Multiple sequence alignment - TraesCS6D01G186500

Loading Multiple Alignment...

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 TraesCS6D01G186500 chr6D 100.000 6962 0 0 1 6962 246432715 246439676 0.000000e+00 12857.0
1 TraesCS6D01G186500 chr6D 92.381 105 6 2 3255 3358 199144944 199144841 1.560000e-31 148.0
2 TraesCS6D01G186500 chr6D 86.567 134 15 3 1 132 363039786 363039918 2.020000e-30 145.0
3 TraesCS6D01G186500 chr6D 93.878 49 2 1 6842 6889 246439479 246439431 9.690000e-09 73.1
4 TraesCS6D01G186500 chr6D 92.308 52 3 1 6717 6768 246439603 246439553 9.690000e-09 73.1
5 TraesCS6D01G186500 chr6D 96.875 32 1 0 6809 6840 246439398 246439429 4.000000e-03 54.7
6 TraesCS6D01G186500 chr6D 96.875 32 1 0 6684 6715 246439523 246439554 4.000000e-03 54.7
7 TraesCS6D01G186500 chr6B 95.141 3540 147 11 3133 6666 402213494 402209974 0.000000e+00 5561.0
8 TraesCS6D01G186500 chr6B 94.242 2136 64 18 1018 3137 402222097 402220005 0.000000e+00 3208.0
9 TraesCS6D01G186500 chr6B 93.363 889 47 10 1 881 402222977 402222093 0.000000e+00 1304.0
10 TraesCS6D01G186500 chr6B 90.909 143 13 0 876 1018 64859693 64859835 7.130000e-45 193.0
11 TraesCS6D01G186500 chr6B 92.308 65 5 0 6872 6936 402204305 402204241 7.440000e-15 93.5
12 TraesCS6D01G186500 chr6A 97.172 3288 70 9 3354 6638 362226518 362223251 0.000000e+00 5535.0
13 TraesCS6D01G186500 chr6A 95.225 2241 53 15 1155 3358 362231031 362228808 0.000000e+00 3496.0
14 TraesCS6D01G186500 chr6A 84.797 592 58 16 190 777 362268410 362267847 3.640000e-157 566.0
15 TraesCS6D01G186500 chr6A 95.122 328 16 0 6635 6962 362222978 362222651 1.040000e-142 518.0
16 TraesCS6D01G186500 chr6A 89.175 194 19 2 1 192 362318926 362318733 2.510000e-59 241.0
17 TraesCS6D01G186500 chr6A 95.413 109 5 0 773 881 362232167 362232059 2.580000e-39 174.0
18 TraesCS6D01G186500 chr6A 94.286 105 4 2 3255 3358 255325030 255325133 7.230000e-35 159.0
19 TraesCS6D01G186500 chr6A 88.235 85 8 1 1047 1131 362231114 362231032 4.440000e-17 100.0
20 TraesCS6D01G186500 chr6A 96.154 52 1 1 6717 6768 362222724 362222774 4.470000e-12 84.2
21 TraesCS6D01G186500 chr6A 95.349 43 2 0 6847 6889 362222854 362222896 1.250000e-07 69.4
22 TraesCS6D01G186500 chr7B 81.017 295 48 8 1 291 399855573 399855863 1.950000e-55 228.0
23 TraesCS6D01G186500 chr7B 93.069 101 5 2 3264 3363 622831131 622831032 5.630000e-31 147.0
24 TraesCS6D01G186500 chr4D 95.082 122 6 0 896 1017 342520094 342520215 7.130000e-45 193.0
25 TraesCS6D01G186500 chr4D 95.455 88 4 0 3273 3360 436376801 436376714 2.620000e-29 141.0
26 TraesCS6D01G186500 chr1D 91.729 133 11 0 887 1019 466130706 466130574 1.190000e-42 185.0
27 TraesCS6D01G186500 chr7D 88.732 142 16 0 882 1023 20330191 20330332 2.580000e-39 174.0
28 TraesCS6D01G186500 chr4A 98.876 89 1 0 3269 3357 456399194 456399106 7.230000e-35 159.0
29 TraesCS6D01G186500 chr3A 96.739 92 3 0 3266 3357 54716967 54716876 3.360000e-33 154.0
30 TraesCS6D01G186500 chr2B 95.789 95 4 0 3268 3362 583771835 583771741 3.360000e-33 154.0
31 TraesCS6D01G186500 chr7A 90.000 60 6 0 5618 5677 611559705 611559764 2.080000e-10 78.7


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 TraesCS6D01G186500 chr6D 246432715 246439676 6961 False 4322.133333 12857 97.916667 1 6962 3 chr6D.!!$F2 6961
1 TraesCS6D01G186500 chr6B 402209974 402213494 3520 True 5561.000000 5561 95.141000 3133 6666 1 chr6B.!!$R2 3533
2 TraesCS6D01G186500 chr6B 402220005 402222977 2972 True 2256.000000 3208 93.802500 1 3137 2 chr6B.!!$R3 3136
3 TraesCS6D01G186500 chr6A 362222651 362232167 9516 True 1964.600000 5535 94.233400 773 6962 5 chr6A.!!$R3 6189
4 TraesCS6D01G186500 chr6A 362267847 362268410 563 True 566.000000 566 84.797000 190 777 1 chr6A.!!$R1 587

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
893 900 0.035458 AACTCAGGGCTTGTTCGGAG 59.965 55.000 0.00 0.00 0.00 4.63 F
1799 2766 0.035317 CACTACAGCTTCACCCTGCA 59.965 55.000 0.00 0.00 33.65 4.41 F
2613 3590 1.154016 CGTGTGCCTGGACTAGTCG 60.154 63.158 16.56 4.43 0.00 4.18 F
2947 3926 1.209019 CTTGCAGCTCTACCTGTCCAT 59.791 52.381 0.00 0.00 35.28 3.41 F
4109 7382 0.674581 TTTCCATGGAGCAGCAGTCG 60.675 55.000 15.53 0.00 0.00 4.18 F
