Multiple sequence alignment - TraesCS6B01G435900

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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 TraesCS6B01G435900 chr6B 100.000 2999 0 0 1 2999 703449899 703446901 0.000000e+00 5539.0
1 TraesCS6B01G435900 chr6B 87.616 1405 130 24 971 2364 703400840 703399469 0.000000e+00 1591.0
2 TraesCS6B01G435900 chr6B 83.748 1206 153 27 971 2138 703474533 703473333 0.000000e+00 1101.0
3 TraesCS6B01G435900 chr6B 82.003 1178 177 18 974 2125 125611588 125612756 0.000000e+00 968.0
4 TraesCS6B01G435900 chr6B 83.022 1072 152 16 971 2017 703502176 703501110 0.000000e+00 944.0
5 TraesCS6B01G435900 chr6B 81.447 1175 184 16 974 2122 125533265 125534431 0.000000e+00 931.0
6 TraesCS6B01G435900 chr6B 82.293 1073 160 16 971 2017 703429570 703428502 0.000000e+00 902.0
7 TraesCS6B01G435900 chr6B 83.882 850 122 11 1 845 703562256 703561417 0.000000e+00 797.0
8 TraesCS6B01G435900 chr6B 83.593 835 134 2 1 835 703475477 703474646 0.000000e+00 780.0
9 TraesCS6B01G435900 chr6B 83.473 835 135 2 1 835 703401784 703400953 0.000000e+00 774.0
10 TraesCS6B01G435900 chr6B 82.346 827 125 14 973 1786 703509764 703508946 0.000000e+00 699.0
11 TraesCS6B01G435900 chr6B 86.364 638 85 2 171 807 703510512 703509876 0.000000e+00 695.0
12 TraesCS6B01G435900 chr6B 82.152 790 108 16 15 804 703437132 703436376 0.000000e+00 647.0
13 TraesCS6B01G435900 chr6B 80.324 803 122 23 1 803 703503095 703502329 2.590000e-160 575.0
14 TraesCS6B01G435900 chr6B 79.950 803 125 23 1 803 703430486 703429720 2.610000e-155 558.0
15 TraesCS6B01G435900 chr6B 81.857 474 72 5 1635 2098 125480695 125481164 1.300000e-103 387.0
16 TraesCS6B01G435900 chr6B 86.139 303 42 0 457 759 125605066 125605368 8.020000e-86 327.0
17 TraesCS6B01G435900 chr6B 81.739 230 24 13 2133 2357 703473164 703472948 3.070000e-40 176.0
18 TraesCS6B01G435900 chr6B 82.812 64 11 0 2458 2521 107822852 107822789 1.160000e-04 58.4
19 TraesCS6B01G435900 chr6D 91.323 1406 90 18 974 2364 461629231 461627843 0.000000e+00 1892.0
20 TraesCS6B01G435900 chr6D 83.292 802 93 22 1 801 461630099 461629338 0.000000e+00 701.0
21 TraesCS6B01G435900 chr6D 93.354 316 15 3 2478 2791 461627240 461626929 2.110000e-126 462.0
22 TraesCS6B01G435900 chr6D 94.964 139 6 1 2861 2999 461626824 461626687 1.810000e-52 217.0
23 TraesCS6B01G435900 chr6A 91.174 1405 104 13 973 2364 608358383 608356986 0.000000e+00 1890.0
24 TraesCS6B01G435900 chr6A 82.124 1130 168 20 1015 2122 69350091 69351208 0.000000e+00 937.0
25 TraesCS6B01G435900 chr6A 81.297 802 114 14 2 802 69349163 69349929 4.250000e-173 617.0
26 TraesCS6B01G435900 chr6A 80.373 805 93 31 1 804 608359203 608358463 4.370000e-153 551.0
27 TraesCS6B01G435900 chr6A 90.610 213 10 5 2789 2999 608343461 608343257 1.060000e-69 274.0
28 TraesCS6B01G435900 chr6A 92.268 194 11 1 2506 2699 608356340 608356151 3.810000e-69 272.0
29 TraesCS6B01G435900 chr6A 97.561 41 1 0 2751 2791 608343584 608343544 1.490000e-08 71.3
30 TraesCS6B01G435900 chr2D 86.598 97 9 3 2433 2526 88582638 88582543 1.470000e-18 104.0
31 TraesCS6B01G435900 chr7B 83.871 93 15 0 2429 2521 739917404 739917312 4.120000e-14 89.8
32 TraesCS6B01G435900 chr7A 82.292 96 15 1 2430 2523 44824726 44824631 6.890000e-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 TraesCS6B01G435900 chr6B 703446901 703449899 2998 True 5539.000000 5539 100.000000 1 2999 1 chr6B.!!$R3 2998
1 TraesCS6B01G435900 chr6B 703399469 703401784 2315 True 1182.500000 1591 85.544500 1 2364 2 chr6B.!!$R5 2363
2 TraesCS6B01G435900 chr6B 125611588 125612756 1168 False 968.000000 968 82.003000 974 2125 1 chr6B.!!$F4 1151
3 TraesCS6B01G435900 chr6B 125533265 125534431 1166 False 931.000000 931 81.447000 974 2122 1 chr6B.!!$F2 1148
4 TraesCS6B01G435900 chr6B 703561417 703562256 839 True 797.000000 797 83.882000 1 845 1 chr6B.!!$R4 844
5 TraesCS6B01G435900 chr6B 703501110 703503095 1985 True 759.500000 944 81.673000 1 2017 2 chr6B.!!$R8 2016
6 TraesCS6B01G435900 chr6B 703428502 703430486 1984 True 730.000000 902 81.121500 1 2017 2 chr6B.!!$R6 2016
7 TraesCS6B01G435900 chr6B 703508946 703510512 1566 True 697.000000 699 84.355000 171 1786 2 chr6B.!!$R9 1615
8 TraesCS6B01G435900 chr6B 703472948 703475477 2529 True 685.666667 1101 83.026667 1 2357 3 chr6B.!!$R7 2356
9 TraesCS6B01G435900 chr6B 703436376 703437132 756 True 647.000000 647 82.152000 15 804 1 chr6B.!!$R2 789
