.86
2966 3906 0.719465 AAAAGGTGATAGTTCGCGCG 59.281 50.000 26.76 26.76 32.95 6.86
2967 3907 0.389426 AAAGGTGATAGTTCGCGCGT 60.389 50.000 30.98 13.76 32.95 6.01
2968 3908 0.389426 AAGGTGATAGTTCGCGCGTT 60.389 50.000 30.98 18.53 32.95 4.84
2969 3909 0.452987 AGGTGATAGTTCGCGCGTTA 59.547 50.000 30.98 20.07 32.95 3.18
2970 3910 1.066605 AGGTGATAGTTCGCGCGTTAT 59.933 47.619 30.98 23.56 32.95 1.89
2971 3911 1.856597 GGTGATAGTTCGCGCGTTATT 59.143 47.619 30.98 17.57 32.95 1.40
2972 3912 2.283351 GGTGATAGTTCGCGCGTTATTT 59.717 45.455 30.98 13.29 32.95 1.40
2973 3913 3.242188 GGTGATAGTTCGCGCGTTATTTT 60.242 43.478 30.98 11.57 32.95 1.82
2974 3914 4.328667 GTGATAGTTCGCGCGTTATTTTT 58.671 39.130 30.98 9.84 0.00 1.94
2975 3915 4.199575 GTGATAGTTCGCGCGTTATTTTTG 59.800 41.667 30.98 0.00 0.00 2.44
2976 3916 1.958417 AGTTCGCGCGTTATTTTTGG 58.042 45.000 30.98 0.00 0.00 3.28
2977 3917 0.360853 GTTCGCGCGTTATTTTTGGC 59.639 50.000 30.98 5.04 0.00 4.52
2983 3923 2.344917 CGTTATTTTTGGCGCACCG 58.655 52.632 10.83 0.00 39.70 4.94
2999 3939 2.890474 CGCTTTCGGTGCGCCTAT 60.890 61.111 15.69 0.00 46.72 2.57
3000 3940 1.590525 CGCTTTCGGTGCGCCTATA 60.591 57.895 15.69 0.00 46.72 1.31
3001 3941 1.149361 CGCTTTCGGTGCGCCTATAA 61.149 55.000 15.69 3.05 46.72 0.98
3002 3942 1.011333 GCTTTCGGTGCGCCTATAAA 58.989 50.000 15.69 10.88 0.00 1.40
3003 3943 1.399089 GCTTTCGGTGCGCCTATAAAA 59.601 47.619 15.69 8.51 0.00 1.52
3004 3944 2.032924 GCTTTCGGTGCGCCTATAAAAT 59.967 45.455 15.69 0.00 0.00 1.82
3005 3945 3.617669 CTTTCGGTGCGCCTATAAAATG 58.382 45.455 15.69 0.00 0.00 2.32
3006 3946 0.941542 TCGGTGCGCCTATAAAATGC 59.058 50.000 15.69 0.00 0.00 3.56
3011 3951 4.533566 GCCTATAAAATGCGGCGC 57.466 55.556 27.44 27.44 32.22 6.53
3012 3952 1.949257 GCCTATAAAATGCGGCGCT 59.051 52.632 33.26 15.39 32.22 5.92
3013 3953 0.110192 GCCTATAAAATGCGGCGCTC 60.110 55.000 33.26 5.35 32.22 5.03
3014 3954 0.163788 CCTATAAAATGCGGCGCTCG 59.836 55.000 33.26 10.91 42.76 5.03
3031 3971 4.700365 GCCACGCGCCTTTTCCAC 62.700 66.667 5.73 0.00 0.00 4.02
3032 3972 4.383602 CCACGCGCCTTTTCCACG 62.384 66.667 5.73 0.00 0.00 4.94
3033 3973 3.342627 CACGCGCCTTTTCCACGA 61.343 61.111 5.73 0.00 0.00 4.35
3034 3974 3.343421 ACGCGCCTTTTCCACGAC 61.343 61.111 5.73 0.00 0.00 4.34