5902 9188 0.235926 GCTTTGAACGGTGTCTCAGC 59.764 55.000 0.00 0.00 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1877 2844 0.175760 TGCGCACAGAATCTACTCCC 59.824 55.000 5.66 0.00 0.00 4.30 R
2997 3976 1.004610 CATTAGCATGACCAAGACGCG 60.005 52.381 3.53 3.53 31.07 6.01 R
4101 7374 2.125512 GTACCTGCCCGACTGCTG 60.126 66.667 0.00 0.00 0.00 4.41 R
4873 8158 1.546923 CCATGTATATCGGCGGTACCA 59.453 52.381 13.54 5.36 39.03 3.25 R
5957 9243 1.596408 TGCTTAGGCATGAGCGTCA 59.404 52.632 10.67 0.00 44.28 4.35 R
6750 10319 0.250513 ATCTCTTGAGGTTGGTCGCC 59.749 55.000 0.00 0.00 0.00 5.54 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
25 26 0.250338 ACCTTGGTTGGCTTCGTCTC 60.250 55.000 0.00 0.00 0.00 3.36
46 47 2.163613 CCTGCAAACCCGTAAAGATTCC 59.836 50.000 0.00 0.00 0.00 3.01
50 51 2.124277 AACCCGTAAAGATTCCCTGC 57.876 50.000 0.00 0.00 0.00 4.85
52 53 2.474112 ACCCGTAAAGATTCCCTGCTA 58.526 47.619 0.00 0.00 0.00 3.49
53 54 2.169978 ACCCGTAAAGATTCCCTGCTAC 59.830 50.000 0.00 0.00 0.00 3.58
94 95 4.997395 TCTTGTTTGCCATAGACTGAAGTC 59.003 41.667 2.06 2.06 45.08 3.01
120 122 3.181507 CGTGCCATCGAATTTCTCACATT 60.182 43.478 0.00 0.00 0.00 2.71
146 148 1.322538 GGTGAACCCCATGTCCATGC 61.323 60.000 1.64 0.00 37.49 4.06
151 153 2.591753 CCCATGTCCATGCCGAGT 59.408 61.111 1.64 0.00 37.49 4.18
157 159 3.527427 TCCATGCCGAGTCGCGAT 61.527 61.111 14.06 0.47 44.57 4.58
166 169 1.143969 CGAGTCGCGATTTACCCACC 61.144 60.000 14.06 0.00 44.57 4.61
174 177 1.730064 CGATTTACCCACCTGTTGTCG 59.270 52.381 0.00 0.00 0.00 4.35
198 201 0.398696 TCTTACCGCCTTTGCTTCCA 59.601 50.000 0.00 0.00 34.43 3.53
214 217 0.173481 TCCATCTGCGACTTCCTTCG 59.827 55.000 0.00 0.00 42.15 3.79
258 261 1.878522 CTCGTCCGAAGCCATTCCG 60.879 63.158 0.00 0.00 31.21 4.30
265 268 0.174845 CGAAGCCATTCCGTAGTCCA 59.825 55.000 0.00 0.00 31.21 4.02
291 294 2.255252 CAAGAAAACTGGCCCGCG 59.745 61.111 0.00 0.00 0.00 6.46
309 312 1.151777 CGCACCGTCACTTTGTCTGT 61.152 55.000 0.00 0.00 0.00 3.41
346 349 0.303796 GGAACTTGGCTATAACGCGC 59.696 55.000 5.73 0.00 0.00 6.86
353 356 1.000843 TGGCTATAACGCGCAGATCAT 59.999 47.619 5.73 0.00 0.00 2.45
357 360 5.041287 GGCTATAACGCGCAGATCATATTA 58.959 41.667 5.73 0.00 0.00 0.98
438 441 7.665559 TGCATAGTCTTCTCACAACCTTATTTT 59.334 33.333 0.00 0.00 0.00 1.82
447 450 7.227873 TCTCACAACCTTATTTTGATACCACA 58.772 34.615 0.00 0.00 0.00 4.17
483 486 4.302455 ACGCTATGCAAGATCATAGACAC 58.698 43.478 13.22 0.00 45.39 3.67
484 487 4.038522 ACGCTATGCAAGATCATAGACACT 59.961 41.667 13.22 0.00 45.39 3.55
551 557 2.039746 CCCGGGGCAATGACTATAATCA 59.960 50.000 14.71 0.00 0.00 2.57
571 577 3.958798 TCACTCCTCCCTAAAATACCTCG 59.041 47.826 0.00 0.00 0.00 4.63
643 649 8.715191 AGAGAGACAGCTGTATTTTGATTAAG 57.285 34.615 21.73 0.00 0.00 1.85
689 695 3.132111 TGGTTGCAAAGTTTTCTTCCCTC 59.868 43.478 0.00 0.00 39.48 4.30
691 697 1.953686 TGCAAAGTTTTCTTCCCTCGG 59.046 47.619 0.00 0.00 39.48 4.63
735 742 6.721571 GATGACATCGACCTTTCTTTGTTA 57.278 37.500 0.00 0.00 0.00 2.41
787 794 6.312399 TCAACAATCACACATCACTAAACC 57.688 37.500 0.00 0.00 0.00 3.27
848 855 6.308766 CCTGTCCTTTAATCATTTCGCAAAAG 59.691 38.462 0.00 0.00 0.00 2.27
881 888 3.691609 GCCTGTCCTTTAATCAACTCAGG 59.308 47.826 0.00 0.00 42.54 3.86
882 889 4.265073 CCTGTCCTTTAATCAACTCAGGG 58.735 47.826 0.00 0.00 37.94 4.45
883 890 3.686016 TGTCCTTTAATCAACTCAGGGC 58.314 45.455 0.00 0.00 0.00 5.19
884 891 3.330701 TGTCCTTTAATCAACTCAGGGCT 59.669 43.478 0.00 0.00 29.97 5.19
885 892 4.202567 TGTCCTTTAATCAACTCAGGGCTT 60.203 41.667 0.00 0.00 29.97 4.35
886 893 4.156739 GTCCTTTAATCAACTCAGGGCTTG 59.843 45.833 0.00 0.00 0.00 4.01
887 894 4.082125 CCTTTAATCAACTCAGGGCTTGT 58.918 43.478 0.00 0.00 0.00 3.16
888 895 4.524328 CCTTTAATCAACTCAGGGCTTGTT 59.476 41.667 0.00 0.00 0.00 2.83
889 896 5.335976 CCTTTAATCAACTCAGGGCTTGTTC 60.336 44.000 0.00 0.00 0.00 3.18
890 897 1.813513 ATCAACTCAGGGCTTGTTCG 58.186 50.000 0.00 0.00 0.00 3.95
891 898 0.250295 TCAACTCAGGGCTTGTTCGG 60.250 55.000 0.00 0.00 0.00 4.30
892 899 0.250295 CAACTCAGGGCTTGTTCGGA 60.250 55.000 0.00 0.00 0.00 4.55
893 900 0.035458 AACTCAGGGCTTGTTCGGAG 59.965 55.000 0.00 0.00 0.00 4.63