10 TraesCS6B01G435900 chr6D 461626687 461630099 3412 True 818.000000 1892 90.733250 1 2999 4 chr6D.!!$R1 2998
11 TraesCS6B01G435900 chr6A 608356151 608359203 3052 True 904.333333 1890 87.938333 1 2699 3 chr6A.!!$R2 2698
12 TraesCS6B01G435900 chr6A 69349163 69351208 2045 False 777.000000 937 81.710500 2 2122 2 chr6A.!!$F1 2120

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
759 784 0.169672 CGAAGAGTTGGCTGCCAATG 59.83 55.0 34.25 17.07 45.8 2.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2518 3356 0.539438 CTAGCTCCCGATCTGCTCCT 60.539 60.0 0.0 0.0 38.15 3.69 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
60 61 4.137543 GTCGAAGCATTCCTCCCAATATT 58.862 43.478 0.00 0.00 43.81 1.28
85 86 4.496341 CGCTACTTATTCAAGCAATGTGGG 60.496 45.833 0.00 0.00 35.98 4.61
98 99 0.642710 ATGTGGGCCTCCTACCTAGT 59.357 55.000 4.53 0.00 0.00 2.57
99 100 1.311880 TGTGGGCCTCCTACCTAGTA 58.688 55.000 4.53 0.00 0.00 1.82
100 101 1.063417 TGTGGGCCTCCTACCTAGTAC 60.063 57.143 4.53 0.00 0.00 2.73
102 103 0.475906 GGGCCTCCTACCTAGTACGA 59.524 60.000 0.84 0.00 0.00 3.43
110 111 6.315891 GCCTCCTACCTAGTACGAATATACAG 59.684 46.154 0.00 0.00 0.00 2.74
112 113 6.772605 TCCTACCTAGTACGAATATACAGCA 58.227 40.000 0.00 0.00 0.00 4.41
115 116 4.214971 ACCTAGTACGAATATACAGCACCG 59.785 45.833 0.00 0.00 0.00 4.94
118 119 2.503920 ACGAATATACAGCACCGTCC 57.496 50.000 0.00 0.00 0.00 4.79
121 122 3.825014 ACGAATATACAGCACCGTCCTAT 59.175 43.478 0.00 0.00 0.00 2.57
130 131 5.967088 ACAGCACCGTCCTATATTATCATC 58.033 41.667 0.00 0.00 0.00 2.92
133 134 5.721960 AGCACCGTCCTATATTATCATCCTT 59.278 40.000 0.00 0.00 0.00 3.36
153 154 6.406370 TCCTTACACACCTCTCAACATATTG 58.594 40.000 0.00 0.00 37.14 1.90
194 195 6.767524 TGGTGTTATATTTGCCAAACTAGG 57.232 37.500 0.00 0.00 0.00 3.02
195 196 6.486056 TGGTGTTATATTTGCCAAACTAGGA 58.514 36.000 0.00 0.00 0.00 2.94
201 202 8.736244 GTTATATTTGCCAAACTAGGACTGAAA 58.264 33.333 0.00 0.00 0.00 2.69
217 218 5.484173 ACTGAAATGTTATGCATGGTACG 57.516 39.130 10.16 0.00 37.96 3.67
218 219 5.182487 ACTGAAATGTTATGCATGGTACGA 58.818 37.500 10.16 0.00 37.96 3.43
258 259 2.812499 GGACGCAATCCTCGCCTA 59.188 61.111 0.00 0.00 45.22 3.93
261 262 1.140816 GACGCAATCCTCGCCTAATC 58.859 55.000 0.00 0.00 0.00 1.75
309 310 1.471684 GGAAGCCTTCATGCTGAGTTG 59.528 52.381 6.80 0.00 41.80 3.16
334 335 1.350351 GTGAGCATATGCCTCCTCCAT 59.650 52.381 23.96 2.55 43.38 3.41
345 346 5.562298 TGCCTCCTCCATTTATAGTTACC 57.438 43.478 0.00 0.00 0.00 2.85
419 444 4.352893 TGGATGTCCAACATACTGAGAGA 58.647 43.478 0.00 0.00 44.35 3.10
440 465 6.720748 AGAGATGATATGTACAGCAGAGTGAT 59.279 38.462 0.33 0.00 0.00 3.06
479 504 4.608948 AGGACTTAGTGACCTTTGACAG 57.391 45.455 0.00 0.00 37.56 3.51
494 519 2.564771 TGACAGAGTTTGGCAGTTGAG 58.435 47.619 0.00 0.00 40.88 3.02
520 545 6.938596 TGACACACTTCTGAGATCAAAATCAT 59.061 34.615 0.00 0.00 34.07 2.45
528 553 9.985318 CTTCTGAGATCAAAATCATTACAACTC 57.015 33.333 0.00 0.00 34.07 3.01
588 613 3.331150 ACGGTGTCGAATTGCAAGATAA 58.669 40.909 4.94 0.00 40.11 1.75
616 641 4.170468 ACTGAGGTTGGTTTCATCAAGT 57.830 40.909 0.00 0.00 0.00 3.16
619 644 4.277476 TGAGGTTGGTTTCATCAAGTGTT 58.723 39.130 0.00 0.00 0.00 3.32
620 645 4.338118 TGAGGTTGGTTTCATCAAGTGTTC 59.662 41.667 0.00 0.00 0.00 3.18
636 661 8.873215 TCAAGTGTTCTAACTTCTTAAGACAG 57.127 34.615 4.18 8.63 38.34 3.51
675 700 5.841957 ATGATGGTGAAAGAGTATTTGCC 57.158 39.130 0.00 0.00 0.00 4.52
681 706 4.873827 GGTGAAAGAGTATTTGCCGTGATA 59.126 41.667 0.00 0.00 0.00 2.15
684 709 2.743938 AGAGTATTTGCCGTGATAGCG 58.256 47.619 0.00 0.00 0.00 4.26
691 716 2.313172 GCCGTGATAGCGCATGAGG 61.313 63.158 11.47 6.21 0.00 3.86
741 766 6.866010 TCACCATTTCCAATCTCATATTCG 57.134 37.500 0.00 0.00 0.00 3.34
759 784 0.169672 CGAAGAGTTGGCTGCCAATG 59.830 55.000 34.25 17.07 45.80 2.82
809 834 8.147642 AGCATATGTTACTGCTTATTTCTCAC 57.852 34.615 4.29 0.00 46.22 3.51
831 856 6.627395 ACAATTACTGTGTCGGATTTTTCA 57.373 33.333 0.00 0.00 36.69 2.69
840 865 5.925397 TGTGTCGGATTTTTCAATTTCCATG 59.075 36.000 0.00 0.00 0.00 3.66
841 866 4.928615 TGTCGGATTTTTCAATTTCCATGC 59.071 37.500 0.00 0.00 0.00 4.06
843 868 5.289434 GTCGGATTTTTCAATTTCCATGCTC 59.711 40.000 0.00 0.00 0.00 4.26
846 871 6.117488 GGATTTTTCAATTTCCATGCTCCAT 58.883 36.000 0.00 0.00 0.00 3.41
849 874 8.726870 ATTTTTCAATTTCCATGCTCCATAAG 57.273 30.769 0.00 0.00 0.00 1.73
856 881 2.037641 TCCATGCTCCATAAGATGACGG 59.962 50.000 0.00 0.00 0.00 4.79
857 882 2.224378 CCATGCTCCATAAGATGACGGT 60.224 50.000 0.00 0.00 0.00 4.83