3035 3975 3.041940 CGCGCCTTTTCCACGACT 61.042 61.111 0.00 0.00 0.00 4.18
3036 3976 2.861006 GCGCCTTTTCCACGACTC 59.139 61.111 0.00 0.00 0.00 3.36
3037 3977 2.677979 GCGCCTTTTCCACGACTCC 61.678 63.158 0.00 0.00 0.00 3.85
3038 3978 1.004918 CGCCTTTTCCACGACTCCT 60.005 57.895 0.00 0.00 0.00 3.69
3039 3979 1.014564 CGCCTTTTCCACGACTCCTC 61.015 60.000 0.00 0.00 0.00 3.71
3040 3980 0.321996 GCCTTTTCCACGACTCCTCT 59.678 55.000 0.00 0.00 0.00 3.69
3041 3981 1.270893 GCCTTTTCCACGACTCCTCTT 60.271 52.381 0.00 0.00 0.00 2.85
3042 3982 2.689646 CCTTTTCCACGACTCCTCTTC 58.310 52.381 0.00 0.00 0.00 2.87
3043 3983 2.613223 CCTTTTCCACGACTCCTCTTCC 60.613 54.545 0.00 0.00 0.00 3.46
3044 3984 2.011122 TTTCCACGACTCCTCTTCCT 57.989 50.000 0.00 0.00 0.00 3.36
3045 3985 1.546961 TTCCACGACTCCTCTTCCTC 58.453 55.000 0.00 0.00 0.00 3.71
3046 3986 0.699399 TCCACGACTCCTCTTCCTCT 59.301 55.000 0.00 0.00 0.00 3.69
3047 3987 1.075698 TCCACGACTCCTCTTCCTCTT 59.924 52.381 0.00 0.00 0.00 2.85
3048 3988 1.474879 CCACGACTCCTCTTCCTCTTC 59.525 57.143 0.00 0.00 0.00 2.87
3049 3989 1.474879 CACGACTCCTCTTCCTCTTCC 59.525 57.143 0.00 0.00 0.00 3.46
3050 3990 1.356398 ACGACTCCTCTTCCTCTTCCT 59.644 52.381 0.00 0.00 0.00 3.36
3051 3991 2.021457 CGACTCCTCTTCCTCTTCCTC 58.979 57.143 0.00 0.00 0.00 3.71
3052 3992 2.356741 CGACTCCTCTTCCTCTTCCTCT 60.357 54.545 0.00 0.00 0.00 3.69
3053 3993 3.023832 GACTCCTCTTCCTCTTCCTCTG 58.976 54.545 0.00 0.00 0.00 3.35
3059 3999 0.832135 TTCCTCTTCCTCTGCCACGT 60.832 55.000 0.00 0.00 0.00 4.49
3065 4005 2.281761 CCTCTGCCACGTGCCTTT 60.282 61.111 10.91 0.00 40.16 3.11
3106 4046 2.904866 TCTGCCACGCGCCTTTTT 60.905 55.556 5.73 0.00 36.24 1.94
3126 4194 2.877866 TCACGACTCCTCTTCCTCTTT 58.122 47.619 0.00 0.00 0.00 2.52
3441 4511 1.689813 TCTTAACACGGCAGAAGACCA 59.310 47.619 0.00 0.00 0.00 4.02
3514 4584 3.717294 GTCATGGGGGAGTGGCGT 61.717 66.667 0.00 0.00 0.00 5.68
3679 4749 1.670791 GTGGGAGGTCGTTTTTCACA 58.329 50.000 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 2.571653 AGCCTTGCAGAACCTGTACATA 59.428 45.455 0.00 0.00 33.43 2.29
51 52 0.036306 AAGTACTCGGGGCCAAACAG 59.964 55.000 4.39 0.00 0.00 3.16
62 63 1.062880 GTCGGCTCTCTCAAGTACTCG 59.937 57.143 0.00 0.00 0.00 4.18