894 901 0.832135 ACTCAGGGCTTGTTCGGAGA 60.832 55.000 0.00 0.00 0.00 3.71
895 902 0.108424 CTCAGGGCTTGTTCGGAGAG 60.108 60.000 0.00 0.00 38.43 3.20
896 903 0.541998 TCAGGGCTTGTTCGGAGAGA 60.542 55.000 0.00 0.00 38.43 3.10
897 904 0.108424 CAGGGCTTGTTCGGAGAGAG 60.108 60.000 0.00 0.00 38.43 3.20
898 905 0.543174 AGGGCTTGTTCGGAGAGAGT 60.543 55.000 0.00 0.00 38.43 3.24
899 906 0.108567 GGGCTTGTTCGGAGAGAGTC 60.109 60.000 0.00 0.00 38.43 3.36
900 907 0.108567 GGCTTGTTCGGAGAGAGTCC 60.109 60.000 0.00 0.00 42.85 3.85
910 917 2.785713 GAGAGAGTCCGCTCCATAAC 57.214 55.000 0.00 0.00 42.59 1.89
911 918 2.303175 GAGAGAGTCCGCTCCATAACT 58.697 52.381 0.00 0.00 42.59 2.24
912 919 2.292292 GAGAGAGTCCGCTCCATAACTC 59.708 54.545 0.00 0.00 42.59 3.01
913 920 1.338655 GAGAGTCCGCTCCATAACTCC 59.661 57.143 0.00 0.00 42.59 3.85
914 921 1.112113 GAGTCCGCTCCATAACTCCA 58.888 55.000 0.00 0.00 35.76 3.86
915 922 0.824759 AGTCCGCTCCATAACTCCAC 59.175 55.000 0.00 0.00 0.00 4.02
916 923 0.824759 GTCCGCTCCATAACTCCACT 59.175 55.000 0.00 0.00 0.00 4.00
917 924 1.112113 TCCGCTCCATAACTCCACTC 58.888 55.000 0.00 0.00 0.00 3.51
918 925 0.105039 CCGCTCCATAACTCCACTCC 59.895 60.000 0.00 0.00 0.00 3.85
919 926 0.249073 CGCTCCATAACTCCACTCCG 60.249 60.000 0.00 0.00 0.00 4.63
920 927 0.105039 GCTCCATAACTCCACTCCGG 59.895 60.000 0.00 0.00 0.00 5.14
921 928 0.753262 CTCCATAACTCCACTCCGGG 59.247 60.000 0.00 0.00 34.36 5.73
922 929 0.337082 TCCATAACTCCACTCCGGGA 59.663 55.000 0.00 0.00 34.36 5.14
928 935 4.316823 TCCACTCCGGGAGCTGGT 62.317 66.667 28.97 11.69 34.69 4.00
929 936 4.087892 CCACTCCGGGAGCTGGTG 62.088 72.222 23.84 14.68 32.04 4.17
930 937 2.997315 CACTCCGGGAGCTGGTGA 60.997 66.667 23.84 0.00 32.04 4.02
931 938 2.203788 ACTCCGGGAGCTGGTGAA 60.204 61.111 23.84 0.00 32.04 3.18
932 939 2.286523 ACTCCGGGAGCTGGTGAAG 61.287 63.158 23.84 0.00 32.04 3.02
965 972 4.482952 AAATACGGAGTTGGGTAAGAGG 57.517 45.455 0.00 0.00 37.78 3.69
966 973 2.610438 TACGGAGTTGGGTAAGAGGT 57.390 50.000 0.00 0.00 37.78 3.85
967 974 0.974383 ACGGAGTTGGGTAAGAGGTG 59.026 55.000 0.00 0.00 37.78 4.00
968 975 0.391263 CGGAGTTGGGTAAGAGGTGC 60.391 60.000 0.00 0.00 0.00 5.01
969 976 0.984995 GGAGTTGGGTAAGAGGTGCT 59.015 55.000 0.00 0.00 0.00 4.40
970 977 1.066071 GGAGTTGGGTAAGAGGTGCTC 60.066 57.143 0.00 0.00 0.00 4.26
971 978 0.984995 AGTTGGGTAAGAGGTGCTCC 59.015 55.000 0.00 0.00 0.00 4.70
972 979 0.391263 GTTGGGTAAGAGGTGCTCCG 60.391 60.000 0.00 0.00 39.05 4.63
973 980 2.180159 TTGGGTAAGAGGTGCTCCGC 62.180 60.000 0.00 0.00 39.05 5.54
974 981 2.656069 GGGTAAGAGGTGCTCCGCA 61.656 63.158 11.23 0.00 39.05 5.69
975 982 1.153549 GGTAAGAGGTGCTCCGCAG 60.154 63.158 11.23 0.00 40.08 5.18
984 991 3.456365 GCTCCGCAGCTCCTCAGA 61.456 66.667 0.00 0.00 43.09 3.27
985 992 2.795110 GCTCCGCAGCTCCTCAGAT 61.795 63.158 0.00 0.00 43.09 2.90
986 993 1.821936 CTCCGCAGCTCCTCAGATT 59.178 57.895 0.00 0.00 0.00 2.40
987 994 0.177604 CTCCGCAGCTCCTCAGATTT 59.822 55.000 0.00 0.00 0.00 2.17
988 995 0.176680 TCCGCAGCTCCTCAGATTTC 59.823 55.000 0.00 0.00 0.00 2.17
989 996 0.107993 CCGCAGCTCCTCAGATTTCA 60.108 55.000 0.00 0.00 0.00 2.69
990 997 1.474677 CCGCAGCTCCTCAGATTTCAT 60.475 52.381 0.00 0.00 0.00 2.57
991 998 1.598132 CGCAGCTCCTCAGATTTCATG 59.402 52.381 0.00 0.00 0.00 3.07
992 999 2.740904 CGCAGCTCCTCAGATTTCATGA 60.741 50.000 0.00 0.00 0.00 3.07
993 1000 3.276857 GCAGCTCCTCAGATTTCATGAA 58.723 45.455 3.38 3.38 0.00 2.57
994 1001 3.312973 GCAGCTCCTCAGATTTCATGAAG 59.687 47.826 8.41 0.00 0.00 3.02
995 1002 3.312973 CAGCTCCTCAGATTTCATGAAGC 59.687 47.826 8.41 5.22 0.00 3.86
996 1003 3.200385 AGCTCCTCAGATTTCATGAAGCT 59.800 43.478 8.41 7.55 33.37 3.74
1002 1009 3.882444 CAGATTTCATGAAGCTGGAGGA 58.118 45.455 22.82 4.14 45.68 3.71
1003 1010 4.462133 CAGATTTCATGAAGCTGGAGGAT 58.538 43.478 22.82 8.15 45.68 3.24
1004 1011 4.888239 CAGATTTCATGAAGCTGGAGGATT 59.112 41.667 22.82 0.00 45.68 3.01
1005 1012 6.060136 CAGATTTCATGAAGCTGGAGGATTA 58.940 40.000 22.82 2.47 45.68 1.75
1006 1013 6.017275 CAGATTTCATGAAGCTGGAGGATTAC 60.017 42.308 22.82 0.16 45.68 1.89
1007 1014 3.845781 TCATGAAGCTGGAGGATTACC 57.154 47.619 0.00 0.00 0.00 2.85