860 885 2.499693 TGCTCCATAAGATGACGGTGAA 59.500 45.455 0.00 0.00 0.00 3.18
864 889 5.934625 GCTCCATAAGATGACGGTGAAATAT 59.065 40.000 0.00 0.00 0.00 1.28
865 890 6.428159 GCTCCATAAGATGACGGTGAAATATT 59.572 38.462 0.00 0.00 0.00 1.28
866 891 7.041098 GCTCCATAAGATGACGGTGAAATATTT 60.041 37.037 0.00 0.00 0.00 1.40
867 892 9.489084 CTCCATAAGATGACGGTGAAATATTTA 57.511 33.333 0.00 0.00 0.00 1.40
868 893 9.489084 TCCATAAGATGACGGTGAAATATTTAG 57.511 33.333 0.00 0.00 0.00 1.85
871 896 9.712305 ATAAGATGACGGTGAAATATTTAGGAG 57.288 33.333 0.00 0.00 0.00 3.69
872 897 6.525629 AGATGACGGTGAAATATTTAGGAGG 58.474 40.000 0.00 0.00 0.00 4.30
873 898 5.031066 TGACGGTGAAATATTTAGGAGGG 57.969 43.478 0.00 0.00 0.00 4.30
874 899 3.813724 GACGGTGAAATATTTAGGAGGGC 59.186 47.826 0.00 0.00 0.00 5.19
875 900 3.458487 ACGGTGAAATATTTAGGAGGGCT 59.542 43.478 0.00 0.00 0.00 5.19
876 901 3.815401 CGGTGAAATATTTAGGAGGGCTG 59.185 47.826 0.00 0.00 0.00 4.85
877 902 4.686122 CGGTGAAATATTTAGGAGGGCTGT 60.686 45.833 0.00 0.00 0.00 4.40
878 903 4.822350 GGTGAAATATTTAGGAGGGCTGTC 59.178 45.833 0.00 0.00 0.00 3.51
879 904 5.437060 GTGAAATATTTAGGAGGGCTGTCA 58.563 41.667 0.00 0.00 0.00 3.58
880 905 5.529060 GTGAAATATTTAGGAGGGCTGTCAG 59.471 44.000 0.00 0.00 0.00 3.51
881 906 5.191722 TGAAATATTTAGGAGGGCTGTCAGT 59.808 40.000 0.00 0.00 0.00 3.41
888 913 1.003580 GGAGGGCTGTCAGTTGAATCA 59.996 52.381 0.93 0.00 0.00 2.57
893 918 2.740981 GGCTGTCAGTTGAATCACAGAG 59.259 50.000 0.93 0.00 38.90 3.35
934 960 3.253921 TGTGTCCTGCAATGACATTTCTG 59.746 43.478 18.52 0.00 43.27 3.02
940 966 4.439700 CCTGCAATGACATTTCTGATGACC 60.440 45.833 0.00 0.00 0.00 4.02
941 967 4.338012 TGCAATGACATTTCTGATGACCT 58.662 39.130 0.00 0.00 0.00 3.85
946 972 7.372714 CAATGACATTTCTGATGACCTTTCAA 58.627 34.615 0.00 0.00 34.61 2.69
947 973 6.317789 TGACATTTCTGATGACCTTTCAAC 57.682 37.500 0.00 0.00 34.61 3.18
950 976 6.684686 ACATTTCTGATGACCTTTCAACATG 58.315 36.000 0.00 0.00 34.31 3.21
951 977 5.710513 TTTCTGATGACCTTTCAACATGG 57.289 39.130 0.00 0.00 34.31 3.66
952 978 3.689347 TCTGATGACCTTTCAACATGGG 58.311 45.455 0.00 0.00 34.31 4.00
954 980 2.102578 GATGACCTTTCAACATGGGGG 58.897 52.381 0.00 0.00 34.61 5.40
955 981 1.153539 TGACCTTTCAACATGGGGGA 58.846 50.000 0.00 0.00 0.00 4.81
956 982 1.715931 TGACCTTTCAACATGGGGGAT 59.284 47.619 0.00 0.00 0.00 3.85
957 983 2.922955 TGACCTTTCAACATGGGGGATA 59.077 45.455 0.00 0.00 0.00 2.59
959 985 3.891366 GACCTTTCAACATGGGGGATATG 59.109 47.826 0.00 0.00 0.00 1.78
961 987 4.480537 ACCTTTCAACATGGGGGATATGTA 59.519 41.667 0.00 0.00 37.77 2.29
978 1013 7.283329 GGATATGTATTGGAAGGTGGATATCC 58.717 42.308 15.39 15.39 35.57 2.59
985 1020 3.202151 TGGAAGGTGGATATCCTTTGGAC 59.798 47.826 22.35 11.47 44.19 4.02
995 1030 9.182214 GTGGATATCCTTTGGACGTATATACTA 57.818 37.037 22.35 0.00 32.98 1.82
1044 1079 5.128171 TGTTCCACTAGTTATGCTTACCGAT 59.872 40.000 0.00 0.00 0.00 4.18
1046 1081 3.741344 CCACTAGTTATGCTTACCGATGC 59.259 47.826 0.00 0.00 0.00 3.91
1053 1088 1.143183 GCTTACCGATGCGAGGGAA 59.857 57.895 0.00 0.00 0.00 3.97
1071 1106 5.981174 AGGGAAATTGCATTTTACATCTGG 58.019 37.500 16.13 0.00 31.47 3.86
1077 1112 9.807649 GAAATTGCATTTTACATCTGGTCTAAT 57.192 29.630 6.56 0.00 31.47 1.73
1081 1116 6.663093 TGCATTTTACATCTGGTCTAATTGGT 59.337 34.615 0.00 0.00 0.00 3.67
1089 1124 8.110860 ACATCTGGTCTAATTGGTTTAAAGTG 57.889 34.615 0.00 0.00 0.00 3.16
1090 1125 7.942341 ACATCTGGTCTAATTGGTTTAAAGTGA 59.058 33.333 0.00 0.00 0.00 3.41
1095 1130 8.219178 TGGTCTAATTGGTTTAAAGTGACCTTA 58.781 33.333 0.00 0.78 41.20 2.69
1110 1145 8.978874 AAGTGACCTTAATATGTCAATATGCA 57.021 30.769 0.00 0.00 42.67 3.96
1127 1162 0.319405 GCAAAGCATGGTTCTTGGCT 59.681 50.000 11.16 0.00 37.48 4.75
1132 1167 2.875296 AGCATGGTTCTTGGCTACAAA 58.125 42.857 0.00 0.00 35.89 2.83
1133 1168 3.434309 AGCATGGTTCTTGGCTACAAAT 58.566 40.909 0.00 0.00 35.89 2.32
1194 1241 3.556004 GCGAGATAAGGAATTGGGAGGAG 60.556 52.174 0.00 0.00 0.00 3.69
1209 1256 0.035056 AGGAGAAAATGGGCCAGTCG 60.035 55.000 13.78 0.00 0.00 4.18
1219 1266 0.534203 GGGCCAGTCGTCAGTTTTGA 60.534 55.000 4.39 0.00 0.00 2.69
1238 1285 2.428834 TGCTCCACCCAAGCAAAAG 58.571 52.632 0.00 0.00 46.29 2.27
1267 1314 2.611518 CTCTTCTTCGGCGTCTCATTT 58.388 47.619 6.85 0.00 0.00 2.32
1276 1323 3.119280 TCGGCGTCTCATTTATCAGTCAA 60.119 43.478 6.85 0.00 0.00 3.18
1298 1346 3.252458 AGCCAAAATACGAAGACACCAAC 59.748 43.478 0.00 0.00 0.00 3.77