85 86 3.914426 AGAAGCGGGTTGTATCTTGAT 57.086 42.857 0.00 0.00 0.00 2.57
104 105 1.065102 CTGCTGGAATTCATCGCCAAG 59.935 52.381 7.93 0.00 0.00 3.61
174 175 0.039165 CAAGCAGAAGGGCGGTTTTC 60.039 55.000 0.00 0.00 39.27 2.29
176 177 1.903404 CCAAGCAGAAGGGCGGTTT 60.903 57.895 0.00 0.00 39.27 3.27
221 222 4.445453 CCTCAAGTATGATAGTGCAAGCA 58.555 43.478 0.00 0.00 34.37 3.91
268 269 1.675641 CCGAAGAAAGGGTGCCAGG 60.676 63.158 0.00 0.00 0.00 4.45
276 277 3.200522 GGCCATGCCGAAGAAAGG 58.799 61.111 0.00 0.00 39.62 3.11
324 325 2.737932 CTTGCAAACACCAGCGAGCC 62.738 60.000 0.00 0.00 35.64 4.70
461 462 3.090037 CTCTTCTCCGACAGGGTTAGAA 58.910 50.000 0.00 0.00 38.33 2.10
462 463 2.307980 TCTCTTCTCCGACAGGGTTAGA 59.692 50.000 0.00 0.00 38.33 2.10
464 465 2.620886 CCTCTCTTCTCCGACAGGGTTA 60.621 54.545 0.00 0.00 38.33 2.85
503 504 0.537371 CCTTCCTCGCACCCTTTTGT 60.537 55.000 0.00 0.00 0.00 2.83
507 508 1.201429 ACATCCTTCCTCGCACCCTT 61.201 55.000 0.00 0.00 0.00 3.95
510 511 1.519455 CGACATCCTTCCTCGCACC 60.519 63.158 0.00 0.00 0.00 5.01
515 516 0.526524 CACGCTCGACATCCTTCCTC 60.527 60.000 0.00 0.00 0.00 3.71
546 548 0.111832 ATGCCCCATCGAGATTGCAT 59.888 50.000 8.84 8.84 34.81 3.96
577 579 0.444260 GGTGCTTCAAGTTCTAGCGC 59.556 55.000 0.00 0.00 42.95 5.92
578 580 1.795768 TGGTGCTTCAAGTTCTAGCG 58.204 50.000 0.00 0.00 37.73 4.26
646 651 0.668706 CGGGCGCTCATTCTCTATGG 60.669 60.000 8.62 0.00 34.85 2.74
654 659 2.306255 ATACGTTCCGGGCGCTCATT 62.306 55.000 8.62 2.80 0.00 2.57
715 721 1.077930 GCTGCTCCTCCATGCTCAA 60.078 57.895 0.00 0.00 0.00 3.02
735 741 8.864069 AATTGAATGAATTGTACAAACGTTGA 57.136 26.923 20.45 13.61 32.69 3.18
788 794 5.556915 TCCTGTTTTACTAACCTCCATGTG 58.443 41.667 0.00 0.00 0.00 3.21
789 795 5.836024 TCCTGTTTTACTAACCTCCATGT 57.164 39.130 0.00 0.00 0.00 3.21
790 796 7.703058 AAATCCTGTTTTACTAACCTCCATG 57.297 36.000 0.00 0.00 0.00 3.66
791 797 9.462606 CTTAAATCCTGTTTTACTAACCTCCAT 57.537 33.333 0.00 0.00 0.00 3.41
792 798 8.442374 ACTTAAATCCTGTTTTACTAACCTCCA 58.558 33.333 0.00 0.00 0.00 3.86
793 799 8.859236 ACTTAAATCCTGTTTTACTAACCTCC 57.141 34.615 0.00 0.00 0.00 4.30
795 801 8.996271 CGAACTTAAATCCTGTTTTACTAACCT 58.004 33.333 0.00 0.00 0.00 3.50
796 802 8.777413 ACGAACTTAAATCCTGTTTTACTAACC 58.223 33.333 0.00 0.00 0.00 2.85