1008 1015 2.103094 TCATGAAGCTGGAGGATTACCG 59.897 50.000 0.00 0.00 41.83 4.02
1009 1016 1.860641 TGAAGCTGGAGGATTACCGA 58.139 50.000 0.00 0.00 41.83 4.69
1010 1017 2.184533 TGAAGCTGGAGGATTACCGAA 58.815 47.619 0.00 0.00 41.83 4.30
1011 1018 2.093658 TGAAGCTGGAGGATTACCGAAC 60.094 50.000 0.00 0.00 41.83 3.95
1012 1019 0.460311 AGCTGGAGGATTACCGAACG 59.540 55.000 0.00 0.00 41.83 3.95
1013 1020 0.529992 GCTGGAGGATTACCGAACGG 60.530 60.000 11.83 11.83 41.83 4.44
1014 1021 0.529992 CTGGAGGATTACCGAACGGC 60.530 60.000 13.32 0.00 41.83 5.68
1015 1022 0.974010 TGGAGGATTACCGAACGGCT 60.974 55.000 13.32 1.70 41.83 5.52
1016 1023 0.249363 GGAGGATTACCGAACGGCTC 60.249 60.000 13.32 10.49 41.83 4.70
1017 1024 0.249363 GAGGATTACCGAACGGCTCC 60.249 60.000 13.32 15.41 41.83 4.70
1018 1025 0.686769 AGGATTACCGAACGGCTCCT 60.687 55.000 19.57 19.57 41.83 3.69
1019 1026 0.249363 GGATTACCGAACGGCTCCTC 60.249 60.000 13.32 5.37 39.32 3.71
1020 1027 0.458669 GATTACCGAACGGCTCCTCA 59.541 55.000 13.32 0.00 39.32 3.86
1021 1028 0.460311 ATTACCGAACGGCTCCTCAG 59.540 55.000 13.32 0.00 39.32 3.35
1035 1042 3.165875 CTCCTCAGTGACCTGTTTCCTA 58.834 50.000 0.00 0.00 39.82 2.94
1036 1043 3.165875 TCCTCAGTGACCTGTTTCCTAG 58.834 50.000 0.00 0.00 39.82 3.02
1096 2027 1.253044 CGCGCGCATCCGAATTTAAC 61.253 55.000 32.61 0.00 36.29 2.01
1153 2084 5.009610 TCCTTCCGTCTGGATTTTTCTTTTG 59.990 40.000 0.00 0.00 45.91 2.44
1177 2108 7.950512 TGAAGCAATTCCAAAATTCTCTTGTA 58.049 30.769 0.00 0.00 32.69 2.41
1179 2110 8.593492 AAGCAATTCCAAAATTCTCTTGTAAC 57.407 30.769 0.00 0.00 32.69 2.50
1181 2112 7.015584 AGCAATTCCAAAATTCTCTTGTAACCT 59.984 33.333 0.00 0.00 32.69 3.50
1182 2113 7.329471 GCAATTCCAAAATTCTCTTGTAACCTC 59.671 37.037 0.00 0.00 32.69 3.85
1183 2114 8.359642 CAATTCCAAAATTCTCTTGTAACCTCA 58.640 33.333 0.00 0.00 32.69 3.86
1187 2118 8.413229 TCCAAAATTCTCTTGTAACCTCAAAAG 58.587 33.333 0.00 0.00 0.00 2.27
1189 2120 8.413229 CAAAATTCTCTTGTAACCTCAAAAGGA 58.587 33.333 0.00 0.00 46.67 3.36
1198 2130 9.599866 CTTGTAACCTCAAAAGGAAAAGAAAAT 57.400 29.630 0.00 0.00 46.67 1.82
1220 2152 2.052782 AACTCTTGTTCGTTGGCCTT 57.947 45.000 3.32 0.00 0.00 4.35
1447 2385 3.604129 TTCGCTTCCTCGCCATGCA 62.604 57.895 0.00 0.00 0.00 3.96
1492 2430 4.322567 GACCTCAACTCAGCAGAGAAAAT 58.677 43.478 13.73 0.00 44.98 1.82
1541 2479 3.117888 AGAGAAGAACCAGGAAGCACAAA 60.118 43.478 0.00 0.00 0.00 2.83
1577 2515 2.916716 GCAAACACATGGCAATTAGACG 59.083 45.455 0.00 0.00 0.00 4.18
1651 2617 7.112779 TCTTCTTCTTCTTCTTGTGGTTTTCT 58.887 34.615 0.00 0.00 0.00 2.52
1652 2618 8.265055 TCTTCTTCTTCTTCTTGTGGTTTTCTA 58.735 33.333 0.00 0.00 0.00 2.10
1738 2704 1.478137 CACGCTTACCTATCGACAGC 58.522 55.000 0.00 0.00 0.00 4.40
1792 2759 3.435327 CCATTAAACGCACTACAGCTTCA 59.565 43.478 0.00 0.00 0.00 3.02
1799 2766 0.035317 CACTACAGCTTCACCCTGCA 59.965 55.000 0.00 0.00 33.65 4.41
1817 2784 4.520492 CCTGCATCTTCAACTTTTGTACCT 59.480 41.667 0.00 0.00 0.00 3.08
2387 3360 9.499479 CATATATAGTTCTCTGCCACAATTTCT 57.501 33.333 0.00 0.00 0.00 2.52
2440 3413 2.045926 GCTCGGTGATGGCTTGGT 60.046 61.111 0.00 0.00 0.00 3.67
2441 3414 2.401766 GCTCGGTGATGGCTTGGTG 61.402 63.158 0.00 0.00 0.00 4.17
2580 3557 5.131142 TGATGGGGAGAATACTCTTTCTTCC 59.869 44.000 3.33 3.33 46.77 3.46
2600 3577 2.054363 CTGTTAGACTCAGTGCGTGTG 58.946 52.381 0.00 0.00 0.00 3.82
2613 3590 1.154016 CGTGTGCCTGGACTAGTCG 60.154 63.158 16.56 4.43 0.00 4.18
2714 3691 7.392113 ACAAACCAATATCGACAATTAACCTGA 59.608 33.333 0.00 0.00 0.00 3.86
2947 3926 1.209019 CTTGCAGCTCTACCTGTCCAT 59.791 52.381 0.00 0.00 35.28 3.41
2973 3952 2.243736 ACCTTGAACTTGGGACCTTTGA 59.756 45.455 0.00 0.00 0.00 2.69
2997 3976 1.267806 CAATAATCTGGCATGCCCGAC 59.732 52.381 33.44 9.62 35.87 4.79
3197 4176 4.619160 GCAAAAGATCCCCATCAGTTTCAC 60.619 45.833 0.00 0.00 0.00 3.18
3198 4177 3.372440 AAGATCCCCATCAGTTTCACC 57.628 47.619 0.00 0.00 0.00 4.02
3535 6808 4.518970 TCTTGTGAAATAGTTTGCAGGACC 59.481 41.667 0.00 0.00 0.00 4.46
3990 7263 7.064371 CACTAATTTTGGTGATCTCAGTGAGAG 59.936 40.741 26.13 11.38 41.55 3.20
4101 7374 1.700955 ATGCCATCTTTCCATGGAGC 58.299 50.000 15.53 14.14 45.79 4.70
4109 7382 0.674581 TTTCCATGGAGCAGCAGTCG 60.675 55.000 15.53 0.00 0.00 4.18