1524 1573 1.902508 CAACCTCCAGCCTACTCTGAA 59.097 52.381 0.00 0.00 36.19 3.02
1680 1749 0.956633 CCGGCAATGATTCCATGGAG 59.043 55.000 15.53 3.09 32.36 3.86
1685 1754 2.746142 GCAATGATTCCATGGAGTCGGA 60.746 50.000 26.73 14.56 34.21 4.55
1701 1770 1.819288 TCGGAGACATCTGAACTGGAC 59.181 52.381 0.00 0.00 37.91 4.02
1723 1792 3.557228 ACCAGAGGAGATTGATTCAGC 57.443 47.619 0.00 0.00 0.00 4.26
1803 1893 0.475632 TGGCTGAAGAAGGGGAGGAA 60.476 55.000 0.00 0.00 0.00 3.36
2187 2473 2.163613 GGCGCTGCCTGTAAGTTAATTT 59.836 45.455 7.64 0.00 46.69 1.82
2327 2619 6.869913 ACCAATCGAAAAATCAGTTAGACGTA 59.130 34.615 0.00 0.00 0.00 3.57
2350 2642 0.460987 CAGACGTTCCCCAGATCAGC 60.461 60.000 0.00 0.00 0.00 4.26
2354 2646 1.339151 ACGTTCCCCAGATCAGCTTTC 60.339 52.381 0.00 0.00 0.00 2.62
2355 2647 1.756430 GTTCCCCAGATCAGCTTTCC 58.244 55.000 0.00 0.00 0.00 3.13
2356 2648 0.625849 TTCCCCAGATCAGCTTTCCC 59.374 55.000 0.00 0.00 0.00 3.97
2357 2649 0.253347 TCCCCAGATCAGCTTTCCCT 60.253 55.000 0.00 0.00 0.00 4.20
2358 2650 0.106819 CCCCAGATCAGCTTTCCCTG 60.107 60.000 0.00 0.00 0.00 4.45
2359 2651 0.106819 CCCAGATCAGCTTTCCCTGG 60.107 60.000 12.06 12.06 42.92 4.45
2360 2652 0.622665 CCAGATCAGCTTTCCCTGGT 59.377 55.000 11.20 0.00 39.50 4.00
2361 2653 1.005215 CCAGATCAGCTTTCCCTGGTT 59.995 52.381 11.20 0.00 39.50 3.67
2362 2654 2.363683 CAGATCAGCTTTCCCTGGTTC 58.636 52.381 0.00 0.00 33.64 3.62
2363 2655 1.283321 AGATCAGCTTTCCCTGGTTCC 59.717 52.381 0.00 0.00 33.64 3.62
2364 2656 1.283321 GATCAGCTTTCCCTGGTTCCT 59.717 52.381 0.00 0.00 33.64 3.36
2365 2657 1.149101 TCAGCTTTCCCTGGTTCCTT 58.851 50.000 0.00 0.00 33.64 3.36
2366 2658 1.499007 TCAGCTTTCCCTGGTTCCTTT 59.501 47.619 0.00 0.00 33.64 3.11
2367 2659 2.714250 TCAGCTTTCCCTGGTTCCTTTA 59.286 45.455 0.00 0.00 33.64 1.85
2368 2660 3.333680 TCAGCTTTCCCTGGTTCCTTTAT 59.666 43.478 0.00 0.00 33.64 1.40
2369 2661 4.089361 CAGCTTTCCCTGGTTCCTTTATT 58.911 43.478 0.00 0.00 0.00 1.40
2370 2662 4.528206 CAGCTTTCCCTGGTTCCTTTATTT 59.472 41.667 0.00 0.00 0.00 1.40
2371 2663 5.012046 CAGCTTTCCCTGGTTCCTTTATTTT 59.988 40.000 0.00 0.00 0.00 1.82
2372 2664 5.606749 AGCTTTCCCTGGTTCCTTTATTTTT 59.393 36.000 0.00 0.00 0.00 1.94
2373 2665 5.700832 GCTTTCCCTGGTTCCTTTATTTTTG 59.299 40.000 0.00 0.00 0.00 2.44
2374 2666 5.816955 TTCCCTGGTTCCTTTATTTTTGG 57.183 39.130 0.00 0.00 0.00 3.28
2375 2667 5.081315 TCCCTGGTTCCTTTATTTTTGGA 57.919 39.130 0.00 0.00 0.00 3.53
2376 2668 5.083821 TCCCTGGTTCCTTTATTTTTGGAG 58.916 41.667 0.00 0.00 0.00 3.86
2377 2669 4.222810 CCCTGGTTCCTTTATTTTTGGAGG 59.777 45.833 0.00 0.00 0.00 4.30
2378 2670 4.222810 CCTGGTTCCTTTATTTTTGGAGGG 59.777 45.833 0.00 0.00 0.00 4.30
2379 2671 4.164204 TGGTTCCTTTATTTTTGGAGGGG 58.836 43.478 0.00 0.00 0.00 4.79
2380 2672 4.140663 TGGTTCCTTTATTTTTGGAGGGGA 60.141 41.667 0.00 0.00 0.00 4.81
2381 2673 5.030147 GGTTCCTTTATTTTTGGAGGGGAT 58.970 41.667 0.00 0.00 0.00 3.85
2382 2674 5.487488 GGTTCCTTTATTTTTGGAGGGGATT 59.513 40.000 0.00 0.00 0.00 3.01
2383 2675 6.351881 GGTTCCTTTATTTTTGGAGGGGATTC 60.352 42.308 0.00 0.00 0.00 2.52
2411 2703 1.535462 CCAGTTGAAAAGTAGCCGGTG 59.465 52.381 1.90 0.00 0.00 4.94
2436 2879 5.012239 ACGTACTACAAGTGGGAATGAGTA 58.988 41.667 0.00 0.00 0.00 2.59
2523 3361 8.837389 AGACATATATTTAAAAACGGAAGGAGC 58.163 33.333 0.00 0.00 0.00 4.70
2532 3370 2.127869 CGGAAGGAGCAGATCGGGA 61.128 63.158 0.00 0.00 0.00 5.14
2533 3371 1.745264 GGAAGGAGCAGATCGGGAG 59.255 63.158 0.00 0.00 0.00 4.30
2534 3372 1.068921 GAAGGAGCAGATCGGGAGC 59.931 63.158 0.00 0.00 0.00 4.70
2535 3373 1.382420 AAGGAGCAGATCGGGAGCT 60.382 57.895 4.99 4.99 42.17 4.09
2557 3395 1.134907 GCATTTCAGGTGGGATGCAAG 60.135 52.381 0.00 0.00 43.23 4.01
2639 3477 7.527183 GCTGTGATTCATTTTCTTTTTAAACGC 59.473 33.333 0.00 0.00 0.00 4.84
2676 3514 6.078664 TGGGTTATTTACTCAAAACCACCAT 58.921 36.000 5.54 0.00 42.61 3.55
2678 3516 7.728981 TGGGTTATTTACTCAAAACCACCATAA 59.271 33.333 5.54 0.00 42.61 1.90
2686 3524 4.678256 TCAAAACCACCATAATTAGGGCA 58.322 39.130 15.97 0.00 0.00 5.36
2704 3542 1.886655 GCAGGGTAACAACTTGAGGGG 60.887 57.143 0.00 0.00 39.74 4.79
2723 3561 2.084546 GGTGGCTAGGTGTCAATCAAC 58.915 52.381 0.00 0.00 28.98 3.18
2730 3568 5.183904 GGCTAGGTGTCAATCAACTGAAAAT 59.816 40.000 0.00 0.00 44.66 1.82
2749 3587 4.322057 AATAAGATTTGGGCCAGTCACT 57.678 40.909 19.24 10.23 0.00 3.41
2819 3745 8.844441 TTTTTAATTCAAGAAGTAACCACACG 57.156 30.769 2.57 0.00 31.66 4.49
2820 3746 6.548441 TTAATTCAAGAAGTAACCACACGG 57.452 37.500 0.00 0.00 38.77 4.94