800 806 9.511144 CAAAACGAACTTAAATCCTGTTTTACT 57.489 29.630 0.00 0.00 36.30 2.24
801 807 9.292846 ACAAAACGAACTTAAATCCTGTTTTAC 57.707 29.630 0.00 0.00 36.30 2.01
802 808 9.291664 CACAAAACGAACTTAAATCCTGTTTTA 57.708 29.630 0.00 0.00 36.30 1.52
803 809 7.815549 ACACAAAACGAACTTAAATCCTGTTTT 59.184 29.630 0.00 0.00 38.24 2.43
804 810 7.274686 CACACAAAACGAACTTAAATCCTGTTT 59.725 33.333 0.00 0.00 0.00 2.83
805 811 6.750039 CACACAAAACGAACTTAAATCCTGTT 59.250 34.615 0.00 0.00 0.00 3.16
806 812 6.262601 CACACAAAACGAACTTAAATCCTGT 58.737 36.000 0.00 0.00 0.00 4.00
820 826 1.653114 CAACCAGTTGCACACAAAACG 59.347 47.619 0.00 0.00 37.58 3.60
889 902 7.889873 ATCCACTACAGATATATACAGGCTC 57.110 40.000 0.00 0.00 0.00 4.70
890 903 8.561769 ACTATCCACTACAGATATATACAGGCT 58.438 37.037 0.00 0.00 0.00 4.58
891 904 8.754991 ACTATCCACTACAGATATATACAGGC 57.245 38.462 0.00 0.00 0.00 4.85
915 959 4.142881 GCCTACACTAAAGCTTGCTTGTAC 60.143 45.833 8.73 0.00 0.00 2.90
916 960 4.000988 GCCTACACTAAAGCTTGCTTGTA 58.999 43.478 8.73 6.91 0.00 2.41
917 961 2.814336 GCCTACACTAAAGCTTGCTTGT 59.186 45.455 8.73 6.03 0.00 3.16
928 972 5.880332 GTGAATGAATGAAGGCCTACACTAA 59.120 40.000 5.16 0.00 0.00 2.24
934 978 3.450817 TCGAGTGAATGAATGAAGGCCTA 59.549 43.478 5.16 0.00 0.00 3.93
952 996 1.821336 GACATCGCTGACTTCTCGAG 58.179 55.000 5.93 5.93 35.61 4.04
984 1028 0.320683 CCATTGCTCGTGAGTGTGGA 60.321 55.000 10.02 0.00 32.18 4.02
985 1029 1.300971 CCCATTGCTCGTGAGTGTGG 61.301 60.000 0.00 4.90 0.00 4.17
990 1034 1.817099 GCTCCCCATTGCTCGTGAG 60.817 63.158 0.00 0.00 0.00 3.51
1164 1215 2.034532 TCGGTGCTCGGGTAGACA 59.965 61.111 0.70 0.00 39.77 3.41
1438 1495 1.208776 GATGGTTAGGCCGTACCAGTT 59.791 52.381 28.32 17.70 46.82 3.16
1705 1767 3.175240 CGAGTCGTTGCGCCTCAG 61.175 66.667 4.18 0.00 0.00 3.35
2010 2081 0.591659 CTGTGAAGGAGACGACGTCA 59.408 55.000 28.31 5.73 34.60 4.35
2015 2086 1.542492 GTACCCTGTGAAGGAGACGA 58.458 55.000 0.00 0.00 0.00 4.20
2073 2144 0.608308 CTGGGCCATCGATGCATGAT 60.608 55.000 20.25 4.80 0.00 2.45
2387 2487 1.153309 GCCGCCGTACTTACCCAAT 60.153 57.895 0.00 0.00 0.00 3.16
2537 2637 1.954146 GTTGACGCCGAGCACTTGA 60.954 57.895 0.00 0.00 0.00 3.02
2682 2785 0.762418 TCCTCGGTGGAAGAGCAAAA 59.238 50.000 0.00 0.00 42.94 2.44