4652 7937 8.629158 AGAAGACTGATACTATTAGTGCTGAAG 58.371 37.037 6.60 0.72 0.00 3.02
4653 7938 7.283625 AGACTGATACTATTAGTGCTGAAGG 57.716 40.000 6.60 0.00 0.00 3.46
4654 7939 7.063593 AGACTGATACTATTAGTGCTGAAGGA 58.936 38.462 6.60 0.00 0.00 3.36
4655 7940 7.728083 AGACTGATACTATTAGTGCTGAAGGAT 59.272 37.037 6.60 0.00 0.00 3.24
4656 7941 8.256356 ACTGATACTATTAGTGCTGAAGGATT 57.744 34.615 6.60 0.00 0.00 3.01
4657 7942 8.709308 ACTGATACTATTAGTGCTGAAGGATTT 58.291 33.333 6.60 0.00 0.00 2.17
4663 7948 9.905713 ACTATTAGTGCTGAAGGATTTAATGAA 57.094 29.630 0.00 0.00 0.00 2.57
4873 8158 7.227156 AGAATAGTGAAAAACATGAGACTGGT 58.773 34.615 0.00 0.00 0.00 4.00
5471 8756 0.537188 TGAGGATGGCGAAAGGAGAC 59.463 55.000 0.00 0.00 0.00 3.36
5689 8975 2.167693 TCAGCGACAGGTAATTCCGAAT 59.832 45.455 0.00 0.00 41.99 3.34
5795 9081 3.812053 CACTAGGTCCTGCATGAATTAGC 59.188 47.826 0.00 0.00 0.00 3.09
5862 9148 5.525012 CCGTGCTTGATTCATATTTCAGAGA 59.475 40.000 0.00 0.00 0.00 3.10
5863 9149 6.292757 CCGTGCTTGATTCATATTTCAGAGAG 60.293 42.308 0.00 0.00 0.00 3.20
5864 9150 6.478016 CGTGCTTGATTCATATTTCAGAGAGA 59.522 38.462 0.00 0.00 0.00 3.10
5865 9151 7.306690 CGTGCTTGATTCATATTTCAGAGAGAG 60.307 40.741 0.00 0.00 0.00 3.20
5879 9165 4.342378 TCAGAGAGAGTGTTACAAACAGCT 59.658 41.667 0.00 0.00 43.10 4.24
5902 9188 0.235926 GCTTTGAACGGTGTCTCAGC 59.764 55.000 0.00 0.00 0.00 4.26
6157 9447 9.072294 GCGCTATTTTAGTAACATGAACATTTT 57.928 29.630 0.00 0.00 0.00 1.82
6395 9687 9.921637 TTTAAAACACACAAAGATCTTCAAAGT 57.078 25.926 8.78 2.90 0.00 2.66
6503 9795 2.034879 CACTAGTGCACCCAAGCCG 61.035 63.158 14.63 0.52 0.00 5.52
6589 9882 1.269936 GGCCCATTGCACATGATAAGC 60.270 52.381 0.00 0.00 43.89 3.09
6675 10244 0.106819 CCCCAGCCCATCTCTTTCAG 60.107 60.000 0.00 0.00 0.00 3.02
6707 10276 3.118775 GGATAGGGGAAAACCACATTTGC 60.119 47.826 0.00 0.00 42.91 3.68
6750 10319 5.229887 CACGGTTTGAGAAAGTGAAACATTG 59.770 40.000 0.00 0.00 41.43 2.82
6759 10328 1.336755 AGTGAAACATTGGCGACCAAC 59.663 47.619 12.53 2.38 46.95 3.77
6760 10329 0.671251 TGAAACATTGGCGACCAACC 59.329 50.000 12.53 0.00 46.95 3.77
6833 10402 0.678950 AGGGGAAAACCACATTTGCG 59.321 50.000 0.00 0.00 42.91 4.85
6836 10405 2.606108 GGGAAAACCACATTTGCGATC 58.394 47.619 0.00 0.00 39.85 3.69
6840 10409 2.995466 AACCACATTTGCGATCACTG 57.005 45.000 0.00 0.00 0.00 3.66
6851 10420 1.873591 GCGATCACTGTTGAGTTGGTT 59.126 47.619 0.00 0.00 34.35 3.67
6898 10467 2.182284 CACCGTAATGACCCGCGA 59.818 61.111 8.23 0.00 0.00 5.87
6927 10496 9.859152 CAGATTTTTCTCCCTAATCTAATCCTT 57.141 33.333 0.00 0.00 36.70 3.36
6946 10515 8.782339 AATCCTTGCAATTTAAAATTCTCCTG 57.218 30.769 0.00 0.00 0.00 3.86
6948 10517 7.378181 TCCTTGCAATTTAAAATTCTCCTGAC 58.622 34.615 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 2.163613 GGAATCTTTACGGGTTTGCAGG 59.836 50.000 0.00 0.00 0.00 4.85
50 51 2.093973 AGTCAAGGATCTTGTGGCGTAG 60.094 50.000 7.42 0.00 0.00 3.51
52 53 0.687354 AGTCAAGGATCTTGTGGCGT 59.313 50.000 7.42 0.00 0.00 5.68
53 54 1.066573 AGAGTCAAGGATCTTGTGGCG 60.067 52.381 7.42 0.00 0.00 5.69
94 95 2.540101 GAGAAATTCGATGGCACGGTAG 59.460 50.000 9.05 0.00 0.00 3.18
96 97 1.338674 TGAGAAATTCGATGGCACGGT 60.339 47.619 9.05 0.00 0.00 4.83
120 122 3.835395 GGACATGGGGTTCACCAAATTTA 59.165 43.478 0.00 0.00 45.13 1.40
146 148 1.140161 TGGGTAAATCGCGACTCGG 59.860 57.895 12.93 0.00 39.05 4.63
151 153 0.322322 AACAGGTGGGTAAATCGCGA 59.678 50.000 13.09 13.09 0.00 5.87
157 159 2.563702 GAACGACAACAGGTGGGTAAA 58.436 47.619 0.00 0.00 0.00 2.01
166 169 1.712350 CGGTAAGACGAACGACAACAG 59.288 52.381 0.14 0.00 35.47 3.16
174 177 0.165295 GCAAAGGCGGTAAGACGAAC 59.835 55.000 0.00 0.00 35.47 3.95
198 201 2.743636 TTTCGAAGGAAGTCGCAGAT 57.256 45.000 0.00 0.00 40.67 2.90
258 261 7.278868 CAGTTTTCTTGGTAGATCATGGACTAC 59.721 40.741 16.32 16.32 38.44 2.73
265 268 4.273318 GGCCAGTTTTCTTGGTAGATCAT 58.727 43.478 0.00 0.00 0.00 2.45
291 294 1.003866 GAACAGACAAAGTGACGGTGC 60.004 52.381 0.00 0.00 0.00 5.01
309 312 4.834496 AGTTCCATGGCAATTTCTGAAGAA 59.166 37.500 6.96 0.00 0.00 2.52
346 349 7.326968 TCTCGGCATAGAGTAATATGATCTG 57.673 40.000 0.00 0.00 39.21 2.90
353 356 6.569801 CGGTCAAATCTCGGCATAGAGTAATA 60.570 42.308 3.58 0.00 39.21 0.98