2829 3755 2.515991 ACCACACGGTGTTGCAGG 60.516 61.111 11.82 12.15 46.79 4.85
2830 3756 3.964875 CCACACGGTGTTGCAGGC 61.965 66.667 11.82 0.00 0.00 4.85
2831 3757 4.312231 CACACGGTGTTGCAGGCG 62.312 66.667 11.82 0.00 0.00 5.52
2834 3760 4.868116 ACGGTGTTGCAGGCGGTT 62.868 61.111 0.00 0.00 0.00 4.44
2835 3761 3.591835 CGGTGTTGCAGGCGGTTT 61.592 61.111 0.00 0.00 0.00 3.27
2836 3762 2.027460 GGTGTTGCAGGCGGTTTG 59.973 61.111 0.00 0.00 0.00 2.93
2837 3763 2.781158 GGTGTTGCAGGCGGTTTGT 61.781 57.895 0.00 0.00 0.00 2.83
2838 3764 1.448922 GGTGTTGCAGGCGGTTTGTA 61.449 55.000 0.00 0.00 0.00 2.41
2839 3765 0.382515 GTGTTGCAGGCGGTTTGTAA 59.617 50.000 0.00 0.00 0.00 2.41
2840 3766 1.103803 TGTTGCAGGCGGTTTGTAAA 58.896 45.000 0.00 0.00 0.00 2.01
2841 3767 1.683917 TGTTGCAGGCGGTTTGTAAAT 59.316 42.857 0.00 0.00 0.00 1.40
2842 3768 2.287909 TGTTGCAGGCGGTTTGTAAATC 60.288 45.455 0.00 0.00 0.00 2.17
2843 3769 1.610363 TGCAGGCGGTTTGTAAATCA 58.390 45.000 0.00 0.00 0.00 2.57
2844 3770 2.166829 TGCAGGCGGTTTGTAAATCAT 58.833 42.857 0.00 0.00 0.00 2.45
2845 3771 2.163412 TGCAGGCGGTTTGTAAATCATC 59.837 45.455 0.00 0.00 0.00 2.92
2846 3772 2.479560 GCAGGCGGTTTGTAAATCATCC 60.480 50.000 0.00 0.00 0.00 3.51
2847 3773 2.014128 AGGCGGTTTGTAAATCATCCG 58.986 47.619 0.00 0.00 42.27 4.18
2848 3774 2.011222 GGCGGTTTGTAAATCATCCGA 58.989 47.619 5.60 0.00 42.11 4.55
2849 3775 2.223180 GGCGGTTTGTAAATCATCCGAC 60.223 50.000 5.60 0.00 42.11 4.79
2850 3776 2.536130 GCGGTTTGTAAATCATCCGACG 60.536 50.000 5.60 0.00 42.11 5.12
2851 3777 2.669434 CGGTTTGTAAATCATCCGACGT 59.331 45.455 0.00 0.00 42.11 4.34
2852 3778 3.858812 CGGTTTGTAAATCATCCGACGTA 59.141 43.478 0.00 0.00 42.11 3.57
2853 3779 4.326817 CGGTTTGTAAATCATCCGACGTAA 59.673 41.667 0.00 0.00 42.11 3.18
2854 3780 5.553721 GGTTTGTAAATCATCCGACGTAAC 58.446 41.667 0.00 0.00 0.00 2.50
2855 3781 5.120519 GGTTTGTAAATCATCCGACGTAACA 59.879 40.000 0.00 0.00 0.00 2.41
2856 3782 5.766702 TTGTAAATCATCCGACGTAACAC 57.233 39.130 0.00 0.00 0.00 3.32
2857 3783 4.807443 TGTAAATCATCCGACGTAACACA 58.193 39.130 0.00 0.00 0.00 3.72
2858 3784 5.412640 TGTAAATCATCCGACGTAACACAT 58.587 37.500 0.00 0.00 0.00 3.21
2859 3785 5.870433 TGTAAATCATCCGACGTAACACATT 59.130 36.000 0.00 0.00 0.00 2.71
2963 3889 1.536073 CCAGGCCAAGTCGTCAGAGA 61.536 60.000 5.01 0.00 0.00 3.10
2968 3894 2.197577 GCCAAGTCGTCAGAGAATAGC 58.802 52.381 0.00 0.00 0.00 2.97
2974 3900 3.508012 AGTCGTCAGAGAATAGCAACACT 59.492 43.478 0.00 0.00 0.00 3.55
2983 3909 1.698165 ATAGCAACACTGTCGACACG 58.302 50.000 15.76 13.32 0.00 4.49
2992 3918 1.959899 CTGTCGACACGCATGGCTTC 61.960 60.000 15.76 0.00 0.00 3.86
2993 3919 2.809174 TCGACACGCATGGCTTCG 60.809 61.111 0.00 0.00 0.00 3.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
60 61 5.293324 CCACATTGCTTGAATAAGTAGCGTA 59.707 40.000 0.00 0.00 37.73 4.42
85 86 6.176183 TGTATATTCGTACTAGGTAGGAGGC 58.824 44.000 0.00 0.00 35.00 4.70
98 99 3.216800 AGGACGGTGCTGTATATTCGTA 58.783 45.455 0.00 0.00 0.00 3.43
99 100 2.029623 AGGACGGTGCTGTATATTCGT 58.970 47.619 0.00 0.00 0.00 3.85
100 101 2.795175 AGGACGGTGCTGTATATTCG 57.205 50.000 0.00 0.00 0.00 3.34
102 103 9.197306 TGATAATATAGGACGGTGCTGTATATT 57.803 33.333 16.82 16.75 33.15 1.28
110 111 5.599999 AGGATGATAATATAGGACGGTGC 57.400 43.478 0.00 0.00 0.00 5.01
112 113 7.672660 TGTGTAAGGATGATAATATAGGACGGT 59.327 37.037 0.00 0.00 0.00 4.83
115 116 9.036980 AGGTGTGTAAGGATGATAATATAGGAC 57.963 37.037 0.00 0.00 0.00 3.85
121 122 8.421784 GTTGAGAGGTGTGTAAGGATGATAATA 58.578 37.037 0.00 0.00 0.00 0.98
130 131 6.173339 ACAATATGTTGAGAGGTGTGTAAGG 58.827 40.000 9.40 0.00 38.71 2.69
153 154 0.804989 CAAATGGCCCGACTCTCAAC 59.195 55.000 0.00 0.00 0.00 3.18
162 163 4.367450 CAAATATAACACCAAATGGCCCG 58.633 43.478 0.00 0.00 39.32 6.13
165 166 4.764172 TGGCAAATATAACACCAAATGGC 58.236 39.130 0.00 0.00 39.32 4.40
194 195 5.293324 TCGTACCATGCATAACATTTCAGTC 59.707 40.000 0.00 0.00 36.64 3.51
195 196 5.182487 TCGTACCATGCATAACATTTCAGT 58.818 37.500 0.00 0.00 36.64 3.41
201 202 2.878406 GGCTTCGTACCATGCATAACAT 59.122 45.455 0.00 0.00 40.66 2.71
217 218 4.084011 AGGCTAATGATTCTCTGGCTTC 57.916 45.455 0.00 0.00 0.00 3.86
218 219 4.516652 AAGGCTAATGATTCTCTGGCTT 57.483 40.909 0.00 0.00 35.89 4.35
258 259 3.808728 CACCTCCATGTATCCAACGATT 58.191 45.455 0.00 0.00 0.00 3.34
261 262 1.134401 AGCACCTCCATGTATCCAACG 60.134 52.381 0.00 0.00 0.00 4.10
313 314 0.761187 GGAGGAGGCATATGCTCACA 59.239 55.000 26.12 0.00 39.25 3.58