2702 2805 3.918912 AGTGGTGCCATCATCCCTAATAT 59.081 43.478 0.00 0.00 0.00 1.28
2748 3485 7.904205 AGAAAACTAAGCTAGCTACTAAACCA 58.096 34.615 19.70 0.00 0.00 3.67
2793 3733 2.356913 CACACGTCGACATGGCCA 60.357 61.111 16.85 8.56 0.00 5.36
2845 3785 5.278071 CGGTTGGAGATGCTCTAACTACTAG 60.278 48.000 18.70 0.00 46.40 2.57
2871 3811 2.137425 AAAAGCTGGGTTTACCGCGC 62.137 55.000 0.00 0.00 44.64 6.86
2873 3813 1.135489 GCTAAAAGCTGGGTTTACCGC 60.135 52.381 0.00 0.00 44.64 5.68
2876 3816 1.465187 CGCGCTAAAAGCTGGGTTTAC 60.465 52.381 5.56 0.00 39.60 2.01
2877 3817 0.800012 CGCGCTAAAAGCTGGGTTTA 59.200 50.000 5.56 0.00 39.60 2.01
2878 3818 1.579429 CGCGCTAAAAGCTGGGTTT 59.421 52.632 5.56 0.00 39.60 3.27
2879 3819 2.978018 GCGCGCTAAAAGCTGGGTT 61.978 57.895 26.67 0.00 39.60 4.11
2880 3820 3.431725 GCGCGCTAAAAGCTGGGT 61.432 61.111 26.67 0.00 39.60 4.51
2881 3821 4.520846 CGCGCGCTAAAAGCTGGG 62.521 66.667 30.48 5.07 39.60 4.45
2882 3822 4.520846 CCGCGCGCTAAAAGCTGG 62.521 66.667 30.48 16.37 39.60 4.85
2883 3823 4.520846 CCCGCGCGCTAAAAGCTG 62.521 66.667 30.48 10.63 39.60 4.24
2884 3824 4.752879 TCCCGCGCGCTAAAAGCT 62.753 61.111 30.48 0.00 39.60 3.74
2885 3825 3.317153 TTTCCCGCGCGCTAAAAGC 62.317 57.895 30.48 0.00 38.02 3.51
2886 3826 1.511254 GTTTCCCGCGCGCTAAAAG 60.511 57.895 30.48 13.08 0.00 2.27
2887 3827 1.579084 ATGTTTCCCGCGCGCTAAAA 61.579 50.000 30.48 21.70 0.00 1.52
2888 3828 1.579084 AATGTTTCCCGCGCGCTAAA 61.579 50.000 30.48 22.61 0.00 1.85
2889 3829 1.579084 AAATGTTTCCCGCGCGCTAA 61.579 50.000 30.48 17.74 0.00 3.09
2890 3830 1.579084 AAAATGTTTCCCGCGCGCTA 61.579 50.000 30.48 11.81 0.00 4.26
2891 3831 1.579084 TAAAATGTTTCCCGCGCGCT 61.579 50.000 30.48 8.00 0.00 5.92
2892 3832 1.154188 TAAAATGTTTCCCGCGCGC 60.154 52.632 27.36 23.91 0.00 6.86
2893 3833 0.795358 GGTAAAATGTTTCCCGCGCG 60.795 55.000 25.67 25.67 0.00 6.86
2894 3834 0.795358 CGGTAAAATGTTTCCCGCGC 60.795 55.000 0.00 0.00 31.11 6.86
2895 3835 0.518195 ACGGTAAAATGTTTCCCGCG 59.482 50.000 0.00 0.00 37.81 6.46
2896 3836 1.971792 CACGGTAAAATGTTTCCCGC 58.028 50.000 13.27 0.00 37.81 6.13
2897 3837 1.538075 AGCACGGTAAAATGTTTCCCG 59.462 47.619 12.29 12.29 39.23 5.14
2898 3838 2.094906 GGAGCACGGTAAAATGTTTCCC 60.095 50.000 0.00 0.00 0.00 3.97