357 360 2.223829 CGGTCAAATCTCGGCATAGAGT 60.224 50.000 3.58 0.00 39.21 3.24
438 441 7.650504 GCGTATTTACTCTAACATGTGGTATCA 59.349 37.037 0.00 0.00 0.00 2.15
447 450 8.141909 TCTTGCATAGCGTATTTACTCTAACAT 58.858 33.333 0.00 0.00 28.62 2.71
551 557 4.261411 TCGAGGTATTTTAGGGAGGAGT 57.739 45.455 0.00 0.00 0.00 3.85
571 577 3.829886 TGACCTCACGAATTTTGCATC 57.170 42.857 0.00 0.00 0.00 3.91
660 666 2.463047 AACTTTGCAACCAACCCCTA 57.537 45.000 0.00 0.00 0.00 3.53
661 667 1.578897 AAACTTTGCAACCAACCCCT 58.421 45.000 0.00 0.00 0.00 4.79
689 695 1.196808 AGTATTTTCTTGCACACGCCG 59.803 47.619 0.00 0.00 37.32 6.46
691 697 3.122278 TCGTAGTATTTTCTTGCACACGC 59.878 43.478 0.00 0.00 39.24 5.34
735 742 2.028203 CCATGGCGATTTTGAAACCCTT 60.028 45.455 0.00 0.00 0.00 3.95
848 855 8.739972 TGATTAAAGGACAGGCTTTATTTTCTC 58.260 33.333 0.00 0.00 0.00 2.87
881 888 0.108567 GGACTCTCTCCGAACAAGCC 60.109 60.000 0.00 0.00 0.00 4.35
882 889 3.427309 GGACTCTCTCCGAACAAGC 57.573 57.895 0.00 0.00 0.00 4.01
890 897 1.338655 GTTATGGAGCGGACTCTCTCC 59.661 57.143 9.59 9.59 46.95 3.71
891 898 2.292292 GAGTTATGGAGCGGACTCTCTC 59.708 54.545 0.00 0.00 42.98 3.20
892 899 2.303175 GAGTTATGGAGCGGACTCTCT 58.697 52.381 0.00 0.00 42.98 3.10
893 900 1.338655 GGAGTTATGGAGCGGACTCTC 59.661 57.143 0.00 0.00 42.98 3.20
894 901 1.342076 TGGAGTTATGGAGCGGACTCT 60.342 52.381 0.00 0.00 42.98 3.24
895 902 1.112113 TGGAGTTATGGAGCGGACTC 58.888 55.000 0.00 0.00 42.66 3.36
896 903 0.824759 GTGGAGTTATGGAGCGGACT 59.175 55.000 0.00 0.00 0.00 3.85
897 904 0.824759 AGTGGAGTTATGGAGCGGAC 59.175 55.000 0.00 0.00 0.00 4.79
898 905 1.112113 GAGTGGAGTTATGGAGCGGA 58.888 55.000 0.00 0.00 0.00 5.54
899 906 0.105039 GGAGTGGAGTTATGGAGCGG 59.895 60.000 0.00 0.00 0.00 5.52
900 907 0.249073 CGGAGTGGAGTTATGGAGCG 60.249 60.000 0.00 0.00 0.00 5.03
901 908 0.105039 CCGGAGTGGAGTTATGGAGC 59.895 60.000 0.00 0.00 42.00 4.70
902 909 0.753262 CCCGGAGTGGAGTTATGGAG 59.247 60.000 0.73 0.00 42.00 3.86
903 910 0.337082 TCCCGGAGTGGAGTTATGGA 59.663 55.000 0.73 0.00 42.00 3.41
904 911 0.753262 CTCCCGGAGTGGAGTTATGG 59.247 60.000 0.73 0.00 45.76 2.74
911 918 4.316823 ACCAGCTCCCGGAGTGGA 62.317 66.667 28.73 3.66 42.00 4.02
912 919 4.087892 CACCAGCTCCCGGAGTGG 62.088 72.222 23.89 23.89 37.11 4.00
913 920 2.513026 CTTCACCAGCTCCCGGAGTG 62.513 65.000 16.09 12.02 31.39 3.51
914 921 2.203788 TTCACCAGCTCCCGGAGT 60.204 61.111 16.09 0.20 31.39 3.85
915 922 2.581354 CTTCACCAGCTCCCGGAG 59.419 66.667 10.41 10.41 0.00 4.63
916 923 3.706373 GCTTCACCAGCTCCCGGA 61.706 66.667 0.73 0.00 46.27 5.14
924 931 3.988379 TTTTAACTGCTGCTTCACCAG 57.012 42.857 0.00 0.00 35.93 4.00
942 949 5.221986 ACCTCTTACCCAACTCCGTATTTTT 60.222 40.000 0.00 0.00 0.00 1.94
943 950 4.287845 ACCTCTTACCCAACTCCGTATTTT 59.712 41.667 0.00 0.00 0.00 1.82
944 951 3.842436 ACCTCTTACCCAACTCCGTATTT 59.158 43.478 0.00 0.00 0.00 1.40
945 952 3.197116 CACCTCTTACCCAACTCCGTATT 59.803 47.826 0.00 0.00 0.00 1.89
946 953 2.764572 CACCTCTTACCCAACTCCGTAT 59.235 50.000 0.00 0.00 0.00 3.06
947 954 2.173519 CACCTCTTACCCAACTCCGTA 58.826 52.381 0.00 0.00 0.00 4.02
948 955 0.974383 CACCTCTTACCCAACTCCGT 59.026 55.000 0.00 0.00 0.00 4.69
949 956 0.391263 GCACCTCTTACCCAACTCCG 60.391 60.000 0.00 0.00 0.00 4.63
950 957 0.984995 AGCACCTCTTACCCAACTCC 59.015 55.000 0.00 0.00 0.00 3.85
951 958 1.066071 GGAGCACCTCTTACCCAACTC 60.066 57.143 0.00 0.00 0.00 3.01
952 959 0.984995 GGAGCACCTCTTACCCAACT 59.015 55.000 0.00 0.00 0.00 3.16
953 960 0.391263 CGGAGCACCTCTTACCCAAC 60.391 60.000 0.00 0.00 0.00 3.77
954 961 1.980052 CGGAGCACCTCTTACCCAA 59.020 57.895 0.00 0.00 0.00 4.12
955 962 3.708210 CGGAGCACCTCTTACCCA 58.292 61.111 0.00 0.00 0.00 4.51
968 975 0.177604 AAATCTGAGGAGCTGCGGAG 59.822 55.000 0.00 0.00 0.00 4.63
969 976 0.176680 GAAATCTGAGGAGCTGCGGA 59.823 55.000 0.00 0.11 0.00 5.54
970 977 0.107993 TGAAATCTGAGGAGCTGCGG 60.108 55.000 0.00 0.00 0.00 5.69
971 978 1.598132 CATGAAATCTGAGGAGCTGCG 59.402 52.381 0.00 0.00 0.00 5.18
972 979 2.915349 TCATGAAATCTGAGGAGCTGC 58.085 47.619 0.00 0.00 0.00 5.25
973 980 3.312973 GCTTCATGAAATCTGAGGAGCTG 59.687 47.826 9.88 0.00 0.00 4.24