334 335 4.142093 GGTGTGCTCTCCGGTAACTATAAA 60.142 45.833 0.00 0.00 0.00 1.40
389 390 7.552687 TCAGTATGTTGGACATCCACTTTAATC 59.447 37.037 0.00 0.00 39.88 1.75
410 435 7.227156 TCTGCTGTACATATCATCTCTCAGTA 58.773 38.462 0.00 0.00 0.00 2.74
412 437 6.207221 ACTCTGCTGTACATATCATCTCTCAG 59.793 42.308 0.00 0.00 0.00 3.35
419 444 6.723515 ACCTATCACTCTGCTGTACATATCAT 59.276 38.462 0.00 0.00 0.00 2.45
440 465 5.208890 AGTCCTTGCTGTACATATCACCTA 58.791 41.667 0.00 0.00 0.00 3.08
479 504 2.032178 GTGTCACTCAACTGCCAAACTC 59.968 50.000 0.00 0.00 0.00 3.01
494 519 5.991328 TTTTGATCTCAGAAGTGTGTCAC 57.009 39.130 0.00 0.00 34.10 3.67
520 545 7.510549 AAAAGCATAGCTCTTTGAGTTGTAA 57.489 32.000 0.00 0.00 38.25 2.41
528 553 4.084507 CGAACGAAAAGCATAGCTCTTTG 58.915 43.478 0.00 0.00 38.25 2.77
534 559 3.967734 TGCGAACGAAAAGCATAGC 57.032 47.368 0.00 0.00 35.81 2.97
588 613 8.017418 TGATGAAACCAACCTCAGTAATTTTT 57.983 30.769 0.00 0.00 0.00 1.94
631 656 7.971201 TCATTATCCTCAAGCAATATCTGTCT 58.029 34.615 0.00 0.00 0.00 3.41
636 661 7.609146 TCACCATCATTATCCTCAAGCAATATC 59.391 37.037 0.00 0.00 0.00 1.63
639 664 5.698104 TCACCATCATTATCCTCAAGCAAT 58.302 37.500 0.00 0.00 0.00 3.56
675 700 1.258982 GAAACCTCATGCGCTATCACG 59.741 52.381 9.73 0.00 0.00 4.35
681 706 2.508526 AGAAAAGAAACCTCATGCGCT 58.491 42.857 9.73 0.00 0.00 5.92
684 709 5.860716 GTCATGAAGAAAAGAAACCTCATGC 59.139 40.000 0.00 0.00 35.19 4.06
721 746 7.443575 ACTCTTCGAATATGAGATTGGAAATGG 59.556 37.037 17.08 0.00 34.30 3.16
724 749 7.280876 CCAACTCTTCGAATATGAGATTGGAAA 59.719 37.037 24.05 0.00 39.56 3.13
741 766 0.529378 CCATTGGCAGCCAACTCTTC 59.471 55.000 29.76 0.00 46.95 2.87
759 784 2.359900 AGTGAAATGAATCCGCTCACC 58.640 47.619 0.00 0.00 37.68 4.02
809 834 8.519492 AATTGAAAAATCCGACACAGTAATTG 57.481 30.769 0.00 0.00 0.00 2.32
831 856 5.240183 CGTCATCTTATGGAGCATGGAAATT 59.760 40.000 0.00 0.00 0.00 1.82
840 865 2.890808 TCACCGTCATCTTATGGAGC 57.109 50.000 0.00 0.00 0.00 4.70
841 866 7.969536 AATATTTCACCGTCATCTTATGGAG 57.030 36.000 0.00 0.00 0.00 3.86
843 868 8.721478 CCTAAATATTTCACCGTCATCTTATGG 58.279 37.037 3.39 0.00 0.00 2.74
846 871 8.148351 CCTCCTAAATATTTCACCGTCATCTTA 58.852 37.037 3.39 0.00 0.00 2.10
849 874 5.701290 CCCTCCTAAATATTTCACCGTCATC 59.299 44.000 3.39 0.00 0.00 2.92
856 881 5.437060 TGACAGCCCTCCTAAATATTTCAC 58.563 41.667 3.39 0.00 0.00 3.18
857 882 5.191722 ACTGACAGCCCTCCTAAATATTTCA 59.808 40.000 3.39 0.00 0.00 2.69
860 885 5.191722 TCAACTGACAGCCCTCCTAAATATT 59.808 40.000 1.25 0.00 0.00 1.28
864 889 2.334977 TCAACTGACAGCCCTCCTAAA 58.665 47.619 1.25 0.00 0.00 1.85
865 890 2.024176 TCAACTGACAGCCCTCCTAA 57.976 50.000 1.25 0.00 0.00 2.69
866 891 2.024176 TTCAACTGACAGCCCTCCTA 57.976 50.000 1.25 0.00 0.00 2.94
867 892 1.280421 GATTCAACTGACAGCCCTCCT 59.720 52.381 1.25 0.00 0.00 3.69
868 893 1.003580 TGATTCAACTGACAGCCCTCC 59.996 52.381 1.25 0.00 0.00 4.30
871 896 1.808945 CTGTGATTCAACTGACAGCCC 59.191 52.381 1.25 0.00 30.14 5.19
872 897 2.740981 CTCTGTGATTCAACTGACAGCC 59.259 50.000 1.25 0.00 36.55 4.85
873 898 3.657634 TCTCTGTGATTCAACTGACAGC 58.342 45.455 1.25 0.00 36.55 4.40
874 899 4.244066 CCTCTCTGTGATTCAACTGACAG 58.756 47.826 0.00 0.00 37.72 3.51
875 900 3.007290 CCCTCTCTGTGATTCAACTGACA 59.993 47.826 0.00 0.00 0.00 3.58
876 901 3.594134 CCCTCTCTGTGATTCAACTGAC 58.406 50.000 0.00 0.00 0.00 3.51
877 902 2.027745 GCCCTCTCTGTGATTCAACTGA 60.028 50.000 0.00 0.00 0.00 3.41
878 903 2.289882 TGCCCTCTCTGTGATTCAACTG 60.290 50.000 0.00 0.00 0.00 3.16
879 904 1.980765 TGCCCTCTCTGTGATTCAACT 59.019 47.619 0.00 0.00 0.00 3.16
880 905 2.027745 TCTGCCCTCTCTGTGATTCAAC 60.028 50.000 0.00 0.00 0.00 3.18
881 906 2.259917 TCTGCCCTCTCTGTGATTCAA 58.740 47.619 0.00 0.00 0.00 2.69
888 913 3.445008 TCAGTTAATCTGCCCTCTCTGT 58.555 45.455 0.00 0.00 43.32 3.41
893 918 3.624861 CACACATCAGTTAATCTGCCCTC 59.375 47.826 1.53 0.00 43.32 4.30
909 934 2.275134 TGTCATTGCAGGACACACAT 57.725 45.000 16.54 0.00 40.16 3.21
911 936 3.254166 AGAAATGTCATTGCAGGACACAC 59.746 43.478 21.10 15.65 46.99 3.82
934 960 2.102578 CCCCCATGTTGAAAGGTCATC 58.897 52.381 0.00 0.00 32.48 2.92
940 966 6.015180 CCAATACATATCCCCCATGTTGAAAG 60.015 42.308 0.00 0.00 37.74 2.62
941 967 5.837979 CCAATACATATCCCCCATGTTGAAA 59.162 40.000 0.00 0.00 37.74 2.69
946 972 4.044571 CCTTCCAATACATATCCCCCATGT 59.955 45.833 0.00 0.00 39.82 3.21
947 973 4.044571 ACCTTCCAATACATATCCCCCATG 59.955 45.833 0.00 0.00 0.00 3.66