2899 3839 2.554893 TGGAGCACGGTAAAATGTTTCC 59.445 45.455 0.00 0.00 0.00 3.13
2900 3840 3.821841 CTGGAGCACGGTAAAATGTTTC 58.178 45.455 0.00 0.00 0.00 2.78
2901 3841 2.030274 GCTGGAGCACGGTAAAATGTTT 60.030 45.455 0.00 0.00 41.59 2.83
2902 3842 1.539827 GCTGGAGCACGGTAAAATGTT 59.460 47.619 0.00 0.00 41.59 2.71
2903 3843 1.165270 GCTGGAGCACGGTAAAATGT 58.835 50.000 0.00 0.00 41.59 2.71
2904 3844 0.096976 CGCTGGAGCACGGTAAAATG 59.903 55.000 0.00 0.00 42.21 2.32
2905 3845 0.036765 TCGCTGGAGCACGGTAAAAT 60.037 50.000 0.00 0.00 42.21 1.82
2906 3846 0.036765 ATCGCTGGAGCACGGTAAAA 60.037 50.000 0.00 0.00 42.21 1.52
2907 3847 0.739462 CATCGCTGGAGCACGGTAAA 60.739 55.000 0.00 0.00 42.21 2.01
2908 3848 1.153647 CATCGCTGGAGCACGGTAA 60.154 57.895 0.00 0.00 42.21 2.85
2909 3849 2.494445 CATCGCTGGAGCACGGTA 59.506 61.111 0.00 0.00 42.21 4.02
2910 3850 4.457496 CCATCGCTGGAGCACGGT 62.457 66.667 0.00 0.00 46.37 4.83
2917 3857 3.711814 TTTCCCGCCATCGCTGGA 61.712 61.111 10.06 0.00 46.37 3.86
2918 3858 3.508840 GTTTCCCGCCATCGCTGG 61.509 66.667 0.00 0.00 46.17 4.85
2919 3859 3.864686 CGTTTCCCGCCATCGCTG 61.865 66.667 0.00 0.00 0.00 5.18
2939 3879 1.762222 CTATCACCTTTTCGCGCGGG 61.762 60.000 31.69 24.82 0.00 6.13
2940 3880 1.082117 ACTATCACCTTTTCGCGCGG 61.082 55.000 31.69 16.11 0.00 6.46
2941 3881 0.719465 AACTATCACCTTTTCGCGCG 59.281 50.000 26.76 26.76 0.00 6.86
2942 3882 1.266891 CGAACTATCACCTTTTCGCGC 60.267 52.381 0.00 0.00 34.96 6.86
2943 3883 2.696076 CGAACTATCACCTTTTCGCG 57.304 50.000 0.00 0.00 34.96 5.87
2945 3885 1.266891 GCGCGAACTATCACCTTTTCG 60.267 52.381 12.10 0.00 42.91 3.46
2946 3886 1.266891 CGCGCGAACTATCACCTTTTC 60.267 52.381 28.94 0.00 0.00 2.29
2947 3887 0.719465 CGCGCGAACTATCACCTTTT 59.281 50.000 28.94 0.00 0.00 2.27
2948 3888 0.389426 ACGCGCGAACTATCACCTTT 60.389 50.000 39.36 5.70 0.00 3.11
2949 3889 0.389426 AACGCGCGAACTATCACCTT 60.389 50.000 39.36 13.43 0.00 3.50
2950 3890 0.452987 TAACGCGCGAACTATCACCT 59.547 50.000 39.36 6.60 0.00 4.00
2951 3891 1.484356 ATAACGCGCGAACTATCACC 58.516 50.000 39.36 0.00 0.00 4.02
2952 3892 3.564408 AAATAACGCGCGAACTATCAC 57.436 42.857 39.36 0.00 0.00 3.06
2953 3893 4.327845 CAAAAATAACGCGCGAACTATCA 58.672 39.130 39.36 12.70 0.00 2.15