974 981 3.200385 AGCTTCATGAAATCTGAGGAGCT 59.800 43.478 9.88 8.19 33.87 4.09
975 982 3.312973 CAGCTTCATGAAATCTGAGGAGC 59.687 47.826 23.05 14.31 30.18 4.70
976 983 3.878103 CCAGCTTCATGAAATCTGAGGAG 59.122 47.826 26.53 13.70 0.00 3.69
977 984 3.520721 TCCAGCTTCATGAAATCTGAGGA 59.479 43.478 26.53 18.35 0.00 3.71
978 985 3.878103 CTCCAGCTTCATGAAATCTGAGG 59.122 47.826 26.53 16.96 0.00 3.86
979 986 3.878103 CCTCCAGCTTCATGAAATCTGAG 59.122 47.826 26.53 21.63 0.00 3.35
980 987 3.520721 TCCTCCAGCTTCATGAAATCTGA 59.479 43.478 26.53 16.74 0.00 3.27
981 988 3.882444 TCCTCCAGCTTCATGAAATCTG 58.118 45.455 21.57 21.57 0.00 2.90
982 989 4.792513 ATCCTCCAGCTTCATGAAATCT 57.207 40.909 9.88 6.82 0.00 2.40
983 990 5.240403 GGTAATCCTCCAGCTTCATGAAATC 59.760 44.000 9.88 4.53 0.00 2.17
984 991 5.136105 GGTAATCCTCCAGCTTCATGAAAT 58.864 41.667 9.88 0.00 0.00 2.17
985 992 4.526970 GGTAATCCTCCAGCTTCATGAAA 58.473 43.478 9.88 0.00 0.00 2.69
986 993 3.432186 CGGTAATCCTCCAGCTTCATGAA 60.432 47.826 8.12 8.12 0.00 2.57
987 994 2.103094 CGGTAATCCTCCAGCTTCATGA 59.897 50.000 0.00 0.00 0.00 3.07
988 995 2.103094 TCGGTAATCCTCCAGCTTCATG 59.897 50.000 0.00 0.00 0.00 3.07
989 996 2.398588 TCGGTAATCCTCCAGCTTCAT 58.601 47.619 0.00 0.00 0.00 2.57
990 997 1.860641 TCGGTAATCCTCCAGCTTCA 58.139 50.000 0.00 0.00 0.00 3.02
991 998 2.552031 GTTCGGTAATCCTCCAGCTTC 58.448 52.381 0.00 0.00 0.00 3.86
992 999 1.134788 CGTTCGGTAATCCTCCAGCTT 60.135 52.381 0.00 0.00 0.00 3.74
993 1000 0.460311 CGTTCGGTAATCCTCCAGCT 59.540 55.000 0.00 0.00 0.00 4.24
994 1001 0.529992 CCGTTCGGTAATCCTCCAGC 60.530 60.000 2.82 0.00 0.00 4.85
995 1002 0.529992 GCCGTTCGGTAATCCTCCAG 60.530 60.000 12.81 0.00 0.00 3.86
996 1003 0.974010 AGCCGTTCGGTAATCCTCCA 60.974 55.000 12.81 0.00 0.00 3.86
997 1004 0.249363 GAGCCGTTCGGTAATCCTCC 60.249 60.000 12.81 0.00 0.00 4.30
998 1005 0.249363 GGAGCCGTTCGGTAATCCTC 60.249 60.000 12.81 9.55 0.00 3.71
999 1006 0.686769 AGGAGCCGTTCGGTAATCCT 60.687 55.000 20.43 20.43 33.32 3.24
1000 1007 0.249363 GAGGAGCCGTTCGGTAATCC 60.249 60.000 17.74 17.74 0.00 3.01
1001 1008 0.458669 TGAGGAGCCGTTCGGTAATC 59.541 55.000 12.81 8.48 0.00 1.75
1002 1009 0.460311 CTGAGGAGCCGTTCGGTAAT 59.540 55.000 12.81 0.00 0.00 1.89
1003 1010 0.896940 ACTGAGGAGCCGTTCGGTAA 60.897 55.000 12.81 0.00 31.36 2.85
1004 1011 1.303888 ACTGAGGAGCCGTTCGGTA 60.304 57.895 12.81 0.00 31.36 4.02
1005 1012 2.600769 ACTGAGGAGCCGTTCGGT 60.601 61.111 12.81 0.00 0.00 4.69
1006 1013 2.125912 CACTGAGGAGCCGTTCGG 60.126 66.667 6.90 6.90 0.00 4.30
1007 1014 1.444553 GTCACTGAGGAGCCGTTCG 60.445 63.158 0.00 0.00 0.00 3.95
1008 1015 1.079750 GGTCACTGAGGAGCCGTTC 60.080 63.158 0.00 0.00 0.00 3.95
1009 1016 1.534235 AGGTCACTGAGGAGCCGTT 60.534 57.895 0.00 0.00 35.95 4.44
1010 1017 2.118513 AGGTCACTGAGGAGCCGT 59.881 61.111 0.00 0.00 35.95 5.68
1020 1027 4.593206 TGAATGTCTAGGAAACAGGTCACT 59.407 41.667 0.00 0.00 0.00 3.41
1021 1028 4.894784 TGAATGTCTAGGAAACAGGTCAC 58.105 43.478 0.00 0.00 0.00 3.67
1035 1042 2.654863 CGGCCCCTTAAATGAATGTCT 58.345 47.619 0.00 0.00 0.00 3.41
1036 1043 1.681264 CCGGCCCCTTAAATGAATGTC 59.319 52.381 0.00 0.00 0.00 3.06
1087 2018 1.526986 CGGAGCTGTGCGTTAAATTCG 60.527 52.381 0.00 0.00 31.86 3.34
1153 2084 8.703336 GTTACAAGAGAATTTTGGAATTGCTTC 58.297 33.333 0.00 0.00 35.65 3.86
1187 2118 9.297586 ACGAACAAGAGTTTTATTTTCTTTTCC 57.702 29.630 0.00 0.00 38.30 3.13
1198 2130 3.547746 AGGCCAACGAACAAGAGTTTTA 58.452 40.909 5.01 0.00 38.30 1.52
1220 2152 3.000819 AACACGGCGAGGATGGGA 61.001 61.111 16.62 0.00 0.00 4.37
1447 2385 4.265056 AAGGAGCAAACCGCCGGT 62.265 61.111 1.02 1.02 44.04 5.28
1492 2430 6.007076 CCTAGCTAGGTCAGATCAGTAATGA 58.993 44.000 28.90 0.00 38.69 2.57
1577 2515 8.887036 AAGAAGAAGAAGAAGAAGAAGAGTTC 57.113 34.615 0.00 0.00 0.00 3.01
1651 2617 5.864418 AGAACTCACCCGCAAATACTATA 57.136 39.130 0.00 0.00 0.00 1.31
1652 2618 4.755266 AGAACTCACCCGCAAATACTAT 57.245 40.909 0.00 0.00 0.00 2.12
1738 2704 4.612259 GCATGAGCAGAAGTTGTTGTACTG 60.612 45.833 0.00 0.00 41.58 2.74
1792 2759 3.299503 ACAAAAGTTGAAGATGCAGGGT 58.700 40.909 0.00 0.00 0.00 4.34
1799 2766 6.204108 CCGTAACAGGTACAAAAGTTGAAGAT 59.796 38.462 0.00 0.00 32.45 2.40