950 976 3.245264 CCACCTTCCAATACATATCCCCC 60.245 52.174 0.00 0.00 0.00 5.40
951 977 3.655777 TCCACCTTCCAATACATATCCCC 59.344 47.826 0.00 0.00 0.00 4.81
952 978 4.993705 TCCACCTTCCAATACATATCCC 57.006 45.455 0.00 0.00 0.00 3.85
954 980 8.095452 AGGATATCCACCTTCCAATACATATC 57.905 38.462 23.81 0.00 38.89 1.63
955 981 8.468547 AAGGATATCCACCTTCCAATACATAT 57.531 34.615 23.81 0.00 43.22 1.78
956 982 7.888514 AAGGATATCCACCTTCCAATACATA 57.111 36.000 23.81 0.00 43.22 2.29
957 983 6.786843 AAGGATATCCACCTTCCAATACAT 57.213 37.500 23.81 0.00 43.22 2.29
959 985 5.770162 CCAAAGGATATCCACCTTCCAATAC 59.230 44.000 23.81 0.00 45.55 1.89
961 987 4.482025 TCCAAAGGATATCCACCTTCCAAT 59.518 41.667 23.81 0.00 45.55 3.16
1022 1057 5.597806 CATCGGTAAGCATAACTAGTGGAA 58.402 41.667 0.00 0.00 0.00 3.53
1024 1059 3.741344 GCATCGGTAAGCATAACTAGTGG 59.259 47.826 0.00 0.00 0.00 4.00
1053 1088 9.590451 CAATTAGACCAGATGTAAAATGCAATT 57.410 29.630 0.00 0.00 38.98 2.32
1077 1112 9.575868 TGACATATTAAGGTCACTTTAAACCAA 57.424 29.630 0.00 0.00 41.25 3.67
1089 1124 8.352201 TGCTTTGCATATTGACATATTAAGGTC 58.648 33.333 0.00 0.00 33.38 3.85
1090 1125 8.236585 TGCTTTGCATATTGACATATTAAGGT 57.763 30.769 0.00 0.00 31.71 3.50
1109 1144 2.557924 TGTAGCCAAGAACCATGCTTTG 59.442 45.455 0.00 0.00 35.34 2.77
1110 1145 2.875296 TGTAGCCAAGAACCATGCTTT 58.125 42.857 0.00 0.00 35.34 3.51
1127 1162 3.010027 TCTCTGGATGGCACCAATTTGTA 59.990 43.478 9.53 0.00 39.59 2.41
1132 1167 1.753141 GCATCTCTGGATGGCACCAAT 60.753 52.381 9.53 0.00 46.77 3.16
1133 1168 0.394762 GCATCTCTGGATGGCACCAA 60.395 55.000 9.53 0.00 46.77 3.67
1174 1212 5.896073 TTCTCCTCCCAATTCCTTATCTC 57.104 43.478 0.00 0.00 0.00 2.75
1194 1241 0.804989 CTGACGACTGGCCCATTTTC 59.195 55.000 0.00 0.00 0.00 2.29
1209 1256 1.541588 GGGTGGAGCATCAAAACTGAC 59.458 52.381 0.00 0.00 36.25 3.51
1238 1285 2.964911 CGAAGAAGAGCCATCGGAC 58.035 57.895 0.00 0.00 0.00 4.79
1267 1314 6.312918 GTCTTCGTATTTTGGCTTGACTGATA 59.687 38.462 0.00 0.00 0.00 2.15
1276 1323 3.134574 TGGTGTCTTCGTATTTTGGCT 57.865 42.857 0.00 0.00 0.00 4.75
1366 1415 3.852578 AGGATCCTTTGGAAAGAGGCTAA 59.147 43.478 9.02 0.00 38.28 3.09
1369 1418 2.816777 AGGATCCTTTGGAAAGAGGC 57.183 50.000 9.02 0.00 38.28 4.70
1404 1453 5.413499 CCAAATGTCCAAATGATCTTGTCC 58.587 41.667 0.00 0.00 0.00 4.02
1524 1573 4.011698 TGTGATTTGCAGCAGACATATGT 58.988 39.130 8.43 8.43 0.00 2.29
1661 1710 0.956633 CTCCATGGAATCATTGCCGG 59.043 55.000 17.00 0.00 0.00 6.13
1680 1749 1.819288 TCCAGTTCAGATGTCTCCGAC 59.181 52.381 0.00 0.00 0.00 4.79
1685 1754 3.779444 TGGTAGTCCAGTTCAGATGTCT 58.221 45.455 0.00 0.00 39.03 3.41
1701 1770 4.344679 AGCTGAATCAATCTCCTCTGGTAG 59.655 45.833 0.00 0.00 0.00 3.18
1713 1782 1.332997 GCGCTTAGCAGCTGAATCAAT 59.667 47.619 20.43 0.00 44.85 2.57
1747 1816 1.377725 CGCCATCCTTGAGCACCTT 60.378 57.895 0.00 0.00 0.00 3.50
1803 1893 3.263259 AGGGCCTTCCAAGCTGCT 61.263 61.111 0.00 0.00 38.24 4.24
2187 2473 2.327343 GCTGCCGCTGACATGAACA 61.327 57.895 0.00 0.00 0.00 3.18
2350 2642 6.042666 TCCAAAAATAAAGGAACCAGGGAAAG 59.957 38.462 0.00 0.00 0.00 2.62
2354 2646 4.222810 CCTCCAAAAATAAAGGAACCAGGG 59.777 45.833 0.00 0.00 0.00 4.45
2355 2647 4.222810 CCCTCCAAAAATAAAGGAACCAGG 59.777 45.833 0.00 0.00 0.00 4.45
2356 2648 4.222810 CCCCTCCAAAAATAAAGGAACCAG 59.777 45.833 0.00 0.00 0.00 4.00
2357 2649 4.140663 TCCCCTCCAAAAATAAAGGAACCA 60.141 41.667 0.00 0.00 0.00 3.67
2358 2650 4.422057 TCCCCTCCAAAAATAAAGGAACC 58.578 43.478 0.00 0.00 0.00 3.62
2359 2651 6.351881 GGAATCCCCTCCAAAAATAAAGGAAC 60.352 42.308 0.00 0.00 35.36 3.62
2360 2652 5.724370 GGAATCCCCTCCAAAAATAAAGGAA 59.276 40.000 0.00 0.00 35.36 3.36
2361 2653 5.277250 GGAATCCCCTCCAAAAATAAAGGA 58.723 41.667 0.00 0.00 35.36 3.36
2362 2654 5.614324 GGAATCCCCTCCAAAAATAAAGG 57.386 43.478 0.00 0.00 35.36 3.11
2411 2703 3.194116 TCATTCCCACTTGTAGTACGTCC 59.806 47.826 0.00 0.00 0.00 4.79
2518 3356 0.539438 CTAGCTCCCGATCTGCTCCT 60.539 60.000 0.00 0.00 38.15 3.69
2523 3361 2.224137 TGAAATGCTAGCTCCCGATCTG 60.224 50.000 17.23 0.00 0.00 2.90
2532 3370 1.289160 TCCCACCTGAAATGCTAGCT 58.711 50.000 17.23 0.00 0.00 3.32
2533 3371 1.952296 CATCCCACCTGAAATGCTAGC 59.048 52.381 8.10 8.10 0.00 3.42
2534 3372 1.952296 GCATCCCACCTGAAATGCTAG 59.048 52.381 0.00 0.00 40.98 3.42
2535 3373 1.284491 TGCATCCCACCTGAAATGCTA 59.716 47.619 7.59 0.00 43.78 3.49
2557 3395 1.881973 AGAACACATGCATCCACACAC 59.118 47.619 0.00 0.00 0.00 3.82