2954 3894 3.717404 CCAAAAATAACGCGCGAACTATC 59.283 43.478 39.36 0.00 0.00 2.08
2955 3895 3.676540 CCAAAAATAACGCGCGAACTAT 58.323 40.909 39.36 24.56 0.00 2.12
2956 3896 2.725452 GCCAAAAATAACGCGCGAACTA 60.725 45.455 39.36 23.44 0.00 2.24
2957 3897 1.958417 CCAAAAATAACGCGCGAACT 58.042 45.000 39.36 21.99 0.00 3.01
2958 3898 0.360853 GCCAAAAATAACGCGCGAAC 59.639 50.000 39.36 8.52 0.00 3.95
2959 3899 1.060726 CGCCAAAAATAACGCGCGAA 61.061 50.000 39.36 24.29 42.03 4.70
2960 3900 1.510204 CGCCAAAAATAACGCGCGA 60.510 52.632 39.36 16.76 42.03 5.87
2961 3901 2.975955 CGCCAAAAATAACGCGCG 59.024 55.556 30.96 30.96 37.97 6.86
2965 3905 2.344917 CGGTGCGCCAAAAATAACG 58.655 52.632 18.18 0.00 34.09 3.18
2983 3923 1.011333 TTTATAGGCGCACCGAAAGC 58.989 50.000 10.83 0.00 42.76 3.51
2984 3924 3.617669 CATTTTATAGGCGCACCGAAAG 58.382 45.455 10.83 0.00 42.76 2.62
2985 3925 2.223386 GCATTTTATAGGCGCACCGAAA 60.223 45.455 10.83 3.62 42.76 3.46
2986 3926 1.332375 GCATTTTATAGGCGCACCGAA 59.668 47.619 10.83 0.00 42.76 4.30
2987 3927 0.941542 GCATTTTATAGGCGCACCGA 59.058 50.000 10.83 0.00 42.76 4.69
2988 3928 0.384230 CGCATTTTATAGGCGCACCG 60.384 55.000 10.83 0.00 44.49 4.94
2989 3929 3.454941 CGCATTTTATAGGCGCACC 57.545 52.632 10.83 0.00 44.49 5.01
2994 3934 0.110192 GAGCGCCGCATTTTATAGGC 60.110 55.000 13.36 0.00 45.67 3.93
2995 3935 0.163788 CGAGCGCCGCATTTTATAGG 59.836 55.000 13.36 0.00 0.00 2.57
2996 3936 3.639222 CGAGCGCCGCATTTTATAG 57.361 52.632 13.36 0.00 0.00 1.31
3014 3954 4.700365 GTGGAAAAGGCGCGTGGC 62.700 66.667 15.67 15.67 42.51 5.01
3015 3955 4.383602 CGTGGAAAAGGCGCGTGG 62.384 66.667 8.43 0.00 0.00 4.94
3016 3956 3.342627 TCGTGGAAAAGGCGCGTG 61.343 61.111 8.43 0.00 0.00 5.34
3017 3957 3.343421 GTCGTGGAAAAGGCGCGT 61.343 61.111 8.43 0.00 0.00 6.01
3018 3958 3.011760 GAGTCGTGGAAAAGGCGCG 62.012 63.158 0.00 0.00 0.00 6.86
3019 3959 2.677979 GGAGTCGTGGAAAAGGCGC 61.678 63.158 0.00 0.00 0.00 6.53
3020 3960 1.004918 AGGAGTCGTGGAAAAGGCG 60.005 57.895 0.00 0.00 0.00 5.52
3021 3961 0.321996 AGAGGAGTCGTGGAAAAGGC 59.678 55.000 0.00 0.00 0.00 4.35
3022 3962 2.613223 GGAAGAGGAGTCGTGGAAAAGG 60.613 54.545 0.00 0.00 0.00 3.11
3023 3963 2.300437 AGGAAGAGGAGTCGTGGAAAAG 59.700 50.000 0.00 0.00 0.00 2.27