1817 2784 2.509786 GCCGATTCCGCCGTAACA 60.510 61.111 0.00 0.00 0.00 2.41
1877 2844 0.175760 TGCGCACAGAATCTACTCCC 59.824 55.000 5.66 0.00 0.00 4.30
2083 3051 5.651576 GGTACAACCTACTGCTACTAAGACT 59.348 44.000 0.00 0.00 34.73 3.24
2387 3360 2.558795 GAGCAGAGTTGTGTGTCTCCTA 59.441 50.000 0.00 0.00 0.00 2.94
2440 3413 3.224324 GTCCGCGGCCTATCTCCA 61.224 66.667 23.51 0.00 0.00 3.86
2441 3414 3.992317 GGTCCGCGGCCTATCTCC 61.992 72.222 23.51 9.76 0.00 3.71
2580 3557 2.054363 CACACGCACTGAGTCTAACAG 58.946 52.381 0.00 0.00 40.68 3.16
2600 3577 1.139947 GCAGTCGACTAGTCCAGGC 59.860 63.158 19.57 11.93 0.00 4.85
2613 3590 3.319122 ACCTGAACTTTCAAATGGCAGTC 59.681 43.478 0.00 0.00 36.64 3.51
2947 3926 2.307686 GGTCCCAAGTTCAAGGTCCATA 59.692 50.000 0.00 0.00 0.00 2.74
2973 3952 2.901839 GGGCATGCCAGATTATTGGAAT 59.098 45.455 36.56 0.00 40.87 3.01
2997 3976 1.004610 CATTAGCATGACCAAGACGCG 60.005 52.381 3.53 3.53 31.07 6.01
3197 4176 5.221165 CCAACCCTAACAACAAAGTGTAAGG 60.221 44.000 0.00 0.00 0.00 2.69
3198 4177 5.735070 GCCAACCCTAACAACAAAGTGTAAG 60.735 44.000 0.00 0.00 0.00 2.34
3535 6808 5.883661 ACCATTTATTCTGTGAAATGCTCG 58.116 37.500 2.51 0.00 40.29 5.03
4101 7374 2.125512 GTACCTGCCCGACTGCTG 60.126 66.667 0.00 0.00 0.00 4.41
4109 7382 2.351276 CCAGTGGTGTACCTGCCC 59.649 66.667 0.00 0.00 36.82 5.36
4210 7483 8.463930 AACACCACTATATTTTGTATGATGGG 57.536 34.615 0.00 0.00 0.00 4.00
4296 7569 5.591067 AGTTTAACATCGTGAAGTTTTGGGA 59.409 36.000 0.00 0.00 0.00 4.37
4439 7712 5.413833 CAGAGGTTGTTACTGAGCAATCATT 59.586 40.000 0.00 0.00 34.07 2.57
4658 7943 9.014297 CCTAGGTTCAGTTATTTTGACTTCATT 57.986 33.333 0.00 0.00 0.00 2.57
4659 7944 7.611855 CCCTAGGTTCAGTTATTTTGACTTCAT 59.388 37.037 8.29 0.00 0.00 2.57
4660 7945 6.940298 CCCTAGGTTCAGTTATTTTGACTTCA 59.060 38.462 8.29 0.00 0.00 3.02
4661 7946 6.940867 ACCCTAGGTTCAGTTATTTTGACTTC 59.059 38.462 8.29 0.00 27.29 3.01
4662 7947 6.849151 ACCCTAGGTTCAGTTATTTTGACTT 58.151 36.000 8.29 0.00 27.29 3.01
4663 7948 6.449830 ACCCTAGGTTCAGTTATTTTGACT 57.550 37.500 8.29 0.00 27.29 3.41
4873 8158 1.546923 CCATGTATATCGGCGGTACCA 59.453 52.381 13.54 5.36 39.03 3.25
5424 8709 2.011046 GCTGATCCAGTCCTTCTGCAC 61.011 57.143 0.00 0.00 42.38 4.57
5795 9081 9.387123 GAGCTCAAACTAACAAGAACAATAAAG 57.613 33.333 9.40 0.00 0.00 1.85
5862 9148 4.058817 GCACTAGCTGTTTGTAACACTCT 58.941 43.478 0.00 0.00 36.25 3.24
5863 9149 4.391140 GCACTAGCTGTTTGTAACACTC 57.609 45.455 0.00 0.00 36.25 3.51
5879 9165 2.101750 TGAGACACCGTTCAAAGCACTA 59.898 45.455 0.00 0.00 0.00 2.74
5902 9188 6.102006 TCAGACAGAAGTAACAAAACAACG 57.898 37.500 0.00 0.00 0.00 4.10
5904 9190 7.857734 TCATCAGACAGAAGTAACAAAACAA 57.142 32.000 0.00 0.00 0.00 2.83
5957 9243 1.596408 TGCTTAGGCATGAGCGTCA 59.404 52.632 10.67 0.00 44.28 4.35
5975 9261 8.819974 TGTTCGTCTATTTTTAAAAGAGTTCGT 58.180 29.630 20.30 0.00 0.00 3.85
6057 9345 2.548057 GGAGAAGTGTTCGCACATTTCA 59.452 45.455 21.42 0.00 46.93 2.69
6102 9391 6.027131 GCATCTAAATAAATGTTCACGCACA 58.973 36.000 0.00 0.00 0.00 4.57
6395 9687 9.232082 CATGTATTTTGAAAAAGTTCTCGTGAA 57.768 29.630 0.00 0.00 34.60 3.18
6589 9882 5.873164 GCCCTATATATGGTTGAGGTTAACG 59.127 44.000 6.00 0.00 0.00 3.18
6675 10244 1.488390 TCCCCTATCCCACACGTAAC 58.512 55.000 0.00 0.00 0.00 2.50
6707 10276 1.269166 GTGCACCGTAAGAGTGATCG 58.731 55.000 5.22 0.00 39.78 3.69
6750 10319 0.250513 ATCTCTTGAGGTTGGTCGCC 59.749 55.000 0.00 0.00 0.00 5.54
6759 10328 5.903198 AGAAATTCCCCTATCTCTTGAGG 57.097 43.478 0.00 0.00 0.00 3.86
6760 10329 9.282569 CATAAAGAAATTCCCCTATCTCTTGAG 57.717 37.037 0.00 0.00 0.00 3.02
6792 10361 3.173953 TCTCATTTGTGCCCCAGAAAT 57.826 42.857 0.00 0.00 37.73 2.17
6833 10402 2.618241 TGCAACCAACTCAACAGTGATC 59.382 45.455 0.00 0.00 31.85 2.92
6836 10405 2.937469 TTGCAACCAACTCAACAGTG 57.063 45.000 0.00 0.00 31.06 3.66
6840 10409 4.629200 TGAAACATTTGCAACCAACTCAAC 59.371 37.500 0.00 0.00 0.00 3.18
6851 10420 5.580297 GGTTTGAGAAAGTGAAACATTTGCA 59.420 36.000 0.00 0.00 41.43 4.08
6898 10467 9.348476 GATTAGATTAGGGAGAAAAATCTGCTT 57.652 33.333 6.98 0.00 39.62 3.91


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

AutoCloner maintained by Alex Coulton.