2639 3477 6.990349 AGTAAATAACCCATGTAACGATCTGG 59.010 38.462 0.00 0.00 0.00 3.86
2676 3514 5.014333 TCAAGTTGTTACCCTGCCCTAATTA 59.986 40.000 2.11 0.00 0.00 1.40
2678 3516 3.332485 TCAAGTTGTTACCCTGCCCTAAT 59.668 43.478 2.11 0.00 0.00 1.73
2686 3524 1.423921 CACCCCTCAAGTTGTTACCCT 59.576 52.381 2.11 0.00 0.00 4.34
2704 3542 2.744202 CAGTTGATTGACACCTAGCCAC 59.256 50.000 0.00 0.00 0.00 5.01
2723 3561 5.185635 TGACTGGCCCAAATCTTATTTTCAG 59.814 40.000 0.00 0.00 0.00 3.02
2730 3568 3.806949 AAGTGACTGGCCCAAATCTTA 57.193 42.857 0.00 0.00 0.00 2.10
2813 3739 3.964875 GCCTGCAACACCGTGTGG 61.965 66.667 4.57 2.80 37.94 4.17
2814 3740 4.312231 CGCCTGCAACACCGTGTG 62.312 66.667 4.57 1.05 39.75 3.82
2817 3743 4.868116 AACCGCCTGCAACACCGT 62.868 61.111 0.00 0.00 0.00 4.83
2818 3744 3.591835 AAACCGCCTGCAACACCG 61.592 61.111 0.00 0.00 0.00 4.94
2819 3745 1.448922 TACAAACCGCCTGCAACACC 61.449 55.000 0.00 0.00 0.00 4.16
2820 3746 0.382515 TTACAAACCGCCTGCAACAC 59.617 50.000 0.00 0.00 0.00 3.32
2821 3747 1.103803 TTTACAAACCGCCTGCAACA 58.896 45.000 0.00 0.00 0.00 3.33
2822 3748 2.287909 TGATTTACAAACCGCCTGCAAC 60.288 45.455 0.00 0.00 0.00 4.17
2823 3749 1.957177 TGATTTACAAACCGCCTGCAA 59.043 42.857 0.00 0.00 0.00 4.08
2824 3750 1.610363 TGATTTACAAACCGCCTGCA 58.390 45.000 0.00 0.00 0.00 4.41
2825 3751 2.479560 GGATGATTTACAAACCGCCTGC 60.480 50.000 0.00 0.00 0.00 4.85
2826 3752 2.223249 CGGATGATTTACAAACCGCCTG 60.223 50.000 0.00 0.00 41.90 4.85
2827 3753 2.014128 CGGATGATTTACAAACCGCCT 58.986 47.619 0.00 0.00 41.90 5.52
2828 3754 2.011222 TCGGATGATTTACAAACCGCC 58.989 47.619 0.00 0.00 44.87 6.13
2829 3755 2.536130 CGTCGGATGATTTACAAACCGC 60.536 50.000 0.00 0.00 44.87 5.68
2830 3756 2.669434 ACGTCGGATGATTTACAAACCG 59.331 45.455 3.82 0.00 45.75 4.44
2831 3757 5.120519 TGTTACGTCGGATGATTTACAAACC 59.879 40.000 3.82 0.00 0.00 3.27
2832 3758 6.011277 GTGTTACGTCGGATGATTTACAAAC 58.989 40.000 3.82 0.00 0.00 2.93
2833 3759 5.695363 TGTGTTACGTCGGATGATTTACAAA 59.305 36.000 3.82 0.00 0.00 2.83
2834 3760 5.228665 TGTGTTACGTCGGATGATTTACAA 58.771 37.500 3.82 0.00 0.00 2.41
2835 3761 4.807443 TGTGTTACGTCGGATGATTTACA 58.193 39.130 3.82 1.81 0.00 2.41
2836 3762 5.961395 ATGTGTTACGTCGGATGATTTAC 57.039 39.130 3.82 0.00 0.00 2.01
2837 3763 7.009448 GTGTAATGTGTTACGTCGGATGATTTA 59.991 37.037 3.82 0.00 42.50 1.40
2838 3764 5.870433 TGTAATGTGTTACGTCGGATGATTT 59.130 36.000 3.82 0.00 42.50 2.17
2839 3765 5.290158 GTGTAATGTGTTACGTCGGATGATT 59.710 40.000 3.82 0.00 42.50 2.57
2840 3766 4.802039 GTGTAATGTGTTACGTCGGATGAT 59.198 41.667 3.82 0.00 42.50 2.45
2841 3767 4.168014 GTGTAATGTGTTACGTCGGATGA 58.832 43.478 3.82 0.00 42.50 2.92
2842 3768 3.921630 TGTGTAATGTGTTACGTCGGATG 59.078 43.478 0.00 0.00 42.50 3.51
2843 3769 4.177165 TGTGTAATGTGTTACGTCGGAT 57.823 40.909 0.00 0.00 42.50 4.18
2844 3770 3.639716 TGTGTAATGTGTTACGTCGGA 57.360 42.857 0.00 0.00 42.50 4.55
2845 3771 3.482923 GCATGTGTAATGTGTTACGTCGG 60.483 47.826 0.00 0.00 42.50 4.79
2846 3772 3.122111 TGCATGTGTAATGTGTTACGTCG 59.878 43.478 0.00 0.00 42.50 5.12
2847 3773 4.084276 TGTGCATGTGTAATGTGTTACGTC 60.084 41.667 0.00 0.00 42.50 4.34
2848 3774 3.810386 TGTGCATGTGTAATGTGTTACGT 59.190 39.130 0.00 0.00 42.50 3.57
2849 3775 4.148166 GTGTGCATGTGTAATGTGTTACG 58.852 43.478 0.00 0.00 42.50 3.18
2850 3776 4.148166 CGTGTGCATGTGTAATGTGTTAC 58.852 43.478 0.00 0.00 40.48 2.50
2851 3777 3.364465 GCGTGTGCATGTGTAATGTGTTA 60.364 43.478 0.00 0.00 42.15 2.41
2852 3778 2.604373 GCGTGTGCATGTGTAATGTGTT 60.604 45.455 0.00 0.00 42.15 3.32
2853 3779 1.069296 GCGTGTGCATGTGTAATGTGT 60.069 47.619 0.00 0.00 42.15 3.72
2854 3780 1.605500 GCGTGTGCATGTGTAATGTG 58.394 50.000 0.00 0.00 42.15 3.21
2855 3781 0.521291 GGCGTGTGCATGTGTAATGT 59.479 50.000 0.00 0.00 45.35 2.71
2856 3782 0.520847 TGGCGTGTGCATGTGTAATG 59.479 50.000 0.00 0.00 45.35 1.90
2857 3783 1.132834 CATGGCGTGTGCATGTGTAAT 59.867 47.619 0.00 0.00 45.35 1.89
2858 3784 0.520847 CATGGCGTGTGCATGTGTAA 59.479 50.000 0.00 0.00 45.35 2.41
2859 3785 1.921045 GCATGGCGTGTGCATGTGTA 61.921 55.000 8.75 0.00 45.35 2.90
2881 3807 1.068333 GTAGCTGGTTGGTGCAACATG 60.068 52.381 4.62 0.00 45.11 3.21
2963 3889 2.058798 CGTGTCGACAGTGTTGCTATT 58.941 47.619 20.73 0.00 0.00 1.73
2968 3894 0.111134 CATGCGTGTCGACAGTGTTG 60.111 55.000 20.73 11.01 0.00 3.33
2974 3900 2.027073 GAAGCCATGCGTGTCGACA 61.027 57.895 15.76 15.76 0.00 4.35


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

AutoCloner maintained by Alex Coulton.