3024 3964 2.299297 GAGGAAGAGGAGTCGTGGAAAA 59.701 50.000 0.00 0.00 0.00 2.29
3025 3965 1.893801 GAGGAAGAGGAGTCGTGGAAA 59.106 52.381 0.00 0.00 0.00 3.13
3026 3966 1.075698 AGAGGAAGAGGAGTCGTGGAA 59.924 52.381 0.00 0.00 0.00 3.53
3027 3967 0.699399 AGAGGAAGAGGAGTCGTGGA 59.301 55.000 0.00 0.00 0.00 4.02
3028 3968 1.474879 GAAGAGGAAGAGGAGTCGTGG 59.525 57.143 0.00 0.00 0.00 4.94
3029 3969 1.474879 GGAAGAGGAAGAGGAGTCGTG 59.525 57.143 0.00 0.00 0.00 4.35
3030 3970 1.356398 AGGAAGAGGAAGAGGAGTCGT 59.644 52.381 0.00 0.00 0.00 4.34
3031 3971 2.021457 GAGGAAGAGGAAGAGGAGTCG 58.979 57.143 0.00 0.00 0.00 4.18
3032 3972 3.023832 CAGAGGAAGAGGAAGAGGAGTC 58.976 54.545 0.00 0.00 0.00 3.36
3033 3973 2.888069 GCAGAGGAAGAGGAAGAGGAGT 60.888 54.545 0.00 0.00 0.00 3.85
3034 3974 1.756538 GCAGAGGAAGAGGAAGAGGAG 59.243 57.143 0.00 0.00 0.00 3.69
3035 3975 1.621072 GGCAGAGGAAGAGGAAGAGGA 60.621 57.143 0.00 0.00 0.00 3.71
3036 3976 0.829990 GGCAGAGGAAGAGGAAGAGG 59.170 60.000 0.00 0.00 0.00 3.69
3037 3977 1.206849 GTGGCAGAGGAAGAGGAAGAG 59.793 57.143 0.00 0.00 0.00 2.85
3038 3978 1.270907 GTGGCAGAGGAAGAGGAAGA 58.729 55.000 0.00 0.00 0.00 2.87
3039 3979 0.108424 CGTGGCAGAGGAAGAGGAAG 60.108 60.000 0.00 0.00 0.00 3.46
3040 3980 0.832135 ACGTGGCAGAGGAAGAGGAA 60.832 55.000 0.00 0.00 0.00 3.36
3041 3981 1.228894 ACGTGGCAGAGGAAGAGGA 60.229 57.895 0.00 0.00 0.00 3.71
3042 3982 1.079543 CACGTGGCAGAGGAAGAGG 60.080 63.158 7.95 0.00 0.00 3.69
3043 3983 1.739562 GCACGTGGCAGAGGAAGAG 60.740 63.158 18.88 0.00 43.97 2.85
3044 3984 2.343758 GCACGTGGCAGAGGAAGA 59.656 61.111 18.88 0.00 43.97 2.87
3053 3993 2.335011 GTGGAAAAGGCACGTGGC 59.665 61.111 32.77 32.77 43.74 5.01
3059 3999 0.034896 GAGGAGTCGTGGAAAAGGCA 59.965 55.000 0.00 0.00 0.00 4.75
3065 4005 1.075698 AGAGGAAGAGGAGTCGTGGAA 59.924 52.381 0.00 0.00 0.00 3.53
3106 4046 2.588464 AAGAGGAAGAGGAGTCGTGA 57.412 50.000 0.00 0.00 0.00 4.35
3149 4219 3.450115 GTGACGGGGCGCTAGAGT 61.450 66.667 7.64 2.31 0.00 3.24
3355 4425 1.640149 TCCTGGAAATTCATCTGCCCA 59.360 47.619 0.00 0.00 0.00 5.36
3415 4485 0.038526 CTGCCGTGTTAAGACGAGGT 60.039 55.000 25.04 0.00 42.10 3.85


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

AutoCloner maintained by Alex Coulton.